format-version: 1.2 ontology: uberon/composite-vertebrate subsetdef: abnormal_slim "Abnormal/normal slim" subsetdef: absent_slim "Absent/present slim" subsetdef: anatomical_site_slim "Anatomical Site slim" subsetdef: attribute_slim "Attribute slim" subsetdef: cell_quality "cell_quality" subsetdef: cell_slim "cell_slim" subsetdef: cyclostome_subset "cyclostome structures" subsetdef: defined_by_ordinal_series "classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology" subsetdef: developmental_classification "developmental_classification" subsetdef: disjointness_axiom_removed "A class which has a weakened disjointness axiom, to avoid inconsistency. These are kept separately in the uberon_disjoint_from_strict ontology." subsetdef: disposition_slim "Disposition slim" subsetdef: dubious_grouping "Indicates that subclasses in AOs may be inappropriately linked" subsetdef: early_development "A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes." subsetdef: emapa_ehdaa2 "derived from the union of EHDAA2 and EMAPA - still to be checked" subsetdef: frequent_anatomy_items "Frequently Used Anatomy slim" subsetdef: functional_classification "functional_classification" subsetdef: goslim_aspergillus "Aspergillus GO slim" subsetdef: goslim_candida "Candida GO slim" subsetdef: goslim_generic "Generic GO slim" subsetdef: goslim_goa "GOA and proteome slim" subsetdef: goslim_metagenomics "Metagenomics GO slim" subsetdef: goslim_pir "PIR GO slim" subsetdef: goslim_plant "Plant GO slim" subsetdef: goslim_pombe "Fission yeast GO slim" subsetdef: goslim_yeast "Yeast GO slim" subsetdef: gosubset_prok "Prokaryotic GO subset" subsetdef: grouping_class "Subset consisting of classes creating for grouping purposes" subsetdef: high_level_annotation_qc "High-level terms not to be used for direct annotation" subsetdef: inconsistent_with_fma "classes that have some inconsistency with FMA" subsetdef: inherited_grouping_class "A grouping class that originates in two or more separate anatomical ontologies. Includes 'region of X' type terms" subsetdef: loose_concept "loose concept" subsetdef: major_organ "somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads" subsetdef: metazoa_core "core classes typically found across metazoa. one purpose is to create a rough set of terms that could be used to start a new metazoan AO. Note this subset is not yet fully fleshed out" subsetdef: mf_needs_review "Catalytic activity terms in need of attention" subsetdef: mpath_slim "Pathology slim" subsetdef: non_informative "abstract class brought in to group ontology classes but not informative" subsetdef: organ_slim "organs, excluding individual muscles and skeletal elements" subsetdef: organism_views "Organism View slim" subsetdef: phenotype_rcn "A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA" subsetdef: relational_slim "Relational slim: types of quality that require an additional entity in order to exist" subsetdef: scalar_slim "Scalar slim" subsetdef: sectional_anatomy_items "Sectional Anatomy Item slim" subsetdef: termgenie_unvetted "Terms created by TermGenie that do not follow a template and require additional vetting by editors" subsetdef: uberon_slim "Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms" subsetdef: ubprop:upper_level "abstract upper-level terms not directly useful for analysis" subsetdef: unverified_taxonomic_grouping "Indicates that the class encompasses classes from other AOs that have not been verified" subsetdef: unvetted "unvetted" subsetdef: upper_level "abstract upper-level terms not directly useful for analysis" subsetdef: upper_ontology_conflict "Terms in this subset group together terms from different anatomy ontologies that have conflicting upper ontology/CARO assignments. For example, in FMA the naris is immaterial and in ZFA it is an organism subdivision." subsetdef: value_slim "Value slim" subsetdef: vertebrate_core "core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO" subsetdef: vessel_or_tree "A term classified differently in FMA due to its treatment of branching structures - to be reviewed and revised by editors" subsetdef: virus_checked "Viral overhaul terms" synonymtypedef: ABBREVIATION "abbreviation" synonymtypedef: ATTRIBUTION_REQUIRED "expert consultation and attribution required" synonymtypedef: BRAND_NAME "BRAND NAME" synonymtypedef: DEPRECATED "A historic synonym, no longer encouraged" synonymtypedef: DEVELOPMENTAL "developmental term" synonymtypedef: DUBIOUS "dubious or contested synonym" synonymtypedef: FORMULA "FORMULA" synonymtypedef: HOMOLOGY "a synonym made on the basis of a possibly homologous structure in another species" synonymtypedef: HUMAN_PREFERRED "preferred term when talking about an instance of this class in Homo sapiens" synonymtypedef: INCONSISTENT "indicates that a synonym is used in an inconsistent or confusing way, typically between species" synonymtypedef: INN "INN" synonymtypedef: IUPAC_NAME "IUPAC NAME" synonymtypedef: InChI "InChI" synonymtypedef: InChIKey "InChIKey" synonymtypedef: LATIN "latin term" synonymtypedef: PLURAL "PLURAL" synonymtypedef: PLURAL "plural term" synonymtypedef: PRO-short-label "Unique short label for PRO terms for display purposes" EXACT synonymtypedef: PSI-MOD-label "Unique short label curated by PSI-MOD" EXACT synonymtypedef: SENSU "taxonomic disambiguation" synonymtypedef: SMILES "SMILES" synonymtypedef: systematic_synonym "Systematic synonym" EXACT treat-xrefs-as-equivalent: EV treat-xrefs-as-equivalent: XUO treat-xrefs-as-genus-differentia: AAO part_of NCBITaxon:8353 treat-xrefs-as-genus-differentia: CARO part_of NCBITaxon:7955 treat-xrefs-as-genus-differentia: CARO part_of NCBITaxon:8353 treat-xrefs-as-genus-differentia: CL part_of NCBITaxon:7955 treat-xrefs-as-genus-differentia: CL part_of NCBITaxon:8353 treat-xrefs-as-genus-differentia: TAO part_of NCBITaxon:7955 treat-xrefs-as-genus-differentia: UBERON part_of NCBITaxon:8353 treat-xrefs-as-genus-differentia: VSAO part_of NCBITaxon:7955 treat-xrefs-as-genus-differentia: VSAO part_of NCBITaxon:8353 [Typedef] id: bearer_of name: bearer of namespace: BFO xref: BFO:0000053 [Typedef] id: realized_by name: realized by namespace: BFO xref: BFO:0000054 [Term] id: MA:0000160 name: coat hair follicle (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002073 ! hair follicle [Term] id: MA:0000230 name: spinal ganglion/nerve (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000010 ! peripheral nervous system [Term] id: MA:0000241 name: endolymphatic duct/sac (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001846 ! internal ear [Term] id: MA:0000288 name: olfactory receptor nerve (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000004 ! olfactory apparatus [Term] id: MA:0000307 name: other limb bone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0010740 ! bone of appendage girdle complex [Term] id: MA:0000345 name: oral region cartilage/bone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000165 ! mouth [Term] id: MA:0000362 name: liver middle lobe (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001113 ! lobe of liver [Term] id: MA:0000485 name: yellow elastic cartilage (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001996 ! elastic cartilage tissue [Term] id: MA:0000499 name: lower back blood vessel (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003835 ! abdominal segment blood vessel is_a: UBERON:0004258 ! back blood vessel relationship: part_of UBERON:0005462 ! lower back [Term] id: MA:0000500 name: lower back bone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003828 ! abdominal segment bone is_a: UBERON:0004247 ! back bone relationship: part_of UBERON:0005462 ! lower back [Term] id: MA:0000501 name: lower back connective tissue (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003838 ! abdominal segment connective tissue is_a: UBERON:0004267 ! back connective tissue relationship: part_of UBERON:0005462 ! lower back [Term] id: MA:0000503 name: lower back nerve (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003825 ! nerve of abdominal segment is_a: UBERON:0004215 ! back nerve relationship: part_of UBERON:0005462 ! lower back [Term] id: MA:0000505 name: upper back blood vessel (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003834 ! thoracic segment blood vessel is_a: UBERON:0004258 ! back blood vessel relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: MA:0000506 name: upper back bone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003827 ! thoracic segment bone is_a: UBERON:0004247 ! back bone relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: MA:0000507 name: upper back connective tissue (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004267 ! back connective tissue relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: MA:0000509 name: upper back nerve (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003824 ! nerve of thoracic segment is_a: UBERON:0004215 ! back nerve relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: MA:0000536 name: iliac region muscle (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001325 ! muscle of pelvis [Term] id: MA:0000539 name: urogenital muscle (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001325 ! muscle of pelvis [Term] id: MA:0000540 name: female urogenital muscle (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0000539 ! urogenital muscle (mouse) [Term] id: MA:0000541 name: male urogenital muscle (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0000539 ! urogenital muscle (mouse) [Term] id: MA:0000568 name: head or neck blood vessel (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001981 ! blood vessel relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: MA:0000570 name: head or neck connective tissue (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002384 ! connective tissue relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: MA:0000572 name: head or neck nerve or ganglion (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: MA:0000573 name: head or neck organ (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: MA:0000580 name: head nerve/ganglion (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0000572 ! head or neck nerve or ganglion (mouse) relationship: part_of UBERON:0000033 ! head [Term] id: MA:0000581 name: head organ (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0000573 ! head or neck organ (mouse) relationship: part_of UBERON:0000033 ! head [Term] id: MA:0000589 name: neck organ (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0000573 ! head or neck organ (mouse) relationship: part_of UBERON:0000974 ! neck [Term] id: MA:0000666 name: knee bone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0005893 ! leg bone relationship: part_of UBERON:0001465 ! knee [Term] id: MA:0000722 name: pancreas left lobe (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0007324 ! pancreatic lobe [Term] id: MA:0000723 name: pancreas right lobe (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0007324 ! pancreatic lobe [Term] id: MA:0000733 name: peyer's patch dome (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0010386 ! peyer's patch follicle [Term] id: MA:0000747 name: lymph organ (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: MA:0000822 name: brainstem periaqueductal grey (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003040 ! central gray substance of midbrain relationship: part_of UBERON:0002298 ! brainstem [Term] id: MA:0000844 name: tuberal area (mouse) namespace: adult_mouse_anatomy.gxd synonym: "tuberal nucleus" RELATED [] synonym: "tuberal region" RELATED [] is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002272 ! medial zone of hypothalamus [Term] id: MA:0000863 name: medial thalamic group (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: MA:0000867 name: ventral posterior thalamic group (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: MA:0000871 name: intralaminar thalamic group (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: MA:0000903 name: anterior medial cortex (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: MA:0000915 name: secondary visual cortex (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: MA:0000920 name: retrohippocampal cortex (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: MA:0000937 name: posterior septal complex (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002663 ! septal nuclear complex [Term] id: MA:0000943 name: temporal cortex association area (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001871 ! temporal lobe [Term] id: MA:0001033 name: accessory XI nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0006331 ! brainstem nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: MA:0001041 name: inferior olive beta subnucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002127 ! inferior olivary complex [Term] id: MA:0001043 name: inferior olive inferior nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002127 ! inferior olivary complex [Term] id: MA:0001070 name: nucleus related to visual cortex (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: MA:0001102 name: trigeminal V nerve lingual branch (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000375 ! mandibular nerve [Term] id: MA:0001118 name: spinal cord central grey (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002315 ! gray matter of spinal cord [Term] id: MA:0001120 name: spinal cord basal nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: MA:0001122 name: spinal cord marginal zone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: MA:0001126 name: spinal cord intermediate grey (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002315 ! gray matter of spinal cord [Term] id: MA:0001127 name: spinal cord central cervical nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of MA:0001126 ! spinal cord intermediate grey (mouse) [Term] id: MA:0001151 name: left vagus X nerve trunk (mouse) namespace: adult_mouse_anatomy.gxd synonym: "anterior vagus X nerve trunk" RELATED [] is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0003535 ! vagus X nerve trunk [Term] id: MA:0001152 name: right vagus X nerve trunk (mouse) namespace: adult_mouse_anatomy.gxd synonym: "posterior vagus X nerve trunk" RELATED [] is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0003535 ! vagus X nerve trunk [Term] id: MA:0001164 name: pelvic sympathetic nerve trunk (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004295 ! sympathetic nerve trunk [Term] id: MA:0001179 name: segmental spinal nerve trunk (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001147 ! trunk of peripheral nerve [Term] id: MA:0001226 name: auricular blood vessel (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001757 ! pinna [Term] id: MA:0001244 name: corneal nerves (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000964 ! cornea [Term] id: MA:0001284 name: tunica vasculosa plexus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0005607 ! hyaloid vascular plexus [Term] id: MA:0001327 name: septal olfactory organ (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001706 ! nasal septum [Term] id: MA:0001413 name: rib 13 (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002228 ! rib [Term] id: MA:0001414 name: rib dorsal segment (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002228 ! rib [Term] id: MA:0001418 name: rib ventral segment (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002228 ! rib [Term] id: MA:0001433 name: lumbar vertebra 6 (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002414 ! lumbar vertebra [Term] id: MA:0001450 name: thoracic vertebra 13 (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002347 ! thoracic vertebra [Term] id: MA:0001488 name: mandible petrous part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001684 ! mandible [Term] id: MA:0001489 name: mandible squamous part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001684 ! mandible [Term] id: MA:0001503 name: postcranial synchondrosis (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002215 ! synchondrosis [Term] id: MA:0001528 name: anal canal caudal part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000159 ! anal canal [Term] id: MA:0001529 name: anal canal rostral part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000159 ! anal canal [Term] id: MA:0001566 name: esophagus basal epithelium (mouse) namespace: adult_mouse_anatomy.gxd synonym: "basal oesophageal epithelium" RELATED [] is_a: UBERON:0001976 ! epithelium of esophagus [Term] id: MA:0001608 name: stomach blind ventricular sac (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0009034 ! stomach region [Term] id: MA:0001625 name: stomach proventricular region (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0009034 ! stomach region [Term] id: MA:0001647 name: area cribosa (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0005167 ! papillary duct [Term] id: MA:0001661 name: glomerular juxtacapillary capsular wall (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001230 ! glomerular capsule [Term] id: MA:0001662 name: glomerular outer capsular wall (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001230 ! glomerular capsule [Term] id: MA:0001663 name: juxtamedullary renal corpuscle (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001229 ! renal corpuscle relationship: part_of UBERON:0005271 ! juxtamedullary cortex [Term] id: MA:0001667 name: distal convoluted tubule convoluted part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001292 ! distal convoluted tubule [Term] id: MA:0001670 name: proximal convoluted tubule neck (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001287 ! proximal convoluted tubule [Term] id: MA:0001671 name: proximal convoluted tubule convoluted part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001287 ! proximal convoluted tubule [Term] id: MA:0001672 name: proximal convoluted tubule straight part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001287 ! proximal convoluted tubule [Term] id: MA:0001673 name: distal convoluted tubule straight part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001292 ! distal convoluted tubule [Term] id: MA:0001674 name: junctional tubule (mouse) namespace: adult_mouse_anatomy.gxd synonym: "connecting tubule" RELATED [] is_a: UBERON:0001231 ! nephron tubule [Term] id: MA:0001712 name: ovary theca (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000992 ! female gonad [Term] id: MA:0001815 name: respiratory system basement membrane (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0003570 ! respiratory system connective tissue [Term] id: MA:0001874 name: left ventricle membranous part (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001878 ! heart ventricle membranous part (mouse) relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: MA:0001875 name: left ventricle muscular part (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001879 ! heart ventricle muscular part (mouse) relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: MA:0001876 name: right ventricle membranous part (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001878 ! heart ventricle membranous part (mouse) relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: MA:0001877 name: right ventricle muscular part (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001879 ! heart ventricle muscular part (mouse) relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: MA:0001878 name: heart ventricle membranous part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002082 ! cardiac ventricle [Term] id: MA:0001879 name: heart ventricle muscular part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002082 ! cardiac ventricle [Term] id: MA:0001881 name: outflow tract pulmonary component distal part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0005339 ! outflow tract pulmonary component [Term] id: MA:0001882 name: outflow tract pulmonary component proximal part (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0005339 ! outflow tract pulmonary component [Term] id: MA:0001889 name: adrenal gland brown degeneration zone (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0009753 ! adrenal gland cortex zone [Term] id: MA:0001937 name: cervical trunk (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0001952 name: medial femoral artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002060 ! femoral artery [Term] id: MA:0001983 name: internal spermatic artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0001986 name: kidney subcortical arteries (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0001990 name: lieno-gastric artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0001994 name: maternal placental artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002000 name: median artery palmar branch (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0002249 ! median artery [Term] id: MA:0002006 name: middle caudal artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002016 name: pericardiacoophrenic artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002020 name: pial artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002030 name: pudic-epigastric trunk (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002039 name: saphenous artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002051 name: superficial antebrachial artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002053 name: superficial radial artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002059 name: external sural artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001390 ! sural artery [Term] id: MA:0002060 name: superficial sural artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001390 ! sural artery [Term] id: MA:0002070 name: ulnar artery palmar branch (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001406 ! ulnar artery [Term] id: MA:0002071 name: ulnar collateral artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002073 name: upper intercostal artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002075 name: ventral intercostal artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002076 name: ventral nasal artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001637 ! artery [Term] id: MA:0002082 name: anastomotic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002089 name: buccal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002102 name: dorsal cerebellar vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002104 name: dorsal intercostal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002106 name: dorsal nasal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002107 name: dorsal penis vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002108 name: dorsal spinal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002109 name: dorsal vena of penis (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002112 name: duodenal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002116 name: anterior facial vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001653 ! facial vein [Term] id: MA:0002119 name: medial femoral vein (mouse) namespace: adult_mouse_anatomy.gxd alt_id: MA:0002170 is_a: UBERON:0001361 ! femoral vein [Term] id: MA:0002122 name: digital torus vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004563 ! forelimb digital vein [Term] id: MA:0002123 name: forelimb common dorsal digital vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004563 ! forelimb digital vein [Term] id: MA:0002124 name: forelimb proper dorsal digital vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004563 ! forelimb digital vein [Term] id: MA:0002125 name: lateral dorsal digital vein 05 (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004563 ! forelimb digital vein [Term] id: MA:0002129 name: gastroepiploic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002136 name: hindlimb common dorsal digital vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004564 ! hindlimb digital vein [Term] id: MA:0002137 name: hindlimb proper dorsal digital vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0004564 ! hindlimb digital vein [Term] id: MA:0002139 name: hypogastric vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002148 name: internal mammary vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002149 name: internal spermatic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002150 name: left internal spermatic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0002149 ! internal spermatic vein (mouse) [Term] id: MA:0002151 name: right internal spermatic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0002149 ! internal spermatic vein (mouse) [Term] id: MA:0002152 name: ischiatic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002158 name: kidney subcortical veins (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002159 name: lateral caudal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002163 name: left hepatico-cardiac vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002165 name: lieno-pancreatic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002166 name: linguofacial vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002168 name: maternal placental vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002174 name: medial tarsal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002175 name: median vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002180 name: middle caudal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002184 name: ocular angle vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002196 name: pial vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002201 name: proximal caudal femoral vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002205 name: pudendoepigastric vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002209 name: right hepatico-cardiac vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002214 name: rostral auricular vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002225 name: superficial cervical vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002230 name: inferior suprarenal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001146 ! suprarenal vein [Term] id: MA:0002232 name: external sural vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001551 ! vein of hindlimb zeugopod [Term] id: MA:0002236 name: external thoracic vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0005194 ! thoracic vein [Term] id: MA:0002248 name: ulnar collateral vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002256 name: vein of vesicular gland (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002258 name: ventral auricular vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002259 name: ventral intercostal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002260 name: ventral labial vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002261 name: ventral nasal vein (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001638 ! vein [Term] id: MA:0002421 name: pancreatic islet mantle (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000006 ! islet of Langerhans [Term] id: MA:0002449 name: heart/pericardium (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0005178 ! thoracic cavity organ [Term] id: MA:0002456 name: septal coronary artery (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001621 ! coronary artery [Term] id: MA:0002581 name: rest of afferent arteriole (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004639 ! afferent arteriole [Term] id: MA:0002591 name: kidney venous blood vessel (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003517 ! kidney blood vessel [Term] id: MA:0002622 name: kidney subcapsular mesenchyme (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0005215 ! kidney interstitium [Term] id: MA:0002624 name: loop of henle bend (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001288 ! loop of Henle relationship: part_of UBERON:0003455 ! inner renal medulla loop of henle [Term] id: MA:0002642 name: male urethra ostium (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001333 ! male urethra [Term] id: MA:0002644 name: penile urethra cavernous portion (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001337 ! spongiose part of urethra [Term] id: MA:0002645 name: penile urethra fossa terminalis (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001337 ! spongiose part of urethra [Term] id: MA:0002648 name: urethra mesenchymal layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000057 ! urethra [Term] id: MA:0002651 name: rest of ureter (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000056 ! ureter [Term] id: MA:0002658 name: ureteral valve (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0000056 ! ureter [Term] id: MA:0002663 name: intrahepatic part of left hepatic duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001177 ! left hepatic duct relationship: part_of UBERON:0005605 ! hepatic duct intrahepatic part [Term] id: MA:0002664 name: intrahepatic part of right hepatic duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001176 ! right hepatic duct relationship: part_of UBERON:0005605 ! hepatic duct intrahepatic part [Term] id: MA:0002665 name: hilar part of hepatic duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0005604 ! hepatic duct extrahepatic part [Term] id: MA:0002666 name: hilar part of left hepatic duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of MA:0002665 ! hilar part of hepatic duct (mouse) relationship: part_of UBERON:0001177 ! left hepatic duct [Term] id: MA:0002667 name: hilar part of right hepatic duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of MA:0002665 ! hilar part of hepatic duct (mouse) relationship: part_of UBERON:0001176 ! right hepatic duct [Term] id: MA:0002735 name: myometrium inner circular layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001296 ! myometrium [Term] id: MA:0002736 name: myometrium outer longitudinal layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001296 ! myometrium [Term] id: MA:0002741 name: brainstem white matter (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003544 ! brain white matter relationship: part_of UBERON:0002298 ! brainstem [Term] id: MA:0002752 name: nucleus approprius (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: MA:0002756 name: lateral spinal nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001120 ! spinal cord basal nucleus (mouse) [Term] id: MA:0002758 name: levator auris longus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001630 ! muscle organ [Term] id: MA:0002766 name: accessory olfactory bulb mitral cell layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004069 ! accessory olfactory bulb [Term] id: MA:0002862 name: external elastic membrane (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0003614 ! blood vessel elastic tissue relationship: part_of UBERON:0002522 ! tunica media [Term] id: MA:0002884 name: sciatic lymph node (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0000029 ! lymph node [Term] id: MA:0002887 name: set of connective tissues (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0000467 ! anatomical system [Term] id: MA:0002890 name: septal organ of Masera (mouse) namespace: adult_mouse_anatomy.gxd is_a: MA:0001327 ! septal olfactory organ (mouse) [Term] id: MA:0002891 name: septal organ of Gruneberg (mouse) namespace: adult_mouse_anatomy.gxd synonym: "Gruneberg ganglion" RELATED [] is_a: MA:0001327 ! septal olfactory organ (mouse) [Term] id: MA:0002894 name: ventral posterior lateral thalamic nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of MA:0000867 ! ventral posterior thalamic group (mouse) [Term] id: MA:0002917 name: amygdalahippocampal area (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002918 name: amygdaloppiriform transition area (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002920 name: anterior cortical amydaloid nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002928 name: posterior amygdaloid nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002929 name: posterolateral cortical amygdaloid nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002930 name: posteromedial cortical amygdaloid nucleus (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001876 ! amygdala [Term] id: MA:0002932 name: accessory olfactory bulb external plexiform layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004069 ! accessory olfactory bulb [Term] id: MA:0002933 name: accessory olfactory bulb granule cell layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004069 ! accessory olfactory bulb [Term] id: MA:0002934 name: accessory olfactory bulb internal plexiform layer (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0004069 ! accessory olfactory bulb [Term] id: MA:0002938 name: lingual gland duct (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001837 ! duct of salivary gland [Term] id: MA:0002994 name: malleus process brevis (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001689 ! malleus [Term] id: MA:0002995 name: kidney medulla tubule (mouse) namespace: adult_mouse_anatomy.gxd synonym: "medullary tubule" RELATED [] is_a: UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0000362 ! renal medulla [Term] id: MA:0002998 name: nephrogenic interstitium (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0009871 ! nephrogenic zone [Term] id: MA:0002999 name: pretubular aggregate (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0009871 ! nephrogenic zone [Term] id: MA:0003003 name: spiral prominence (mouse) namespace: adult_mouse_anatomy.gxd is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Term] id: EHDAA2:0001156 name: pons marginal layer (embryonic human) namespace: anatomical_entity_ontology is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001643 ! rhombomere 01 marginal layer (embryonic human) relationship: develops_from EHDAA2:0001653 ! rhombomere 02 marginal layer (embryonic human) relationship: develops_from EHDAA2:0001663 ! rhombomere 03 marginal layer (embryonic human) relationship: part_of EHDAA2:0001159 ! pons lateral wall (embryonic human) [Term] id: EHDAA2:0001569 name: pro-rhombomere d roof plate (embryonic human) namespace: anatomical_entity_ontology is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: develops_from EHDAA2:0001550 ! pro-rhombomere a roof plate (embryonic human) relationship: develops_from EHDAA2:0001556 ! pro-rhombomere b roof plate (embryonic human) relationship: part_of EHDAA2:0001563 ! pro-rhombomere d (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004084 name: oropharynx associated mesenchyme (embryonic human) namespace: anatomical_entity_ontology is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: part_of UBERON:0001729 ! oropharynx [Term] id: EHDAA2:0004488 name: synencephalon marginal layer (embryonic human) namespace: anatomical_entity_ontology is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004487 ! synencephalon mantle layer (embryonic human) relationship: part_of EHDAA2:0004472 ! synencephalon (embryonic human) [Typedef] id: attached_to name: attached_to namespace: anatomical_entity_ontology [Typedef] id: branch_of name: branch_of namespace: anatomical_entity_ontology alt_id: FMA:85994 comment: Source: FMA. Editor note: we need to check if FMA branch_of implies part_of. the relation we intend to use here should - for example, see vestibulocochlear nerve is_a: part_of ! part of [Typedef] id: derives_from name: derives_from namespace: anatomical_entity_ontology [Typedef] id: develops_from name: develops from namespace: zebrafish_anatomical_ontology is_transitive: true xref: RO:0002202 is_a: has_developmental_contribution_from ! has developmental contribution from transitive_over: part_of ! part of holds_over_chain: part_of develops_from ! develops from [Typedef] id: develops_in name: develops_in namespace: anatomical_entity_ontology def: "x develops_in y if x is located in x whilst x is developing." [] xref: RO:0002226 [Typedef] id: encloses name: encloses namespace: anatomical_entity_ontology def: "x encloses y iff the convex hull formed by x contains all or the majority of y." [UBERON:cjm] [Typedef] id: endStage name: endStage namespace: anatomical_entity_ontology [Typedef] id: ends_at name: ends_at namespace: anatomical_entity_ontology [Typedef] id: has_part name: has_part namespace: anatomical_entity_ontology is_transitive: true inverse_of: part_of ! part of xref: BFO:0000051 [Typedef] id: has_start name: has_start namespace: anatomical_entity_ontology [Typedef] id: located_in name: located_in namespace: anatomical_entity_ontology [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: startStage name: startStage namespace: anatomical_entity_ontology [Typedef] id: starts_at name: starts_at namespace: anatomical_entity_ontology [Typedef] id: surrounds name: surrounds namespace: anatomical_entity_ontology def: "inverse of surrounded_by" [UBERON:cjm] inverse_of: surrounded_by ! surrounded_by xref: RO:0002221 [Typedef] id: type name: type namespace: anatomical_entity_ontology [Term] id: GO:0000003 name: reproduction namespace: biological_process alt_id: GO:0019952 alt_id: GO:0050876 def: "The production by an organism of new individuals that contain some portion of their genetic material inherited from that organism." [GOC:go_curators, GOC:isa_complete, ISBN:0198506732] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "reproductive physiological process" EXACT [] xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0000279 name: M phase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through M phase, the part of the cell cycle comprising nuclear division." [GOC:dph, GOC:mah, ISBN:0815316194] synonym: "M-phase" EXACT [] xref: Wikipedia:M_phase is_a: GO:0022403 ! cell cycle phase property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001501 name: skeletal system development namespace: biological_process def: "The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton)." [GOC:dph, GOC:jid, GOC:tb, http://www.stedmans.com/] synonym: "skeletal development" EXACT [] is_a: GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001503 name: ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:mtg_mpo, PMID:17572649] comment: Note that this term does not have a 'developmental process' parent because ossification isn't necessarily developmental, can also occur as part of bone remodeling. Instead use 'ossification involved in bone maturation ; GO:0043931'. synonym: "bone biosynthesis" EXACT [] synonym: "bone formation" EXACT [] synonym: "osteogenesis" EXACT [] xref: Wikipedia:Ossification is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001525 name: angiogenesis namespace: biological_process def: "Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels." [ISBN:0878932453] synonym: "blood vessel formation from pre-existing blood vessels" EXACT systematic_synonym [] xref: Wikipedia:Angiogenesis is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0048514 ! blood vessel morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001553 name: luteinization namespace: biological_process def: "The set of processes resulting in differentiation of theca and granulosa cells into luteal cells and in the formation of a corpus luteum after ovulation." [http://ovary.stanford.edu] synonym: "luteal phase" RELATED [] xref: Wikipedia:Luteal_phase xref: Wikipedia:Luteinization is_a: GO:0022602 ! ovulation cycle process relationship: part_of GO:0008585 ! female gonad development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001568 name: blood vessel development namespace: biological_process def: "The process whose specific outcome is the progression of a blood vessel over time, from its formation to the mature structure. The blood vessel is the vasculature carrying blood." [GOC:hjd, UBERON:0001981] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001944 ! vasculature development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001659 name: temperature homeostasis namespace: biological_process def: "A homeostatic process in which an organism modulates its internal body temperature." [GOC:jl] synonym: "thermoregulation" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Thermoregulation is_a: GO:0048871 ! multicellular organismal homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001696 name: gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:hjd] synonym: "hydrochloric acid secretion" NARROW [] is_a: GO:0022600 ! digestive system process is_a: GO:0046717 ! acid secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001763 name: morphogenesis of a branching structure namespace: biological_process def: "The process in which the anatomical structures of branches are generated and organized. A branch is a division or offshoot from a main stem. Examples in animals would include blood vessels, nerves, lymphatics and other endothelial or epithelial tubes." [ISBN:0721662544] synonym: "branching morphogenesis" EXACT [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001775 name: cell activation namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand." [GOC:mgi_curators] subset: goslim_pir ! PIR GO slim is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001820 name: serotonin secretion namespace: biological_process def: "The regulated release of serotonin by a cell or group of cells. Serotonin (5-hydroxytryptamine, or 5-HT) is a monoamine synthesised in serotonergic neurons in the central nervous system, enterochromaffin cells in the gastrointestinal tract and some immune system cells." [GOC:ef, ISBN:0198506732, ISBN:0781735149] synonym: "5-HT secretion" EXACT [] synonym: "5-hydroxytryptamine secretion" EXACT [] synonym: "serotonin release" RELATED [GOC:tb] is_a: GO:0006837 ! serotonin transport is_a: GO:0023061 ! signal release is_a: GO:0032940 ! secretion by cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001838 name: embryonic epithelial tube formation namespace: biological_process def: "The morphogenesis of an embryonic epithelium into a tube-shaped structure." [GOC:dph, ISBN:0824072820] is_a: GO:0072175 ! epithelial tube formation relationship: part_of GO:0016331 ! morphogenesis of embryonic epithelium property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001841 name: neural tube formation namespace: biological_process alt_id: GO:0001679 def: "The formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GOC:dph, ISBN:0878932437] synonym: "neural tube morphogenesis" EXACT [GOC:dph] synonym: "neurulation" EXACT [] xref: Wikipedia:Neurulation is_a: GO:0001838 ! embryonic epithelial tube formation relationship: part_of GO:0021915 ! neural tube development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001944 name: vasculature development namespace: biological_process def: "The process whose specific outcome is the progression of the vasculature over time, from its formation to the mature structure. The vasculature is an interconnected tubular multi-tissue structure that contains fluid that is actively transported around the organism." [GOC:dph, UBERON:0002409] synonym: "vascular system development" RELATED [GOC:curators] is_a: GO:0048731 ! system development relationship: part_of GO:0072358 ! cardiovascular system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001957 name: intramembranous ossification namespace: biological_process def: "Direct ossification that occurs within mesenchyme or an accumulation of relatively unspecialized cells." [ISBN:0878932437] comment: An instance of intramembranous ossification may also be classified as metaplastic; the former classifies based on tissue type location, and the latter based on mechanism/cell division. synonym: "dermal ossification" NARROW [GO_REF:0000034] xref: Wikipedia:Intramembranous_ossification is_a: GO:0036072 ! direct ossification property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001958 name: endochondral ossification namespace: biological_process def: "Replacement ossification wherein bone tissue replaces cartilage." [GO_REF:0000034, ISBN:0878932437] xref: Wikipedia:Endochondral_ossification is_a: GO:0036075 ! replacement ossification relationship: part_of GO:0060350 ! endochondral bone morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001976 name: neurological system process involved in regulation of systemic arterial blood pressure namespace: biological_process def: "The regulation of blood pressure mediated by detection of stimuli and a neurological response." [GOC:mtg_cardio, ISBN:0721643949] synonym: "blood pressure regulation by neurological process" EXACT [] synonym: "fast control of arterial pressure" RELATED [] synonym: "neurological process involved in regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0050877 ! neurological system process relationship: part_of GO:0003073 ! regulation of systemic arterial blood pressure property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001977 name: renal system process involved in regulation of blood volume namespace: biological_process def: "A slow mechanism of blood pressure regulation that responds to changes in pressure resulting from fluid and salt intake by modulating the quantity of blood in the circulatory system." [GOC:dph, GOC:tb, ISBN:0721643949] synonym: "renal blood volume control of blood pressure" RELATED [] synonym: "renal regulation of blood volume" RELATED [GOC:dph, GOC:tb] is_a: GO:0003071 ! renal system process involved in regulation of systemic arterial blood pressure relationship: part_of GO:0050878 ! regulation of body fluid levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001978 name: regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback namespace: biological_process def: "The process that modulates blood pressure by sensing the amount of stretch occurring in large arteries and responding to the input via central nervous system control." [GOC:dph, GOC:tb, ISBN:0721643949] synonym: "baroreceptor feedback control of blood pressure" RELATED [] synonym: "baroreceptor pressure buffer system" RELATED [ISBN:068340007X] synonym: "carotid sinus baroreceptor feedback regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure relationship: part_of GO:0003025 ! regulation of systemic arterial blood pressure by baroreceptor feedback property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001990 name: regulation of systemic arterial blood pressure by hormone namespace: biological_process def: "The process in which hormones modulate the force with which blood passes through the circulatory system. A hormone is one of a group of substances formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells, in the same organism, upon which they have a specific regulatory action." [GOC:mtg_cardio, ISBN:0721643949] synonym: "blood pressure regulation by hormone" EXACT [] synonym: "hormonal control of blood pressure" RELATED [] synonym: "hormonal regulation of blood pressure" EXACT [] is_a: GO:0003044 ! regulation of systemic arterial blood pressure mediated by a chemical signal is_a: GO:0050886 ! endocrine process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001992 name: regulation of systemic arterial blood pressure by vasopressin namespace: biological_process def: "The regulation of blood pressure mediated by the signaling molecule vasopressin. Vasopressin is produced in the hypothalamus, and affects vasoconstriction, and renal water transport." [GOC:mtg_cardio, ISBN:0721643949] synonym: "blood pressure regulation by vasopressin" EXACT [] synonym: "vasopressin control of blood pressure" RELATED [] is_a: GO:0001990 ! regulation of systemic arterial blood pressure by hormone property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002009 name: morphogenesis of an epithelium namespace: biological_process def: "The process in which the anatomical structures of epithelia are generated and organized. An epithelium consists of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube." [GOC:dph, GOC:jl, GOC:tb, ISBN:0198506732] is_a: GO:0048729 ! tissue morphogenesis relationship: part_of GO:0060429 ! epithelium development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002027 name: regulation of heart rate namespace: biological_process def: "Any process that modulates the frequency or rate of heart contraction." [GOC:dph, GOC:tb, PMID:10358008] synonym: "cardiac chronotropy" EXACT [GOC:dph, GOC:tb] synonym: "regulation of heart contraction rate" EXACT [] synonym: "regulation of rate of heart contraction" EXACT [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0065008 ! regulation of biological quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002062 name: chondrocyte differentiation namespace: biological_process def: "The process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte. A chondrocyte is a polymorphic cell that forms cartilage." [GOC:dph] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0051216 ! cartilage development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002063 name: chondrocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:dph] is_a: GO:0048468 ! cell development relationship: part_of GO:0002062 ! chondrocyte differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002117 name: amphibian larval development namespace: biological_process def: "The process whose specific outcome is the progression of the amphibian larva over time, from its formation to the mature structure. Amphibian larvae, sometimes called pollywogs or tadpoles, hatch from eggs and begin to grow limbs and other adult physical features at various times, depending on the species, before they metamorphose into the adult form." [GOC:bf, GOC:go_curators, http://www.livingunderworld.org/biology/] is_a: GO:0002164 ! larval development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002119 name: nematode larval development namespace: biological_process def: "The process whose specific outcome is the progression of the nematode larva over time, from its formation to the mature structure. Nematode larval development begins with the newly hatched first-stage larva (L1) and ends with the end of the last larval stage (for example the fourth larval stage (L4) in C. elegans). Each stage of nematode larval development is characterized by proliferation of specific cell lineages and an increase in body size without alteration of the basic body plan. Nematode larval stages are separated by molts in which each stage-specific exoskeleton, or cuticle, is shed and replaced anew." [GOC:ems, GOC:kmv] is_a: GO:0002164 ! larval development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002164 name: larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. The larva is the early, immature form of an that at birth or hatching is fundamentally unlike its parent and must metamorphose before assuming the adult characters." [GOC:jid, ISBN:0877795088] is_a: GO:0009791 ! post-embryonic development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002165 name: instar larval or pupal development namespace: biological_process def: "The process whose specific outcome is the progression of the instar larva or pupa over time, from its formation to the mature structure. An example of this process is found in Drosophila melanogaster." [GOC:jid, GOC:mtg_sensu] is_a: GO:0009791 ! post-embryonic development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002168 name: instar larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. This begins with the newly hatched first-instar larva, through its maturation to the end of the last larval stage. An example of this process is found in Drosophila melanogaster." [GOC:bf, GOC:mtg_sensu] is_a: GO:0002164 ! larval development is_a: GO:0002165 ! instar larval or pupal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002251 name: organ or tissue specific immune response namespace: biological_process def: "An immune response taking place in an organ or tissues such as the liver, brain, mucosa, or nervous system tissues." [GOC:jal, GOC:mtg_15nov05, GO_REF:0000022] comment: This term was added by GO_REF:0000022. synonym: "immune response in organ or tissue" EXACT [] is_a: GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002252 name: immune effector process namespace: biological_process def: "Any process of the immune system that can potentially contribute to an immune response." [GOC:add, GOC:mtg_15nov05, GO_REF:0000022, ISBN:0781735149] comment: This term was added by GO_REF:0000022. is_a: GO:0002376 ! immune system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002263 name: cell activation involved in immune response namespace: biological_process def: "A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand, leading to the initiation or perpetuation of an immune response." [GOC:add, GOC:mtg_15nov05, GO_REF:0000022, ISBN:0781735149] comment: This term was added by GO_REF:0000022. synonym: "cell activation during immune response" RELATED [GOC:tb] is_a: GO:0001775 ! cell activation is_a: GO:0002252 ! immune effector process relationship: part_of GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002285 name: lymphocyte activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a lymphocyte resulting from exposure to a specific antigen, mitogen, cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] synonym: "lymphocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002366 ! leukocyte activation involved in immune response is_a: GO:0046649 ! lymphocyte activation relationship: part_of GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002312 name: B cell activation involved in immune response namespace: biological_process def: "The change in morphology and behavior of a mature or immature B cell during an immune response, resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." [GOC:jal] synonym: "B cell activation during immune response" RELATED [GOC:tb] synonym: "B lymphocyte activation during immune response" RELATED [] synonym: "B-cell activation during immune response" RELATED [] synonym: "B-lymphocyte activation during immune response" RELATED [] is_a: GO:0002285 ! lymphocyte activation involved in immune response is_a: GO:0042113 ! B cell activation relationship: part_of GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002313 name: mature B cell differentiation involved in immune response namespace: biological_process def: "The process in which a naive B cell acquires the specialized features of a mature or memory B cell during an immune response." [GOC:jal] comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "mature B cell development involved in immune response" RELATED [GOC:add] synonym: "mature B cell differentiation during immune response" RELATED [GOC:tb] synonym: "mature B lymphocyte differentiation during immune response" RELATED [] synonym: "mature B-cell differentiation during immune response" RELATED [] synonym: "mature B-lymphocyte differentiation during immune response" RELATED [] is_a: GO:0002312 ! B cell activation involved in immune response is_a: GO:0002335 ! mature B cell differentiation relationship: part_of GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002317 name: plasma cell differentiation namespace: biological_process def: "The process in which a B cell acquires the specialized features of a plasma cell. A plasma cell is a lymphocyte which develops from a B cell and produces high amounts of antibody." [GOC:jal] comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "plasma cell development" RELATED [GOC:add] is_a: GO:0002313 ! mature B cell differentiation involved in immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002319 name: memory B cell differentiation namespace: biological_process def: "The process in which a B cell acquires the specialized features of a memory B cell. Memory B cells are cells that can respond rapidly to antigen re-exposure by production of high-affinity antibody." [GOC:jal, ISBN:0781735149] comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "memory B cell development" RELATED [GOC:add] synonym: "memory B lymphocyte differentiation" EXACT [] synonym: "memory B-cell differentiation" EXACT [] synonym: "memory B-lymphocyte differentiation" EXACT [] is_a: GO:0002313 ! mature B cell differentiation involved in immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002335 name: mature B cell differentiation namespace: biological_process def: "The process in which transitional stage B cells acquire the specialized features of mature B cells in the spleen." [GOC:jal, ISBN:0781735149] comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "mature B lymphocyte differentiation" EXACT [] synonym: "mature B-cell differentiation" EXACT [] synonym: "mature B-lymphocyte differentiation" EXACT [] synonym: "mature cell development" RELATED [GOC:add] is_a: GO:0030183 ! B cell differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002366 name: leukocyte activation involved in immune response namespace: biological_process def: "A change in morphology and behavior of a leukocyte resulting from exposure to a specific antigen, mitogen, cytokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response." [GOC:add, ISBN:0781735149] synonym: "immune cell activation during immune response" RELATED [] synonym: "leucocyte activation during immune response" RELATED [] synonym: "leukocyte activation during immune response" RELATED [GOC:tb] is_a: GO:0002263 ! cell activation involved in immune response is_a: GO:0045321 ! leukocyte activation relationship: part_of GO:0006955 ! immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002376 name: immune system process namespace: biological_process def: "Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats." [GOC:add, GOC:mtg_15nov05, GO_REF:0000022] comment: Note that this term is a direct child of 'biological_process ; GO:0008150' because some immune system processes are types of cellular process (GO:0009987), whereas others are types of multicellular organism process (GO:0032501). This term was added by GO_REF:0000022. subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim xref: Wikipedia:Immune_system is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002384 name: hepatic immune response namespace: biological_process def: "An immune response taking place in the liver." [GOC:jal, GOC:mtg_15nov05, GO_REF:0000022, ISBN:0781735149] comment: This term was added by GO_REF:0000022. is_a: GO:0002251 ! organ or tissue specific immune response property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:add, GOC:dph] is_a: GO:0002376 ! immune system process is_a: GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002521 name: leukocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a leukocyte. A leukocyte is an achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." [CL:0000738, GOC:add, PMID:16551264] synonym: "immune cell differentiation" EXACT [] synonym: "leucocyte differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030097 ! hemopoiesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0002790 name: peptide secretion namespace: biological_process def: "The controlled release of a peptide from a cell or group of cells." [GOC:add] is_a: GO:0015833 ! peptide transport is_a: GO:0046903 ! secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003001 name: generation of a signal involved in cell-cell signaling namespace: biological_process def: "The cellular process that creates a physical entity or change in state, i.e. a signal, that originates in one cell and is used to transfer information to another cell. This process begins with the initial formation of the signal and ends with the mature form and placement of the signal." [GOC:dph] synonym: "formation of a signal" BROAD [] synonym: "generation of a signal involved in cell-cell signalling" EXACT [] synonym: "signal generation" BROAD [] is_a: GO:0044763 ! single-organism cellular process relationship: part_of GO:0007267 ! cell-cell signaling property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003006 name: developmental process involved in reproduction namespace: biological_process def: "A developmental process in which a progressive change in the state of some part of an organism specifically contributes to its ability to form offspring." [GOC:dph, GOC:isa_complete] synonym: "reproductive developmental process" RELATED [GOC:dph, GOC:tb] is_a: GO:0032502 ! developmental process is_a: GO:0044702 ! single organism reproductive process relationship: part_of GO:0000003 ! reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003008 name: system process namespace: biological_process def: "A multicellular organismal process carried out by any of the organs or tissues in an organ system. An organ system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a biological objective." [GOC:mtg_cardio] synonym: "organ system process" EXACT [] is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003012 name: muscle system process namespace: biological_process def: "A organ system process carried out at the level of a muscle. Muscle tissue is composed of contractile cells or fibers." [GOC:mtg_cardio] synonym: "muscle physiological process" RELATED [] is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003013 name: circulatory system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of the circulatory system. The circulatory system is an organ system that moves extracellular fluids to and from tissue within a multicellular organism." [GOC:mtg_cardio] subset: goslim_generic ! Generic GO slim xref: Wikipedia:Circulatory_system is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003014 name: renal system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of the renal system. The renal system is responsible for fluid volume regulation and detoxification in an organism." [GOC:cjm, GOC:mtg_cardio] synonym: "excretory system process" EXACT [] synonym: "kidney system process" RELATED [] is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003015 name: heart process namespace: biological_process def: "A circulatory system process carried out by the heart. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." [GOC:mtg_cardio] synonym: "cardiac process" RELATED [] is_a: GO:0003013 ! circulatory system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003019 name: central nervous system control of baroreceptor feedback namespace: biological_process def: "The neurological process in which nerve impulses arising in the aorta or the carotid sinuses travel to the medulla and reach the nucleus of tractus solaris." [GOC:mtg_cardio, ISBN:0323031951] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure relationship: part_of GO:0001978 ! regulation of systemic arterial blood pressure by carotid sinus baroreceptor feedback property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003025 name: regulation of systemic arterial blood pressure by baroreceptor feedback namespace: biological_process def: "The neural regulation of blood pressure in which baroreceptors sense the amount of stretch occurring in vessels and respond to the input via central nervous system control." [GOC:dph, GOC:mtg_cardio, GOC:tb] synonym: "baroreceptor regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0001976 ! neurological system process involved in regulation of systemic arterial blood pressure property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003044 name: regulation of systemic arterial blood pressure mediated by a chemical signal namespace: biological_process def: "The regulation of blood pressure mediated by biochemical signaling: hormonal, autocrine or paracrine." [GOC:mtg_cardio] synonym: "blood pressure regulation mediated by a chemical signal" EXACT [] is_a: GO:0003073 ! regulation of systemic arterial blood pressure property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003071 name: renal system process involved in regulation of systemic arterial blood pressure namespace: biological_process def: "Renal process that modulates the force with which blood travels through the circulatory system. The process is controlled by a balance of processes that increase pressure and decrease pressure." [GOC:dph, GOC:mtg_cardio, GOC:tb] synonym: "renal control of blood pressure" EXACT [] synonym: "renal regulation of systemic arterial blood pressure" EXACT [GOC:dph, GOC:tb] is_a: GO:0003014 ! renal system process relationship: part_of GO:0003073 ! regulation of systemic arterial blood pressure property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003073 name: regulation of systemic arterial blood pressure namespace: biological_process def: "The process that modulates the force with which blood travels through the systemic arterial circulatory system. The process is controlled by a balance of processes that increase pressure and decrease pressure." [GOC:mtg_cardio] is_a: GO:0008217 ! regulation of blood pressure property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003091 name: renal water homeostasis namespace: biological_process def: "Renal process involved in the maintenance of an internal steady state of water in the body." [GOC:mtg_cardio] synonym: "water homeostasis by the kidney" EXACT [] is_a: GO:0003014 ! renal system process is_a: GO:0050891 ! multicellular organismal water homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003093 name: regulation of glomerular filtration namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glomerular filtration. Glomerular filtration is the process in which blood is filtered by the glomerulus into the renal tubule." [GOC:mtg_cardio] is_a: GO:0001977 ! renal system process involved in regulation of blood volume is_a: GO:0044057 ! regulation of system process relationship: regulates GO:0003094 ! glomerular filtration property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003094 name: glomerular filtration namespace: biological_process def: "The process in which plasma is filtered through the glomerular membrane which consists of capillary endothelial cells, the basement membrane, and epithelial cells. The glomerular filtrate is the same as plasma except it has no significant amount of protein." [GOC:mtg_cardio, GOC:sart, ISBN:0721643949] is_a: GO:0097205 ! renal filtration property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003097 name: renal water transport namespace: biological_process def: "The directed movement of water (H2O) by the kidney." [GOC:mtg_cardio] is_a: GO:0003014 ! renal system process is_a: GO:0006833 ! water transport relationship: part_of GO:0003091 ! renal water homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003415 name: chondrocyte hypertrophy namespace: biological_process def: "The growth of a chondrocyte, where growth contributes to the progression of the chondrocyte over time." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048588 ! developmental cell growth relationship: part_of GO:0002063 ! chondrocyte development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006022 name: aminoglycan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] subset: gosubset_prok ! Prokaryotic GO subset synonym: "aminoglycan metabolism" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901135 ! carbohydrate derivative metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006023 name: aminoglycan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] subset: gosubset_prok ! Prokaryotic GO subset synonym: "aminoglycan anabolism" EXACT [] synonym: "aminoglycan biosynthesis" EXACT [] synonym: "aminoglycan formation" EXACT [] synonym: "aminoglycan synthesis" EXACT [] is_a: GO:0006022 ! aminoglycan metabolic process is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:1901137 ! carbohydrate derivative biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006024 name: glycosaminoglycan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] subset: gosubset_prok ! Prokaryotic GO subset synonym: "glycosaminoglycan anabolism" EXACT [] synonym: "glycosaminoglycan biosynthesis" EXACT [] synonym: "glycosaminoglycan formation" EXACT [] synonym: "glycosaminoglycan synthesis" EXACT [] is_a: GO:0006023 ! aminoglycan biosynthetic process is_a: GO:0030203 ! glycosaminoglycan metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006082 name: organic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic acids, any acidic compound containing carbon in covalent linkage." [ISBN:0198506732] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "organic acid metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process is_a: GO:0044281 ! small molecule metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006520 name: cellular amino acid metabolic process namespace: biological_process alt_id: GO:0006519 def: "The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells." [CHEBI:33709, GOC:curators, ISBN:0198506732] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pombe ! Fission yeast GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "amino acid and derivative metabolism" EXACT [GOC:curators] synonym: "amino acid metabolic process" EXACT [GOC:curators] synonym: "cellular amino acid and derivative metabolic process" EXACT [] synonym: "cellular amino acid metabolism" EXACT [] xref: Reactome:REACT_116093 is_a: GO:0019752 ! carboxylic acid metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006575 name: cellular modified amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving compounds derived from amino acids, organic acids containing one or more amino substituents." [CHEBI:25359, GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "amino acid derivative metabolic process" EXACT [GOC:curators] synonym: "cellular amino acid derivative metabolic process" EXACT [GOC:curators] synonym: "cellular amino acid derivative metabolism" EXACT [] synonym: "cellular modified amino acid metabolism" EXACT [GOC:mah] synonym: "modified amino acid metabolic process" EXACT [GOC:mah] synonym: "modified amino acid metabolism" EXACT [GOC:mah] is_a: GO:0006520 ! cellular amino acid metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006590 name: thyroid hormone generation namespace: biological_process def: "The formation of either of the compounds secreted by the thyroid gland, mainly thyroxine and triiodothyronine. This is achieved by the iodination and joining of tyrosine molecules to form the precursor thyroglobin, proteolysis of this precursor gives rise to the thyroid hormones." [GOC:jl, ISBN:0716720094] comment: Note that this term does not fall under the general GO definition for biosynthetic processes, which is 'The chemical reactions and pathways resulting in the formation of... ', because thyroid hormones can only be formed by the proteolysis of a larger molecule (see term definition). The word 'generation' is therefore used in place of biosynthesis. xref: Reactome:REACT_100560 xref: Reactome:REACT_101145 xref: Reactome:REACT_103574 xref: Reactome:REACT_109249 xref: Reactome:REACT_15292 xref: Reactome:REACT_28288 xref: Reactome:REACT_28294 xref: Reactome:REACT_80508 xref: Reactome:REACT_80963 xref: Reactome:REACT_90570 xref: Reactome:REACT_93623 xref: Reactome:REACT_95788 xref: Reactome:REACT_97527 xref: Reactome:REACT_99447 is_a: GO:0042403 ! thyroid hormone metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006629 name: lipid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_pombe ! Fission yeast GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "lipid metabolism" EXACT [] xref: Reactome:REACT_104930 xref: Reactome:REACT_107479 xref: Reactome:REACT_108775 xref: Reactome:REACT_114669 xref: Reactome:REACT_115652 xref: Reactome:REACT_28745 xref: Reactome:REACT_31395 xref: Reactome:REACT_32539 xref: Reactome:REACT_33836 xref: Reactome:REACT_602 xref: Reactome:REACT_77176 xref: Reactome:REACT_77191 xref: Reactome:REACT_79244 xref: Reactome:REACT_81778 xref: Reactome:REACT_82512 xref: Reactome:REACT_82723 xref: Reactome:REACT_87884 xref: Reactome:REACT_90757 xref: Reactome:REACT_94607 xref: Reactome:REACT_97906 xref: Reactome:REACT_98129 xref: Reactome:REACT_99706 xref: Wikipedia:Lipid_metabolism is_a: GO:0044238 ! primary metabolic process is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006694 name: steroid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "steroid anabolism" EXACT [] synonym: "steroid biosynthesis" EXACT [] synonym: "steroid formation" EXACT [] synonym: "steroid synthesis" EXACT [] synonym: "steroidogenesis" EXACT [] xref: Wikipedia:Steroid_metabolisms#Steroid_biosynthesis is_a: GO:0008202 ! steroid metabolic process is_a: GO:0008610 ! lipid biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006704 name: glucocorticoid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glucocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] synonym: "glucocorticoid anabolism" EXACT [] synonym: "glucocorticoid biosynthesis" EXACT [] synonym: "glucocorticoid formation" EXACT [] synonym: "glucocorticoid synthesis" EXACT [] xref: Reactome:REACT_100413 xref: Reactome:REACT_101421 xref: Reactome:REACT_102866 xref: Reactome:REACT_107330 xref: Reactome:REACT_107450 xref: Reactome:REACT_107635 xref: Reactome:REACT_108788 xref: Reactome:REACT_11036 xref: Reactome:REACT_112672 xref: Reactome:REACT_113066 xref: Reactome:REACT_77995 xref: Reactome:REACT_79303 xref: Reactome:REACT_84297 xref: Reactome:REACT_85887 xref: Reactome:REACT_86974 xref: Reactome:REACT_88537 xref: Reactome:REACT_94676 is_a: GO:0006694 ! steroid biosynthetic process is_a: GO:0008211 ! glucocorticoid metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006705 name: mineralocorticoid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol." [ISBN:0198506732] synonym: "mineralocorticoid anabolism" EXACT [] synonym: "mineralocorticoid biosynthesis" EXACT [] synonym: "mineralocorticoid formation" EXACT [] synonym: "mineralocorticoid synthesis" EXACT [] xref: Reactome:REACT_103517 xref: Reactome:REACT_108854 xref: Reactome:REACT_109273 xref: Reactome:REACT_11047 xref: Reactome:REACT_112957 xref: Reactome:REACT_113805 xref: Reactome:REACT_30217 xref: Reactome:REACT_32293 xref: Reactome:REACT_77462 xref: Reactome:REACT_86556 xref: Reactome:REACT_88868 xref: Reactome:REACT_94686 xref: Reactome:REACT_97241 is_a: GO:0006694 ! steroid biosynthetic process is_a: GO:0008212 ! mineralocorticoid metabolic process is_a: GO:0042446 ! hormone biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006725 name: cellular aromatic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." [GOC:ai, ISBN:0198506732] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "aromatic compound metabolism" EXACT [] synonym: "aromatic hydrocarbon metabolic process" NARROW [] synonym: "aromatic hydrocarbon metabolism" NARROW [] is_a: GO:0044237 ! cellular metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006807 name: nitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen, including (but not limited to) nitrogen fixation, nitrification, denitrification, assimilatory/dissimilatory nitrate reduction and the interconversion of nitrogenous organic matter and ammonium." [CHEBI:51143, GOC:go_curators, GOC:jl, ISBN:0198506732] comment: Note that amino acid and derivative metabolism should not be annotated here. Instead use the 'amino acid and derivative metabolism' node. subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "nitrogen compound metabolism" EXACT [] is_a: GO:0044710 ! single-organism metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006810 name: transport namespace: biological_process alt_id: GO:0015457 alt_id: GO:0015460 def: "The directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "auxiliary transport protein activity" RELATED [GOC:mah] synonym: "small molecule transport" NARROW [] synonym: "solute:solute exchange" NARROW [] synonym: "transport accessory protein activity" RELATED [GOC:mah] is_a: GO:0051234 ! establishment of localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006811 name: ion transport namespace: biological_process def: "The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Reactome:REACT_102356 xref: Reactome:REACT_102895 xref: Reactome:REACT_106972 xref: Reactome:REACT_109067 xref: Reactome:REACT_110862 xref: Reactome:REACT_19397 xref: Reactome:REACT_29110 xref: Reactome:REACT_31978 xref: Reactome:REACT_33992 xref: Reactome:REACT_34201 xref: Reactome:REACT_79109 xref: Reactome:REACT_82618 xref: Reactome:REACT_87822 xref: Reactome:REACT_91472 xref: Reactome:REACT_91958 xref: Reactome:REACT_92903 xref: Reactome:REACT_93485 xref: Reactome:REACT_94357 xref: Reactome:REACT_96078 xref: Reactome:REACT_96919 xref: Reactome:REACT_98077 is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006812 name: cation transport namespace: biological_process alt_id: GO:0006819 alt_id: GO:0015674 def: "The directed movement of cations, atoms or small molecules with a net positive charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "di-, tri-valent inorganic cation transport" NARROW [GOC:mah] is_a: GO:0006811 ! ion transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006833 name: water transport namespace: biological_process def: "The directed movement of water (H2O) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset xref: Reactome:REACT_100323 xref: Reactome:REACT_100926 xref: Reactome:REACT_101470 xref: Reactome:REACT_102276 xref: Reactome:REACT_104925 xref: Reactome:REACT_106426 xref: Reactome:REACT_107038 xref: Reactome:REACT_107112 xref: Reactome:REACT_108009 xref: Reactome:REACT_108199 xref: Reactome:REACT_108998 xref: Reactome:REACT_109077 xref: Reactome:REACT_109206 xref: Reactome:REACT_110412 xref: Reactome:REACT_112337 xref: Reactome:REACT_113611 xref: Reactome:REACT_23826 xref: Reactome:REACT_23887 xref: Reactome:REACT_24023 xref: Reactome:REACT_29327 xref: Reactome:REACT_30349 xref: Reactome:REACT_30374 xref: Reactome:REACT_31971 xref: Reactome:REACT_32279 xref: Reactome:REACT_32908 xref: Reactome:REACT_33949 xref: Reactome:REACT_34264 xref: Reactome:REACT_77599 xref: Reactome:REACT_80678 xref: Reactome:REACT_80794 xref: Reactome:REACT_82029 xref: Reactome:REACT_83369 xref: Reactome:REACT_84018 xref: Reactome:REACT_84275 xref: Reactome:REACT_84902 xref: Reactome:REACT_86198 xref: Reactome:REACT_87355 xref: Reactome:REACT_89286 xref: Reactome:REACT_90368 xref: Reactome:REACT_91961 xref: Reactome:REACT_92364 xref: Reactome:REACT_95030 xref: Reactome:REACT_96766 xref: Reactome:REACT_97951 xref: Reactome:REACT_98188 xref: Reactome:REACT_99705 is_a: GO:0042044 ! fluid transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006837 name: serotonin transport namespace: biological_process def: "The directed movement of serotonin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Serotonin (5-hydroxytryptamine) is a monoamine neurotransmitter occurring in the peripheral and central nervous systems." [GOC:ai] is_a: GO:0015695 ! organic cation transport is_a: GO:0015837 ! amine transport is_a: GO:0015844 ! monoamine transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006869 name: lipid transport namespace: biological_process def: "The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [ISBN:0198506732] subset: goslim_pir ! PIR GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0071702 ! organic substance transport relationship: part_of GO:0010876 ! lipid localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006887 name: exocytosis namespace: biological_process alt_id: GO:0016194 alt_id: GO:0016195 def: "A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell. This is the process in which most molecules are secreted from eukaryotic cells." [GOC:mah, ISBN:0716731363] subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "nonselective vesicle exocytosis" RELATED [] synonym: "vesicle exocytosis" EXACT [] xref: Wikipedia:Exocytosis is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0032940 ! secretion by cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006928 name: cellular component movement namespace: biological_process def: "The directed, self-propelled movement of a cellular component without the involvement of an external agent such as a transporter or a pore." [GOC:dgh, GOC:dph, GOC:jl, GOC:mlg] comment: Note that in GO cellular components include whole cells (cell is_a cellular component). subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell movement" RELATED [] synonym: "cellular component motion" EXACT [GOC:dph, GOC:jl] is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006936 name: muscle contraction namespace: biological_process def: "A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis." [GOC:ef, GOC:mtg_muscle, ISBN:0198506732] subset: goslim_pir ! PIR GO slim xref: Reactome:REACT_100109 xref: Reactome:REACT_102067 xref: Reactome:REACT_20558 xref: Reactome:REACT_29015 xref: Reactome:REACT_77478 xref: Reactome:REACT_81255 xref: Reactome:REACT_83607 xref: Reactome:REACT_85440 xref: Reactome:REACT_87764 xref: Reactome:REACT_88232 xref: Reactome:REACT_92442 xref: Wikipedia:Muscle_contraction is_a: GO:0003012 ! muscle system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006939 name: smooth muscle contraction namespace: biological_process def: "A process in which force is generated within smooth muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length." [GOC:ef, GOC:jl, GOC:mtg_muscle, ISBN:0198506732] synonym: "visceral muscle contraction" EXACT [] is_a: GO:0006936 ! muscle contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006941 name: striated muscle contraction namespace: biological_process def: "A process in which force is generated within striated muscle tissue, resulting in the shortening of the muscle. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. Striated muscle is a type of muscle in which the repeating units (sarcomeres) of the contractile myofibrils are arranged in registry throughout the cell, resulting in transverse or oblique striations observable at the level of the light microscope." [GOC:jl, GOC:mtg_muscle, ISBN:0198506732] synonym: "sarcomeric muscle contraction" EXACT [] is_a: GO:0006936 ! muscle contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006950 name: response to stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006952 name: defense response namespace: biological_process alt_id: GO:0002217 alt_id: GO:0042829 def: "Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "antimicrobial peptide activity" RELATED [] synonym: "defence response" EXACT [] synonym: "defense/immunity protein activity" RELATED [] synonym: "physiological defense response" EXACT [] is_a: GO:0006950 ! response to stress property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006954 name: inflammatory response namespace: biological_process def: "The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages." [GOC:mtg_15nov05, GO_REF:0000022, ISBN:0198506732] comment: This term was improved by GO_REF:0000022. It was moved. xref: Wikipedia:Inflammation is_a: GO:0006952 ! defense response is_a: GO:0009611 ! response to wounding property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0006955 name: immune response namespace: biological_process def: "Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat." [GOC:add, GOC:mtg_15nov05, GO_REF:0000022] comment: This term was improved by GO_REF:0000022. It was redefined and moved. is_a: GO:0002376 ! immune system process is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007126 name: meiosis namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through the nuclear division phase of a meiotic cell cycle. A meiotic cell cycle is the specialized nuclear and cell division in which a single diploid cell undergoes two nuclear divisions following a single round of DNA replication in order to produce four daughter cells that contain half the number of chromosomes as the diploid cell. Meiotic division occurs during the formation of gametes from diploid organisms and at the beginning of haplophase in those organisms that alternate between diploid and haploid generations." [GOC:dph, GOC:mah, PMID:9334324] subset: goslim_pombe ! Fission yeast GO slim xref: Wikipedia:Meiosis is_a: GO:0022403 ! cell cycle phase is_a: GO:0048610 ! cellular process involved in reproduction relationship: part_of GO:0051327 ! M phase of meiotic cell cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007154 name: cell communication namespace: biological_process def: "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:mah] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Cell_signaling is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007267 name: cell-cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from one cell to another." [GOC:mah] subset: goslim_generic ! Generic GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell-cell signalling" EXACT [] is_a: GO:0007154 ! cell communication is_a: GO:0044700 ! single organism signaling property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007275 name: multicellular organismal development namespace: biological_process def: "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:dph, GOC:ems, GOC:isa_complete, GOC:tb] comment: Note that this term was 'developmental process'. subset: goslim_plant ! Plant GO slim is_a: GO:0032502 ! developmental process is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007276 name: gamete generation namespace: biological_process alt_id: GO:0009552 def: "The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell." [GOC:ems, GOC:mtg_sensu] synonym: "gametogenesis" RELATED [] is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0019953 ! sexual reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007283 name: spermatogenesis namespace: biological_process def: "The process of formation of spermatozoa, including spermatocytogenesis and spermiogenesis." [GOC:jid, ISBN:9780878933846] synonym: "generation of spermatozoa" EXACT systematic_synonym [] xref: Wikipedia:Spermatogenesis is_a: GO:0048232 ! male gamete generation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007292 name: female gamete generation namespace: biological_process def: "Generation of the female gamete; specialised haploid cells produced by meiosis and along with a male gamete takes part in sexual reproduction." [GOC:dph, ISBN:0198506732] is_a: GO:0007276 ! gamete generation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007320 name: insemination namespace: biological_process def: "The introduction of semen or sperm into the genital tract of a female." [ISBN:0582227089] xref: Wikipedia:Insemination is_a: GO:0044706 ! multi-multicellular organism process is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007620 ! copulation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007369 name: gastrulation namespace: biological_process def: "A complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GOC:curators, ISBN:9780878933846] xref: Wikipedia:Gastrulation is_a: GO:0048598 ! embryonic morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007399 name: nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state." [GOC:dgh] synonym: "pan-neural process" RELATED [] is_a: GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007548 name: sex differentiation namespace: biological_process def: "The establishment of the sex of an organism by physical differentiation." [GOC:ai] xref: Wikipedia:Sexual_differentiation is_a: GO:0003006 ! developmental process involved in reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007565 name: female pregnancy namespace: biological_process def: "The set of physiological processes that allow an embryo or foetus to develop within the body of a female animal. It covers the time from fertilization of a female ovum by a male spermatozoon until birth." [ISBN:0192800825] synonym: "carrying of young" RELATED [] synonym: "gestation" EXACT [] xref: Wikipedia:Gestation is_a: GO:0044703 ! multi-organism reproductive process is_a: GO:0044706 ! multi-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007585 name: respiratory gaseous exchange namespace: biological_process def: "The process of gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." [ISBN:0198506732] synonym: "breathing" BROAD [] synonym: "respiration" BROAD [] is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007586 name: digestion namespace: biological_process def: "The whole of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:isa_complete, ISBN:0198506732] subset: goslim_pir ! PIR GO slim xref: Wikipedia:Digestion is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007588 name: excretion namespace: biological_process def: "The elimination by an organism of the waste products that arise as a result of metabolic activity. These products include water, carbon dioxide (CO2), and nitrogenous compounds." [ISBN:0192801023] subset: goslim_pir ! PIR GO slim xref: Wikipedia:Excretion is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007589 name: body fluid secretion namespace: biological_process def: "The controlled release of a fluid by a cell or group of cells in an animal." [GOC:ai, GOC:dph, GOC:mah, GOC:tb] is_a: GO:0046903 ! secretion is_a: GO:0050878 ! regulation of body fluid levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007596 name: blood coagulation namespace: biological_process def: "The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers." [ISBN:0198506732, http://www.graylab.ac.uk/omd/] synonym: "blood clotting" EXACT [] xref: Reactome:REACT_101311 xref: Reactome:REACT_101372 xref: Reactome:REACT_102544 xref: Reactome:REACT_102650 xref: Reactome:REACT_105166 xref: Reactome:REACT_105212 xref: Reactome:REACT_107268 xref: Reactome:REACT_108583 xref: Reactome:REACT_113650 xref: Reactome:REACT_114152 xref: Reactome:REACT_118351 xref: Reactome:REACT_1439 xref: Reactome:REACT_2051 xref: Reactome:REACT_32530 xref: Reactome:REACT_32765 xref: Reactome:REACT_33270 xref: Reactome:REACT_34525 xref: Reactome:REACT_604 xref: Reactome:REACT_76944 xref: Reactome:REACT_78290 xref: Reactome:REACT_81054 xref: Reactome:REACT_81972 xref: Reactome:REACT_82283 xref: Reactome:REACT_82383 xref: Reactome:REACT_82403 xref: Reactome:REACT_82445 xref: Reactome:REACT_82812 xref: Reactome:REACT_82940 xref: Reactome:REACT_83271 xref: Reactome:REACT_84055 xref: Reactome:REACT_84833 xref: Reactome:REACT_85674 xref: Reactome:REACT_86354 xref: Reactome:REACT_89750 xref: Reactome:REACT_89805 xref: Reactome:REACT_90236 xref: Reactome:REACT_90805 xref: Reactome:REACT_92318 xref: Reactome:REACT_94085 xref: Reactome:REACT_94213 xref: Reactome:REACT_94315 xref: Reactome:REACT_94798 xref: Reactome:REACT_96458 xref: Wikipedia:Coagulation is_a: GO:0007599 ! hemostasis is_a: GO:0050817 ! coagulation relationship: part_of GO:0042060 ! wound healing property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007599 name: hemostasis namespace: biological_process def: "The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part." [ISBN:0198506732] xref: Wikipedia:Hemostasis is_a: GO:0050878 ! regulation of body fluid levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007600 name: sensory perception namespace: biological_process def: "The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai, GOC:dph] xref: Wikipedia:Perception is_a: GO:0050877 ! neurological system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007601 name: visual perception namespace: biological_process def: "The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image." [GOC:ai] synonym: "sense of sight" EXACT [] synonym: "sensory visual perception" EXACT [] synonym: "vision" EXACT [] xref: Wikipedia:Visual_perception is_a: GO:0050953 ! sensory perception of light stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007605 name: sensory perception of sound namespace: biological_process def: "The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound." [GOC:ai] synonym: "hearing" EXACT [] synonym: "perception of sound" EXACT [] xref: Wikipedia:Hearing_(sense) is_a: GO:0050954 ! sensory perception of mechanical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007606 name: sensory perception of chemical stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory chemical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] synonym: "chemosensory perception" EXACT [] is_a: GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007608 name: sensory perception of smell namespace: biological_process def: "The series of events required for an organism to receive an olfactory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Olfaction involves the detection of chemical composition of an organism's ambient medium by chemoreceptors. This is a neurological process." [GOC:ai, http://www.onelook.com/] synonym: "olfaction" EXACT [] synonym: "scent perception" EXACT [] synonym: "sense of smell" EXACT [] synonym: "smell perception" EXACT [] xref: Wikipedia:Olfaction is_a: GO:0007606 ! sensory perception of chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007610 name: behavior namespace: biological_process def: "The specific actions or reactions of an organism in response to external or internal stimuli. Patterned activity of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions." [GOC:ems, ISBN:0395448956] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "behavioral response to stimulus" EXACT [] synonym: "behaviour" EXACT [] synonym: "behavioural response to stimulus" EXACT [] xref: Wikipedia:Behavior is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007611 name: learning or memory namespace: biological_process def: "The acquisition and processing of information and/or the storage and retrieval of this information over time." [GOC:jid, PMID:8938125] is_a: GO:0044708 ! single-organism behavior is_a: GO:0050890 ! cognition property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007612 name: learning namespace: biological_process def: "Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs as the result of experience." [ISBN:0582227089, ISBN:0721662544] xref: Wikipedia:Learning is_a: GO:0007611 ! learning or memory property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007613 name: memory namespace: biological_process def: "The activities involved in the mental information processing system that receives (registers), modifies, stores, and retrieves informational stimuli. The main stages involved in the formation and retrieval of memory are encoding (processing of received information by acquisition), storage (building a permanent record of received information as a result of consolidation) and retrieval (calling back the stored information and use it in a suitable way to execute a given task)." [GOC:curators, ISBN:0582227089, http://www.onelook.com/] xref: Wikipedia:Memory is_a: GO:0007611 ! learning or memory property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007618 name: mating namespace: biological_process def: "The pairwise union of individuals for the purpose of sexual reproduction, ultimately resulting in the formation of zygotes." [ISBN:0387520546] is_a: GO:0044703 ! multi-organism reproductive process is_a: GO:0051704 ! multi-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007620 name: copulation namespace: biological_process def: "The act of sexual union between male and female, involving the transfer of sperm." [ISBN:0721662544] is_a: GO:0007618 ! mating property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007622 name: rhythmic behavior namespace: biological_process def: "The specific actions or reactions of an organism that recur with measured regularity." [GOC:jl] synonym: "rhythmic behavioral response to stimulus" EXACT [] synonym: "rhythmic behaviour" EXACT [] synonym: "rhythmic behavioural response to stimulus" EXACT [] is_a: GO:0044708 ! single-organism behavior is_a: GO:0048511 ! rhythmic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007623 name: circadian rhythm namespace: biological_process alt_id: GO:0050895 def: "Any biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "circadian process" EXACT [] synonym: "circadian response" RELATED [] synonym: "response to circadian rhythm" RELATED [] xref: Wikipedia:Circadian_rhythm is_a: GO:0048511 ! rhythmic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007625 name: grooming behavior namespace: biological_process def: "The specific actions or reactions of an organism relating to grooming, cleaning and brushing to remove dirt and parasites." [GOC:jl] synonym: "grooming behaviour" EXACT [] is_a: GO:0044708 ! single-organism behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007626 name: locomotory behavior namespace: biological_process def: "The specific movement from place to place of an organism in response to external or internal stimuli. Locomotion of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions." [GOC:dph] subset: gosubset_prok ! Prokaryotic GO subset synonym: "behavior via locomotion" EXACT [] synonym: "locomotion in response to stimulus" EXACT [] synonym: "locomotory behavioral response to stimulus" EXACT [] synonym: "locomotory behaviour" EXACT [] synonym: "locomotory behavioural response to stimulus" EXACT [] is_a: GO:0044708 ! single-organism behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007631 name: feeding behavior namespace: biological_process def: "Behavior associated with the intake of food." [GOC:mah] comment: See also the biological process term 'behavior ; GO:0007610'. synonym: "behavioral response to food" EXACT [] synonym: "behavioural response to food" EXACT [] synonym: "drinking" NARROW [] synonym: "eating" NARROW [] synonym: "feeding behaviour" EXACT [] xref: Wikipedia:List_of_feeding_behaviours is_a: GO:0007610 ! behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0007635 name: chemosensory behavior namespace: biological_process def: "Behavior that is dependent upon the sensation of chemicals." [GOC:go_curators] synonym: "behavioral response to chemical stimulus" EXACT [] synonym: "behavioural response to chemical stimulus" EXACT [] synonym: "chemosensory behaviour" EXACT [] is_a: GO:0042221 ! response to chemical stimulus is_a: GO:0044708 ! single-organism behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008015 name: blood circulation namespace: biological_process alt_id: GO:0070261 def: "The flow of blood through the body of an animal, enabling the transport of nutrients to the tissues and the removal of waste products." [GOC:mtg_heart, ISBN:0192800825] subset: goslim_pir ! PIR GO slim synonym: "hemolymph circulation" RELATED [] is_a: GO:0003013 ! circulatory system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008016 name: regulation of heart contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of heart contraction. Heart contraction is the process in which the heart decreases in volume in a characteristic way to propel blood through the body." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "regulation of cardiac contraction" EXACT [] is_a: GO:0044057 ! regulation of system process relationship: regulates GO:0060047 ! heart contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008150 name: biological_process namespace: biological_process alt_id: GO:0000004 alt_id: GO:0007582 def: "Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end." [GOC:go_curators, GOC:isa_complete] comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. Note that when this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_pombe ! Fission yeast GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "biological process" EXACT [] synonym: "biological process unknown" NARROW [] synonym: "physiological process" EXACT [] xref: Wikipedia:Biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008152 name: metabolic process namespace: biological_process def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008202 name: steroid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [ISBN:0198547684] subset: gosubset_prok ! Prokaryotic GO subset synonym: "steroid metabolism" EXACT [] xref: Reactome:REACT_100535 xref: Reactome:REACT_104514 xref: Reactome:REACT_104993 xref: Reactome:REACT_105831 xref: Reactome:REACT_108650 xref: Reactome:REACT_109307 xref: Reactome:REACT_109504 xref: Reactome:REACT_110283 xref: Reactome:REACT_11057 xref: Reactome:REACT_32683 xref: Reactome:REACT_34426 xref: Reactome:REACT_77930 xref: Reactome:REACT_81781 xref: Reactome:REACT_85390 xref: Reactome:REACT_86063 xref: Reactome:REACT_86862 xref: Reactome:REACT_90075 xref: Reactome:REACT_93239 xref: Reactome:REACT_96786 xref: Reactome:REACT_97355 xref: Wikipedia:Steroid_metabolism is_a: GO:0006629 ! lipid metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008211 name: glucocorticoid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glucocorticoids, hormonal C21 corticosteroids synthesized from cholesterol. Glucocorticoids act primarily on carbohydrate and protein metabolism, and have anti-inflammatory effects." [ISBN:0198506732] synonym: "glucocorticoid metabolism" EXACT [] synonym: "glucocorticosteroid metabolic process" EXACT [] synonym: "glucocorticosteroid metabolism" EXACT [] is_a: GO:0008202 ! steroid metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008212 name: mineralocorticoid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mineralocorticoids, hormonal C21 corticosteroids synthesized from cholesterol. Mineralocorticoids act primarily on water and electrolyte balance." [ISBN:0198506732] synonym: "mineralocorticoid metabolism" EXACT [] is_a: GO:0008202 ! steroid metabolic process is_a: GO:0034754 ! cellular hormone metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008217 name: regulation of blood pressure namespace: biological_process def: "Any process that modulates the force with which blood travels through the circulatory system. The process is controlled by a balance of processes that increase pressure and decrease pressure." [GOC:dph, GOC:mtg_cardio, ISBN:0721643949] synonym: "blood pressure homeostasis" RELATED [] synonym: "blood pressure regulation" EXACT [] synonym: "control of blood pressure" RELATED [] xref: Wikipedia:Blood_pressure#Regulation is_a: GO:0065008 ! regulation of biological quality relationship: part_of GO:0008015 ! blood circulation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008283 name: cell proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population." [GOC:mah, GOC:mb] comment: This term was moved out from being a child of 'cellular process' because it is a cell population-level process, and cellular processes are restricted to those processes that involve individual cells. subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008306 name: associative learning namespace: biological_process def: "Learning by associating a stimulus (the cause) with a particular outcome (the effect)." [ISBN:0582227089] synonym: "Pavlovian conditioning" EXACT [] synonym: "classical conditioning" EXACT [] synonym: "conditional learning" EXACT [] synonym: "conditional response" EXACT [] xref: Wikipedia:Learning#Associative_learning is_a: GO:0007612 ! learning property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008355 name: olfactory learning namespace: biological_process def: "Any process in an organism in which a relatively long-lasting adaptive behavioral change occurs in response to (repeated) exposure to an olfactory cue." [ISBN:0582227089] is_a: GO:0008306 ! associative learning is_a: GO:0042048 ! olfactory behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008406 name: gonad development namespace: biological_process def: "The process whose specific outcome is the progression of the gonad over time, from its formation to the mature structure. The gonad is an animal organ that produces gametes; in some species it also produces hormones." [GOC:ems, ISBN:0198506732] is_a: GO:0048513 ! organ development is_a: GO:0048608 ! reproductive structure development relationship: part_of GO:0045137 ! development of primary sexual characteristics property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008544 name: epidermis development namespace: biological_process def: "The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of a plant or animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species." [GOC:go_curators, UBERON:0001003] synonym: "hypodermis development" RELATED [GOC:kmv, GOC:rk] is_a: GO:0009888 ! tissue development relationship: part_of GO:0048513 ! organ development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008585 name: female gonad development namespace: biological_process alt_id: GO:0061039 def: "The process whose specific outcome is the progression of the female gonad over time, from its formation to the mature structure." [GOC:dph, GOC:jid, GOC:tb] synonym: "ovarian development" RELATED [GOC:sl] synonym: "ovary development" RELATED [GOC:sl] is_a: GO:0008406 ! gonad development relationship: part_of GO:0046545 ! development of primary female sexual characteristics property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008610 name: lipid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "lipid anabolism" EXACT [] synonym: "lipid biosynthesis" EXACT [] synonym: "lipid formation" EXACT [] synonym: "lipid synthesis" EXACT [] synonym: "lipogenesis" EXACT [GOC:sl] is_a: GO:0006629 ! lipid metabolic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009058 name: biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684] subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" EXACT [] synonym: "synthesis" EXACT [] xref: Wikipedia:Anabolism is_a: GO:0008152 ! metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009059 name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] synonym: "macromolecule biosynthesis" EXACT [] synonym: "macromolecule formation" EXACT [] synonym: "macromolecule synthesis" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009266 name: response to temperature stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a temperature stimulus." [GOC:hb] subset: gosubset_prok ! Prokaryotic GO subset synonym: "response to thermal stimulus" EXACT [] is_a: GO:0009628 ! response to abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009314 name: response to radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." [GOC:jl, Wikipedia:Electromagnetic_radiation] comment: Note that 'radiation' refers to electromagnetic radiation of any wavelength. subset: gosubset_prok ! Prokaryotic GO subset synonym: "response to electromagnetic radiation stimulus" EXACT [] synonym: "response to radiation stimulus" EXACT [] is_a: GO:0009628 ! response to abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009414 name: response to water deprivation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a water deprivation stimulus, prolonged deprivation of water." [GOC:lr] subset: gosubset_prok ! Prokaryotic GO subset synonym: "drought tolerance" RELATED [] synonym: "response to dehydration" EXACT [] synonym: "response to drought" EXACT [] synonym: "response to thirst" EXACT [] is_a: GO:0006950 ! response to stress is_a: GO:0009415 ! response to water stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009415 name: response to water stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of water." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0009628 ! response to abiotic stimulus is_a: GO:0010035 ! response to inorganic substance is_a: GO:1901700 ! response to oxygen-containing compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009416 name: response to light stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:go_curators, ISBN:0582227089] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0009314 ! response to radiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009581 name: detection of external stimulus namespace: biological_process def: "The series of events in which an external stimulus is received by a cell and converted into a molecular signal." [GOC:hb] subset: gosubset_prok ! Prokaryotic GO subset synonym: "perception of external stimulus" RELATED [] is_a: GO:0009605 ! response to external stimulus is_a: GO:0051606 ! detection of stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009582 name: detection of abiotic stimulus namespace: biological_process def: "The series of events in which an (non-living) abiotic stimulus is received by a cell and converted into a molecular signal." [GOC:hb] subset: gosubset_prok ! Prokaryotic GO subset synonym: "perception of abiotic stimulus" RELATED [] is_a: GO:0009628 ! response to abiotic stimulus is_a: GO:0051606 ! detection of stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009583 name: detection of light stimulus namespace: biological_process def: "The series of events in which a light stimulus (in the form of photons) is received and converted into a molecular signal." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "detection of light" EXACT [] synonym: "perception of light" RELATED [] is_a: GO:0009416 ! response to light stimulus is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009582 ! detection of abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009584 name: detection of visible light namespace: biological_process def: "The series of events in which a visible light stimulus is received by a cell and converted into a molecular signal. A visible light stimulus is electromagnetic radiation that can be perceived visually by an organism; for organisms lacking a visual system, this can be defined as light with a wavelength within the range 380 to 780 nm." [GOC:go_curators, ISBN:0198506732] synonym: "perception of visible light" RELATED [] is_a: GO:0009583 ! detection of light stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009590 name: detection of gravity namespace: biological_process def: "The series of events in which a gravitational stimulus is received by a cell and converted into a molecular signal." [GOC:hb] synonym: "perception of gravity" RELATED [] is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009582 ! detection of abiotic stimulus is_a: GO:0009629 ! response to gravity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009593 name: detection of chemical stimulus namespace: biological_process def: "The series of events in which a chemical stimulus is received by a cell and converted into a molecular signal." [GOC:jl] synonym: "chemoperception" EXACT [] synonym: "detection of chemical substance" EXACT [] synonym: "perception of chemical stimulus" RELATED [] synonym: "perception of chemical substance" RELATED [] is_a: GO:0042221 ! response to chemical stimulus is_a: GO:0051606 ! detection of stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009605 name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "response to environmental stimulus" EXACT [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009611 name: response to wounding namespace: biological_process alt_id: GO:0002245 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to the organism." [GOC:go_curators] synonym: "physiological response to wounding" EXACT [] is_a: GO:0006950 ! response to stress property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009612 name: response to mechanical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a mechanical stimulus." [GOC:hb] subset: gosubset_prok ! Prokaryotic GO subset synonym: "chemi-mechanical coupling" RELATED [] synonym: "mechanical stimulus response" EXACT [] is_a: GO:0009605 ! response to external stimulus is_a: GO:0009628 ! response to abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009628 name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (non-living) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "response to abiotic stress" NARROW [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009629 name: response to gravity namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a gravitational stimulus." [GOC:hb] synonym: "response to gravitational stimulus" EXACT [] is_a: GO:0009628 ! response to abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009653 name: anatomical structure morphogenesis namespace: biological_process def: "The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form." [GOC:go_curators, ISBN:0521436125] subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "anatomical structure organization" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "morphogenesis" EXACT [] xref: Wikipedia:Morphogenesis is_a: GO:0032502 ! developmental process is_a: GO:0044699 ! single-organism process relationship: part_of GO:0048856 ! anatomical structure development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009790 name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] subset: goslim_generic ! Generic GO slim subset: goslim_plant ! Plant GO slim synonym: "embryogenesis" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "embryonal development" EXACT [] xref: Wikipedia:Embryogenesis is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009791 name: post-embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure. See embryonic development." [GOC:go_curators] subset: goslim_plant ! Plant GO slim is_a: GO:0032502 ! developmental process relationship: part_of GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009792 name: embryo development ending in birth or egg hatching namespace: biological_process def: "The process whose specific outcome is the progression of an embryo over time, from zygote formation until the end of the embryonic life stage. The end of the embryonic life stage is organism-specific and may be somewhat arbitrary; for mammals it is usually considered to be birth, for insects the hatching of the first instar larva from the eggshell." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] synonym: "embryogenesis" BROAD [] is_a: GO:0009790 ! embryo development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009887 name: organ morphogenesis namespace: biological_process def: "Morphogenesis of an organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dgh, GOC:go_curators, ISBN:0471245208, ISBN:0721662544] synonym: "histogenesis and organogenesis" BROAD [] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0048513 ! organ development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009888 name: tissue development namespace: biological_process def: "The process whose specific outcome is the progression of a tissue over time, from its formation to the mature structure." [ISBN:0471245208] synonym: "histogenesis" EXACT [] synonym: "histogenesis and organogenesis" BROAD [] xref: Wikipedia:Histogenesis is_a: GO:0048856 ! anatomical structure development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009913 name: epidermal cell differentiation namespace: biological_process alt_id: GO:0043355 def: "The process in which a relatively unspecialized cell acquires specialized features of an epidermal cell, any of the cells making up the epidermis." [GOC:dph, GOC:go_curators, GOC:mtg_sensu, GOC:sdb_2009, GOC:tb] synonym: "hypodermal cell differentiation" RELATED [GOC:kmv, GOC:rk] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0008544 ! epidermis development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009914 name: hormone transport namespace: biological_process def: "The directed movement of hormones into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:tb] subset: goslim_pir ! PIR GO slim is_a: GO:0006810 ! transport is_a: GO:0010817 ! regulation of hormone levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0009987 name: cellular process namespace: biological_process alt_id: GO:0008151 alt_id: GO:0050875 def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete] subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell growth and/or maintenance" NARROW [] synonym: "cell physiology" EXACT [] synonym: "cellular physiological process" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010033 name: response to organic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus." [GOC:sm] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0042221 ! response to chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010035 name: response to inorganic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an inorganic substance stimulus." [GOC:sm] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0042221 ! response to chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010463 name: mesenchymal cell proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a mesenchymal cell population. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, GOC:tb] is_a: GO:0008283 ! cell proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010464 name: regulation of mesenchymal cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesenchymal cell proliferation. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, GOC:tb] is_a: GO:0042127 ! regulation of cell proliferation relationship: regulates GO:0010463 ! mesenchymal cell proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010646 name: regulation of cell communication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process relationship: regulates GO:0007154 ! cell communication property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010817 name: regulation of hormone levels namespace: biological_process def: "Any process that modulates the levels of hormone within an organism or a tissue. A hormone is any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0065008 ! regulation of biological quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0010876 name: lipid localization namespace: biological_process def: "Any process in which a lipid is transported to, or maintained in, a specific location." [GOC:BHF, GOC:dph, GOC:tb] synonym: "lipid localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0014821 name: phasic smooth muscle contraction namespace: biological_process def: "A process in which force is generated within phasic smooth muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. In the phasic smooth muscle, the muscle contraction occurs without an ordered sarcomeric structure. Phasic smooth muscle contraction occurs in a series of discrete contractions and relaxations." [GOC:mtg_muscle] is_a: GO:0006939 ! smooth muscle contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015695 name: organic cation transport namespace: biological_process def: "The directed movement of organic cations into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Organic cations are atoms or small molecules with a positive charge which contain carbon in covalent linkage." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0006812 ! cation transport is_a: GO:0071702 ! organic substance transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015833 name: peptide transport namespace: biological_process def: "The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0042886 ! amide transport is_a: GO:0071702 ! organic substance transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015837 name: amine transport namespace: biological_process def: "The directed movement of amines, including polyamines, organic compounds containing one or more amino groups, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "amine/polyamine transport" RELATED [] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015844 name: monoamine transport namespace: biological_process alt_id: GO:0015873 def: "The directed movement of monoamines, organic compounds that contain one amino group that is connected to an aromatic ring by an ethylene group (-CH2-CH2-), into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [CHEBI:25375, GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015850 name: organic hydroxy compound transport namespace: biological_process def: "The directed movement of an organic hydroxy compound (organic alcohol) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. An organic hydroxy compound is an organic compound having at least one hydroxy group attached to a carbon atom." [CHEBI:33822, GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "organic alcohol transport" EXACT [CHEBI:33822] is_a: GO:0071702 ! organic substance transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0015874 name: norepinephrine transport namespace: biological_process def: "The directed movement of norepinephrine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Norepinephrine (3,4-dihydroxyphenyl-2-aminoethanol) is a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [GOC:ai, ISBN:0198506732] synonym: "levarterenol transport" EXACT [] synonym: "noradrenaline transport" EXACT [] is_a: GO:0051937 ! catecholamine transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016043 name: cellular component organization namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] synonym: "cellular component organisation in other organism" EXACT [GOC:mah] synonym: "cellular component organization at cellular level" EXACT [] synonym: "cellular component organization in other organism" EXACT [] is_a: GO:0071840 ! cellular component organization or biogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016048 name: detection of temperature stimulus namespace: biological_process def: "The series of events in which a temperature stimulus (hot or cold) is received and converted into a molecular signal." [GOC:hb] synonym: "detection of temperature" EXACT [] synonym: "detection of thermal stimulus" EXACT [] synonym: "perception of temperature" RELATED [] is_a: GO:0009266 ! response to temperature stimulus is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009582 ! detection of abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016049 name: cell growth namespace: biological_process alt_id: GO:0048591 def: "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [GOC:ai] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell expansion" RELATED [] synonym: "cellular growth" EXACT [] synonym: "growth of cell" EXACT [] synonym: "metabolic process resulting in cell growth" RELATED [] synonym: "metabolism resulting in cell growth" RELATED [] synonym: "non-developmental cell growth" RELATED [GOC:mah] synonym: "non-developmental growth of a unicellular organism" RELATED [GOC:mah] is_a: GO:0040007 ! growth is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016192 name: vesicle-mediated transport namespace: biological_process alt_id: GO:0006899 def: "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane." [GOC:ai, GOC:mah, ISBN:08789310662000] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_pombe ! Fission yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "nonselective vesicle transport" NARROW [] synonym: "protein sorting along secretory pathway" RELATED [] synonym: "vesicle trafficking" RELATED [] synonym: "vesicle transport" EXACT [] synonym: "vesicular transport" EXACT [GOC:mah] is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016265 name: death namespace: biological_process def: "A permanent cessation of all vital functions: the end of life; can be applied to a whole organism or to a part of an organism." [GOC:mah, ISBN:0877797099] comment: See also the biological process term 'apoptosis ; GO:0006915'. subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Death is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016331 name: morphogenesis of embryonic epithelium namespace: biological_process def: "The process in which the anatomical structures of embryonic epithelia are generated and organized." [GOC:jl] is_a: GO:0002009 ! morphogenesis of an epithelium is_a: GO:0048598 ! embryonic morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016477 name: cell migration namespace: biological_process def: "The orderly movement of a cell from one site to another, often during the development of a multicellular organism or multicellular structure." [GOC:ems, GOC:pf] xref: Wikipedia:Cell_migration is_a: GO:0048870 ! cell motility property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0018958 name: phenol-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [CHEBI:33853, ISBN:0198506732] comment: Note that phenol metabolism is not included as a child of 'xenobiotic metabolism' because although it is synthesized industrially, phenol is also found naturally in animal wastes and other organic materials. It is often formed by the activity of microorganisms, which can chemically modify a variety of xenobiotic and naturally occurring phenolic compounds. subset: gosubset_prok ! Prokaryotic GO subset synonym: "carbolic acid metabolic process" EXACT [] synonym: "carbolic acid metabolism" EXACT [] synonym: "hydroxybenzene metabolic process" EXACT [] synonym: "hydroxybenzene metabolism" EXACT [] synonym: "phenol-containing compound metabolism" EXACT [GOC:curators] xref: UM-BBD_pathwayID:phe is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019098 name: reproductive behavior namespace: biological_process def: "The specific actions or reactions of an organism that are associated with reproduction." [GOC:jl] synonym: "reproductive behaviour" EXACT [] is_a: GO:0007610 ! behavior is_a: GO:0022414 ! reproductive process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019230 name: proprioception namespace: biological_process def: "The series of events by which an organism senses the position, location, orientation, and movement of the body and its parts. Proprioception is mediated by proprioceptors, sensory nerve terminals found in muscles, tendons, and joint capsules, which give information concerning movements and position of the body. The receptors in the labyrinth are sometimes also considered proprioceptors." [ISBN:072168677X, http://www.onelook.com/] xref: Wikipedia:Proprioception is_a: GO:0007600 ! sensory perception relationship: part_of GO:0050884 ! neuromuscular process controlling posture property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019233 name: sensory perception of pain namespace: biological_process def: "The series of events required for an organism to receive a painful stimulus, convert it to a molecular signal, and recognize and characterize the signal. Pain is medically defined as the physical sensation of discomfort or distress caused by injury or illness, so can hence be described as a harmful stimulus which signals current (or impending) tissue damage. Pain may come from extremes of temperature, mechanical damage, electricity or from noxious chemical substances. This is a neurological process." [http://www.onelook.com/] synonym: "nociception" EXACT [] synonym: "perception of physiological pain" NARROW [] xref: Wikipedia:Nociception is_a: GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019236 name: response to pheromone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pheromone stimulus." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset synonym: "pheromone response" EXACT [] is_a: GO:0010033 ! response to organic substance property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019752 name: carboxylic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving carboxylic acids, any organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [ISBN:0198506732] subset: gosubset_prok ! Prokaryotic GO subset synonym: "carboxylic acid metabolism" EXACT [] is_a: GO:0043436 ! oxoacid metabolic process is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0019953 name: sexual reproduction namespace: biological_process def: "The regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times." [ISBN:0387520546] xref: Wikipedia:Sexual_reproduction is_a: GO:0000003 ! reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0021915 name: neural tube development namespace: biological_process def: "The process whose specific outcome is the progression of the neural tube over time, from its formation to the mature structure. The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium." [GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, GO_REF:0000021] comment: This term was added by GO_REF:0000021. is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007399 ! nervous system development relationship: part_of GO:0043009 ! chordate embryonic development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022008 name: neurogenesis namespace: biological_process def: "Generation of cells within the nervous system." [GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, GO_REF:0000021] comment: This term was added by GO_REF:0000021. synonym: "nervous system cell generation" EXACT systematic_synonym [] synonym: "neural cell differentiation" RELATED [GOC:BHF, GOC:dph] xref: Wikipedia:Neurogenesis is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0007399 ! nervous system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022402 name: cell cycle process namespace: biological_process def: "A cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:isa_complete] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0044763 ! single-organism cellular process relationship: part_of GO:0007049 ! cell cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022403 name: cell cycle phase namespace: biological_process def: "A cell cycle process comprising the steps by which a cell progresses through one of the biochemical and morphological phases and events that occur during successive cell replication or nuclear replication events." [GOC:dph, GOC:isa_complete, GOC:tb] is_a: GO:0022402 ! cell cycle process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022410 name: circadian sleep/wake cycle process namespace: biological_process def: "A behavioral process involved in the cycle from wakefulness through an orderly succession of sleep states and stages that occurs on an approximately 24 hour rhythm." [GOC:isa_complete] is_a: GO:0048512 ! circadian behavior relationship: part_of GO:0042745 ! circadian sleep/wake cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022414 name: reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0008150 ! biological_process relationship: part_of GO:0000003 ! reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022600 name: digestive system process namespace: biological_process def: "A physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:isa_complete, GOC:jid, GOC:mtg_cardio] is_a: GO:0003008 ! system process relationship: part_of GO:0007586 ! digestion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0022602 name: ovulation cycle process namespace: biological_process def: "A process involved in the sexual cycle seen in females, often with physiologic changes in the endometrium that recur at regular intervals during the reproductive years." [GOC:isa_complete] synonym: "estrous cycle process" RELATED [] synonym: "menstrual cycle process" RELATED [] is_a: GO:0048511 ! rhythmic process relationship: part_of GO:0042698 ! ovulation cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0023051 name: regulation of signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "regulation of signaling process" RELATED [GOC:bf] synonym: "regulation of signalling process" RELATED [GOC:mah] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0023052 ! signaling relationship: regulates GO:0044700 ! single organism signaling property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0023052 name: signaling namespace: biological_process alt_id: GO:0023046 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_pombe ! Fission yeast GO slim subset: goslim_yeast ! Yeast GO slim synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] synonym: "signalling" EXACT [] synonym: "signalling process" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0023061 name: signal release namespace: biological_process def: "The process in which a signal is secreted or discharged into the extracellular medium from a cellular source." [GOC:mtg_signal] is_a: GO:0044763 ! single-organism cellular process relationship: part_of GO:0003001 ! generation of a signal involved in cell-cell signaling property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030072 name: peptide hormone secretion namespace: biological_process def: "The regulated release of a peptide hormone from a cell or organ." [GOC:mah] is_a: GO:0002790 ! peptide secretion is_a: GO:0046879 ! hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030073 name: insulin secretion namespace: biological_process def: "The regulated release of proinsulin from secretory granules (B granules) in the B cells of the pancreas; accompanied by cleavage of proinsulin to form mature insulin." [GOC:mah, ISBN:0198506732] is_a: GO:0030072 ! peptide hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030097 name: hemopoiesis namespace: biological_process def: "The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates." [GOC:dgh, ISBN:0198506732] synonym: "blood cell biosynthesis" EXACT [] synonym: "blood cell formation" EXACT [] synonym: "haemopoiesis" EXACT [] synonym: "hematopoiesis" EXACT [] xref: Wikipedia:Haematopoiesis is_a: GO:0048534 ! hematopoietic or lymphoid organ development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030098 name: lymphocyte differentiation namespace: biological_process alt_id: GO:0046650 def: "The process in which a relatively unspecialized precursor cell acquires specialized features of a lymphocyte. A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." [CL:0000542, GOC:go_curators] comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "lymphocyte cell differentiation" EXACT [] synonym: "lymphocyte development" RELATED [GOC:add] synonym: "lymphocytic blood cell differentiation" EXACT [] is_a: GO:0002521 ! leukocyte differentiation is_a: GO:0046649 ! lymphocyte activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030103 name: vasopressin secretion namespace: biological_process def: "The regulated release of vasopressin from secretory granules into the blood." [GOC:mah] is_a: GO:0030072 ! peptide hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030104 name: water homeostasis namespace: biological_process alt_id: GO:0018987 def: "Any process involved in the maintenance of an internal steady state of water within an organism or cell." [GOC:dph, GOC:mah, GOC:tb] synonym: "osmoregulation" RELATED [] synonym: "regulation of osmotic pressure" EXACT [] is_a: GO:0048878 ! chemical homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030154 name: cell differentiation namespace: biological_process def: "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] subset: goslim_generic ! Generic GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030183 name: B cell differentiation namespace: biological_process alt_id: GO:0042115 def: "The process in which a precursor cell type acquires the specialized features of a B cell. A B cell is a lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity." [GOC:mah, GOC:mtg_15nov05, GO_REF:0000022] comment: This term was improved by GO_REF:0000022. It was moved. Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "B cell development" RELATED [GOC:add] synonym: "B lymphocyte differentiation" EXACT [] synonym: "B-cell differentiation" EXACT [] synonym: "B-lymphocyte differentiation" EXACT [] is_a: GO:0030098 ! lymphocyte differentiation is_a: GO:0042113 ! B cell activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030198 name: extracellular matrix organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix." [GOC:mah] subset: goslim_generic ! Generic GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "extracellular matrix organisation" EXACT [GOC:curators] synonym: "extracellular matrix organization and biogenesis" RELATED [GOC:mah] is_a: GO:0043062 ! extracellular structure organization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030203 name: glycosaminoglycan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycosaminoglycans, any one of a group of polysaccharides that contain amino sugars. Formerly known as mucopolysaccharides, they include hyaluronic acid and chondroitin, which provide lubrication in joints and form part of the matrix of cartilage. The three-dimensional structure of these molecules enables them to trap water, which forms a gel and gives glycosaminoglycans their elastic properties." [ISBN:0192800981] subset: gosubset_prok ! Prokaryotic GO subset synonym: "glycosaminoglycan metabolism" EXACT [] is_a: GO:0006022 ! aminoglycan metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030216 name: keratinocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a keratinocyte." [GOC:dph, GOC:mah, GOC:sdb_2009, GOC:tb] synonym: "keratinocyte cell differentiation" EXACT [] is_a: GO:0009913 ! epidermal cell differentiation is_a: GO:0030855 ! epithelial cell differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030217 name: T cell differentiation namespace: biological_process alt_id: GO:0042112 alt_id: GO:0046652 def: "The process in which a precursor cell type acquires characteristics of a more mature T-cell. A T cell is a type of lymphocyte whose definin characteristic is the expression of a T cell receptor complex." [GOC:jid, GOC:mah, GOC:mtg_15nov05, GO_REF:0000022] comment: This term was improved by GO_REF:0000022. It was moved. Note that the term 'thymocyte differentiation' was merged into this term because thymocytes are T cells, and thus the term was essentially redundant. Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'. synonym: "T cell development" RELATED [GOC:add] synonym: "T lymphocyte differentiation" EXACT [] synonym: "T-cell differentiation" EXACT [] synonym: "T-lymphocyte differentiation" EXACT [] is_a: GO:0030098 ! lymphocyte differentiation is_a: GO:0042110 ! T cell activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030282 name: bone mineralization namespace: biological_process def: "The deposition of calcium phosphate in bone tissue." [GOC:mah] synonym: "bone calcification" NARROW [] is_a: GO:0031214 ! biomineral tissue development relationship: part_of GO:0001503 ! ossification property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030421 name: defecation namespace: biological_process def: "The expulsion of feces from the rectum." [GOC:mah] xref: Wikipedia:Defecation is_a: GO:0007588 ! excretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030431 name: sleep namespace: biological_process def: "Any process in which an organism enters and maintains a periodic, readily reversible state of reduced awareness and metabolic activity. Usually accompanied by physical relaxation, the onset of sleep in humans and other mammals is marked by a change in the electrical activity of the brain." [ISBN:0192800981] subset: goslim_pir ! PIR GO slim synonym: "diapause" RELATED [] synonym: "dormancy" RELATED [] synonym: "lethargus" RELATED [] xref: Wikipedia:Sleep is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030432 name: peristalsis namespace: biological_process def: "A wavelike sequence of involuntary muscular contraction and relaxation that passes along a tubelike structure, such as the intestine, impelling the contents onwards." [ISBN:0198506732] xref: Wikipedia:Peristalsis is_a: GO:0014821 ! phasic smooth muscle contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030855 name: epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an epithelial cell, any of the cells making up an epithelium." [GOC:ecd, PMID:11839751] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0060429 ! epithelium development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031099 name: regeneration namespace: biological_process def: "The regrowth of a lost or destroyed body part, such as an organ or tissue." [GOC:mah] xref: Wikipedia:Regeneration_(biology) is_a: GO:0009653 ! anatomical structure morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031214 name: biomineral tissue development namespace: biological_process def: "Formation of hard tissues that consist mainly of inorganic compounds, and also contain a small amounts of organic matrices that are believed to play important roles in their formation." [PMID:15132736] synonym: "biomineral formation" RELATED [GOC:dph, GOC:tb] synonym: "biomineralization" EXACT [] synonym: "mineralization" EXACT [] xref: Wikipedia:Biomineralisation is_a: GO:0009888 ! tissue development relationship: part_of GO:0048513 ! organ development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031424 name: keratinization namespace: biological_process def: "The process in which the cytoplasm of the outermost cells of the vertebrate epidermis is replaced by keratin. Keratinization occurs in the stratum corneum, feathers, hair, claws, nails, hooves, and horns." [GOC:dph, GOC:ebc, GOC:sdb_2009, GOC:tb] is_a: GO:0032502 ! developmental process relationship: part_of GO:0030216 ! keratinocyte differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032501 name: multicellular organismal process namespace: biological_process alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] subset: goslim_pir ! PIR GO slim synonym: "organismal physiological process" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032502 name: developmental process namespace: biological_process def: "A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition." [GOC:isa_complete] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "development" NARROW [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032504 name: multicellular organism reproduction namespace: biological_process def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] is_a: GO:0000003 ! reproduction is_a: GO:0032501 ! multicellular organismal process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032879 name: regulation of localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any process in which a cell, a substance, or a cellular entity is transported to, or maintained in, a specific location." [GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation of localisation" EXACT [GOC:mah] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0051179 ! localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032940 name: secretion by cell namespace: biological_process def: "The controlled release of a substance by a cell." [GOC:mah] synonym: "cellular secretion" EXACT [] xref: Wikipedia:Secretion is_a: GO:0044763 ! single-organism cellular process is_a: GO:0046903 ! secretion is_a: GO:0051649 ! establishment of localization in cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032941 name: secretion by tissue namespace: biological_process def: "The controlled release of a substance by a tissue." [GOC:mah] synonym: "expulsion of gland contents" RELATED [GOC:mah] synonym: "tissue secretion" EXACT [] is_a: GO:0044707 ! single-multicellular organism process is_a: GO:0046903 ! secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032943 name: mononuclear cell proliferation namespace: biological_process def: "The expansion of a mononuclear cell population by cell division. A mononuclear cell is a leukocyte with a single non-segmented nucleus in the mature form." [GOC:add] synonym: "PBMC proliferation" NARROW [] synonym: "peripheral blood mononuclear cell proliferation" NARROW [] is_a: GO:0070661 ! leukocyte proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0033036 name: macromolecule localization namespace: biological_process def: "Any process in which a macromolecule is transported to, or maintained in, a specific location." [GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset synonym: "macromolecule localisation" EXACT [GOC:mah] is_a: GO:0051179 ! localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0034754 name: cellular hormone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone, as carried out by individual cells." [GOC:mah] is_a: GO:0042445 ! hormone metabolic process is_a: GO:0044237 ! cellular metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035148 name: tube formation namespace: biological_process def: "Creation of the central hole of a tube in an anatomical structure through which gases and/or liquids flow." [GOC:bf] synonym: "lumen formation in an anatomical structure" RELATED [GOC:dph, GOC:mah] synonym: "tube lumen formation" EXACT [GOC:dph, GOC:mah] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0035239 ! tube morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035209 name: pupal development namespace: biological_process def: "The process whose specific outcome is the progression of the pupa over time, from its formation to the mature structure. The pupa is a dormant life stage interposed between the larval and the adult stages in insects that undergo a complete metamorphosis." [GOC:bf, GOC:mtg_sensu] is_a: GO:0002165 ! instar larval or pupal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035239 name: tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GOC:bf, PMID:14624839] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0035295 ! tube development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035295 name: tube development namespace: biological_process def: "The process whose specific outcome is the progression of a tube over time, from its initial formation to a mature structure. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts." [PMID:12526790] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035636 name: multi-organism signaling namespace: biological_process def: "The transfer of information between living organisms." [GOC:go_curators] synonym: "multi-organism signalling" EXACT [GOC:bf] synonym: "pheromone signaling" NARROW [GOC:bf] synonym: "signaling between organisms" EXACT [GOC:bf] synonym: "signaling with other organism" EXACT [GOC:bf] is_a: GO:0023052 ! signaling is_a: GO:0051704 ! multi-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035898 name: parathyroid hormone secretion namespace: biological_process def: "The regulated release of parathyroid hormone into the circulatory system." [GOC:cjm, PMID:12171519, PMID:21164021, PR:000013429] synonym: "PTH secretion" EXACT [PMID:12171519, PR:000013429] synonym: "parathormone secretion" EXACT [PR:000013429] synonym: "parathyrin secretion" EXACT [PR:000013429] is_a: GO:0060986 ! endocrine hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0035929 name: steroid hormone secretion namespace: biological_process def: "The regulated release of any steroid that acts as a hormone into the circulatory system." [CHEBI:26764, GOC:sl] is_a: GO:0060986 ! endocrine hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0036072 name: direct ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance, that does not require the replacement of preexisting tissues." [GO_REF:0000034] is_a: GO:0001503 ! ossification property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0036073 name: perichondral ossification namespace: biological_process def: "Intramembranous ossification from the surface of a cartilage element as the perichondrium becomes a periosteum, without replacement of cartilage." [GO_REF:0000034] is_a: GO:0001957 ! intramembranous ossification property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0036075 name: replacement ossification namespace: biological_process def: "Ossification that requires the replacement of a preexisting tissue prior to bone tissue formation." [GO_REF:0000034] synonym: "indirect ossification" EXACT [GO_REF:0000034] is_a: GO:0001503 ! ossification property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0036147 name: rumination namespace: biological_process def: "A digestive process in which food, usually grass or hay, is swallowed into a multi-compartmented stomach, regurgitated, chewed again, and swallowed again." [GOC:maf, Wikipedia:Rumination] synonym: "digestive rumination" EXACT [Wikipedia:Rumination] is_a: GO:0022600 ! digestive system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0036161 name: calcitonin secretion namespace: biological_process def: "The regulated release of calcitonin, a peptide hormone that participates in calcium and phosphorus metabolism." [GOC:cjm, PR:000027222] is_a: GO:0030072 ! peptide hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0040007 name: growth namespace: biological_process alt_id: GO:0048590 def: "The increase in size or mass of an entire organism, a part of an organism or a cell." [GOC:bf, GOC:ma] comment: See also the biological process term 'cell growth ; GO:0016049'. subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "growth pattern" RELATED [] synonym: "non-developmental growth" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0040011 name: locomotion namespace: biological_process def: "Self-propelled movement of a cell or organism from one location to another." [GOC:dgh] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0040016 name: embryonic cleavage namespace: biological_process def: "The first few specialized divisions of an activated animal egg." [GOC:clt, ISBN:0070524300] is_a: GO:0051301 ! cell division relationship: part_of GO:0009790 ! embryo development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042044 name: fluid transport namespace: biological_process def: "The directed movement of substances that are in liquid form in normal living conditions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042048 name: olfactory behavior namespace: biological_process def: "The actions or reactions of an organism in response to an odor." [GOC:jid] synonym: "behavioral response to scent" EXACT [] synonym: "behavioral response to smell" EXACT [] synonym: "behavioural response to odour" EXACT [] synonym: "behavioural response to scent" EXACT [] synonym: "behavioural response to smell" EXACT [] synonym: "olfactory behaviour" EXACT [] is_a: GO:0007635 ! chemosensory behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042060 name: wound healing namespace: biological_process def: "The series of events that restore integrity to a damaged tissue, following an injury." [GOC:bf, PMID:15269788] xref: Wikipedia:Wound_healing is_a: GO:0009611 ! response to wounding property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042100 name: B cell proliferation namespace: biological_process alt_id: GO:0042114 def: "The expansion of a B cell population by cell division. Follows B cell activation." [GOC:jl] synonym: "B lymphocyte proliferation" EXACT [] synonym: "B-cell proliferation" EXACT [] synonym: "B-lymphocyte proliferation" EXACT [] is_a: GO:0042113 ! B cell activation is_a: GO:0046651 ! lymphocyte proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042110 name: T cell activation namespace: biological_process def: "The change in morphology and behavior of a mature or immature T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." [GOC:mgi_curators, ISBN:0781735140] synonym: "T lymphocyte activation" EXACT [] synonym: "T-cell activation" EXACT [] synonym: "T-lymphocyte activation" EXACT [] is_a: GO:0046649 ! lymphocyte activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042113 name: B cell activation namespace: biological_process def: "The change in morphology and behavior of a mature or immature B cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific." [GOC:mgi_curators, ISBN:0781735140] synonym: "B lymphocyte activation" EXACT [] synonym: "B-cell activation" EXACT [] synonym: "B-lymphocyte activation" EXACT [] is_a: GO:0046649 ! lymphocyte activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042127 name: regulation of cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0050794 ! regulation of cellular process relationship: regulates GO:0008283 ! cell proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042221 name: response to chemical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "response to chemical substance" EXACT [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042403 name: thyroid hormone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any of the compounds secreted by the thyroid gland, largely thyroxine and triiodothyronine." [GOC:jl, ISBN:0198506732] synonym: "thyroid hormone metabolism" EXACT [] is_a: GO:0006575 ! cellular modified amino acid metabolic process is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0042445 ! hormone metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042445 name: hormone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone." [CHEBI:24621, GOC:jl] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "hormone metabolism" EXACT [] is_a: GO:0008152 ! metabolic process is_a: GO:0010817 ! regulation of hormone levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042446 name: hormone biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any hormone, naturally occurring substances secreted by specialized cells that affects the metabolism or behavior of other cells possessing functional receptors for the hormone." [CHEBI:24621, GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset synonym: "hormone anabolism" EXACT [] synonym: "hormone biosynthesis" EXACT [] synonym: "hormone formation" EXACT [] synonym: "hormone synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0042445 ! hormone metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042592 name: homeostatic process namespace: biological_process def: "Any biological process involved in the maintenance of an internal steady state." [GOC:jl, ISBN:0395825172] subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "homeostasis" RELATED [] is_a: GO:0065008 ! regulation of biological quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042698 name: ovulation cycle namespace: biological_process def: "The type of sexual cycle seen in females, often with physiologic changes in the endometrium that recur at regular intervals during the reproductive years." [ISBN:0721662544] synonym: "estrous cycle" RELATED [] synonym: "menstrual cycle" RELATED [] is_a: GO:0048511 ! rhythmic process is_a: GO:0048609 ! multicellular organismal reproductive process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042701 name: progesterone secretion namespace: biological_process def: "The regulated release of progesterone, a steroid hormone, by the corpus luteum of the ovary and by the placenta." [GOC:jl, ISBN:0395825172] is_a: GO:0006869 ! lipid transport is_a: GO:0022602 ! ovulation cycle process is_a: GO:0035929 ! steroid hormone secretion is_a: GO:0048610 ! cellular process involved in reproduction relationship: part_of GO:0001553 ! luteinization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042713 name: sperm ejaculation namespace: biological_process def: "The expulsion of seminal fluid, thick white fluid containing spermatozoa, from the male genital tract." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007320 ! insemination property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042745 name: circadian sleep/wake cycle namespace: biological_process def: "The cycle from wakefulness through an orderly succession of sleep states and stages that occurs on an approximately 24 hour rhythm." [GOC:jl, http://www.sleepquest.com] is_a: GO:0048512 ! circadian behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042748 name: circadian sleep/wake cycle, non-REM sleep namespace: biological_process def: "All sleep stages in the circadian sleep/wake cycle other than REM sleep. These stages are characterized by a slowing of brain waves and other physiological functions." [GOC:jl, http://www.sleepquest.com] is_a: GO:0022410 ! circadian sleep/wake cycle process relationship: part_of GO:0050802 ! circadian sleep/wake cycle, sleep property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042749 name: regulation of circadian sleep/wake cycle namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the circadian sleep/wake cycle." [GOC:jl] is_a: GO:0022410 ! circadian sleep/wake cycle process is_a: GO:0042752 ! regulation of circadian rhythm is_a: GO:0050795 ! regulation of behavior is_a: GO:0051239 ! regulation of multicellular organismal process relationship: regulates GO:0042745 ! circadian sleep/wake cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042752 name: regulation of circadian rhythm namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a circadian rhythm. A circadian rhythm is a biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:dph, GOC:jl, GOC:tb] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0007623 ! circadian rhythm property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042886 name: amide transport namespace: biological_process def: "The directed movement of an amide, any compound containing one, two, or three acyl groups attached to a nitrogen atom, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl, ISBN:0198506732] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0071705 ! nitrogen compound transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043009 name: chordate embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from zygote formation through a stage including a notochord and neural tube until birth or egg hatching." [GOC:mtg_sensu] is_a: GO:0009792 ! embryo development ending in birth or egg hatching property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043062 name: extracellular structure organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures in the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane, and also covers the host cell environment outside an intracellular parasite." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "extracellular structure organisation" EXACT [GOC:curators] synonym: "extracellular structure organization and biogenesis" EXACT [GOC:dph, GOC:jl, GOC:mah] is_a: GO:0016043 ! cellular component organization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043084 name: penile erection namespace: biological_process def: "The hardening, enlarging and rising of the penis which often occurs in the sexually aroused male and enables sexual intercourse. Achieved by increased inflow of blood into the vessels of erectile tissue, and decreased outflow." [GOC:jl, Wikipedia:Penile_erection] xref: Wikipedia:Erection#Penile_erection is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007620 ! copulation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043170 name: macromolecule metabolic process namespace: biological_process alt_id: GO:0043283 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule metabolism" EXACT [] is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043436 name: oxoacid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any oxoacid; an oxoacid is a compound which contains oxygen, at least one other element, and at least one hydrogen bound to oxygen, and which produces a conjugate base by loss of positive hydrogen ion(s) (hydrons)." [CHEBI:24833] subset: gosubset_prok ! Prokaryotic GO subset synonym: "keto acid metabolic process" EXACT [] synonym: "keto acid metabolism" EXACT [] synonym: "ketoacid metabolic process" EXACT [] synonym: "ketoacid metabolism" EXACT [] synonym: "oxo acid metabolic process" EXACT [] synonym: "oxo acid metabolism" EXACT [] synonym: "oxoacid metabolism" EXACT [] is_a: GO:0006082 ! organic acid metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043576 name: regulation of respiratory gaseous exchange namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the process of gaseous exchange between an organism and its environment." [GOC:jl] is_a: GO:0051239 ! regulation of multicellular organismal process relationship: regulates GO:0007585 ! respiratory gaseous exchange property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043616 name: keratinocyte proliferation namespace: biological_process def: "The multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population. Keratinocytes are epidermal cells which synthesize keratin and undergo a characteristic change as they move upward from the basal layers of the epidermis to the cornified (horny) layer of the skin." [CL:0000311] is_a: GO:0008283 ! cell proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043695 name: detection of pheromone namespace: biological_process def: "The series of events in which a pheromone stimulus is received by a cell and converted into a molecular signal." [GOC:mah] is_a: GO:0009593 ! detection of chemical stimulus is_a: GO:0019236 ! response to pheromone property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044057 name: regulation of system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a system process, a multicellular organismal process carried out by any of the organs or tissues in an organ system." [GOC:jl] is_a: GO:0051239 ! regulation of multicellular organismal process relationship: regulates GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044058 name: regulation of digestive system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a digestive system process, a physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:jl] is_a: GO:0044057 ! regulation of system process relationship: regulates GO:0022600 ! digestive system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044237 name: cellular metabolic process namespace: biological_process def: "The chemical reactions and pathways by which individual cells transform chemical substances." [GOC:go_curators] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cellular metabolism" EXACT [] synonym: "intermediary metabolism" RELATED [GOC:mah] is_a: GO:0008152 ! metabolic process is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044238 name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044281 name: small molecule metabolic process namespace: biological_process def: "The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim synonym: "small molecule metabolism" EXACT [] xref: Reactome:REACT_111217 xref: Reactome:REACT_112077 xref: Reactome:REACT_112140 xref: Reactome:REACT_112621 xref: Reactome:REACT_112912 xref: Reactome:REACT_113131 xref: Reactome:REACT_113305 xref: Reactome:REACT_113457 xref: Reactome:REACT_113568 xref: Reactome:REACT_113610 xref: Reactome:REACT_113934 xref: Reactome:REACT_114081 xref: Reactome:REACT_114137 xref: Reactome:REACT_114421 xref: Reactome:REACT_114473 xref: Reactome:REACT_114495 xref: Reactome:REACT_114668 xref: Reactome:REACT_114983 xref: Reactome:REACT_115063 xref: Reactome:REACT_115388 xref: Reactome:REACT_115420 xref: Reactome:REACT_115655 is_a: GO:0044710 ! single-organism metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044699 name: single-organism process namespace: biological_process def: "A biological process that involves only one organism." [GOC:jl] synonym: "single organism process" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044700 name: single organism signaling namespace: biological_process def: "A signaling process occurring within a single organism." [GOC:jl] is_a: GO:0023052 ! signaling is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044702 name: single organism reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals, involving a single organism." [GOC:jl] is_a: GO:0022414 ! reproductive process is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044703 name: multi-organism reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals, involving another organism." [GOC:jl] is_a: GO:0022414 ! reproductive process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044704 name: single-organism reproductive behavior namespace: biological_process def: "The specific actions or reactions of an organism that are associated with reproduction involving a single organism." [GOC:jl] is_a: GO:0019098 ! reproductive behavior is_a: GO:0044702 ! single organism reproductive process is_a: GO:0044708 ! single-organism behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044706 name: multi-multicellular organism process namespace: biological_process def: "A multicellular organism process which involves another multicellular organism of the same or different species." [GOC:jl] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0051704 ! multi-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044707 name: single-multicellular organism process namespace: biological_process def: "A biological process occurring within a single, multicellular organism." [GOC:jl] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044708 name: single-organism behavior namespace: biological_process def: "The specific actions or reactions of a single organism in response to external or internal stimuli." [GOC:jl] is_a: GO:0007610 ! behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044710 name: single-organism metabolic process namespace: biological_process def: "A metabolic process - chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances - which involves a single organism." [GOC:jl] is_a: GO:0008152 ! metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044763 name: single-organism cellular process namespace: biological_process def: "Any process that is carried out at the cellular level, occurring within a single organism." [GOC:jl] is_a: GO:0009987 ! cellular process is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045058 name: T cell selection namespace: biological_process def: "The process in which T cells that express T cell receptors that are restricted by self MHC protein complexes and tolerant to self antigens are selected for further maturation." [ISBN:0781735149, PMID:12414722] synonym: "T lymphocyte selection" EXACT [] synonym: "T-cell selection" EXACT [] synonym: "T-lymphocyte selection" EXACT [] xref: Wikipedia:Thymocyte is_a: GO:0002376 ! immune system process relationship: part_of GO:0030217 ! T cell differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045137 name: development of primary sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary sexual characteristics over time, from their formation to the mature structures. The primary sexual characteristics are the testes in males and the ovaries in females and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0003006 ! developmental process involved in reproduction relationship: part_of GO:0007275 ! multicellular organismal development relationship: part_of GO:0007548 ! sex differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045187 name: regulation of circadian sleep/wake cycle, sleep namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sleep; a readily reversible state of reduced awareness and metabolic activity that occurs periodically in many animals." [GOC:jl, ISBN:0192800981] synonym: "regulation of sleep" EXACT [] is_a: GO:0042749 ! regulation of circadian sleep/wake cycle is_a: GO:2000241 ! regulation of reproductive process relationship: regulates GO:0050802 ! circadian sleep/wake cycle, sleep property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045188 name: regulation of circadian sleep/wake cycle, non-REM sleep namespace: biological_process def: "Any process that modulates the frequency, rate or extent of non-rapid eye movement sleep." [GOC:go_curators] synonym: "regulation of non-REM sleep" EXACT [] is_a: GO:0045187 ! regulation of circadian sleep/wake cycle, sleep relationship: regulates GO:0042748 ! circadian sleep/wake cycle, non-REM sleep property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045321 name: leukocyte activation namespace: biological_process def: "A change in morphology and behavior of a leukocyte resulting from exposure to a specific antigen, mitogen, cytokine, cellular ligand, or soluble factor." [GOC:add] synonym: "immune cell activation" EXACT [] synonym: "leucocyte activation" EXACT [] xref: Wikipedia:Immunologic_activation is_a: GO:0001775 ! cell activation is_a: GO:0002376 ! immune system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045443 name: juvenile hormone secretion namespace: biological_process def: "The regulated release of juvenile hormones, the three sesquiterpenoid derivatives that function to maintain the larval state of insects at molting and that may be required for other processes, e.g. oogenesis." [GOC:go_curators, ISBN:0198547684] is_a: GO:0046865 ! terpenoid transport is_a: GO:0060986 ! endocrine hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046545 name: development of primary female sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary female sexual characteristics over time, from their formation to the mature structure. The primary female sexual characteristics are the ovaries, and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0045137 ! development of primary sexual characteristics relationship: part_of GO:0046660 ! female sex differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046649 name: lymphocyte activation namespace: biological_process def: "A change in morphology and behavior of a lymphocyte resulting from exposure to a specific antigen, mitogen, cytokine, chemokine, cellular ligand, or soluble factor." [GOC:mgi_curators, ISBN:0781735140] is_a: GO:0045321 ! leukocyte activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046651 name: lymphocyte proliferation namespace: biological_process def: "The expansion of a lymphocyte population by cell division." [GOC:ai] is_a: GO:0032943 ! mononuclear cell proliferation is_a: GO:0046649 ! lymphocyte activation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046660 name: female sex differentiation namespace: biological_process def: "The establishment of the sex of a female organism by physical differentiation." [GOC:bf] is_a: GO:0007548 ! sex differentiation relationship: part_of GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046692 name: sperm competition namespace: biological_process def: "Any process that contributes to the success of sperm fertilization in multiply-mated females." [PMID:10885514] xref: Wikipedia:Sperm_competition is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0007320 ! insemination property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046717 name: acid secretion namespace: biological_process def: "The controlled release of acid by a cell or group of cells." [GOC:ai] is_a: GO:0046903 ! secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046864 name: isoprenoid transport namespace: biological_process def: "The directed movement of isoprenoids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Isoprenoids comprise a group of compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues." [GOC:ai] subset: goslim_pir ! PIR GO slim is_a: GO:0006869 ! lipid transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046865 name: terpenoid transport namespace: biological_process def: "The directed movement of terpenoids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Terpenoids are a class of compounds characterized by an isoprenoid chemical structure and include derivatives with various functional groups." [GOC:ai] is_a: GO:0046864 ! isoprenoid transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046879 name: hormone secretion namespace: biological_process def: "The regulated release of hormones, substances with a specific regulatory effect on a particular organ or group of cells." [ISBN:0198506732] is_a: GO:0009914 ! hormone transport is_a: GO:0023061 ! signal release is_a: GO:0032940 ! secretion by cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046883 name: regulation of hormone secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of a hormone from a cell or group of cells." [GOC:ai] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling is_a: GO:0051046 ! regulation of secretion is_a: GO:0060341 ! regulation of cellular localization relationship: regulates GO:0046879 ! hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0046903 name: secretion namespace: biological_process def: "The controlled release of a substance by a cell, a group of cells, or a tissue." [GOC:ai] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048232 name: male gamete generation namespace: biological_process def: "Generation of the male gamete; specialised haploid cells produced by meiosis and along with a female gamete takes part in sexual reproduction." [GOC:dph, GOC:jid] is_a: GO:0007276 ! gamete generation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048243 name: norepinephrine secretion namespace: biological_process def: "The regulated release of norepinephrine by a cell or group of cells. Norepinephrine is a catecholamine and it acts as a hormone and as a neurotransmitter of most of the sympathetic nervous system." [GOC:ef, GOC:jid] synonym: "noradrenaline secretion" EXACT [] is_a: GO:0015874 ! norepinephrine transport is_a: GO:0050432 ! catecholamine secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048468 name: cell development namespace: biological_process def: "The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:go_curators] subset: goslim_candida ! Candida GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "terminal differentiation" RELATED [GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0030154 ! cell differentiation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048477 name: oogenesis namespace: biological_process alt_id: GO:0009993 alt_id: GO:0048157 def: "The complete process of formation and maturation of an ovum or female gamete from a primordial female germ cell. Examples of this process are found in Mus musculus and Drosophila melanogaster." [GOC:kmv, GOC:mtg_sensu] synonym: "ovum development" EXACT systematic_synonym [] xref: Wikipedia:Oogenesis is_a: GO:0007292 ! female gamete generation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048511 name: rhythmic process namespace: biological_process def: "Any process pertinent to the generation and maintenance of rhythms in the physiology of an organism." [GOC:jid] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "rhythm" RELATED [] is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048512 name: circadian behavior namespace: biological_process def: "The specific actions or reactions of an organism that recur with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators] synonym: "circadian rhythm behavior" EXACT [] is_a: GO:0007622 ! rhythmic behavior is_a: GO:0007623 ! circadian rhythm property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048513 name: organ development namespace: biological_process def: "Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dph, GOC:jid] synonym: "development of an organ" EXACT [] synonym: "organogenesis" EXACT [] xref: Wikipedia:Organogenesis is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048514 name: blood vessel morphogenesis namespace: biological_process def: "The process in which the anatomical structures of blood vessels are generated and organized. The blood vessel is the vasculature carrying blood." [GOC:jid] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0001568 ! blood vessel development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048519 name: negative regulation of biological process namespace: biological_process alt_id: GO:0043118 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid] subset: gosubset_prok ! Prokaryotic GO subset synonym: "down regulation of biological process" EXACT [] synonym: "down-regulation of biological process" EXACT [] synonym: "downregulation of biological process" EXACT [] synonym: "inhibition of biological process" NARROW [] synonym: "negative regulation of physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process relationship: negatively_regulates GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048534 name: hematopoietic or lymphoid organ development namespace: biological_process def: "The process whose specific outcome is the progression of any organ involved in hematopoiesis (also known as hemopoiesis) or lymphoid cell activation over time, from its formation to the mature structure. Such development includes differentiation of resident cell types (stromal cells) and of migratory cell types dependent on the unique microenvironment afforded by the organ for their proper differentiation." [GOC:add, GOC:rl, ISBN:0781735149] synonym: "haematopoietic or lymphoid organ development" EXACT [] synonym: "haemopoietic or lymphoid organ development" EXACT [] synonym: "hemopoietic or lymphoid organ development" EXACT [] is_a: GO:0048513 ! organ development relationship: part_of GO:0002520 ! immune system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048583 name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048588 name: developmental cell growth namespace: biological_process def: "The growth of a cell, where growth contributes to the progression of the cell over time from one condition to another." [GOC:go_curators, GOC:isa_complete] synonym: "developmental growth of a unicellular organism" EXACT [] is_a: GO:0016049 ! cell growth is_a: GO:0048589 ! developmental growth relationship: part_of GO:0048468 ! cell development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048589 name: developmental growth namespace: biological_process def: "The increase in size or mass of an entire organism, a part of an organism or a cell, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." [GOC:go_curators] is_a: GO:0032502 ! developmental process is_a: GO:0040007 ! growth is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048598 name: embryonic morphogenesis namespace: biological_process alt_id: GO:0048828 def: "The process in which anatomical structures are generated and organized during the embryonic phase. The embryonic phase begins with zygote formation. The end of the embryonic phase is organism-specific. For example, it would be at birth for mammals, larval hatching for insects and seed dormancy in plants." [GOC:jid, GOC:mtg_sensu] synonym: "embryonic anatomical structure morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009790 ! embryo development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048608 name: reproductive structure development namespace: biological_process def: "The reproductive developmental process whose specific outcome is the progression of structures that will be used in the process of creating new individuals from one or more parents, from their formation to the mature structures." [GOC:dph, GOC:isa_complete, GOC:jid] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0061458 ! reproductive system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] synonym: "organismal reproductive process" BROAD [GOC:curators] synonym: "reproductive process in a multicellular organism" EXACT [GOC:curators] is_a: GO:0044702 ! single organism reproductive process is_a: GO:0044707 ! single-multicellular organism process relationship: part_of GO:0032504 ! multicellular organism reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048610 name: cellular process involved in reproduction namespace: biological_process def: "A process, occurring at the cellular level, that is involved in the reproductive function of a multicellular or single-celled organism." [GOC:dph, GOC:jid] subset: gosubset_prok ! Prokaryotic GO subset synonym: "reproductive cellular process" RELATED [GOC:dph, GOC:tb] is_a: GO:0044702 ! single organism reproductive process is_a: GO:0044763 ! single-organism cellular process relationship: part_of GO:0000003 ! reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048646 name: anatomical structure formation involved in morphogenesis namespace: biological_process def: "The developmental process pertaining to the initial formation of an anatomical structure from unspecified parts. This process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the structural rudiment is recognizable. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:dph, GOC:jid, GOC:tb] comment: Note that, for example, the formation of a pseudopod in an amoeba would not be considered formation involved in morphogenesis because it would not be thought of as the formation of an anatomical structure that was part of the shaping of the amoeba during its development. The formation of an axon from a neuron would be considered the formation of an anatomical structure involved in morphogenesis because it contributes to the creation of the form of the neuron in a developmental sense. subset: goslim_generic ! Generic GO slim synonym: "formation of an anatomical structure involved in morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0032502 ! developmental process is_a: GO:0044699 ! single-organism process relationship: part_of GO:0009653 ! anatomical structure morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048705 name: skeletal system morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the skeleton are generated and organized." [GOC:dph, GOC:dsf, GOC:jid, GOC:tb] synonym: "skeletal morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009887 ! organ morphogenesis relationship: part_of GO:0001501 ! skeletal system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048729 name: tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tissue are generated and organized." [GOC:dph, GOC:jid] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009888 ! tissue development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048731 name: system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:dph, GOC:jid] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048754 name: branching morphogenesis of a tube namespace: biological_process def: "The process in which the anatomical structures of branches in a tube are generated and organized. A tube is a long hollow cylinder." [GOC:dgh, GOC:dph, GOC:jid] synonym: "tubulogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0001763 ! morphogenesis of a branching structure is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0035239 ! tube morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048856 name: anatomical structure development namespace: biological_process def: "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:mtg_15jun06, GO_REF:0000021] comment: This term was added by GO_REF:0000021. subset: goslim_generic ! Generic GO slim synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process is_a: GO:0044699 ! single-organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048869 name: cellular developmental process namespace: biological_process def: "A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition." [GOC:isa_complete] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0032502 ! developmental process is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048870 name: cell motility namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0006928 ! cellular component movement is_a: GO:0040011 ! locomotion relationship: part_of GO:0051674 ! localization of cell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048871 name: multicellular organismal homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state at the level of the multicellular organism." [GOC:isa_complete] is_a: GO:0042592 ! homeostatic process is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048878 name: chemical homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of an internal steady state of a chemical." [GOC:isa_complete] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0042592 ! homeostatic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050432 name: catecholamine secretion namespace: biological_process def: "The regulated release of catecholamines by a cell or group of cells. The catecholamines are a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:ai, GOC:ef] is_a: GO:0032940 ! secretion by cell is_a: GO:0051937 ! catecholamine transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050789 name: regulation of biological process namespace: biological_process alt_id: GO:0050791 def: "Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:ai, GOC:go_curators] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation of physiological process" EXACT [] is_a: GO:0065007 ! biological regulation relationship: regulates GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050793 name: regulation of developmental process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0032502 ! developmental process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050794 name: regulation of cellular process namespace: biological_process alt_id: GO:0051244 def: "Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation of cellular physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0009987 ! cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050795 name: regulation of behavior namespace: biological_process def: "Any process that modulates the frequency, rate or extent of behavior, the specific actions or reactions of an organism in response to external or internal stimuli." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation of behaviour" EXACT [] is_a: GO:0048583 ! regulation of response to stimulus relationship: regulates GO:0007610 ! behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050801 name: ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of ions within an organism or cell." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "electrolyte homeostasis" RELATED [] synonym: "negative regulation of crystal biosynthesis" RELATED [] synonym: "negative regulation of crystal formation" RELATED [] is_a: GO:0048878 ! chemical homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050802 name: circadian sleep/wake cycle, sleep namespace: biological_process def: "The part of the circadian sleep/wake cycle where the organism is asleep." [GOC:ai] is_a: GO:0022410 ! circadian sleep/wake cycle process is_a: GO:0030431 ! sleep relationship: part_of GO:0042745 ! circadian sleep/wake cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050817 name: coagulation namespace: biological_process def: "The process in which a fluid solution, or part of it, changes into a solid or semisolid mass." [ISBN:0198506732] subset: goslim_pir ! PIR GO slim synonym: "clotting" EXACT [] is_a: GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050877 name: neurological system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of neurological system." [GOC:ai, GOC:mtg_cardio] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim synonym: "neurophysiological process" EXACT [] synonym: "pan-neural process" RELATED [] is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050878 name: regulation of body fluid levels namespace: biological_process def: "Any process that modulates the levels of body fluids." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_pir ! PIR GO slim is_a: GO:0044707 ! single-multicellular organism process is_a: GO:0065008 ! regulation of biological quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050884 name: neuromuscular process controlling posture namespace: biological_process def: "Any process in which an organism voluntarily modulates its posture, the alignment of its anatomical parts." [GOC:dph, GOC:tb] synonym: "regulation of posture" EXACT [] is_a: GO:0050905 ! neuromuscular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050885 name: neuromuscular process controlling balance namespace: biological_process def: "Any process that an organism uses to control its balance, the orientation of the organism (or the head of the organism) in relation to the source of gravity. In humans and animals, balance is perceived through visual cues, the labyrinth system of the inner ears and information from skin pressure receptors and muscle and joint receptors." [GOC:ai, GOC:dph, http://www.onelook.com/] synonym: "regulation of balance" RELATED [] is_a: GO:0050905 ! neuromuscular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050886 name: endocrine process namespace: biological_process def: "The process that involves the secretion of or response to endocrine hormones. An endocrine hormone is a hormone released into the circulatory system." [ISBN:0721662544] subset: goslim_pir ! PIR GO slim synonym: "endocrine physiological process" EXACT [] synonym: "endocrine physiology" EXACT [] is_a: GO:0003008 ! system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050890 name: cognition namespace: biological_process def: "The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory." [ISBN:0721619908, http://www.onelook.com/] xref: Wikipedia:Cognition is_a: GO:0050877 ! neurological system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050891 name: multicellular organismal water homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of water within a tissue, organ, or a multicellular organism." [GOC:dph, GOC:tb] synonym: "body fluid osmoregulation" RELATED [GOC:dph, GOC:tb] is_a: GO:0030104 ! water homeostasis is_a: GO:0050878 ! regulation of body fluid levels property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050896 name: response to stimulus namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Annotations to this term will be removed during annotation QC. subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050905 name: neuromuscular process namespace: biological_process def: "Any process pertaining to the functions of the nervous and muscular systems of an organism." [GOC:ai] synonym: "neuromotor process" EXACT [] synonym: "neuromuscular physiological process" EXACT [] is_a: GO:0050877 ! neurological system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050906 name: detection of stimulus involved in sensory perception namespace: biological_process def: "The series of events involved in sensory perception in which a sensory stimulus is received by a cell and converted into a molecular signal." [GOC:ai, GOC:dph] synonym: "sensory detection of stimulus" EXACT [] synonym: "sensory perception, sensory transduction of stimulus" EXACT [] synonym: "sensory perception, stimulus detection" EXACT [] synonym: "sensory transduction" EXACT [] xref: Wikipedia:Transduction_(physiology) is_a: GO:0051606 ! detection of stimulus relationship: part_of GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050907 name: detection of chemical stimulus involved in sensory perception namespace: biological_process def: "The series of events in which a sensory chemical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "sensory detection of chemical stimulus" EXACT [] synonym: "sensory detection of chemical stimulus during sensory perception" EXACT [] synonym: "sensory perception, sensory detection of chemical stimulus" EXACT [] synonym: "sensory perception, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory transduction of chemical stimulus" EXACT [] synonym: "sensory transduction of chemical stimulus during sensory perception" EXACT [] is_a: GO:0009593 ! detection of chemical stimulus is_a: GO:0050906 ! detection of stimulus involved in sensory perception relationship: part_of GO:0007600 ! sensory perception relationship: part_of GO:0007606 ! sensory perception of chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050909 name: sensory perception of taste namespace: biological_process def: "The series of events required for an organism to receive a gustatory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Gustation involves the direct detection of chemical composition, usually through contact with chemoreceptor cells. This is a neurological process." [GOC:ai, http://www.onelook.com/] synonym: "gustation" EXACT [] synonym: "sense of taste" EXACT [] synonym: "taste" EXACT [] synonym: "taste perception" EXACT [] xref: Wikipedia:Taste is_a: GO:0007606 ! sensory perception of chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050910 name: detection of mechanical stimulus involved in sensory perception of sound namespace: biological_process alt_id: GO:0009592 alt_id: GO:0055128 def: "The series of events involved in the perception of sound vibration. The vibration is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "detection of sound" EXACT [] synonym: "hearing, sensory transduction of sound" EXACT [] synonym: "perception of sound, detection of mechanical stimulus" EXACT [] synonym: "perception of sound, sensory detection of mechanical stimulus" EXACT [] synonym: "perception of sound, sensory transduction of mechanical stimulus" EXACT [] synonym: "sensory detection of mechanical stimulus during perception of sound" EXACT [] synonym: "sensory transduction of mechanical stimulus during perception of sound" EXACT [] synonym: "sensory transduction of sound" EXACT [] is_a: GO:0050877 ! neurological system process is_a: GO:0050974 ! detection of mechanical stimulus involved in sensory perception relationship: part_of GO:0007605 ! sensory perception of sound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050911 name: detection of chemical stimulus involved in sensory perception of smell namespace: biological_process def: "The series of events involved in the perception of smell in which an olfactory chemical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "perception of smell, detection of chemical stimulus" EXACT [] synonym: "perception of smell, sensory detection of chemical stimulus" EXACT [] synonym: "perception of smell, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory detection of chemical stimulus during perception of smell" EXACT [] synonym: "sensory detection of scent" EXACT [] synonym: "sensory detection of smell" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of smell" EXACT [] synonym: "sensory transduction of scent" EXACT [] synonym: "sensory transduction of smell" EXACT [] is_a: GO:0050907 ! detection of chemical stimulus involved in sensory perception relationship: part_of GO:0007608 ! sensory perception of smell property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050912 name: detection of chemical stimulus involved in sensory perception of taste namespace: biological_process def: "The series of events involved in the perception of taste in which a gustatory chemical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "perception of taste, detection of chemical stimulus" EXACT [] synonym: "perception of taste, sensory detection of chemical stimulus" EXACT [] synonym: "perception of taste, sensory transduction of chemical stimulus" EXACT [] synonym: "sensory detection of chemical stimulus during perception of taste" EXACT [] synonym: "sensory detection of taste" EXACT [] synonym: "sensory transduction of chemical stimulus during perception of taste" EXACT [] synonym: "sensory transduction of taste" EXACT [] synonym: "taste perception" BROAD [] is_a: GO:0050907 ! detection of chemical stimulus involved in sensory perception relationship: part_of GO:0050909 ! sensory perception of taste property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050952 name: sensory perception of electrical stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory electrical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] is_a: GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050953 name: sensory perception of light stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory light stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] is_a: GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050954 name: sensory perception of mechanical stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory mechanical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] synonym: "chemi-mechanical coupling" RELATED [] synonym: "mechanosensory perception" EXACT [] synonym: "perception of mechanical stimulus" EXACT [] is_a: GO:0007600 ! sensory perception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050956 name: electroception namespace: biological_process def: "The series of events required for an organism to receive an electrical stimulus, convert it to a molecular signal, and recognize and characterize the signal. Many fish possess an electroception sense; for example, the electric eel uses low voltage pulses of electricity for navigation and prey location." [GOC:ai, PMID:10210663, Wikipedia:Electroreception] synonym: "electroception sense" EXACT [] synonym: "electroceptive sense" EXACT [] xref: Wikipedia:Electroreception is_a: GO:0050952 ! sensory perception of electrical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050957 name: equilibrioception namespace: biological_process def: "The series of events required for an organism to receive an orientational stimulus, convert it to a molecular signal, and recognize and characterize the signal. Equilibrioception refers to a combination of processes by which an organism can perceive its orientation with respect to gravity. In animals, stimuli come from labyrinth system of the inner ears, monitoring the direction of motion; visual stimuli, with information on orientation and motion; pressure receptors, which tell the organism which body surfaces are in contact with the ground; and proprioceptive cues, which report which parts of the body are in motion." [http://www.medterms.com, http://www.onelook.com/] synonym: "sensory perception of orientation with respect to gravity" EXACT [] xref: Wikipedia:Equilibrioception is_a: GO:0007600 ! sensory perception relationship: part_of GO:0050885 ! neuromuscular process controlling balance property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050959 name: echolocation namespace: biological_process def: "Echolocation is the method used by some animals (e.g. bats, dolphins and some whales) to determine the location of something by measuring the time it takes for an echo to return from it. These animals emit sound waves and listen for the echo, calculating the distance to the object from the time lapse between sound emission and the echo returning." [PMID:16005275, Wikipedia:Animal_echolocation, http://www.onelook.com/] synonym: "perception of environment using reflected sound waves" EXACT [] xref: Wikipedia:Echolocation is_a: GO:0050877 ! neurological system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050963 name: detection of electrical stimulus involved in sensory perception namespace: biological_process def: "The series of events in which a sensory electrical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "sensory detection of electrical stimulus" EXACT [] synonym: "sensory detection of electrical stimulus during sensory perception" EXACT [] synonym: "sensory perception, sensory detection of electrical stimulus" EXACT [] synonym: "sensory perception, sensory transduction of electrical stimulus" EXACT [] synonym: "sensory transduction of electrical stimulus" EXACT [] synonym: "sensory transduction of electrical stimulus during sensory perception" EXACT [] is_a: GO:0050906 ! detection of stimulus involved in sensory perception is_a: GO:0050981 ! detection of electrical stimulus relationship: part_of GO:0007600 ! sensory perception relationship: part_of GO:0050952 ! sensory perception of electrical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050964 name: detection of electrical stimulus involved in electroception namespace: biological_process def: "The series of events that contribute to electroception in which a sensory electrical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "detection of electrical stimulus during electroreception" RELATED [GOC:dph, GOC:tb] synonym: "electroception, detection of electrical stimulus" EXACT [] synonym: "electroception, sensory detection of electrical stimulus" EXACT [] synonym: "electroception, sensory transduction" EXACT [] synonym: "electroception, sensory transduction of electrical stimulus" EXACT [] synonym: "sensory detection of electrical stimulus during electroception" RELATED [] synonym: "sensory transduction of electrical stimulus during electroception" RELATED [] is_a: GO:0050963 ! detection of electrical stimulus involved in sensory perception relationship: part_of GO:0050956 ! electroception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050973 name: detection of mechanical stimulus involved in equilibrioception namespace: biological_process def: "The series of events involved in equilibrioception in which a sensory mechanical stimulus is received by a cell and converted into a molecular signal. During equilibrioception, mechanical stimuli may be in the form of input from pressure receptors or from the labyrinth system of the inner ears." [GOC:ai] synonym: "equilibrioception, detection of mechanical stimulus" EXACT [] synonym: "equilibrioception, sensory detection of mechanical stimulus" EXACT [] synonym: "equilibrioception, sensory transduction of mechanical stimulus" EXACT [] synonym: "sensory detection of mechanical stimulus during equilibrioception" EXACT [] synonym: "sensory transduction of mechanical stimulus during equilibrioception" EXACT [] is_a: GO:0050974 ! detection of mechanical stimulus involved in sensory perception relationship: part_of GO:0050957 ! equilibrioception property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050974 name: detection of mechanical stimulus involved in sensory perception namespace: biological_process def: "The series of events in which a sensory mechanical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] synonym: "sensory detection of mechanical stimulus" EXACT [] synonym: "sensory detection of mechanical stimulus during sensory perception" EXACT [] synonym: "sensory perception, sensory detection of mechanical stimulus" EXACT [] synonym: "sensory perception, sensory transduction of mechanical stimulus" EXACT [] synonym: "sensory transduction of mechanical stimulus" EXACT [] synonym: "sensory transduction of mechanical stimulus during sensory perception" EXACT [] is_a: GO:0050906 ! detection of stimulus involved in sensory perception is_a: GO:0050982 ! detection of mechanical stimulus relationship: part_of GO:0007600 ! sensory perception relationship: part_of GO:0050954 ! sensory perception of mechanical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050981 name: detection of electrical stimulus namespace: biological_process def: "The series of events by which an electrical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] is_a: GO:0009582 ! detection of abiotic stimulus is_a: GO:0051602 ! response to electrical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0050982 name: detection of mechanical stimulus namespace: biological_process def: "The series of events by which a mechanical stimulus is received by a cell and converted into a molecular signal." [GOC:ai] is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009582 ! detection of abiotic stimulus is_a: GO:0009612 ! response to mechanical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051046 name: regulation of secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the controlled release of a substance from a cell or group of cells." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0051049 ! regulation of transport relationship: regulates GO:0046903 ! secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051049 name: regulation of transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0032879 ! regulation of localization relationship: regulates GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051093 name: negative regulation of developmental process namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "down regulation of developmental process" EXACT [] synonym: "down-regulation of developmental process" EXACT [] synonym: "downregulation of developmental process" EXACT [] synonym: "inhibition of developmental process" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0050793 ! regulation of developmental process relationship: negatively_regulates GO:0032502 ! developmental process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051179 name: localization namespace: biological_process def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in a specific location." [GOC:ai] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] synonym: "establishment and maintenance of position" EXACT [] synonym: "establishment and maintenance of substance location" NARROW [] synonym: "establishment and maintenance of substrate location" NARROW [] synonym: "localisation" EXACT [GOC:mah] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051216 name: cartilage development namespace: biological_process def: "The process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [http://www.onelook.com] synonym: "cartilage biogenesis" EXACT [] synonym: "cartilage biosynthesis" EXACT [] synonym: "cartilage formation" EXACT [] synonym: "chondrogenesis" EXACT [] xref: Wikipedia:Chondrogenesis is_a: GO:0061448 ! connective tissue development relationship: part_of GO:0001501 ! skeletal system development relationship: part_of GO:0048513 ! organ development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051234 name: establishment of localization namespace: biological_process def: "The directed movement of a cell, substance or cellular entity, such as a protein complex or organelle, to a specific location." [GOC:ai] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "establishment of localisation" EXACT [GOC:mah] is_a: GO:0008150 ! biological_process relationship: part_of GO:0051179 ! localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051239 name: regulation of multicellular organismal process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a multicellular organismal process, the processes pertinent to the function of a multicellular organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai, GOC:dph, GOC:tb] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0032501 ! multicellular organismal process relationship: regulates GO:0044707 ! single-multicellular organism process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051301 name: cell division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a cell into daughter cells." [GOC:go_curators] comment: Note that this term differs from 'cytokinesis ; GO:0000910' in that cytokinesis excludes nuclear division; in prokaryotes, there is little difference between cytokinesis and cell division. Note that there is no relationship between this term and 'nuclear division ; GO:0000280' because cell division can take place without nuclear division (as in prokaryotes) and vice versa (as in syncytium formation by mitosis without cytokinesis. subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Cell_division is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051321 name: meiotic cell cycle namespace: biological_process def: "Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell." [GOC:ai] subset: goslim_yeast ! Yeast GO slim is_a: GO:0007049 ! cell cycle is_a: GO:0048610 ! cellular process involved in reproduction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051327 name: M phase of meiotic cell cycle namespace: biological_process def: "M phase occurring as part of the meiotic cell cycle. M phase is the part of the cell cycle during which nuclear division takes place. A meiotic cell cycle is one in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell." [GOC:ai, GOC:dph, GOC:mah] is_a: GO:0000279 ! M phase is_a: GO:0048610 ! cellular process involved in reproduction relationship: part_of GO:0051321 ! meiotic cell cycle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051602 name: response to electrical stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electrical stimulus." [GOC:ai] synonym: "response to electricity" RELATED [] is_a: GO:0009628 ! response to abiotic stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051606 name: detection of stimulus namespace: biological_process def: "The series of events in which a stimulus is received by a cell or organism and converted into a molecular signal." [GOC:add, GOC:ai, GOC:dph, GOC:mah] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "perception of stimulus" RELATED [] synonym: "stimulus detection" EXACT [] synonym: "stimulus sensing" RELATED [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051641 name: cellular localization namespace: biological_process def: "A localization process that takes place at the cellular level; as a result of a cellular localization process, a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within or in the membrane of a cell." [GOC:ai, GOC:mah] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] synonym: "establishment and maintenance of localization in cell or cell membrane" EXACT [] synonym: "intracellular localization" NARROW [] synonym: "localization within cell" NARROW [] is_a: GO:0044763 ! single-organism cellular process is_a: GO:0051179 ! localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051649 name: establishment of localization in cell namespace: biological_process def: "The directed movement of a substance or cellular entity, such as a protein complex or organelle, to a specific location within, or in the membrane of, a cell." [GOC:ai, GOC:dph, GOC:tb] subset: gosubset_prok ! Prokaryotic GO subset synonym: "establishment of cellular localization" RELATED [GOC:dph, GOC:tb] synonym: "establishment of intracellular localization" NARROW [] synonym: "establishment of localisation in cell" EXACT [GOC:mah] synonym: "establishment of localization within cell" NARROW [] synonym: "positioning within cell" NARROW [] is_a: GO:0051234 ! establishment of localization relationship: part_of GO:0051641 ! cellular localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051674 name: localization of cell namespace: biological_process def: "Any process in which a cell is transported to, and/or maintained in, a specific location." [GOC:ai] subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell localization" EXACT [] synonym: "establishment and maintenance of cell localization" EXACT [] synonym: "establishment and maintenance of localization of cell" EXACT [] synonym: "localisation of cell" EXACT [GOC:mah] is_a: GO:0051179 ! localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051704 name: multi-organism process namespace: biological_process alt_id: GO:0051706 def: "A biological process which involves another organism of the same or different species." [GOC:jl] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "interaction between organisms" EXACT [] synonym: "physiological interaction between organisms" EXACT [] synonym: "physiological interaction with other organism" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0051937 name: catecholamine transport namespace: biological_process def: "The directed movement of catecholamines, a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:ai, ISBN:0198506732] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0015844 ! monoamine transport is_a: GO:0015850 ! organic hydroxy compound transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055065 name: metal ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of metal ions within an organism or cell." [GOC:ai, GOC:jid, GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0055080 ! cation homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055067 name: monovalent inorganic cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of monovalent inorganic cations within an organism or cell." [GOC:ai, GOC:jid, GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0055080 ! cation homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055074 name: calcium ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of calcium ions within an organism or cell." [GOC:ceb, GOC:jid, GOC:mah] synonym: "regulation of calcium ion concentration" EXACT [] is_a: GO:0055065 ! metal ion homeostasis is_a: GO:0072507 ! divalent inorganic cation homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055078 name: sodium ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of sodium ions within an organism or cell." [GOC:ai, GOC:jid, GOC:mah] is_a: GO:0055065 ! metal ion homeostasis is_a: GO:0055067 ! monovalent inorganic cation homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055080 name: cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of cations within an organism or cell." [GOC:ceb, GOC:jid, GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0050801 ! ion homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0055127 name: vibrational conductance of sound to the inner ear namespace: biological_process def: "The transmission of vibrations via ossicles to the inner ear." [GOC:mh] is_a: GO:0044707 ! single-multicellular organism process relationship: part_of GO:0007605 ! sensory perception of sound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060004 name: reflex namespace: biological_process def: "An automatic response to a stimulus beginning with a nerve impulse from a receptor and ending with the action of an effector such as a gland or a muscle. Signaling never reaches a level of consciousness." [GOC:dph, ISBN:087797099] xref: Wikipedia:Reflex is_a: GO:0009605 ! response to external stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060005 name: vestibular reflex namespace: biological_process def: "A reflex process in which a response to an angular or linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the inner ear and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness." [PMID:11784757] is_a: GO:0060004 ! reflex property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060007 name: linear vestibuloocular reflex namespace: biological_process def: "A vestibular reflex by which a response to a linear acceleration stimulus begins with an afferent nerve impulse from a receptor in the otolith and ends with the compensatory action of eye muscles. Signaling never reaches a level of consciousness." [GOC:dph, PMID:11784757] is_a: GO:0060005 ! vestibular reflex property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060047 name: heart contraction namespace: biological_process def: "The multicellular organismal process in which the heart decreases in volume in a characteristic way to propel blood through the body." [GOC:dph] synonym: "cardiac contraction" RELATED [] synonym: "heart beating" EXACT [] synonym: "hemolymph circulation" RELATED [] is_a: GO:0003015 ! heart process relationship: part_of GO:0008015 ! blood circulation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060048 name: cardiac muscle contraction namespace: biological_process def: "Muscle contraction of cardiac muscle tissue." [GOC:dph] synonym: "heart muscle contraction" EXACT [] is_a: GO:0006941 ! striated muscle contraction relationship: part_of GO:0060047 ! heart contraction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060073 name: micturition namespace: biological_process def: "The regulation of body fluids process in which parasympathetic nerves stimulate the bladder wall muscle to contract and expel urine from the body." [GOC:dph] synonym: "urination" EXACT [] synonym: "urine voiding" EXACT [] xref: Wikipedia:Urination is_a: GO:0003014 ! renal system process is_a: GO:0007588 ! excretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060082 name: eye blink reflex namespace: biological_process def: "The reflex process in which a mechanical stimulus applied to the eye elicits a response of the eyelid closing." [GOC:dph, PMID:2913208] synonym: "nictitating membrane reflex" EXACT [] is_a: GO:0060004 ! reflex property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060259 name: regulation of feeding behavior namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the behavior associated with the intake of food." [GOC:BHF, GOC:dph, GOC:tb] synonym: "regulation of feeding behaviour" EXACT [GOC:dph, GOC:tb] is_a: GO:0050795 ! regulation of behavior relationship: regulates GO:0007631 ! feeding behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060341 name: regulation of cellular localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process in which a cell, a substance, or a cellular entity is transported to, or maintained in a specific location within or in the membrane of a cell." [GOC:dph, GOC:tb] synonym: "regulation of cellular localisation" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization is_a: GO:0050794 ! regulation of cellular process relationship: regulates GO:0051641 ! cellular localization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060348 name: bone development namespace: biological_process def: "The process whose specific outcome is the progression of bone over time, from its formation to the mature structure. Bone is the hard skeletal connective tissue consisting of both mineral and cellular components." [GOC:dph] is_a: GO:0048856 ! anatomical structure development relationship: part_of GO:0001501 ! skeletal system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060349 name: bone morphogenesis namespace: biological_process def: "The process in which bones are generated and organized." [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0048705 ! skeletal system morphogenesis relationship: part_of GO:0060348 ! bone development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060350 name: endochondral bone morphogenesis namespace: biological_process def: "The process in which bones are generated and organized as a result of the conversion of initial cartilaginous anlage into bone." [GOC:dph, PMID:11680679] is_a: GO:0060349 ! bone morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060361 name: flight namespace: biological_process def: "Self-propelled movement of an organism from one location to another through the air, usually by means of active wing movement." [GOC:dph] is_a: GO:0040011 ! locomotion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060429 name: epithelium development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." [GOC:dph, GOC:mtg_lung] is_a: GO:0009888 ! tissue development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060562 name: epithelial tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized from an epithelium. Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GOC:dph] is_a: GO:0002009 ! morphogenesis of an epithelium is_a: GO:0035239 ! tube morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060986 name: endocrine hormone secretion namespace: biological_process def: "The regulated release of a hormone into the circulatory system." [GOC:dph] is_a: GO:0046879 ! hormone secretion relationship: part_of GO:0050886 ! endocrine process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0061035 name: regulation of cartilage development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:dph] is_a: GO:2000026 ! regulation of multicellular organismal development relationship: regulates GO:0051216 ! cartilage development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0061037 name: negative regulation of cartilage development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:dph] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0061035 ! regulation of cartilage development relationship: negatively_regulates GO:0051216 ! cartilage development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0061448 name: connective tissue development namespace: biological_process def: "The progression of a connective tissue over time, from its formation to the mature structure." [GOC:BHF] is_a: GO:0009888 ! tissue development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0061458 name: reproductive system development namespace: biological_process def: "The progression of the reproductive system over time from its formation to the mature structure. The reproductive system consists of the organs that function in reproduction." [GOC:dph] is_a: GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0065007 name: biological regulation namespace: biological_process def: "Any process that modulates a measurable attribute of any biological process, quality or function." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation" BROAD [] is_a: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0065008 name: regulation of biological quality namespace: biological_process def: "Any process that modulates a qualitative or quantitative trait of a biological quality. A biological quality is a measurable attribute of an organism or part of an organism, such as size, mass, shape, color, etc." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: gosubset_prok ! Prokaryotic GO subset synonym: "regulation of biological attribute" EXACT [] synonym: "regulation of biological characteristic" EXACT [] is_a: GO:0065007 ! biological regulation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070091 name: glucagon secretion namespace: biological_process def: "The regulated release of glucagon from secretory granules in the A (alpha) cells of the pancreas (islets of Langerhans)." [GOC:BHF, GOC:rl] is_a: GO:0030072 ! peptide hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070253 name: somatostatin secretion namespace: biological_process def: "The regulated release of somatostatin from secretory granules in the D cells of the pancreas." [GOC:mah] is_a: GO:0030072 ! peptide hormone secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070254 name: mucus secretion namespace: biological_process def: "The regulated release of mucus by the mucosa. Mucus is a viscous slimy secretion consisting of mucins and various inorganic salts dissolved in water, with suspended epithelial cells and leukocytes. The mucosa, or mucous membrane, is the membrane covered with epithelium that lines the tubular organs of the body. Mucins are carbohydrate-rich glycoproteins that have a lubricating and protective function." [GOC:add, ISBN:068340007X, ISBN:0721662544] synonym: "mucus production" EXACT [GOC:add] is_a: GO:0007589 ! body fluid secretion property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070278 name: extracellular matrix constituent secretion namespace: biological_process def: "The controlled release of molecules that form the extracellular matrix, including carbohydrates and glycoproteins by a cell or a group of cells." [GOC:mah] synonym: "ECM constituent secretion" EXACT [GOC:mah] synonym: "ECM secretion" EXACT [GOC:mah] is_a: GO:0032940 ! secretion by cell relationship: part_of GO:0030198 ! extracellular matrix organization property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070293 name: renal absorption namespace: biological_process def: "A renal system process in which water, ions, glucose and proteins are taken up from the collecting ducts, glomerulus and proximal and distal loops of the nephron." [GOC:dph, GOC:mah, GOC:yaf] synonym: "nephron absorption" EXACT [GOC:mah] synonym: "renal reabsorption" EXACT [GOC:dph] is_a: GO:0003014 ! renal system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070295 name: renal water absorption namespace: biological_process def: "A renal system process in which water is taken up from the collecting ducts and proximal and distal loops of the nephron." [GOC:dph, GOC:mah] synonym: "nephron water absorption" EXACT [GOC:mah] synonym: "renal water reabsorption" EXACT [GOC:dph] is_a: GO:0003097 ! renal water transport is_a: GO:0070293 ! renal absorption property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070661 name: leukocyte proliferation namespace: biological_process def: "The expansion of a leukocyte population by cell division." [GOC:add] is_a: GO:0008283 ! cell proliferation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071625 name: vocalization behavior namespace: biological_process def: "The behavior in which an organism produces sounds by a mechanism involving its respiratory system." [GOC:mah] synonym: "vocalisation behaviour" EXACT [GOC:mah] is_a: GO:0044704 ! single-organism reproductive behavior property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071626 name: mastication namespace: biological_process def: "The process of biting and mashing food with the teeth prior to swallowing." [GOC:gvg] synonym: "chewing" EXACT [GOC:mah] is_a: GO:0022600 ! digestive system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071702 name: organic substance transport namespace: biological_process def: "The directed movement of organic substances into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore. An organic substance is a molecular entity that contains carbon." [CHEBI:50860, GOC:mah] is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071704 name: organic substance metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon." [CHEBI:50860, GOC:mah] synonym: "organic molecular entity metabolic process" EXACT [] synonym: "organic molecular entity metabolism" EXACT [] synonym: "organic substance metabolism" EXACT [] is_a: GO:0044710 ! single-organism metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071705 name: nitrogen compound transport namespace: biological_process def: "The directed movement of nitrogen-containing compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [CHEBI:51143, GOC:mah] is_a: GO:0006810 ! transport property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071840 name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0044763 ! single-organism cellular process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0072175 name: epithelial tube formation namespace: biological_process def: "The developmental process pertaining to the initial formation of an epithelial tube." [GOC:mtg_kidney_jan10] is_a: GO:0035148 ! tube formation relationship: part_of GO:0060562 ! epithelial tube morphogenesis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0072358 name: cardiovascular system development namespace: biological_process def: "The process whose specific outcome is the progression of the cardiovascular system over time, from its formation to the mature structure. The cardiovascular system is the anatomical system that has as its parts the heart and blood vessels." [GOC:mah, UBERON:0004535] is_a: GO:0048731 ! system development relationship: part_of GO:0072359 ! circulatory system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0072359 name: circulatory system development namespace: biological_process def: "The process whose specific outcome is the progression of the circulatory system over time, from its formation to the mature structure. The circulatory system is the organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis." [GOC:mah, UBERON:0001009] is_a: GO:0048731 ! system development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0072507 name: divalent inorganic cation homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of divalent cations within an organism or cell." [GOC:mah] comment: Note that this term was split from 'di-, tri-valent inorganic cation homeostasis ; GO:0055066' (sibling term 'trivalent inorganic cation homeostasis' ; GO:0072508'). subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0055080 ! cation homeostasis property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0080134 name: regulation of response to stress namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to stress. Response to stress is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:dhl] is_a: GO:0048583 ! regulation of response to stimulus relationship: regulates GO:0006950 ! response to stress property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0097205 name: renal filtration namespace: biological_process def: "A renal system process in which fluid circulating through the body is filtered through a barrier system." [GOC:pr, GOC:sart] is_a: GO:0003014 ! renal system process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901135 name: carbohydrate derivative metabolic process namespace: biological_process def: "The chemical reactions and pathways involving carbohydrate derivative." [GOC:TermGenie] synonym: "carbohydrate derivative metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901137 name: carbohydrate derivative biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of carbohydrate derivative." [GOC:TermGenie] synonym: "carbohydrate derivative anabolism" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative biosynthesis" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative formation" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative synthesis" EXACT [GOC:TermGenie] is_a: GO:1901135 ! carbohydrate derivative metabolic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901360 name: organic cyclic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901362 name: organic cyclic compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound anabolism" EXACT [GOC:TermGenie] synonym: "organic cyclic compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organic cyclic compound formation" EXACT [GOC:TermGenie] synonym: "organic cyclic compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901564 name: organonitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organonitrogen compound." [GOC:TermGenie, GOC:pr] synonym: "organonitrogen compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901566 name: organonitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organonitrogen compound." [GOC:TermGenie, GOC:pr] synonym: "organonitrogen compound anabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organonitrogen compound formation" EXACT [GOC:TermGenie] synonym: "organonitrogen compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:TermGenie, GOC:pr] synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] synonym: "organic molecular entity formation" EXACT [GOC:TermGenie] synonym: "organic molecular entity synthesis" EXACT [GOC:TermGenie] synonym: "organic substance anabolism" EXACT [] synonym: "organic substance biosynthesis" EXACT [] synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901615 name: organic hydroxy compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic hydroxy compound." [GOC:TermGenie, GOC:pr] synonym: "organic hydroxy compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:1901700 name: response to oxygen-containing compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an oxygen-containing compound stimulus." [GOC:TermGenie, GOC:pr] synonym: "response to oxygen molecular entity" EXACT [] is_a: GO:0042221 ! response to chemical stimulus property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:2000026 name: regulation of multicellular organismal development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of multicellular organismal development." [GOC:obol] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0051239 ! regulation of multicellular organismal process relationship: regulates GO:0007275 ! multicellular organismal development property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:2000070 name: regulation of response to water deprivation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of response to water deprivation." [GOC:obol] synonym: "regulation of drought tolerance" RELATED [GOC:obol] synonym: "regulation of response to dehydration" EXACT [GOC:obol] synonym: "regulation of response to drought" EXACT [GOC:obol] synonym: "regulation of response to thirst" EXACT [GOC:obol] is_a: GO:0080134 ! regulation of response to stress relationship: regulates GO:0009414 ! response to water deprivation property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:2000241 name: regulation of reproductive process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0050789 ! regulation of biological process relationship: regulates GO:0022414 ! reproductive process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: CS03 name: CS03 namespace: carnegie_stage is_a: UBERON:0000480 ! anatomical group [Term] id: CL:0000000 name: cell namespace: cell def: "Anatomical structure that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." [CARO:mah] comment: The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 [Term] id: CL:0000001 name: primary cultured cell namespace: cell def: "A cultured cell that is freshly isolated from some source organism and not yet passaged." [ReO:mhb] comment: Covers cells actively being cultured or stored in a quiescent state for future use. synonym: "primary cell culture cell" EXACT [] synonym: "primary cell line cell" RELATED [] synonym: "unpassaged cultured cell" EXACT [] xref: BTO:0002290 is_a: CL:0000010 ! cultured cell [Term] id: CL:0000002 name: immortal cell line cell namespace: cell def: "A cell line cell that is expected to be capable of an unlimited number of divisions, and is thus able to support indefinite growth/propagation in vitro as part of a immortal cell line." [ReO:mhb] comment: Covers cells actively being cultured or stored in a quiescent state for future use. synonym: "continuous cell line cell" EXACT [] synonym: "permanent cell line cell" EXACT [] is_a: CL:0007014 ! cell line cell [Term] id: CL:0000003 name: cell in vivo namespace: cell def: "A cell that is found in a natural setting, which includes multicellular organism cells 'in vivo' (i.e. part of an organism), and unicellular organisms 'in environment' (i.e. part of a natural environment)." [CARO:mah] comment: To accommodate unicellular organisms better, 'cell in vivo' has been re-labeled 'native cell' to better represent its intended meaning - that is, that it is a cell in the context of a multicellular organism or in a natural environment. 'Native' is intended to contrast with 'in vitro', which refers to cells or other biological entities that have been intentionally placed in a controlled, non-natural setting for the purpose of study or manipulation. (MAH 1.12.12). subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cell in vivo" NARROW [] xref: CARO:0000013 is_a: CL:0000000 ! cell [Term] id: CL:0000004 name: cell by organism namespace: cell def: "A classification of cells by the organisms within which they are contained." [FB:ma] is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell can be classified by its species. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. [Term] id: CL:0000005 name: fibroblast neural crest derived namespace: cell is_a: CL:0000057 ! fibroblast relationship: develops_from CL:0000008 ! migratory cranial neural crest cell [Term] id: CL:0000006 name: neuronal receptor cell namespace: cell synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] is_a: CL:0000197 ! receptor cell is_a: CL:0000540 ! neuron [Term] id: CL:0000007 name: early embryonic cell namespace: cell def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] is_a: CL:0002321 ! embryonic cell [Term] id: CL:0000008 name: migratory cranial neural crest cell namespace: cell is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000009 name: fusiform initial namespace: cell alt_id: CL:0000274 def: "Obsolete. Use PO:0000079 from Plant Ontology instead. An elongated cell with approximately wedge-shaped ends, found in the vascular cambium, which gives rise to the elements of the axial system in the secondary vascular tissues." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000079 synonym: "xylem initial" RELATED [] synonym: "xylem mother cell" RELATED [] [Term] id: CL:0000010 name: cultured cell namespace: cell def: "A cell in vitro that is or has been maintained or propagated as part of a cell culture." [ReO:mhb] comment: Covers cells actively being cultured or stored in a quiescent state for future use. The class has been re-labeled to 'cultured cell' instead of 'cell line cell', as this class intends to cover cultured cells of multicellular and unicellular organisms, and both immortal and mortal cultured cells. 'Cell line' has different meanings to different people, in some cases referring to a culture that has been passaged, and in others referring to cultures that are immortal. 'Cell line cell' is included, however, as a narrow synonym. synonym: "cell line cell" NARROW [] is_a: CL:0000578 ! experimentally modified cell in vitro [Term] id: CL:0000011 name: migratory trunk neural crest cell namespace: cell is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000012 name: cell by class namespace: cell is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell can be classified. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000013 name: dentine secreting cell namespace: cell is_obsolete: true consider: CL:0000140 ! odontocyte [Term] id: CL:0000014 name: germ line stem cell namespace: cell synonym: "germline stem cell" EXACT [] is_a: CL:0000034 ! stem cell is_a: CL:0000039 ! germ line cell [Term] id: CL:0000015 name: male germ cell namespace: cell xref: FMA:72290 xref: MA:0002765 xref: VHOG:0001531 xref: ncithesaurus:Spermatogenic_Cell is_a: CL:0000586 ! germ cell [Term] id: CL:0000016 name: male germ line stem cell namespace: cell is_a: CL:0000014 ! germ line stem cell is_a: CL:0000015 ! male germ cell [Term] id: CL:0000017 name: spermatocyte namespace: cell def: "A male germ cell that develops from spermatogonia. The euploid primary spermatocytes undergo meiosis and give rise to the haploid secondary spermatocytes which in turn give rise to spermatids." [GOC:tfm, MESH:A05.360.490.890.880] xref: BTO:0001275 xref: EMAPA:31484 xref: FBbt:00004936 xref: FMA:84049 xref: WBbt:0006799 is_a: CL:0000015 ! male germ cell is_a: CL:0002625 ! seminiferous tubule epithelial cell relationship: develops_from CL:0000020 ! spermatogonium [Term] id: CL:0000018 name: spermatid namespace: cell def: "A male germ cell that develops from the haploid secondary spermatocytes. Without further division, spermatids undergo structural changes and give rise to spermatozoa." [MESH:A05.360.490.890.860] synonym: "nematoblast" EXACT [] xref: BTO:0001274 xref: EMAPA:31486 xref: FBbt:00004942 xref: FMA:72294 xref: WBbt:0006800 is_a: CL:0000015 ! male germ cell is_a: CL:0000413 ! haploid cell is_a: CL:0002625 ! seminiferous tubule epithelial cell relationship: develops_from CL:0000657 ! secondary spermatocyte [Term] id: CL:0000019 name: sperm namespace: cell def: "A mature male germ cell that develops from a spermatid." [GOC:tfm, MESH:A05.360.490.890] synonym: "sperm cell" EXACT [] synonym: "spermatozoid" EXACT [] synonym: "spermatozoon" EXACT [] xref: BTO:0001277 xref: BTO:0002046 xref: FBbt:00004954 xref: FMA:67338 xref: WBbt:0006798 is_a: CL:0000219 ! motile cell is_a: CL:0000408 ! male gamete relationship: develops_from CL:0000018 ! spermatid [Term] id: CL:0000020 name: spermatogonium namespace: cell def: "An euploid male germ cell of an early stage of spermatogenesis." [MESH:A05.360.490.890.900] xref: BTO:0000958 xref: EMAPA:31482 xref: FBbt:00004935 xref: FMA:72291 is_a: CL:0000015 ! male germ cell is_a: CL:0002625 ! seminiferous tubule epithelial cell [Term] id: CL:0000021 name: female germ cell namespace: cell def: "Female germ cell is a germ cell that supports female gamete production." [GOC:tfm, PMID:11023867, PMID:20454446] xref: MA:0000388 xref: VHOG:0001530 xref: ncithesaurus:Egg is_a: CL:0000586 ! germ cell [Term] id: CL:0000022 name: female germ line stem cell namespace: cell is_a: CL:0000014 ! germ line stem cell is_a: CL:0000021 ! female germ cell [Term] id: CL:0000023 name: oocyte namespace: cell def: "A female germ cell that has entered meiosis." [GOC:tfm, ISBN:0721662544] synonym: "oogonium" RELATED [] xref: BTO:0000964 xref: FBbt:00004886 xref: FMA:18644 xref: WBbt:0006797 is_a: CL:0000021 ! female germ cell [Term] id: CL:0000024 name: oogonial cell namespace: cell def: "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." [GOC:tfm, ISBN:0721662544] xref: FMA:83673 is_a: CL:0000021 ! female germ cell relationship: develops_from CL:0000670 ! primordial germ cell [Term] id: CL:0000025 name: egg namespace: cell def: "A female gamete where meiosis has progressed to metaphase II and is able to participate in fertilization." [GOC:tfm, ISBN:0721662544] synonym: "mature oocyte" EXACT [] synonym: "ovum" EXACT [] xref: BTO:0000369 xref: BTO:0003801 xref: FBbt:00000034 xref: FMA:67343 xref: MA:0000388 is_a: CL:0000023 ! oocyte is_a: CL:0000675 ! female gamete relationship: develops_from CL:0000655 ! secondary oocyte [Term] id: CL:0000026 name: invertebrate nurse cell namespace: cell def: "A germline cell that contributes to the development of the oocyte by transferring cytoplasm directly to oocyte." [GOC:tfm, PMID:15848391] synonym: "nurse cell" RELATED [] xref: BTO:0000953 xref: FBbt:00004878 is_a: CL:0000039 ! germ line cell is_a: CL:0000412 ! polyploid cell relationship: develops_from CL:0000722 ! cystoblast [Term] id: CL:0000027 name: smooth muscle cell neural crest derived namespace: cell is_a: CL:0000192 ! smooth muscle cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0000028 name: CNS neuron (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000540 ! neuron relationship: develops_from CL:0000338 ! neuroblast (sensu Nematoda and Protostomia) [Term] id: CL:0000029 name: neuron neural crest derived namespace: cell is_a: CL:0000540 ! neuron relationship: develops_from CL:0000333 ! migratory neural crest cell relationship: develops_from CL:0002676 ! neural crest derived neuroblast [Term] id: CL:0000030 name: glioblast namespace: cell xref: FBbt:00005145 is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000031 name: neuroblast namespace: cell xref: BTO:0000930 xref: FBbt:00005146 xref: FMA:70563 is_a: CL:0000047 ! neuronal stem cell is_a: CL:0000055 ! non-terminally differentiated cell [Term] id: CL:0000032 name: neuroplacodal cell namespace: cell def: "A cell of a platelike structure, especially a thickened plate of ectoderm in the early embryo, from which a sense organ develops." [GOC:tfm, ISBN:0618947256] synonym: "neural placode cell" EXACT [] is_a: CL:0002321 ! embryonic cell relationship: develops_from CL:0000114 ! surface ectodermal cell [Term] id: CL:0000033 name: apocrine cell namespace: cell def: "An apocrine cell is a secretory cell characterized loss of part of the cytoplasm during the process of secretion - secretions are budded off through the plasma membrane producing membrane bound vesicles containing the secreted substance." [GOC:tfm, ISBN:0721662544] is_a: CL:0000151 ! secretory cell [Term] id: CL:0000034 name: stem cell namespace: cell def: "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:tfm, MESH:A.11.872, MESH:A11.872] xref: FMA:63368 is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000035 name: single fate stem cell namespace: cell def: "A stem cell that self-renews as well as give rise to a single mature cell type." [GOC:tfm] synonym: "unipotent stem cell" EXACT [] synonym: "unipotential stem cell" EXACT [] xref: FMA:70569 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0000036 name: epithelial fate stem cell namespace: cell is_a: CL:0000035 ! single fate stem cell [Term] id: CL:0000037 name: hematopoietic stem cell namespace: cell def: "A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119." [GOC:add, GOC:dsd, GOC:tfm, PMID:19022770, http://en.wikipedia.org/wiki/Hematopoietic_stem_cell] comment: Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative. synonym: "HSC" EXACT [] synonym: "blood forming stem cell" EXACT [] synonym: "colony forming unit hematopoietic" RELATED [] synonym: "hemopoietic stem cell" EXACT [] xref: BTO:0000725 xref: FMA:70337 xref: FMA:86475 xref: VHOG:0001485 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0000566 ! angioblastic mesenchymal cell [Term] id: CL:0000038 name: erythroid progenitor cell namespace: cell def: "A progenitor cell committed to the erythroid lineage. This cell is ter119-positive but lacks expression of other hematopoietic lineage markers (lin-negative)." [GOC:add, ISBN:0721601464] synonym: "BFU-E" RELATED [] synonym: "CFU-E" RELATED [] synonym: "blast forming unit erythroid" RELATED [] synonym: "burst forming unit erythroid" RELATED [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 ! myeloid lineage restricted progenitor cell relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0000039 name: germ line cell namespace: cell def: "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." [GOC:tfm, ISBN:0721662544] comment: Originally this term had some plant germ line cell children. subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" is_a: CL:0000548 ! animal cell [Term] id: CL:0000040 name: monoblast namespace: cell def: "A myeloid progenitor cell committed to the monocyte lineage. This cell is CD11b-positive, has basophilic cytoplasm, euchromatin, and the presence of a nucleolus." [GOC:add, PMID:1104740, http://en.wikipedia.org/wiki/Monoblast, http://www.copewithcytokines.de] comment: Morphology: mononuclear cell, diameter 12-20 _M, non-granular, N/C ratio 3/1 - 4/1; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; fetal: liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. synonym: "CFU-M" RELATED [] synonym: "colony forming unit macrophage" RELATED [] synonym: "colony forming unit monocyte" RELATED [] synonym: "monocyte stem cell" RELATED [] xref: FMA:83553 is_a: CL:0002194 ! monopoietic cell relationship: develops_from CL:0002009 ! macrophage dendritic cell progenitor [Term] id: CL:0000041 name: mature eosinophil namespace: cell def: "A fully differentiated eosinophil, a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin. Cells are also differentiated from other granulocytes by a small nuclear-to-cytoplasm ratio (1:3). This cell type is CD49d-positive." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, http://www.cap.org] comment: Eosinophils are CD125-positive (IL-5R), GM-CSFR-positive, IL-3R-positive, VLA4-positive. They can also express MHC Class I & II, CD4, CD9, CD11a, CD11b, CD11c, CD13, CD15, CD16, CD17, CD18, CD24, CD25,CD28, CD29, CD32, CD33, CD35, CD37, CD39, CD43, CD44, CD45, CD45RB, CD45RO, CD46, CD47, CD48, CD49d, CD49f, CD50, CD52, CD53, CD54, CD55, CD58, CD59, CD62L, CD63, CD65, CD66, CD69, CD71, CD76, CD80, CD81, CD82, CD86, CD87, CD88, CD89, CD92, CD95, CD97, CD98, CD99, CD100, CD101, CD116, CD117, CD119, CD120, CD123, CD124, CD125, CD131, CD137, CD139, CD148, CD149, CD151, CD153, CD156, CD162, CD161, CD162, CD165, CD174, CD182, CD183, CD191, CD192, CD193, CD196, CD213, IL9R, ad integrin, beta-7 integrin, FceRI, IL13Ra1, TGFbR, PAFR, LTB4R, C3aR, CystLT1R, CystLT2R, fMLPR, CRTH2 (PGD2 receptor), histamine 4R, IDO, KYN, PAR-2, Siglec-8, Siglec-10, LIR1, LIR2, LIR3, LIR7, TLR7, TLR8, and VLA-4. Eosinophils can also secrete CXCL1, eotaxin-1, GM-CSF, IL-2, IL-3, IL-4, IL-5, IL-6, IL-8, IL-10, IL-12, IL-13, IL-16, IL-18, IFN-gamma, LTC4, MIP-1alpha, NGF, PAF, RANTES, substance P, TGF-alpha, TGF-beta, TNF-alpha, and VIP. synonym: "mature eosinocyte" EXACT [] synonym: "mature eosinophil leucocyte" EXACT [] synonym: "mature eosinophil leukocyte" EXACT [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] is_a: CL:0000771 ! eosinophil is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000774 ! band form eosinophil [Term] id: CL:0000042 name: neutrophilic myeloblast namespace: cell def: "A myeloblast committed to the neutrophil lineage. This cell type is GATA-1 positive, C/EBPa-positive, AML-1-positive, c-myb-positive and has low expression of PU.1 transcription factor." [GOC:add, ISBN:0721601464, PMID:12560239, PMID:15514007] comment: These cells are CD11b-negative, CD15-negative, CD16-negative, CD35-negative, CD49d-positive, CD68-positive, lactotransferrin-negative, and fMLP receptor-negative. They are found in the Band 3 fraction. synonym: "neutrophilic granuloblast" RELATED [] is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000835 ! myeloblast relationship: develops_from CL:0000834 ! neutrophil progenitor cell [Term] id: CL:0000043 name: mature basophil namespace: cell alt_id: CL:0000739 def: "A fully differentiated basophil, a granular leukocyte with an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, PMID:18466030, PMID:19231594, PMID:20837449, http://www.cap.org] comment: Mature basophils are also capable of producing IL-3, IL-5, IL-6, IL-8, IL-13, IL-25, CCL22, tslp, vegf, and LTC4. synonym: "mature basophil leucocyte" EXACT [] synonym: "mature basophil leukocyte" EXACT [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] xref: BTO:0001026 is_a: CL:0000767 ! basophil is_a: CL:0002242 ! nucleate cell is_a: CL:0002274 ! histamine secreting cell relationship: develops_from CL:0000770 ! band form basophil [Term] id: CL:0000045 name: thymus processed stem cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Consider using term 'pro-T cell ; CL:0000827' or the term 'thymocyte ; CL:0000893' or one of its children instead. [Term] id: CL:0000046 name: bursa processed stem cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Consider using term 'pro-B cell ; CL:0000826' or the term 'immature B cell ; CL:0000816 or one of its children instead. [Term] id: CL:0000047 name: neuronal stem cell namespace: cell def: "Neural stem cell is characterized as an undifferentiated cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple types of lineage-restricted progenitors." [GOC:tfm, MESH:D058953, PMID:15247488, http://en.wikipedia.org/wiki/Neural_stem_cell] synonym: "NSC" EXACT [] synonym: "neural stem cell" EXACT [] xref: BTO:0002881 xref: FMA:86684 is_a: CL:0000048 ! multi fate stem cell relationship: develops_from CL:0000133 ! neurectodermal cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000048 name: multi fate stem cell namespace: cell def: "A stem cell that can give rise to multiple lineages of cells." [GOC:add] synonym: "multi-fate stem cell" EXACT [] synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0000049 name: common myeloid progenitor namespace: cell def: "A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages. These cells are CD34-positive, and express Gata1, Gata2, C/EBPa, and Pu.1." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0878932437, MESH:D023461, PMCID:PMC2212039, PMID:10724173, PMID:16551251, PMID:16647566, http://en.wikipedia.org/wiki/Common_myeloid_progenitor] comment: CMP are reportedly CD16-positive, CD32-positive, CD38-positive, CD45RA-negative, CD110-negative, CD117-positive, CD123-positive, and SCA1-negative. synonym: "CFU-GEMM" RELATED [ISBN:0878932437] synonym: "CFU-S" RELATED [ISBN:0878932437] synonym: "CMP" EXACT [ISBN:0878932437] synonym: "colony forming unit granulocyte, erythrocyte, macrophage, and megakaryocyte" RELATED [ISBN:0878932437] synonym: "common myeloid precursor" EXACT [] synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell [Term] id: CL:0000050 name: megakaryocyte-erythroid progenitor cell namespace: cell def: "A progenitor cell committed to the megakaryocyte and erythroid lineages." [GOC:add, GOC:dsd, GOC:tfm, MESH:D055015, PMID:16647566, http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell] comment: MEPs are reportedly CD19-negative, CD34-negative, CD45RA-negative, CD110-positive, CD117-positive, and SCA1-negative and reportedly express the transcription factors GATA-1 and NF-E2. synonym: "CFU-EM" EXACT [] synonym: "CFU-MegE" EXACT [] synonym: "MEP" EXACT [] synonym: "Meg/E progenitor" EXACT [] synonym: "colony forming unit erythroid megakaryocyte" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell relationship: develops_from CL:0000049 ! common myeloid progenitor [Term] id: CL:0000051 name: common lymphoid progenitor namespace: cell alt_id: CL:0000044 def: "A oligopotent progenitor cell committed to the lymphoid lineage." [GOC:add, GOC:dsd, GOC:tfm, PMID:10407577, PMID:16551251] comment: CLP are CD7-positive, CD10-positive, CD19-negative, CD34-positive, CD45RA-positive, CD79a-negative, CD127-positive, AA4.1-positive, RAG-negative, Sca-1-low, sIgM-negative, sIgD-negative, TdT-negative, Vpre-B-negative, and pre-BCR-negative. Expression of transcription factors include E2A-positive, EBF-positive, Ikaros-negative, PU.1-negative, and Pax5-negative. synonym: "CLP" EXACT [] synonym: "ELP" RELATED [] synonym: "committed lymphopoietic stem cell" RELATED [] synonym: "common lymphocyte precursor" EXACT [] synonym: "common lymphocyte progenitor" EXACT [] synonym: "common lymphoid precursor" EXACT [] synonym: "early lymphocyte progenitor" RELATED [] synonym: "lymphoid stem cell" RELATED [] synonym: "lymphopoietic stem cell" RELATED [] is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell [Term] id: CL:0000052 name: totipotent stem cell namespace: cell def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0000054 name: bone matrix secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000055 name: non-terminally differentiated cell namespace: cell def: "A precursor cell with a limited number of potential fates." [SANBI:mhl] comment: define using PATO mulit-potent or oligopotent? synonym: "blast cell" RELATED [] xref: BTO:0000125 xref: FMA:84782 is_a: CL:0000003 ! cell in vivo is_a: CL:0000012 ! cell by class ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000056 name: myoblast namespace: cell def: "A precursor cell of the myogenic lineage that develops from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes." [GOC:tfm, MESH:A11.635] xref: BTO:0000222 xref: FBbt:00005083 xref: FMA:70335 xref: VHOG:0001529 is_a: CL:0000680 ! muscle precursor cell relationship: develops_from CL:0000355 ! muscle stem cell [Term] id: CL:0000057 name: fibroblast namespace: cell def: "A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped." [ISBN:0517223651, MESH:A.11.329.228, MESH:A11.329.228, MESH:D005347, http://63.198.234.228/OpenFMA/Fibroblast.html, http://en.wikipedia.org/wiki/Fibroblast] comment: These cells may be vimentin-positive, fibronectin-positive, fsp1-positive, MMP-1-positive, collagen I-positive, collagen III-positive, and alpha-SMA-negative. xref: BTO:0000452 xref: FMA:63877 xref: VHOG:0001482 is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000058 name: chondroblast namespace: cell def: "An immature cartilage-producing cell found in growing cartilage." [GOC:tfm, GO_REF:0000034, ISBN:0618947256] synonym: "chrondoplast" RELATED [] xref: BTO:0003607 xref: FMA:66783 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000667 ! collagen secreting cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0007009 ! prechondroblast [Term] id: CL:0000059 name: ameloblast namespace: cell alt_id: CL:0000053 alt_id: CL:0000139 def: "Skeletogenic cell that produces enamel, overlies the odontogenic papilla, and arises from the differentiation of a preameloblast cell." [GOC:tfm, GO_REF:0000034, MESH:A11.436.107] comment: non-encoded relationship from VSAO produces VSAO:0000066 synonym: "amelocyte" EXACT [] synonym: "enamel secreting cell" EXACT [] xref: BTO:0001663 xref: FMA:70576 is_a: CL:0000146 ! simple columnar epithelial cell is_a: CL:0000151 ! secretory cell relationship: develops_from CL:0007000 ! preameloblast relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0000060 name: odontoblast namespace: cell def: "Skeletogenic cell that secretes dentine matrix, is derived from the odontogenic papilla, and develops from a preodontoblast cell." [GO_REF:0000034, ISBN:0618947256] comment: legacy def: One of the cells forming the outer surface of dental pulp that produces tooth dentin. xref: BTO:0001769 xref: FMA:62999 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002159 ! general ecto-epithelial cell relationship: develops_from CL:0007003 ! preodontoblast relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0000061 name: cementoblast namespace: cell alt_id: CL:0000859 def: "Skeletogenic cell that produces cementum (a bony substance that covers the root of a tooth), is part of the odontogenic papilla, and develops from a precementoblast cell." [GO_REF:0000034, ISBN:0781733901] comment: Legacy def: A cell of ectomesenchymal origin that aids in the formation the cementum layer on the roots of teeth. synonym: "cementum secreting cell" EXACT [] xref: FMA:63002 is_a: CL:0000062 ! osteoblast is_a: CL:0000151 ! secretory cell relationship: develops_from CL:0007002 ! precementoblast relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0000062 name: osteoblast namespace: cell def: "A bone-forming cell which secretes an extracellular matrix. Hydroxyapatite crystals are then deposited into the matrix to form bone." [GO_REF:0000034, MESH:A.11.329.629, MESH:A11.329.629] comment: non-encoded relationships from VSAO - capable_of_producing VSAO:0000020 xref: BTO:0001593 xref: FMA:66780 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0007010 ! preosteoblast [Term] id: CL:0000063 name: cell by histology namespace: cell def: "A classification of cells by their microscopic appearance." [FB:ma, GOC:tfm] is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell can be classified by its microscopic appearance. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. is_a: CL:0000012 ! cell by class ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000064 name: ciliated cell namespace: cell def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] xref: VHOG:0001532 xref: XAO:0000031 is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000065 name: ependymal cell namespace: cell def: "A neurectoderm derived cell that lines the neural lumen." [GOC:tfm, JB:jb, PMID:9550134] synonym: "ependymocyte" EXACT [] xref: BTO:0001724 xref: FMA:70550 is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000066 name: epithelial cell namespace: cell def: "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." [FB:ma, GOC:tfm, MESH:A.11.436, MESH:A11.436] synonym: "Epitheliocyte" RELATED [] synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CARO:0000077 xref: FBbt:00000124 xref: FMA:66768 xref: WBbt:0003672 is_a: CL:0000063 ! cell by histology ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" is_a: CL:0000548 ! animal cell [Term] id: CL:0000067 name: ciliated epithelial cell namespace: cell def: "An epithelial cell that has a cillia." [GOC:tfm] xref: FMA:70605 is_a: CL:0000064 ! ciliated cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000068 name: duct epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000069 name: branched duct epithelial cell namespace: cell is_a: CL:0000068 ! duct epithelial cell [Term] id: CL:0000070 name: epithelial cell of gland namespace: cell is_obsolete: true [Term] id: CL:0000071 name: blood vessel endothelial cell namespace: cell def: "An endothelial cell that lines the vasculature." [GOC:tfm] synonym: "Cuboidal endothelial cell of vascular tree" RELATED [] synonym: "cuboidal endothelial cell of vascular tree" EXACT [] is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree relationship: develops_from CL:0002546 ! embryonic blood vessel endothelial progenitor cell relationship: part_of UBERON:0004638 ! blood vessel endothelium [Term] id: CL:0000072 name: non-branched duct epithelial cell namespace: cell is_a: CL:0000068 ! duct epithelial cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0000073 name: barrier epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000074 name: epithem cell namespace: cell def: "Obsolete. Use PO:0000066 from Plant Ontology instead. A cell that constitutes the mesophyll of a hydathode and is located between the xylem endings and the epidermis. Proposed to be involved in the retrieval of solutes from the xylem sap." [ISBN:0471245208, PMID:12662305] is_obsolete: true comment: replaced_by: PO:0000066 [Term] id: CL:0000075 name: columnar/cuboidal epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000076 name: squamous epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell [Term] id: CL:0000077 name: mesothelial cell namespace: cell def: "A flattened epithelial cell of mesenchymal origin that lines the serous cavity." [GOC:tfm, ISBN:0721662544] synonym: "mesotheliocyte" EXACT [] xref: FMA:66773 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000213 ! lining cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0000078 name: peridermal cell namespace: cell is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000079 name: stratified epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000357 ! stratified epithelial stem cell [Term] id: CL:0000080 name: circulating cell namespace: cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" relationship: part_of UBERON:0000179 ! haemolymphatic fluid [Term] id: CL:0000081 name: blood cell namespace: cell def: "A cell found predominately in the blood." [GOC:add, GOC:tfm] xref: FMA:62844 is_a: CL:0000988 ! hematopoietic cell [Term] id: CL:0000082 name: epithelial cell of lung namespace: cell xref: BTO:0004299 is_a: CL:0000066 ! epithelial cell relationship: part_of UBERON:0000115 ! lung epithelium relationship: part_of UBERON:0002048 ! lung [Term] id: CL:0000083 name: epithelial cell of pancreas namespace: cell def: "An epithelial cell of the pancreas." [GOC:tfm] xref: BTO:0000028 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000223 ! endodermal cell relationship: part_of UBERON:0001264 ! pancreas [Term] id: CL:0000084 name: T cell namespace: cell alt_id: CL:0000804 alt_id: CL:0000812 def: "A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "T lymphocyte" EXACT [] synonym: "T-cell" EXACT [] synonym: "T-lymphocyte" EXACT [] synonym: "immature T cell" RELATED [] synonym: "mature T cell" RELATED [] xref: BTO:0000782 xref: FMA:62870 xref: VHOG:0001479 is_a: CL:0000542 ! lymphocyte relationship: develops_from CL:0000827 ! pro-T cell [Term] id: CL:0000085 name: germ line stem cell (sensu Vertebrata) namespace: cell is_a: CL:0000014 ! germ line stem cell [Term] id: CL:0000086 name: germ line stem cell (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00004861 is_a: CL:0000014 ! germ line stem cell [Term] id: CL:0000087 name: male germ line stem cell (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00004929 is_a: CL:0000016 ! male germ line stem cell is_a: CL:0000086 ! germ line stem cell (sensu Nematoda and Protostomia) [Term] id: CL:0000088 name: female germ line stem cell (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00004873 is_a: CL:0000022 ! female germ line stem cell is_a: CL:0000086 ! germ line stem cell (sensu Nematoda and Protostomia) [Term] id: CL:0000089 name: male germ line stem cell (sensu Vertebrata) namespace: cell is_a: CL:0000016 ! male germ line stem cell is_a: CL:0000085 ! germ line stem cell (sensu Vertebrata) [Term] id: CL:0000090 name: female germ line stem cell (sensu Vertebrata) namespace: cell is_a: CL:0000022 ! female germ line stem cell is_a: CL:0000085 ! germ line stem cell (sensu Vertebrata) [Term] id: CL:0000091 name: Kupffer cell namespace: cell def: "A tissue-resident macrophage of the reticuloendothelial system found on the luminal surface of the hepatic sinusoids involved in erythrocyte clearance. Markers include F4/80+, CD11b-low, CD68-positive, sialoadhesin-positive, CD163/SRCR-positive. Irregular, with long processes including lamellipodia extending into the sinusoid lumen, have flattened nucleus with cytoplasm containing characteristic invaginations of the plasma membrane (vermiform bodies); lie within the sinusoid lumen attached to the endothelial surface; derived from the bone marrow, form a major part of the body's mononuclear phagocyte system." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0517223651, MESH:A11.329.372.588, PMID:15771589, PMID:17105582] comment: Markers: Mouse: F4/80+, CD11b-low, CD68+, sialoadhesin+, CD163/SRCR+; role or process: immune, antigen-presentation, clearance of senescent erythrocytes, iron metabolism. Kupffer cells are also reportedly C3aR-positive, CD14-low, CD54-positive, CD88-positive, and CD284-positive. They are also capable of producing IL-1, IL-6, TNF-alpha, nitric oxide, PGD2, PGE2, PGF2alpha, and TXA2. synonym: "hepatic macrophage" EXACT [] synonym: "littoral cell of hepatic sinusoid" EXACT [] synonym: "liver macrophage" EXACT [] synonym: "macrophagocytus stellatus" EXACT [] synonym: "stellate cell of von Kupffer" EXACT [] synonym: "von Kupffer cell" EXACT [] xref: BTO:0000685 xref: FMA:14656 is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0001281 ! hepatic sinusoid [Term] id: CL:0000092 name: osteoclast namespace: cell def: "A specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue, which typically differentiates from monocytes. This cell has the following markers: tartrate-resistant acid phosphatase type 5-positive, PU.1-positive, c-fos-positive, nuclear factor NF-kappa-B p100 subunit-positive, tumor necrosis factor receptor superfamily member 11A-positive and macrophage colony-stimulating factor 1 receptor-positive." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149, PMID:10428500, PMID:15055519, PMID:17380158] comment: Morphology: Highly vesicular; markers: Surface: RANK, cFMS (MCSF receptor); Secreted: cathepsin K and TRAP (tartate resistant acid phosphatase); transcription factors: PU.1, cFOS, MITF, NFkB (p52); role or process: tissue remodelling: bone resorption; lineage: hematopoietic, myeloid. synonym: "chondroclast" RELATED [] xref: BTO:0000968 xref: FMA:66781 is_a: CL:0000766 ! myeloid leukocyte is_a: CL:0001035 ! bone cell relationship: develops_from CL:0000576 ! monocyte relationship: part_of UBERON:0001474 ! bone element [Term] id: CL:0000093 name: osteochondroclast namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Consider using 'osteoclast ; CL:0000092' instead. [Term] id: CL:0000094 name: granulocyte namespace: cell def: "A leukocyte with abundant granules in the cytoplasm." [GOC:amm, GOC:tfm, MESH:A11.118.637.415, MESH:D006098, http://en.wikipedia.org/wiki/Granulocyte] synonym: "granular leucocyte" EXACT [] synonym: "granular leukocyte" EXACT [] synonym: "polymorphonuclear leukocyte" EXACT [] xref: BTO:0000539 xref: BTO:0001026 xref: FMA:62854 is_a: CL:0000081 ! blood cell is_a: CL:0000766 ! myeloid leukocyte [Term] id: CL:0000095 name: neuron associated cell namespace: cell is_a: CL:0002319 ! neural cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000096 name: mature neutrophil namespace: cell def: "A fully differentiated neutrophil, a granular leukocyte having a nucleus with three to five lobes connected by slender threads, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes. They are produced in bone marrow at a rate of 5e10-10e10/day and have a half-life of 6-8 hours. Neutrophils are CD15-positive, CD16-positive, CD32-positive, CD43-positive, CD181-positive, and CD182-positive." [GOC:add, GOC:tfm, MESH:A11.118.637.415.583, MESH:D009504, PMID:11138776, PMID:12560239, PMID:15514007, PMID:7880385, http://www.cap.org] comment: Neutrophils are also capable of secreting GRO-alpha, IL-1beta, IL-1ra, IL-3, IL-12, IP-10, MIG, MIP-1alpha, MIP-1beta, TGF-beta, TNF-alpha, VEGF, and anti-microbial peptides. They can positively influence the chemotaxis of basophils, T-cells, monocytes, macrophages, dendritic cells, and other neutrophils. Neutrophils are also CD35-positive, CD64-positive, CD89-positive, CD184-positive, and fMLP receptor-positive Ly-6G-positive (mouse), TLR2-low, TLR4-low, and lineage-negative (CD2, CD3, CD5, CD9, CD19, CD36, CD49d, CD56, CD61, CD235a (glycophorin-A)). synonym: "PMN" EXACT [] synonym: "mature neutrocyte" EXACT [] synonym: "mature neutrophil leucocyte" EXACT [] synonym: "mature neutrophil leukocyte" EXACT [] synonym: "mature neutrophilic leucocyte" EXACT [] synonym: "mature neutrophilic leukocyte" EXACT [] synonym: "poly" BROAD [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] synonym: "polymorphonuclear neutrophil" EXACT [] synonym: "polynuclear neutrophilic leucocyte" EXACT [] synonym: "polynuclear neutrophilic leukocyte" EXACT [] xref: BTO:0003473 is_a: CL:0000234 ! phagocyte is_a: CL:0000775 ! neutrophil is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000560 ! band form neutrophil [Term] id: CL:0000097 name: mast cell namespace: cell def: "A cell that is found in almost all tissues containing numerous basophilic granules and capable of releasing large amounts of histamine and heparin upon activation. Progenitors leave bone marrow and mature in connective and mucosal tissue. Mature mast cells are found in all tissues, except the bloodstream. Their phenotype is CD117-high, CD123-negative, CD193-positive, CD200R3-positive, and FceRI-high. Stem-cell factor (KIT-ligand; SCF) is the main controlling signal of their survival and development." [GOC:add, GOC:dsd, GOC:tfm, ISBN:068340007X, MESH:A11.329.427, MESH:D008407, PMCID:PMC1312421, PMCID:PMC2855166, PMID:15153310, PMID:16455980, PMID:19671378, PMID:212366338, PMID:9354811] comment: Mast cells are generally integrin beta-7-negative and positive for TLR2, TLR3, TLR4, TLR5, TLR7, TLR9, C3aR, C5aR, CR3, CR4, VEGF, FGF2, and renin. They can express MHC Class I and II on their surface. Activated murine mast cells (IgE+Antigen) were capable of expressing the following co-stimulatory molecules: CD95 (Fas), CD120b, CD137 (4-1BB), CD153 (CD30L), CD154 (CD40L), GITR, ICOSL, OX40L, PD-L1, and PD-L2. Note that there was some mouse strain variation. Mast cells have also been demonstrated to produce bFGF, CCL2, CCL4, CCL5, CCL11, CCL20, CXCL2, CXCL8, CXCL10, GM-CSF, IFN-gamma, IL-1, IL-2, IL-3, IL-8, IL-10, IL-11, IL-12, IL-13, IL-16, IL-25, IL-18, MIP-1, prostaglandin D2, SCF, TGF-beta, TNF-alpha, TSLP, VEGF, and XCL1. They express the transcription factors Transcription factors AP-1, GATA1, MITF, Notch2, PIAS3, PU.1, and STAT5. synonym: "histaminocyte" EXACT [] synonym: "labrocyte" EXACT [ISBN:0721601464] synonym: "mastocyte" EXACT [ISBN:0721601464] synonym: "tissue basophil" RELATED [ISBN:068340007X] xref: BTO:0000830 xref: FMA:66784 is_a: CL:0000766 ! myeloid leukocyte is_a: CL:0002274 ! histamine secreting cell relationship: develops_from CL:0000831 ! mast cell progenitor [Term] id: CL:0000098 name: sensory epithelial cell namespace: cell def: "A specialized epithelial cell involved in sensory perception. Restricted to special sense organs of the olfactory, gustatory, and vestibulocochlear receptor systems; contain sensory cells surrounded by supportive, non-receptive cells." [GOC:tfm, ISBN:0517223651, ISBN:0721662544] comment: The term \"neuroepithelial cell\" is used to describe both this cell type and neurecto-epithelial cell (CL:0000710). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 is_a: CL:0000066 ! epithelial cell is_a: CL:0000197 ! receptor cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000099 name: interneuron namespace: cell def: "Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions." [GOC:tfm, MESH:A.08.663.358, MESH:A08.663.358] xref: BTO:0003811 xref: FBbt:00005125 xref: FMA:67313 xref: WBbt:0005113 is_a: CL:0000540 ! neuron [Term] id: CL:0000100 name: motor neuron namespace: cell def: "An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes movement." [MESH:A08.663.655.500, PMID:16875686] synonym: "anterior horn cell" EXACT [] synonym: "motoneuron" EXACT [] xref: BTO:0000312 xref: FMA:83617 xref: WBbt:0005409 is_a: CL:0000527 ! efferent neuron [Term] id: CL:0000101 name: sensory neuron namespace: cell def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] xref: BTO:0001037 xref: FBbt:00005124 xref: FMA:84649 xref: WBbt:0005759 is_a: CL:0000526 ! afferent neuron [Term] id: CL:0000102 name: polymodal neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000103 name: bipolar neuron namespace: cell def: "A type of interneuron that has two neurites, usually an axon and a dendrite, extending from opposite poles of an ovoid cell body." [GOC:tfm, ISBN:0444009442] xref: FMA:67282 is_a: CL:0000099 ! interneuron [Term] id: CL:0000104 name: multipolar neuron namespace: cell def: "Neuron with an axon and two or more dendrites." [FMA:67287, GOC:tfm] xref: FMA:67287 is_a: CL:0000540 ! neuron [Term] id: CL:0000105 name: pseudounipolar neuron namespace: cell def: "Neuron with two neurites that are fused grossly when they protrude from the soma and bifurcate a short distance from the soma." [FMA:67305, GOC:tfm] xref: FMA:67305 is_a: CL:0000540 ! neuron [Term] id: CL:0000106 name: unipolar neuron namespace: cell def: "Neuron with one neurite that extends from the cell body." [FMA:67278, GOC:nv] xref: FMA:67278 is_a: CL:0000540 ! neuron [Term] id: CL:0000107 name: autonomic neuron namespace: cell def: "A neruon whose cell body is within an autonomic ganglion." [GOC:tfm] xref: FMA:80121 is_a: CL:0000540 ! neuron [Term] id: CL:0000108 name: cholinergic neuron namespace: cell def: "A neuron that uses acetylcholine as a vesicular neurotransmitter." [GOC:tfm] xref: BTO:0004902 xref: FMA:84796 xref: WBbt:0006840 is_a: CL:0000540 ! neuron [Term] id: CL:0000109 name: adrenergic neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000110 name: peptidergic neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000111 name: peripheral neuron namespace: cell def: "A neuron that is part of nerve found outside the central nervous system." [ISBN:0721662544] xref: FMA:84664 is_a: CL:0000540 ! neuron [Term] id: CL:0000112 name: columnar neuron namespace: cell synonym: "columnar neuron" RELATED [] is_a: CL:0000540 ! neuron [Term] id: CL:0000113 name: mononuclear phagocyte namespace: cell def: "A vertebrate phagocyte with a single nucleus." [GOC:add, GOC:tfm, ISBN:0781735149] xref: BTO:0001433 is_a: CL:0000226 ! single nucleate cell is_a: CL:0000518 ! phagocyte (sensu Vertebrata) [Term] id: CL:0000114 name: surface ectodermal cell namespace: cell synonym: "cell of surface ectoderm" EXACT [] synonym: "surface ectoderm cell" EXACT [] xref: FMA:72552 is_a: CL:0000221 ! ectodermal cell [Term] id: CL:0000115 name: endothelial cell namespace: cell def: "An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm." [GOC:tfm, MESH:D042783, PMID:21275341, http://en.wikipedia.org/wiki/Endothelial_cell, https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855] comment: From FMA: 9.07.2001: Endothelial cell has always been classified as a kind of epithelial cell, specifically a squamous cell but that is not true. First, endothelial cell can either be squamous or cuboidal (e.g. high-endothelial cell) and secondly, it has different embryological derivation (mesodermal) than a true epithelial cell (ectodermal and endodermal). The basis for present classification is the fact that it comprises the outermost layer or lining of anatomical structures (location-based) but a better structural basis for the differentia is the cytoskeleton of the cell. Endothelial cell has vimentin filaments while an epithelial cell has keratin filaments. [Onard]. synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: FMA:66772 is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0000116 name: pioneer neuron namespace: cell def: "Pioneer neurons establish a pathway in the developing central nervous system and then undergo programmed cell death once the adult axons, which follow them, have made connections with the target site. Thus, they are a transient cell type involved in axon guidance." [GOC:cvs, GOC:tfm] xref: FBbt:00005128 is_a: CL:0000540 ! neuron [Term] id: CL:0000117 name: CNS neuron (sensu Vertebrata) namespace: cell is_a: CL:0000540 ! neuron relationship: develops_from CL:0000337 ! neuroblast (sensu Vertebrata) [Term] id: CL:0000118 name: basket cell namespace: cell is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000119 name: Golgi cell namespace: cell is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000120 name: granule cell namespace: cell xref: BTO:0003393 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000121 name: Purkinje cell namespace: cell def: "The output neuron of the cerebellar cortex." [MESH:A08.186.211.132.810.428.200.212.600] synonym: "Purkinje neuron" EXACT [] synonym: "Purkinje's cell" EXACT [] xref: BTO:0001011 xref: FMA:67969 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) is_a: CL:0000527 ! efferent neuron [Term] id: CL:0000122 name: stellate cell namespace: cell xref: BTO:0002316 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000123 name: neuron associated cell (sensu Vertebrata) namespace: cell is_a: CL:0000095 ! neuron associated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0000124 name: glial cell (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00005144 is_a: CL:0000125 ! glial cell relationship: develops_from CL:0000340 ! glioblast (sensu Nematoda and Protostomia) [Term] id: CL:0000125 name: glial cell namespace: cell def: "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons." [MESH:A.08.637, MESH:A08.637] synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" RELATED [] xref: BTO:0002606 xref: FMA:54536 is_a: CL:0000095 ! neuron associated cell relationship: develops_from CL:0000030 ! glioblast [Term] id: CL:0000126 name: macroglial cell namespace: cell def: "A neuroglial cell of ectodermal origin, i.e., the astrocytes and oligodendrocytes considered together." [GOC:tfm, ISBN:0721662544] synonym: "Macrogliocyte" RELATED [] synonym: "macrogliocyte" EXACT [] xref: BTO:0000771 xref: FMA:54538 is_a: CL:0000243 ! glial cell (sensu Vertebrata) relationship: develops_from CL:0000339 ! glioblast (sensu Vertebrata) [Term] id: CL:0000127 name: astrocyte namespace: cell def: "A class of large neuroglial (macroglial) cells in the central nervous system - the largest and most numerous neuroglial cells in the brain and spinal cord. Astrocytes (from 'star' cells) are irregularly shaped with many long processes, including those with 'end feet' which form the glial (limiting) membrane and directly and indirectly contribute to the blood-brain barrier. They regulate the extracellular ionic and chemical environment, and 'reactive astrocytes' (along with microglia) respond to injury." [GOC:_tfm, GOC:dsd, GOC:tfm, MESH:A.08.637.200, MESH:A08.637.200, MESH:D001253, PMID:11746784, PMID:12162730, PMID:12898703, PMID:20942978, http://en.wikipedia.org/wiki/Astrocyte] comment: Astrocytes are reportedly CD68-negative, CD121a-positive, CD184-positive, CD192-positive, CRF-positive, EGFR-positive, GFAP-positive, GLUT1-positive, MBP-negative, and NGFR-positive. synonym: "astrocytic glia" RELATED [] xref: BTO:0000099 xref: FMA:54537 is_a: CL:0000128 ! oligodendrocyte relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000128 name: oligodendrocyte namespace: cell def: "A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system." [MESH:A.08.637.600, MESH:A08.637.600, MESH:D009836, http://en.wikipedia.org/wiki/Oligodendrocyte] comment: Oligodendrocytes are reportedly MDP-positive and CD4-negative. synonym: "OLs" EXACT [PMID:8734446] synonym: "oligodendroglia" RELATED [] xref: BTO:0000962 xref: FMA:54540 is_a: CL:0000126 ! macroglial cell relationship: develops_from CL:0002453 ! oligodendrocyte precursor cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000129 name: microglial cell namespace: cell def: "A central nervous system macrophage found in the parenchyma of the central nervous system. Marker include CD11b-positive, F4/80-positive, and CD68-positive." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, MESH:D017628, PMID:11517395, PMID:12430718, PMID:14561199, PMID:14612429, PMID:16177057, PMID:19461673, PMID:2089275, http://en.wikipedia.org/wiki/Microglia] comment: Markers: Mouse: CD11b+, F4/80+, CD68+. They represent ~12% of the cells in the CNS, but they are not uniformly distributed within the CNS. A normal adult mouse brain has approximately 3.5x10e6 microglia. Microglia are also reportedly CD3-negative, CD4-positive, CD8-negative, CD11b-positive, CD11c-high, CD14-negative, CD19-negative, CD45-low, CD56-negative, CD163-negative, CD200R-positive, CD281-positive, CD282-positive, CD283-positive, CD284-positive, CD285-positive, CD286-positive, CD287-positive, CD288-positive, CD289-positive, Gr1-negative, nestin-positive, and PU.1-positive. synonym: "MF.microglia.CNS" RELATED [] synonym: "brain macrophage" RELATED [] synonym: "brain-resident macrophage" RELATED [] synonym: "hortega cells" RELATED [http://www.copewithcytokines.de/] synonym: "microglia" RELATED [] synonym: "microgliocyte" RELATED [http://www.copewithcytokines.de/] xref: BTO:0000078 xref: BTO:0000962 xref: FMA:54539 xref: FMA:54540 is_a: CL:0000243 ! glial cell (sensu Vertebrata) is_a: CL:0000878 ! central nervous system macrophage relationship: develops_from CL:0002453 ! oligodendrocyte precursor cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000130 name: neuron associated cell (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000095 ! neuron associated cell [Term] id: CL:0000131 name: gut endothelial cell namespace: cell is_a: CL:0000115 ! endothelial cell relationship: develops_from CL:0000223 ! endodermal cell [Term] id: CL:0000132 name: corneal endothelial cell namespace: cell def: "Cell of the single layer of large flattened cells covering the surface of the cornea." [GOC:tfm, MESH:A09.371.060.067.31] xref: FMA:70614 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell [Term] id: CL:0000133 name: neurectodermal cell namespace: cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] is_a: CL:0000221 ! ectodermal cell [Term] id: CL:0000134 name: mesenchymal cell namespace: cell alt_id: CL:0002452 def: "A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. This cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs." [FB:ma, GOC:dsd, PMCID:PMC2613570, PMID:10102814j, PMID:16923606, PMID:17986482, PMID:19960544, PMID:_17986482, PMID:_19960544, http://en.wikipedia.org/wiki/Mesenchymal_stem_cell, http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells] comment: Many but not all mesenchymal cells derive from the mesoderm. MSCs are reportedly CD3-negative, CD4-negative, CD5-negative, CD8-negative, CD11a-negative, CD11b-negative, CD14-negative, CD19-negative, CD29-positive, CD31-negative, CD34-negative, CD38-negative, CD40-negative, CD44-positive, CD45-negative, CD49-positive, CD54-positive, CD66b-negative, CD79a-negative, CD80-negative, CD102-positive, CD106-positive, CD117-positive, CD121a-positive, CD121b-positive, CD123-positive, CD124-positive, CD133-negative, CD146-positive, CD166-positive, CD271-positive, B220-negative, Gr1-negative, MHCI-positive, MHCII-negative, SSEA4-negative, sca1-positive, Ter119-negative, and glycophorin A-negative. Cultured MSCs are capable of producing stem cell factor, IL7, IL8, IL11, TGF-beta, cofilin, galectin-1, laminin-receptor 1, cyclophilin A, and MMP-2. synonym: "BMSC" RELATED [] synonym: "CFU-F" RELATED [] synonym: "MSC" RELATED [PMID:11378515] synonym: "Stem Cells, Mesenchymal" RELATED [MESH:D044982] synonym: "bone marrow stromal cells" RELATED [] synonym: "colony-forming unit-fibroblast" RELATED [] synonym: "marrow stromal cells" RELATED [PMID:11378515] synonym: "mesenchymal precursor cell" RELATED [] synonym: "mesenchymal progenitor cells" RELATED PLURAL [MESH:D044982] synonym: "mesenchymal stem cell" RELATED [] synonym: "mesenchymal stromal cell" RELATED [] synonym: "mesenchymal stromal cells" RELATED PLURAL [] synonym: "stem cells, mesenchymal" RELATED PLURAL [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0000063 ! cell by histology ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" is_a: CL:0000219 ! motile cell is_a: CL:0002320 ! connective tissue cell [Term] id: CL:0000135 name: fibrocyte namespace: cell def: "An inactive fibroblast; cytoplasm is sparse, endoplasmic reticulum is scanty with flattened nucleus. Term used by some histologists; when fibroblasts become relatively inactive in fiber formation. However, this cell has the potential for fibrogenesis in quiescent connective tissue of the adult, as well as during development, other histologists prefer to use the term fibroblast in all circumstances. These cells represent ~0.5% of peripheral blood leukocytes." [GOC:dsd, GOC:tfm, ISBN:0412046911, ISBN:0517223651, PMID:11641248, PMID:15010326, PMID:17607298, PMID:18222966, PMID:8790603, PMID:9551999, http://en.wikipedia.org/wiki/Fibrocyte] comment: Cultured human fibrocytes are MHCI-positive, MHCII-positive, CD1a-negative, CD3-negative, CD4-negative, CD8-negative, CD10-negative, CD11b-positive, CD13-positive, CD14-negative, CD16-negative, CD18-positive, CD19-negative, CD25-negative, CD29-positive, CD32-positive, CD33-negative, CD34-positive, CD38-negative, CD40-positive, CD44-negative, CD45RO-positive, CD49a-positive, CD49b-positive, CD49c-negative, CD49d-negative, CD49e-positive, CD49f-negative, CD56-negative, CD58-positive, CD61-positive, CD64-positive, CD70-negative, CD71-positive, CD80-positive, CD83-negative, CD86-positive, CD103-negative, CD105-positive, CD181-positive, CD182-negative, CD183-positive, CD184-positive, CD185-negative, CD186-negative, CD191-positive, CD192-negative, CD193-positive, CD194-positive, CD195-positive, CD196-negative, CD197-positive, CD199-positive, desmin-negative, F4/80-positive, Gr1-positive, LSP-1-positive, MHCI-positive, MHCII-positive, alpha-SMA-negative, TCRab-negative, TCRgd-negative, and vimentin-positive. Fibrocytes are also capable of secreting angiogenin, bFGF, CCL2, CCL3, CCL4, CCL8, CXCL1, type I collagen, type III collagen, CTGF, fibronectin, GM-CSF, IL-1a, IL-6, IL-8, IL-10, M-CSF, MMP-9, PDGF-A, TGF-alpha, TGF-beta1, TNF-alpha, and VEGF-A. xref: FMA:63879 is_a: CL:0000499 ! stromal cell relationship: develops_from CL:0000057 ! fibroblast [Term] id: CL:0000136 name: fat cell namespace: cell alt_id: CL:0000450 def: "A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides." [MESH:A.11.329.114, MESH:A11.329.114] synonym: "adipocyte" RELATED [] synonym: "adipose cell" RELATED [] xref: BTO:0000443 xref: FMA:63880 is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000137 name: osteocyte namespace: cell def: "A mature osteoblast that has become embedded in the bone matrix. They occupy a small cavity, called lacuna, in the matrix and are connected to adjacent osteocytes via protoplasmic projections called canaliculi." [GOC:tfm, MESH:A11.329.629.500] comment: VSAO relationship simplified OBO_REL:integral_part_of VSAO:0000118 synonym: "bone cell" BROAD [] xref: BTO:0002038 xref: FMA:66779 xref: VSAO:0000124 is_a: CL:0001035 ! bone cell relationship: develops_from CL:0001040 ! non-terminally differentiated osteoblast relationship: part_of UBERON:0002481 ! bone tissue [Term] id: CL:0000138 name: chondrocyte namespace: cell def: "Polymorphic cell that form cartilage." [GO_REF:0000034, MESH:A.11.329.171, MESH:A11.329.171] synonym: "cartilage cell" RELATED [] xref: BTO:0000249 xref: FMA:66782 is_a: CL:0000153 ! GAG secreting cell is_a: CL:0000667 ! collagen secreting cell relationship: develops_from CL:0000058 ! chondroblast [Term] id: CL:0000140 name: odontocyte namespace: cell def: "Skeletogenic cell that secretes dentine matrix, is derived from odontogenic papilla. Embedded in dentine tissue, and is the transformation of a non-terminally differentiated odontoblast cell." [GO_REF:0000034] is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000060 ! odontoblast relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000141 name: cementocyte namespace: cell def: "An osteocytelike cell with numerous processes, trapped in a lacuna in the cement of the tooth." [ISBN:0781733901] comment: CHECK: wikipedia says that cementocytes no longer produce cementum, but the phenoscape def is: Skeletogenic cell that produces cementum, is part of the odontogenic papilla, and is a transformation of a cementoblast cell (no change to existing def). xref: FMA:63003 is_a: CL:0000137 ! osteocyte relationship: develops_from CL:0000061 ! cementoblast relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0000142 name: hyalocyte namespace: cell def: "A cell occurring in the peripheral part of the vitreous body of the eye that may be responsible for production of hyaluronic acid and collagen." [GOC:tfm, PMID:19073178] synonym: "vitreous cell" RELATED [] xref: BTO:0004271 xref: FMA:70620 is_a: CL:0000499 ! stromal cell [Term] id: CL:0000143 name: guidepost cell namespace: cell is_a: CL:0000130 ! neuron associated cell (sensu Nematoda and Protostomia) [Term] id: CL:0000144 name: cell by function namespace: cell def: "A classification of cells by their primary end goal or behavior." [FB:ma] is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell can be classified by its function or behavior. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. is_a: CL:0000012 ! cell by class ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000145 name: professional antigen presenting cell namespace: cell def: "A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response." [GOC:add, ISBN:0781735149] comment: Note change of name; nearly all somatic cells can present antigens to T cells via MHC Class I complexes leading to effector responses, but professional antigen presenting cells constitutively express MHC Class II as well as costimulatory molecules, and thus can initiate immune responses via T cells. synonym: "APC" BROAD [] is_a: CL:0000473 ! defensive cell [Term] id: CL:0000146 name: simple columnar epithelial cell namespace: cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000147 name: pigment cell namespace: cell def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000148 name: melanocyte namespace: cell alt_id: CL:0000572 def: "A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance." [SANBI:mhl] synonym: "melanophore" NARROW [] xref: BTO:0000847 xref: FMA:70545 xref: VHOG:0001679 is_a: CL:0000147 ! pigment cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: develops_from CL:0000541 ! melanoblast [Term] id: CL:0000149 name: visual pigment cell namespace: cell synonym: "pigment cell" BROAD [] is_a: CL:0000147 ! pigment cell [Term] id: CL:0000150 name: glandular epithelial cell namespace: cell def: "A specialized epithelial cell that is capable of synthesizing and secreting certain biomolecules." [GOC:tfm] xref: FMA:86494 is_a: CL:0000066 ! epithelial cell is_a: CL:0000151 ! secretory cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000151 name: secretory cell namespace: cell def: "A cell that specializes in controlled release of one or more substances." [GOC:tfm, ISBN:0721662544] xref: BTO:0003659 xref: FMA:86916 is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000152 name: exocrine cell namespace: cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] xref: FMA:16014 is_a: CL:0000151 ! secretory cell [Term] id: CL:0000153 name: GAG secreting cell namespace: cell def: "A cell that secretes glycosaminoglycans." [GOC:tfm] synonym: "hyaluronic acid secreting cell" EXACT [] is_a: CL:0000327 ! extracellular matrix secreting cell is_a: CL:0000447 ! carbohydrate secreting cell [Term] id: CL:0000154 name: protein secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000155 name: peptic cell namespace: cell def: "A cell that is usually basal in position, cuboidal with round nucleus, short microvilli, secretes pepsinogen." [GOC:tfm] synonym: "chief cell of stomach" EXACT [] synonym: "gastric chief cell" EXACT [] synonym: "pepsinogen secreting cell" EXACT [] synonym: "zymogenic cell" EXACT [] xref: FMA:62902 is_a: CL:0000154 ! protein secreting cell is_a: CL:0002659 ! glandular cell of stomach [Term] id: CL:0000156 name: antibody secreting cell namespace: cell def: "OBSOLETE: A cell of the lymphoid series that can react with antigen to produce specific cell products called antibodies. Various cell subpopulations, often B cells, can be defined, based on the different classes of immunoglobulins that they synthesize." [] is_obsolete: true comment: Consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000157 name: surfactant secreting cell namespace: cell def: "A cell that specializes in secretion of surfactant in the alveoli of the lung." [GOC:tfm, ISBN:0721662544] is_a: CL:0000151 ! secretory cell [Term] id: CL:0000158 name: Clara cell namespace: cell def: "Epithelial progenitor cell of the lung. Clara cells are dome-shaped with short microvilli but no cilia. They function to protect the bronchiolar epithelium. Clara cells also multiply and differentiate into ciliated cells to regenerate the bronchiolar epithelium." [GOC:tfm, PMID:12107102, PMID:7905712] synonym: "Clara cell of bronchiole" EXACT [] synonym: "bronchiolar non-ciliated cell" EXACT [] xref: BTO:0004811 xref: FMA:14119 is_a: CL:0000157 ! surfactant secreting cell is_a: CL:0002328 ! bronchial epithelial cell [Term] id: CL:0000159 name: seromucus secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000160 name: goblet cell namespace: cell def: "A cell of the epithelial lining that produce and secrete mucins." [MESH:A03.492.411.369.320] synonym: "chalice cell" EXACT [] xref: BTO:0001540 xref: FMA:13148 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000319 ! mucus secreting cell [Term] id: CL:0000161 name: acid secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000162 name: parietal cell namespace: cell def: "A large, oval stomach epithelial cell with a central nucleus; source of gastric acid. Secretes HCl." [GOC:tfm, ISBN:0517223651] synonym: "oxyntic cell" EXACT [] xref: BTO:0001780 xref: FMA:62901 is_a: CL:0000161 ! acid secreting cell is_a: CL:0002659 ! glandular cell of stomach [Term] id: CL:0000163 name: endocrine cell namespace: cell def: "A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions." [MESH:A06.407] synonym: "endocrinocyte" EXACT [] xref: FMA:83809 is_a: CL:0000151 ! secretory cell [Term] id: CL:0000164 name: enteroendocrine cell namespace: cell def: "An endocrine cell that is located in the epithelium of the gastrointestinal tract or in the pancreas." [GOC:tfm, SANBI:mhl] xref: BTO:0003865 xref: FMA:62930 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000165 name: neuroendocrine cell namespace: cell def: "An endocrine cell that has the specialized function to produce and secrete hormones in response to neuronal signals." [MESH:A.06.688, MESH:A06.688] synonym: "neurosecretory cell" RELATED [] xref: BTO:0002691 xref: FMA:83810 is_a: CL:0000163 ! endocrine cell is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000166 name: chromaffin cell namespace: cell def: "A cell that stores epinephrine secretory vesicles. During times of stress, the nervous system signals the vesicles to secrete their hormonal content. Their name derives from their ability to stain a brownish color with chromic salts. Characteristically, they are located in the adrenal medulla and paraganglia of the sympathetic nervous system." [MESH:A06.224.161] synonym: "phaeochromocyte" EXACT [] xref: BTO:0000259 xref: FMA:69263 is_a: CL:0000568 ! APUD cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0000167 name: peptide hormone secreting cell namespace: cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000168 name: insulin secreting cell namespace: cell xref: BTO:0000783 is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000169 name: type B pancreatic cell namespace: cell def: "A cell that secretes insulin and is located towards the center of the islets of Langerhans." [GOC:tfm, ISBN:0517223651, http://en.wikipedia.org/wiki/Pancreatic_b_cell] comment: Pancreatic beta cells are also reportedly CD284-positive. Upon activation, they upregulate their CD14 expression. synonym: "B-cell of pancreatic islet" EXACT [FMA:70586] synonym: "beta cell" BROAD [ZFA:0009102] synonym: "beta cell islet" RELATED [MA:0002419] synonym: "beta cell of pancreatic islet" EXACT [FMA:70586] synonym: "insulin-secreting cell" EXACT [FMA:70586] synonym: "pancreatic B cell" EXACT [] synonym: "pancreatic B-cell" EXACT [FMA:70586] synonym: "pancreatic beta cell" EXACT [FMA:70586] synonym: "pancreatic islet core" EXACT [MA:0002419] synonym: "type B enteroendocrine cell" EXACT [FMA:70586] xref: BTO:0000783 xref: EV:0200009 xref: FMA:70586 xref: MA:0002419 xref: ncithesaurus:Beta_Cell is_a: CL:0000083 ! epithelial cell of pancreas is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000168 ! insulin secreting cell relationship: develops_from CL:0002351 ! progenitor cell of endocrine pancreas relationship: part_of UBERON:0000006 ! islet of Langerhans [Term] id: CL:0000170 name: glucagon secreting cell namespace: cell def: "A cell that secretes glucagon." [GOC:tfm] synonym: "glucagon-secreting cell" EXACT [] xref: FMA:84045 is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000171 name: pancreatic A cell namespace: cell def: "A type of enteocrine cell found in the periphery of the islets of Langerhans that secretes glucagon." [GOC:tfm, ISBN:0721662544] synonym: "alpha cell of iselt of Langerhans" EXACT [] synonym: "pancreatic alpha cell" EXACT [] xref: BTO:0000990 xref: FMA:70585 is_a: CL:0002067 ! type A enterocrine cell relationship: develops_from CL:0002351 ! progenitor cell of endocrine pancreas [Term] id: CL:0000172 name: somatostatin secreting cell namespace: cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000173 name: pancreatic D cell namespace: cell def: "A D cell located in the pancreas. Peripherally placed within the islets like type A cells; contains somatostatin." [FMA:0517223651, GOC:tfm] synonym: "D-cell of pancreatic islet" EXACT [] synonym: "delta cell of islet" EXACT [] synonym: "delta cell of pancreatic islet" EXACT [] synonym: "pancreatic D-cell" EXACT [] synonym: "pancreatic delta cell" EXACT [] synonym: "somatostatin-secreting pancreatic cell" EXACT [] xref: BTO:0000803 xref: FMA:70587 is_a: CL:0000502 ! type D enteroendocrine cell relationship: develops_from CL:0002351 ! progenitor cell of endocrine pancreas [Term] id: CL:0000174 name: steroid hormone secreting cell namespace: cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000175 name: luteal cell namespace: cell def: "A progesterone secreting cell in the corpus luteum. The large luteal cells develop from the granulosa cells. The small luteal cells develop from the theca cells." [MESH:A05.360.319.114.630.278.400] synonym: "lutein cell" EXACT [] xref: BTO:0003939 xref: FMA:18688 is_a: CL:0000179 ! progesterone secreting cell is_a: CL:0002132 ! stromal cell of ovary relationship: part_of UBERON:0002512 ! corpus luteum [Term] id: CL:0000176 name: ecdysteroid secreting cell namespace: cell is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000177 name: testosterone secreting cell namespace: cell is_a: CL:0000593 ! androgen secreting cell [Term] id: CL:0000178 name: Leydig cell namespace: cell def: "A Leydig cell is a testosterone-secreting cell in the interstitial area, between the seminiferous tubules, in the testis." [GOC:tfm, PMID:12050120] comment: Note that the Amphibian Anatomy Ontology (AA) has a class 'leydig cells' but this is unrelated synonym: "interstitial cell" BROAD [] synonym: "interstitial cell of Leydig" EXACT [] xref: BTO:0000755 xref: EMAPA:29655 xref: FMA:72297 is_a: CL:0000177 ! testosterone secreting cell relationship: part_of UBERON:0005212 ! testis interstitial tissue [Term] id: CL:0000179 name: progesterone secreting cell namespace: cell is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000180 name: estradiol secreting cell namespace: cell is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000181 name: metabolising cell namespace: cell def: "A cell whose primary function is intermediary metabolism." [FB:ma] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000182 name: hepatocyte namespace: cell def: "The main structural component of the liver. They are specialized epithelial cells that are organized into interconnected plates called lobules. Majority of cell population of liver, polygonal in shape, arranged in plates or trabeculae between sinusoids; may have single nucleus or binucleated." [GOC:tfm, ISBN:0412046911, MESH:A11.436.348, PMID:19717280, http://en.wikipedia.org/wiki/Hepatocyte] comment: Hepatocytes are reportedly MHC Class I-positive and MHC Class II-positive. xref: BTO:0000575 xref: FMA:14515 is_a: CL:0000066 ! epithelial cell is_a: CL:0000181 ! metabolising cell is_a: CL:0000417 ! endopolyploid cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000223 ! endodermal cell relationship: part_of UBERON:0002107 ! liver [Term] id: CL:0000183 name: contractile cell namespace: cell def: "A cell whose primary function is to shorten." [FB:ma] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000185 name: myoepithelial cell namespace: cell def: "Contractile cells resembling smooth muscle cells that are present in glands, notably the mammary gland, and aid in secretion. This cell has long weaving dendritic processes containing myofilament." [GOC:tfm, ISBN:0721662544] synonym: "basket epithelial cell" EXACT [] synonym: "myoepitheliocyte" EXACT [] xref: BTO:0002309 xref: FMA:67799 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0000183 ! contractile cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0000186 name: myofibroblast cell namespace: cell def: "An animal cell that has characteristics of both a fibroblast cell and a smooth muscle cell." [GOC:dsd, GOC:tfm, MESH:D058628, PMID:19800625, PMID:20630469] comment: Myofibroblasts are alpha-SMA-positive, CD34-negative, CD45-negative. They are reportedly capable of secreting IL-1beta, IL-6, and TNF-alpha. synonym: "MFB" EXACT [PMID:8731193] is_a: CL:0000183 ! contractile cell is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000187 name: muscle cell namespace: cell def: "A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." [MESH:A.11.620, MESH:A11.620] synonym: "muscle fiber" EXACT [] synonym: "myocyte" RELATED [] xref: BTO:0000888 xref: BTO:0000902 xref: FBbt:00005074 xref: FMA:67328 xref: WBbt:0003675 is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000056 ! myoblast [Term] id: CL:0000188 name: skeletal muscle cell namespace: cell def: "A somatic cell located in skeletal muscle." [GOC:tfm] xref: BTO:0004392 xref: FMA:9727 is_a: CL:0000187 ! muscle cell relationship: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0000189 name: slow muscle cell namespace: cell def: "A muscle cell that develops tension more slowly than a fast-twitch fiber." [GOC:tfm, ISBN:0323052908] synonym: "slow muscle fiber" EXACT [ISBN:0815316208] xref: FMA:84448 is_a: CL:0002372 ! myotube relationship: develops_from CL:0000857 ! slow muscle myoblast [Term] id: CL:0000190 name: fast muscle cell namespace: cell def: "A muscle cell that can develop high tension rapidly. It is usually innervated by a single alpha neuron ." [GOC:tfm, ISBN:0323052908] synonym: "glycolytic muscle fiber" EXACT [] is_a: CL:0002372 ! myotube relationship: develops_from CL:0000858 ! fast muscle myoblast [Term] id: CL:0000192 name: smooth muscle cell namespace: cell alt_id: CL:0000191 def: "A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast)." [MESH:A.11.620.520, MESH:A11.620.520, MESH:D032389, PMID:9315361, http://en.wikipedia.org/wiki/Smooth_muscle_cell] synonym: "SMCs" RELATED [PMID:9315361] synonym: "myocytes, smooth muscle" RELATED [MESH:D032389] synonym: "non-striated muscle cell" RELATED [] synonym: "smooth muscle fiber" RELATED [] xref: BTO:0004576 xref: FMA:14072 is_a: CL:0000187 ! muscle cell relationship: develops_from CL:0000514 ! smooth muscle myoblast [Term] id: CL:0000193 name: cardiac muscle cell (sensu Arthopoda) namespace: cell alt_id: CL:0000466 def: "A striated muscle cell found in the heart. They develop from cardiac myoblasts." [MESH:A11.620.500] is_a: CL:0000228 ! multinucleate cell is_a: CL:0000746 ! cardiac muscle cell relationship: develops_from CL:0000465 ! cardioblast (sensu Arthropoda) [Term] id: CL:0000194 name: nodal cardiac cell namespace: cell is_obsolete: true comment: Consider CL:0002072. [Term] id: CL:0000195 name: Purkinje fiber namespace: cell is_obsolete: true [Term] id: CL:0000196 name: flight muscle cell namespace: cell is_a: CL:0000187 ! muscle cell is_a: CL:0000228 ! multinucleate cell [Term] id: CL:0000197 name: receptor cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000198 name: pain receptor cell namespace: cell def: "The peripheral receptor for pain. Includes receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli. All mammalian nociceptors are free nerve endings." [MESH:A08.800.550.700.650] comment: Editor note: request detection of stimulus involved in sensory perception of pain; add develops_from relationship synonym: "nociceptor" EXACT [] synonym: "nocireceptor" EXACT [] is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000199 name: mechanoreceptor cell namespace: cell def: "A cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system." [MESH:A08.800.550.700.500] synonym: "mechanoreceptor" RELATED [MP:0000972] is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000200 name: touch receptor cell namespace: cell is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0000202 name: auditory hair cell namespace: cell alt_id: CL:0000201 def: "A mechanoreceptor cell located in the inner ear that is sensitive to auditory stimuli. The accessory sensory structures are arranged so that appropriate stimuli cause movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." [MESH:A08.663.650.250] comment: In mammals these cells are located in the organ of Corti. synonym: "auditory receptor cell" EXACT [] synonym: "cochlear hair cell" EXACT [] synonym: "inner ear hair cell" EXACT [GO:0060119] synonym: "inner ear receptor cell" EXACT [GO:0060119] xref: FMA:62364 is_a: CL:0001035 ! bone cell is_a: CL:0002374 ! ear hair cell is_a: CL:0002491 ! auditory epithelial cell relationship: part_of UBERON:0002227 ! spiral organ of cochlea [Term] id: CL:0000203 name: gravity sensitive cell namespace: cell is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0000204 name: acceleration receptive cell namespace: cell is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000205 name: thermoreceptor cell namespace: cell def: "A cellular receptor which mediates the sense of temperature. Thermoreceptor cells in vertebrates are mostly located under the skin. In mammals there are separate types of thermoreceptors for cold and for warmth and pain receptor cells which detect cold or heat extreme enough to cause pain." [GOC:tfm, MESH:A08.800.550.700.840, MP:0000971] is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000206 name: chemoreceptor cell namespace: cell def: "A cell specialized to detect chemical substances and relay that information centrally in the nervous system. Chemoreceptors may monitor external stimuli, as in taste and olfaction, or internal stimuli, such as the concentrations of oxygen and carbon dioxide in the blood." [MESH:A08.800.550.700.120] is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000207 name: olfactory receptor cell namespace: cell synonym: "Schultze's cell" EXACT [] synonym: "olfactory receptor neuron" EXACT [] synonym: "olfactory sensory neuron" EXACT [] xref: BTO:0004185 xref: FMA:67860 is_a: CL:0000206 ! chemoreceptor cell [Term] id: CL:0000208 name: pH receptor cell namespace: cell is_a: CL:0000206 ! chemoreceptor cell [Term] id: CL:0000209 name: taste receptor cell namespace: cell def: "A cell type found in the spherical or ovoid clusters of receptor cells found mainly in the epithelium of the tongue and constituting the end organs of the sense of taste." [GOC:tfm, ISBN:0618947256] synonym: "taste bud cell" EXACT [] xref: FMA:67910 is_a: CL:0000098 ! sensory epithelial cell is_a: CL:0000206 ! chemoreceptor cell is_a: CL:0002076 ! endo-epithelial cell [Term] id: CL:0000210 name: photoreceptor cell namespace: cell def: "A cell specialized to detect and transduce light." [MESH:A08.663.650.650] xref: BTO:0001060 xref: FBbt:00004211 xref: FMA:86740 is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000211 name: electrically active cell namespace: cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000212 name: absorptive cell namespace: cell def: "A cell that takes up and metabolizes substances." [CL:CVS] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000213 name: lining cell namespace: cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] is_a: CL:0000215 ! barrier cell [Term] id: CL:0000214 name: synovial cell namespace: cell def: "A meso-epithelial cell that lies between the cartilaginous fibers in the synovial membrane of a joint and produces hyaluronic acid." [GOC:tfm, ISBN:0721662544, PMID:17942474] synonym: "hyaluronic acid secreting cell" EXACT [] synonym: "synoviocyte" EXACT [] xref: BTO:0003652 xref: FMA:66786 is_a: CL:0000153 ! GAG secreting cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell relationship: part_of UBERON:0002018 ! synovial membrane of synovial joint [Term] id: CL:0000215 name: barrier cell namespace: cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000216 name: Sertoli cell namespace: cell def: "A supporting cell projecting inward from the basement membrane of seminiferous tubules. They surround and nourish the developing male germ cells and secrete androgen binding protein. Their tight junctions with the spermatogonia and spermatocytes provide a blood-testis barrier." [MESH:A05.360.444.849.789] xref: BTO:0001238 xref: FMA:72298 xref: VHOG:0001348 is_a: CL:0000511 ! androgen binding protein secreting cell is_a: CL:0000630 ! supportive cell is_a: CL:0002625 ! seminiferous tubule epithelial cell relationship: part_of UBERON:0001343 ! seminiferous tubule of testis [Term] id: CL:0000217 name: insulating cell namespace: cell is_a: CL:0000215 ! barrier cell [Term] id: CL:0000218 name: myelinating Schwann cell namespace: cell def: "A neuroglial cell of the peripheral nervous system which forms the insulating myelin sheaths of peripheral axons." [GOC:cvs, GOC:tfm, MESH:A08.637.800] synonym: "Schwann cell" BROAD [] synonym: "neurilemmal cell" EXACT [] synonym: "peripheral neuroglial cell" BROAD [] xref: FMA:62121 is_a: CL:0000217 ! insulating cell is_a: CL:0000328 ! myelin accumulating cell is_a: CL:0002573 ! Schwann cell relationship: develops_from CL:0002377 ! immature Schwann cell [Term] id: CL:0000219 name: motile cell namespace: cell def: "A cell that moves by its own activities." [FB:ma] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000220 name: cell by lineage namespace: cell is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell in a multicellular organiam, apart from a zygote, can potentially be classified by its lineage. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. [Term] id: CL:0000221 name: ectodermal cell namespace: cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:A16.254.425.273] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000924 ! ectoderm [Term] id: CL:0000222 name: mesodermal cell namespace: cell def: "A cell of the middle germ layer of the embryo." [MESH:A16.254.425.660] synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000926 ! mesoderm [Term] id: CL:0000223 name: endodermal cell namespace: cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:A16.254.425.407] synonym: "endoderm cell" EXACT [] xref: FMA:72555 is_a: CL:0002321 ! embryonic cell relationship: part_of UBERON:0000925 ! endoderm [Term] id: CL:0000224 name: cell by nuclear number namespace: cell def: "A classification of cells by the number of their nuclei." [FB:ma, GOC:tfm] is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell can be classified by its nuclear number (note that this term was previously used as a parent class of enucleate cell). If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), or cell in vitro (CL:0001034) as appropriate. is_a: CL:0000012 ! cell by class ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000225 name: anucleate cell namespace: cell def: "A cell that lacks a nucleus." [FB:ma] synonym: "non-nucleated cell" EXACT [] xref: FMA:68647 is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000226 name: single nucleate cell namespace: cell def: "A cell with a single nucleus." [FB:ma, GOC:tfm] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000227 name: binucleate cell namespace: cell is_a: CL:0000228 ! multinucleate cell [Term] id: CL:0000228 name: multinucleate cell namespace: cell def: "A cell with more than one nucleus." [FB:ma] synonym: "syncitium" RELATED [] synonym: "syncytial cell" RELATED [] synonym: "syncytium" RELATED [] xref: AEO:0000203 xref: WBbt:0008074 is_a: CL:0000003 ! cell in vivo is_a: CL:0002242 ! nucleate cell [Term] id: CL:0000229 name: lymphoblast namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Refers to an activated mature lymphocyte phenotype rather than a distinct cell type; consider using 'lymphocyte ; CL:0000542' or one of its children instead. [Term] id: CL:0000230 name: T lymphoblast namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Refers to an activated mature T lymphocyte phenotype rather than a distinct cell type; consider using 'T cell ; CL:0000084' or one of its children instead. [Term] id: CL:0000231 name: B lymphoblast namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Refers to an activated mature B lymphocyte phenotype rather than a distinct cell type; consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000232 name: erythrocyte namespace: cell def: "A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen." [GOC:tfm, MESH:A11.118.290] synonym: "RBC" EXACT [] synonym: "red blood cell" EXACT [] xref: BTO:0000424 xref: FMA:81100 is_a: CL:0000081 ! blood cell is_a: CL:0000329 ! oxygen accumulating cell is_a: CL:0000764 ! erythroid lineage cell relationship: develops_from CL:0000558 ! reticulocyte [Term] id: CL:0000233 name: platelet namespace: cell def: "A non-nucleated disk-shaped cell formed by extrusion from megakaryocytes, found in the blood of all mammals, and mainly involved in blood coagulation." [GOC:add, GOC:dsd, GOC:tfm, MESH:A11.118.188, MESH:D001792, PMID:11110672, PMID:16987572, PMID:17204662, PMID:17479180, PMID:20414831, http://en.wikipedia.org/wiki/Platelet] comment: Platelets are reportedly CCR1-positive, CCR2-negative, CCR3-positive, CCR4-positive, CCR5-negative, CCR6-negative, CCR7-negative, CCR8-negative, CCR9-negative, CCR10-negative, CD16-positive, CD23-positive, CD32-positive, CD40-positive, CD41-positive CD42-positive, CD61-positive, CD62P-positive, CD64-positive, CD89-positive, CD102-positive, CD147-positive (activated platelets), CD154-positive (activated platelets), CD162-positive, CD209, CD282-positive, CD284-positive, CD289-positive, CD181-negative, CD182-negative, CD183-negative, CD184-positive, CLEC2-positive, GPVI-positive, JAMC-positive, PAR1-positive, PAR2-negative, PAR3-positive, PAR4-positive, TSP1-positive, and TXA2R-positive. Platelets can reportedly produce CCL2, CCL3, CCL5, CCL7, CCL17, CD40L, CXCL1, CXCL4, CXCL4L1, CXCL5, CXCL7, CXCL8, CXCL12, EGF, factor V, factor VII, factor XI, factor XIII, bFGF, histamine, IGF-1, IL-1beta, PAI-1, PDGF, plasminogen, protein S, serotonin, TGF-beta, TFPI, VEGF, and vWF. synonym: "anucleate thrombocyte" EXACT [] synonym: "blood platelet" EXACT [] synonym: "enucleate thrombocyte" EXACT [] xref: BTO:0000132 xref: FMA:62851 is_a: CL:0000081 ! blood cell is_a: CL:0000225 ! anucleate cell is_a: CL:0000458 ! serotonin secreting cell is_a: CL:0000763 ! myeloid cell relationship: develops_from CL:0000556 ! megakaryocyte [Term] id: CL:0000234 name: phagocyte namespace: cell def: "Any cell capable of ingesting particulate matter via phagocytosis." [GOC:add, ISBN:0721601464] xref: BTO:0001044 xref: FMA:83806 is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell [Term] id: CL:0000235 name: macrophage namespace: cell def: "A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." [GOC:add, GOC:tfm, GO_REF:0000031, PMID:16213494, PMID:1919437] comment: Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid. synonym: "histiocyte" EXACT [] xref: BTO:0000801 xref: FMA:63261 xref: FMA:83585 is_a: CL:0000234 ! phagocyte is_a: CL:0000766 ! myeloid leukocyte relationship: develops_from CL:0000576 ! monocyte [Term] id: CL:0000236 name: B cell namespace: cell def: "A lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] synonym: "B lymphocyte" EXACT [] synonym: "B-cell" EXACT [] synonym: "B-lymphocyte" EXACT [] xref: BTO:0000776 xref: FMA:62869 xref: VHOG:0001480 is_a: CL:0000945 ! lymphocyte of B lineage relationship: develops_from CL:0000826 ! pro-B cell [Term] id: CL:0000237 name: keratinizing barrier epithelial cell namespace: cell is_a: CL:0000240 ! stratified squamous epithelial cell is_a: CL:0000311 ! keratin accumulating cell relationship: develops_from CL:0000114 ! surface ectodermal cell [Term] id: CL:0000238 name: non keratinizing barrier epithelial cell namespace: cell is_a: CL:0000240 ! stratified squamous epithelial cell [Term] id: CL:0000239 name: brush border epithelial cell namespace: cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000240 name: stratified squamous epithelial cell namespace: cell is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000079 ! stratified epithelial cell [Term] id: CL:0000241 name: stratified cuboidal epithelial cell namespace: cell is_a: CL:0000079 ! stratified epithelial cell [Term] id: CL:0000242 name: Merkel cell namespace: cell def: "A modified epidermal cell located in the stratum basale. They are found mostly in areas where sensory perception is acute. Merkel cells are closely associated with an expanded terminal bulb of an afferent myelinated nerve fiber." [MESH:A08.800.550.700.500.425] synonym: "Merkel's cell" EXACT [] xref: FMA:70548 is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0000312 ! keratinocyte [Term] id: CL:0000243 name: glial cell (sensu Vertebrata) namespace: cell def: "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Form the myelin insulation of nervous pathways, guide neuronal migration during development, and exchange metabolites with neurons. Neuroglia have high-affinity transmitter uptake systems, voltage-dependent and transmitter-gated ion channels, and can release transmitters, but their role in signaling (as in many other functions) is unclear." [MESH:A.08.637, MESH:A08.637] is_a: CL:0000125 ! glial cell relationship: develops_from CL:0000339 ! glioblast (sensu Vertebrata) [Term] id: CL:0000244 name: transitional epithelial cell namespace: cell def: "A cell characteristically found lining hollow organs that are subject to great mechanical change due to contraction and distention; originally thought to represent a transition between stratified squamous and columnar epithelium." [GOC:tfm, ISBN:0721662544] xref: FMA:66778 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000245 name: passage cell namespace: cell def: "Obsolete. Use PO:0000353 from Plant Ontology instead. Cell in exodermis or endodermis that remains thin walled when the associated cells develop thick secondary walls. Has casparian strip in endodermis." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000353 [Term] id: CL:0000246 name: Mauthner neuron namespace: cell is_a: CL:0000099 ! interneuron [Term] id: CL:0000247 name: Rohon-Beard neuron namespace: cell def: "Type of neuron that is a primary mechanosensory cell, with peripheral neurites innervating the skin with free nerve endings." [VHOG:0001484] synonym: "RB neuron" RELATED [VHOG:0001484] synonym: "Rohon Beard cell" EXACT [VHOG:0001484] synonym: "Rohon-Beard cell" EXACT [] xref: AAO:0010316 xref: EFO:0003711 xref: VHOG:0001484 is_a: CL:0000531 ! primary sensory neuron [Term] id: CL:0000248 name: microsporocyte namespace: cell def: "Obsolete. Use PO:0020047 from Plant Ontology instead. A diploid (2n) cell that undergoes meiosis and forms four haploid (1n) microspores; also called microspore mother cell and, in seed plants, pollen mother cell." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0020047 synonym: "pollen mother cell" EXACT [] synonym: "primary sporogenous cell" EXACT [] [Term] id: CL:0000249 name: hatching gland cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000250 name: megaspore namespace: cell def: "Obsolete. Use PO:0020019 from Plant Ontology instead. A haploid (1n) spore developing into a female gametophyte in heterosporous plants." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0020019 [Term] id: CL:0000251 name: extramedullary cell namespace: cell is_a: CL:0000101 ! sensory neuron [Term] id: CL:0000252 name: microspore namespace: cell def: "Obsolete. Use PO:0020048 from Plant Ontology instead. A haploid (1n) spore developing into a male gametophyte in heterosporous plants; the uninucleate pollen grain in seed plants." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0020048 [Term] id: CL:0000253 name: eurydendroid cell namespace: cell is_a: CL:0000527 ! efferent neuron [Term] id: CL:0000254 name: egg cell namespace: cell def: "Obsolete. Use PO:0020094 from Plant Ontology instead. The female gamete of plants." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0020094 synonym: "female gametophyte egg cell" EXACT [] [Term] id: CL:0000255 name: eukaryotic cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000256 name: uric acid accumulating cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000257 name: Mycetozoan cell namespace: cell is_a: CL:0000255 ! eukaryotic cell [Term] id: CL:0000258 name: fiber tracheid namespace: cell def: "Obsolete. Use PO:0000355 from Plant Ontology instead. A fiber like tracheid in the secondary xylem; commonly thick walled, with pointed ends and bordered pits that have lenticular to slit like apertures." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000355 [Term] id: CL:0000259 name: aggregate cell namespace: cell def: "Differentiating cell composing the aggregate that has acquired adhesive properties." [DictyBase:DDB] is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000260 name: mucilage cell namespace: cell def: "Obsolete. Use PO:0000373 from Plant Ontology instead. Cell containing mucilages or gums or similar carbohydrate material characterized by the property of swelling in water." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000373 [Term] id: CL:0000261 name: anterior cell namespace: cell is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000262 name: guard mother cell namespace: cell def: "Obsolete. Use PO:0000351 from Plant Ontology instead. An epidermal cell that divides to produce the guard cells." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000351 [Term] id: CL:0000263 name: vegetative cell (sensu Mycetozoa) namespace: cell def: "Unicellular haploid myxamoebae that feeds on bacteria and divides by binary fission." [DictyBase:DDB] synonym: "amoeba" EXACT [] is_a: CL:0000257 ! Mycetozoan cell [Term] id: CL:0000264 name: phloem initial namespace: cell def: "Obsolete. Use PO:0000400 from Plant Ontology instead. A cambial cell on the phloem side of the cambial zone that is the source of one or more cells arising by periclinal divisions and differentiating into phloem elements with or without additional divisions in various planes." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000400 synonym: "phloem mother cell" EXACT [] [Term] id: CL:0000265 name: anterior like cell namespace: cell def: "Cell that has properties of anterior cells (for e.g., accumulate vital dyes in autophagic vesicles) but that is are scattered throughout the rear of the slug. Some but not all these cells express the ecmA gene and/or the ecmB gene. ALCs maintain an amoeboid appearance during culmination. ALCs that express the ecmO promoter have been called pstO/ALC." [DictyBase:DDB] synonym: "ALC" EXACT [] is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000266 name: meristemoid namespace: cell def: "Obsolete. Use PO:0004011 from Plant Ontology instead. A cell constituting an active locus of meristematic activity in a tissue composed of somewhat older, differentiating cells." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0004011 [Term] id: CL:0000267 name: prespore cell namespace: cell def: "Cell that is undergoing differentiation to become a spore." [DictyBase:DDB] is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000268 name: sieve element namespace: cell def: "Obsolete. Consult Plant Ontology instead. The cell in the phloem tissue concerned with mainly longitudinal conduction of food materials. Classified into sieve cell and sieve tube member." [ISBN:0471245208] is_obsolete: true [Term] id: CL:0000269 name: prestalk cell namespace: cell is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000270 name: subsidiary cell namespace: cell def: "Obsolete. Use PO:0000284 from Plant Ontology instead. An epidermal cell associated with a stoma and at least morphologically distinguishable from the epidermal cells composing the groundmass of the tissue." [ISBN:047124520] is_obsolete: true comment: replaced_by: PO:0000284 [Term] id: CL:0000271 name: prestalk A cell namespace: cell def: "Cell expressing the ecmA marker from a promoter region that is proximal to the ATG (ecmAO promoter). They are located at the anterior-most region of the slug. During culmination pstA cells differentiate into pstAB cells." [DictyBase:DDB] synonym: "pstA" EXACT [] synonym: "pstAO" EXACT [] is_a: CL:0000269 ! prestalk cell [Term] id: CL:0000272 name: cambial initial namespace: cell def: "OBSOLETE, use term from Plant Ontology. A cell localized in the vascular cambium or phellogen. Its periclinal division can contribute cells either to the outside or to the inside of the axis; in vascular cambium, classified into fusiform initials (source of axial cells of xylem and phloem) and ray initials (source of the ray cells)." [ISBN:0471245208] is_obsolete: true comment: replaced_by PO:0000295 [Term] id: CL:0000273 name: prestalk AB cell namespace: cell def: "Cell that expresses both ecmA and ecmB either simultaneously or sequentially. During culmination pstA differentiate into pstAB cells." [DictyBase:DDB] synonym: "pstAB" EXACT [] is_a: CL:0000269 ! prestalk cell [Term] id: CL:0000275 name: prestalk B cell namespace: cell def: "Cell expressing ecmB but not ecmA. Most pstB cells are located at the very rear of the slug (rearguard region). These cells form part of the basal disc of the fruiting body. If a migratory slug is formed, these cells are left behind." [DictyBase:DDB] synonym: "pstB" EXACT [] is_a: CL:0000269 ! prestalk cell [Term] id: CL:0000276 name: sclerenchyma cell namespace: cell def: "Obsolete. Use PO:0000077 from Plant Ontology instead. Cell variable in form and size, being more or less thick, often lignified, secondary walls. Belongs to the category of subcells and may or may not be devoid of protoplast at maturity." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000077 [Term] id: CL:0000277 name: obsolete prestalk I cell namespace: cell def: "Initial population of prestalk cells that activate the ecmA promoter at the mound stage and that presumably further differentiate into pstA and pstO cells." [DictyBase:DDB] is_obsolete: true replaced_by: DDANAT:0000406 comment: This cell type does not exist in Dictyostelium. it has been long deleted in their anatomy ontology. [Term] id: CL:0000278 name: central cell namespace: cell def: "Obsolete. Use PO:0020090 from Plant Ontology instead. OBSOLETED, use term from Plant Ontology. A cell containing the two polar nuclei which, after double fertilization, will develop into the endosperm." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0020090 [Term] id: CL:0000279 name: prestalk 0 cell namespace: cell def: "Cell that express ecmA at a very low level. Located at the posterior half of the prestalk zone. Expresses ecmA from the distal region of its promoter (ecmO)." [DictyBase:DDB] is_a: CL:0000269 ! prestalk cell [Term] id: CL:0000280 name: generative cell namespace: cell def: "Obsolete. Use PO:0020097 from Plant Ontology instead. The cell that will give rise to the generative nuclei which will participate in fertilization." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0020097 [Term] id: CL:0000281 name: pstAB/ALC namespace: cell def: "Anterior-like cell expressing both ecmA and ecmB." [DictyBase:DDB] is_a: CL:0000265 ! anterior like cell [Term] id: CL:0000282 name: trichome namespace: cell def: "Obsolete. Use PO:0000282 from Plant Ontology instead. An outgrowth from the epidermis. Trichomes vary in size and complexity and include hairs, scales, and other structures and may be glandular. In Arabidopsis, patterning of trichome development is not random but does not appear to be lineage-based like stomata." [ISBN:0471245208, PMID:10938806] is_obsolete: true comment: replaced_by: PO:0000282 [Term] id: CL:0000283 name: pstO/ALC namespace: cell def: "Anterior-like cell that expresses the ecmO promoter and that can move to the position normally occupied by the pstO cells." [DictyBase:DDB] is_a: CL:0000265 ! anterior like cell [Term] id: CL:0000284 name: companion cell namespace: cell def: "Obsolete. Use PO:0000071 from Plant Ontology instead. A specialized parenchyma cell associated with a sieve-tube member in angiosperm phloem and arising from the same mother cell as the sieve-tube member." [ISBN:0879015322] is_obsolete: true comment: replaced_by: PO:0000071 [Term] id: CL:0000285 name: stalk cell namespace: cell def: "Vacuolated cell located at the center of the stalk tube that has a cell wall composed of cellulose and that die upon terminal differentiation. Stalk cells provide structural support for the fruiting body." [DictyBase:DDB] is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000286 name: hyphal cell namespace: cell def: "A cell of a filament of a fungal mycelium." [ISBN:08199377X] is_a: CL:0000521 ! fungal cell [Term] id: CL:0000287 name: eye photoreceptor cell namespace: cell is_a: CL:0000210 ! photoreceptor cell [Term] id: CL:0000288 name: synergid namespace: cell def: "Obsolete. Use PO:0000191 from Plant Ontology instead. A cell in the micropylar end of the embryo sac associated with the egg in the egg apparatus of angiosperms. Plays a vital role in fertilization." [ISBN:047125208] is_obsolete: true comment: replaced_by: PO:0000191 [Term] id: CL:0000289 name: chemotactic amoeboid cell (sensu Mycetozoa) namespace: cell def: "Starved cell that secretes and responds to chemoattractants (cAMP)." [DictyBase:DDB] is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) is_a: CL:0000732 ! amoeboid cell [Term] id: CL:0000290 name: xylem fiber cell namespace: cell def: "Obsolete. Use PO:0000274 from Plant Ontology instead. A fiber of the xylem tissue, Two types are recognized in the secondary xylem: fiber tracheids and libriform fibers." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000274 [Term] id: CL:0000291 name: spore (sensu Mycetozoa) namespace: cell def: "Dormant cell protected by a tri-layer spore coat. The spore has an elliptical shape and is approximately 6-9 microns by 3 microns." [DDB_REF:5048, DictyBase:DDB, PMID:4338436] xref: DDANAT:0000414 is_a: CL:0000263 ! vegetative cell (sensu Mycetozoa) [Term] id: CL:0000292 name: guard cell namespace: cell def: "Obsolete. Use PO:0000293 from Plant Ontology instead. One of a pair of cells flanking the stomatal pore and causing the opening and closing of the pore by changes in turgor." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000293 synonym: "stomatal guard cell" EXACT [] [Term] id: CL:0000293 name: structural cell namespace: cell def: "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." [TAIR:sr] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000294 name: sieve cell namespace: cell def: "Obsolete. Consult Plant Ontology instead. A type of sieve element that has relatively undifferentiated sieve areas (with narrow pores), rather uniform in structure on all walls; that is, there are no sieve plates. Typical of gymnosperms and lower vascular plants." [ISBN:0471245208] is_obsolete: true [Term] id: CL:0000295 name: somatotropin secreting cell namespace: cell alt_id: CL:0000471 def: "A peptide hormone secreting cell that produces growth hormone, somatotropin." [GOC:tfm, SANBI:mhl] synonym: "growth hormone secreting cell" EXACT [] synonym: "somatotrophin secreting cell" EXACT [] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000296 name: vegetative cell namespace: cell def: "Obsolete. Use PO:0020099 from Plant Ontology instead. Cell type formed after the first mitotic division of the microgametophye, The nucleus of this cell migrates to the tip of the pollen tube after germination and disintegrates when the pollen tube penetrates the nucellus." [ISBN:0140514031, TAIR:lr] is_obsolete: true comment: replaced_by: PO:0020099 [Term] id: CL:0000297 name: socket cell namespace: cell def: "Obsolete. Use PO:0000115 from Plant Ontology instead. A cell that surrounds a trichome and provides support for the trichome." [PMID:10938806] is_obsolete: true comment: replaced_by: PO:0000115 [Term] id: CL:0000298 name: xylem element namespace: cell def: "Obsolete. Use PO:0000273 from Plant Ontology instead. A cell composing the xylem." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000273 [Term] id: CL:0000299 name: trichoblast namespace: cell def: "OBSOLETED. Commonly used for a cell in root epidermis that gives rise to a root hair. The daughter cell produced by the asymmetric division of a root epidermal cell that gives rise to a root hair." [ISBN:0471245208] is_obsolete: true comment: Obsoleted. Use trichoblast from the plant ontology (PO:0000262). [Term] id: CL:0000300 name: gamete namespace: cell def: "A mature sexual reproductive cell having a single set of unpaired chromosomes." [GOC:tfm, ISBN:0721662544] synonym: "haploid germ cell" RELATED [] synonym: "haploid nucleated cell" EXACT [] xref: FBbt:00005412 xref: FMA:18649 is_a: CL:0000413 ! haploid cell is_a: CL:0000586 ! germ cell [Term] id: CL:0000301 name: pole cell namespace: cell xref: FBbt:00000092 is_a: CL:0000670 ! primordial germ cell [Term] id: CL:0000302 name: IgM B cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Not a differentiation state per se; consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000303 name: IgG B cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Not a differentiation state per se, and IgG isotypes vary by species; consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000304 name: IgA B cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Not a differentiation state per se, and IgA isotypes vary by species. Consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000305 name: IgE B cell namespace: cell def: "OBSOLETE (was not defined before being made obsolete)." [] is_obsolete: true comment: Not a differentiation state per se; consider using 'B cell ; CL:0000236' or one of its children instead. [Term] id: CL:0000306 name: crystallin accumulating cell namespace: cell synonym: "lens cell" EXACT [] xref: FBbt:00004193 is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000307 name: tracheal epithelial cell namespace: cell alt_id: CL:1000474 def: "An epithelial cell found in the trachea." [GOC:tfm] synonym: "tracheocyte" EXACT [] xref: FBbt:00005038 xref: FMA:74793 is_a: CL:0002202 ! epithelial cell of tracheobronchial tree relationship: develops_from CL:0000377 ! tracheoblast relationship: part_of UBERON:0003126 ! trachea [Term] id: CL:0000308 name: metal ion accumulating cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000309 name: copper accumulating cell namespace: cell synonym: "cuprophilic cell" EXACT [] is_a: CL:0000308 ! metal ion accumulating cell [Term] id: CL:0000310 name: iron accumulating cell namespace: cell is_a: CL:0000308 ! metal ion accumulating cell [Term] id: CL:0000311 name: keratin accumulating cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000312 name: keratinocyte namespace: cell alt_id: CL:0002185 def: "An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell." [GOC:dsd, MESH:A11.436.397, MESH:D015603, PMID:15582983, PMID:15749908, PMID:19727116, http://en.wikipedia.org/wiki/Keratinocyte] comment: Keratinocytes are reportedly CDw210a-negative, CDw210b-positive, CD281-positive, CD282-positive, CD285-positive, IL22Ra1-positive, Human keratinocytes are reportedly capable of secreting BD-2, BD-3, hCAP-18, CXCL1, CXCL5, CXCL8, elafin, MMP-3, NGAL, PDGF-A, S100A7, S100A8, and S100A9. Transcription factors: STAT3-positive. synonym: "keratinized cell of epidermis" EXACT [] synonym: "malpighian cell" EXACT [] xref: BTO:0000667 xref: FMA:62879 is_a: CL:0000237 ! keratinizing barrier epithelial cell is_a: CL:0000362 ! epidermal cell relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:0000313 name: serous secreting cell namespace: cell def: "Columnar glandular cell with irregular nucleus, copious granular endoplasmic reticulum and supranuclear granules. Secretes a watery fluid containing proteins known as serous fluid." [GOC:tfm, ISBN:0517223651, ISBN:0721662544] synonym: "serous cell" EXACT [] xref: BTO:0003687 xref: FMA:62511 is_a: CL:0000159 ! seromucus secreting cell [Term] id: CL:0000314 name: milk secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000315 name: tears secreting cell namespace: cell def: "A cell secreting tears, the fluid secreted by the lacrimal glands. This fluid moistens the conjunctiva and cornea." [MESH:A12.200.882] is_a: CL:0000151 ! secretory cell [Term] id: CL:0000316 name: ray initial namespace: cell def: "Obsolete. Use PO:0000082 from Plant Ontology instead. OBSOLETE, use term from Plant Ontology. A meristemic ray cell in the vascular cambium that gives rise to ray cells of the secondary xylem and secondary phloem." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000082 [Term] id: CL:0000317 name: sebum secreting cell namespace: cell def: "A cell secreting sebun, an oily substance secreted by sebaceous glands, composed of keratin, fat, and cellular debris." [MESH:A12.200.702] is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0001821 ! sebaceous gland [Term] id: CL:0000318 name: sweat secreting cell namespace: cell def: "A cell secreting sweat, the fluid excreted by the sweat glands of mammals. It consists of water containing sodium chloride, phosphate, urea, ammonia, and other waste products." [MESH:A12.200.849] is_a: CL:0000150 ! glandular epithelial cell [Term] id: CL:0000319 name: mucus secreting cell namespace: cell synonym: "mucous cell" EXACT [] xref: BTO:0003689 is_a: CL:0000159 ! seromucus secreting cell [Term] id: CL:0000320 name: megasporocyte namespace: cell def: "Obsolete. Use PO:0000431 from Plant Ontology instead. A diploid (2n) cell that undergoes meiosis and produces four haploid (1n) megaspores; also called megaspore mother cell." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000431 synonym: "archesporial cell" EXACT [] synonym: "megaspore mother cell" EXACT [] [Term] id: CL:0000321 name: seminal fluid secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000322 name: pneumocyte namespace: cell def: "An epithelial cell that lines the peripheral gas exchange region of the lungs of air-breathing vertebrates." [GOC:tfm, PMID:20054144] synonym: "alveolar epithelial cell" EXACT [] synonym: "pneumonocyte" EXACT [] xref: BTO:0000395 xref: FMA:62499 is_a: CL:0000082 ! epithelial cell of lung relationship: part_of UBERON:0002299 ! alveolus of lung relationship: part_of UBERON:0004821 ! pulmonary alveolus epithelium [Term] id: CL:0000323 name: lysozyme secreting cell namespace: cell is_a: CL:0000154 ! protein secreting cell [Term] id: CL:0000324 name: metanephric mesenchyme stem cell namespace: cell is_a: CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0000325 name: stuff accumulating cell namespace: cell def: "A cell that is specialised to accumulate a particular substance(s)." [FB:ma] subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000326 name: glycogen accumulating cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000327 name: extracellular matrix secreting cell namespace: cell is_a: CL:0000151 ! secretory cell is_a: CL:0000499 ! stromal cell [Term] id: CL:0000328 name: myelin accumulating cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000329 name: oxygen accumulating cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000330 name: collenchymal cell namespace: cell def: "Obsolete. Use PO:0000075 from Plant Ontology instead. An elongated living cell with unevenly thickened nonlignified primary walls." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000075 [Term] id: CL:0000331 name: tracheid namespace: cell def: "Obsolete. Use PO:0000301 from Plant Ontology instead. A tracheary element of the xylem that has no perforations, as contrasted with a vessel member. May occur in primary and in secondary xylem. May have any kind of secondary wall thickening found in tracheary elements." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000301 [Term] id: CL:0000332 name: atrichoblast namespace: cell def: "OBSOLETE, use term from Plant Ontology. A cell formed after asymmetric division of root epidermal cell that does not give rise to a root hair." [ISBN:0387987819] is_obsolete: true comment: replaced_by: PO:0020090 synonym: "non-hair cell" RELATED [] [Term] id: CL:0000333 name: migratory neural crest cell namespace: cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [MESH:A16.254.600] xref: FMA:86667 is_a: CL:0000219 ! motile cell is_a: CL:0002321 ! embryonic cell relationship: develops_from CL:0000133 ! neurectodermal cell relationship: develops_from CL:0007004 ! premigratory neural crest cell [Term] id: CL:0000334 name: vegetative cell (sensu Fungi) namespace: cell synonym: "yeast-form" RELATED [] xref: BTO:0002307 xref: FAO:0000032 is_a: CL:0000521 ! fungal cell [Term] id: CL:0000335 name: mesenchyme condensation cell namespace: cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] is_a: CL:0000134 ! mesenchymal cell [Term] id: CL:0000336 name: adrenal medulla chromaffin cell namespace: cell alt_id: CL:1000422 def: "A cell found within the adrenal medulla that secrete biogenic amine hormones upon stimulation." [GOC:tfm, http://www.britannica.com/EBchecked/topic/6405/adrenal-gland] synonym: "medullary chromaffin cell of adrenal gland" EXACT [FMA:69262] xref: FMA:69262 is_a: CL:0000457 ! biogenic amine secreting cell is_a: CL:1000426 ! chromaffin cell of adrenal gland relationship: develops_from CL:0000011 ! migratory trunk neural crest cell relationship: part_of UBERON:0001236 ! adrenal medulla [Term] id: CL:0000337 name: neuroblast (sensu Vertebrata) namespace: cell def: "An embryonic cell that develops into a nerve cell or neuron." [FMA:70563] is_a: CL:0000031 ! neuroblast [Term] id: CL:0000338 name: neuroblast (sensu Nematoda and Protostomia) namespace: cell synonym: "neuroblast" BROAD [] is_a: CL:0000031 ! neuroblast [Term] id: CL:0000339 name: glioblast (sensu Vertebrata) namespace: cell def: "An early neural cell developing from the early ependymal cell of the neural tube." [GOC:tfm, ISBN:0618947256] synonym: "spongioblast" EXACT [] xref: FMA:70564 is_a: CL:0000030 ! glioblast is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) [Term] id: CL:0000340 name: glioblast (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000030 ! glioblast is_a: CL:0000130 ! neuron associated cell (sensu Nematoda and Protostomia) [Term] id: CL:0000341 name: pigment cell (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000147 ! pigment cell [Term] id: CL:0000342 name: pigment cell (sensu Vertebrata) namespace: cell def: "Any animal cell containing pigment granules." [GOC:tfm, ISBN:0721662544] is_a: CL:0000147 ! pigment cell [Term] id: CL:0000343 name: visual pigment cell (sensu Vertebrata) namespace: cell def: "A pigment cell that is capable of detecting light stimulus that is involved in visual perception." [GOC:tfm] xref: FMA:63846 is_a: CL:0000149 ! visual pigment cell is_a: CL:0000342 ! pigment cell (sensu Vertebrata) [Term] id: CL:0000344 name: non-visual cell (sensu Vertebrata) namespace: cell is_obsolete: true [Term] id: CL:0000345 name: dental papilla cell namespace: cell def: "A small mass of condensed mesenchyme in the enamel organ; it differentiates into the dentin and dental pulp." [GOC:tfm, ISBN:0721662544] is_a: CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001763 ! odontogenic papilla [Term] id: CL:0000346 name: hair follicle dermal papilla cell namespace: cell def: "A specialized mesenchymal cell that resides in the dermal papilla located at the bottom of hair follicles. This cell plays a pivotal roles in hair formation, growth, and cycling." [GOC:tfm, PMID:9893172] is_a: CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000333 ! migratory neural crest cell relationship: part_of UBERON:0000412 ! dermal papilla [Term] id: CL:0000347 name: scleral cell namespace: cell def: "A cell of the sclera of the eye." [GOC:add] is_a: CL:0000293 ! structural cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001773 ! sclera [Term] id: CL:0000348 name: choroidal cell of the eye namespace: cell def: "A cell of the choroid of the eye." [GOC:add] is_a: CL:0000293 ! structural cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001776 ! optic choroid [Term] id: CL:0000349 name: extraembryonic cell namespace: cell is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: CL:0000350 name: amnioserosal cell namespace: cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0010302 ! amnioserosa [Term] id: CL:0000351 name: trophoblast cell namespace: cell def: "A cell lining the outside of the blastocyst. After binding to the endometrium, trophoblast cells develop into two distinct layers, an inner layer of mononuclear cytotrophoblast cells and an outer layer of continuous multinuclear cytoplasm, the syncytiotrophoblast cells, which form the early fetal-maternal interface." [GOC:tfm, MESH:A11.936] synonym: "trophoblastic cell" EXACT [] xref: FMA:83028 is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0000358 ! blastocyst [Term] id: CL:0000352 name: epiblast cell namespace: cell def: "A cell of the outer layer of a blastula that gives rise to the ectoderm after gastrulation." [GOC:tfm, ISBN:0618947256] is_a: CL:0000052 ! totipotent stem cell [Term] id: CL:0000353 name: blastoderm cell namespace: cell def: "An undifferentiated cell produced by early cleavages of the fertilized egg (zygote)." [MESH:A11.104] synonym: "blastomere" EXACT [] xref: BTO:0001473 xref: FMA:72551 is_a: CL:0000007 ! early embryonic cell [Term] id: CL:0000354 name: blastemal cell namespace: cell synonym: "blastema cell" EXACT [] xref: ncithesaurus:Blastemal_Cell is_a: CL:0000048 ! multi fate stem cell [Term] id: CL:0000355 name: muscle stem cell namespace: cell def: "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types. Distinct cell type from satellite cell." [PMID:18282570] xref: FMA:86767 is_a: CL:0000048 ! multi fate stem cell relationship: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0000356 name: hair matrix stem cell namespace: cell is_a: CL:0000035 ! single fate stem cell [Term] id: CL:0000357 name: stratified epithelial stem cell namespace: cell is_a: CL:0000036 ! epithelial fate stem cell [Term] id: CL:0000358 name: sphincter associated smooth muscle cell namespace: cell def: "A smooth muscle cell that is part of a sphincter. A sphincter is a typically circular muscle that normally maintains constriction of a natural body passage or orifice and which relaxes as required by normal physiological functioning." [GOC:cjm] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0004590 ! sphincter muscle [Term] id: CL:0000359 name: vascular associated smooth muscle cell namespace: cell def: "A smooth muscle cell assocatiated with the vasculature." [GOC:dsd, GOC:tfm] synonym: "VSMC" EXACT [] synonym: "vascular smooth muscle cell" EXACT [] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0002049 ! vasculature [Term] id: CL:0000360 name: morula cell namespace: cell def: "A cell of the early embryo at the developmental stage in which the blastomeres, resulting from repeated mitotic divisions of the fertilized ovum (zygote), form a compact cell mass." [MESH:A16.254.270.550] is_a: CL:0000007 ! early embryonic cell relationship: part_of UBERON:0000085 ! morula [Term] id: CL:0000361 name: gastrula cell namespace: cell def: "A cell of the embryo in the early stage following the blastula, characterized by morphogenetic cell movements, cell differentiation, and the formation of the three germ layers." [MESH:A16.254.412] is_a: CL:0000007 ! early embryonic cell relationship: part_of UBERON:0004734 ! gastrula [Term] id: CL:0000362 name: epidermal cell namespace: cell alt_id: CL:1000396 def: "An epithelial cell of the integument (the outer layer of an organism)." [Flybase:dsj, MA:ma] synonym: "cell of epidermis" EXACT [FMA:62411] synonym: "epithelial cell of skin" NARROW [FMA:62411] xref: BTO:0001470 xref: FMA:62411 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:0000363 name: axial cell namespace: cell def: "Obsolete. Use PO:0000081 from Plant Ontology instead. OBSOLETE, use term from the Plant Ontology. A secondary vascular cell that develops from the fusiform cambial initials and oriented with their longest diameter parallel with the main axis of stem or root. These cells make up the axial system, also known as vertical or longitudinal system." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000081 [Term] id: CL:0000364 name: ray cell namespace: cell def: "Obsolete. Consult Plant Ontology. A cell that develops from the ray initial and composes all rays (panels of tissue variable in height and width, formed by the ray initials in the vascular cambium and extending radially in the secondary xylem and secondary phloem) in the secondary vascular tissues." [ISBN:0471245208] is_obsolete: true [Term] id: CL:0000365 name: zygote namespace: cell def: "Diploid cell produced by the fusion of sperm cell nucleus and egg cell." [ISBN:0471245208] xref: BTO:0000854 xref: EHDAA2:0004546 xref: FMA:72395 is_a: CL:0000007 ! early embryonic cell [Term] id: CL:0000366 name: sperm cell (sensu Viridiplantae) namespace: cell def: "Obsolete. Use PO:0000084 from Plant Ontology instead. Male gamete, part of male germ unit." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000084 synonym: "gametophyte sperm cell" RELATED [] synonym: "male gametophyte sperm cell" RELATED [] synonym: "pollen germ cell " RELATED [] [Term] id: CL:0000367 name: sheath cell (sensu Nematoda) namespace: cell synonym: "glial cell (sensu Nematoda)" RELATED [] is_a: CL:0000619 ! support cell (sensu Nematoda) [Term] id: CL:0000368 name: myrosin cell namespace: cell def: "Obsolete. Use PO:0000352 from Plant Ontology instead. Cell containing glucosinolates ('mustard oil glucosides') and myrosinases, enzymes hydrolyzing the glucosinolates. Occurs in eleven dicotyledon families, the two largest of which are the Brassicaceae and Euphorbiaceae." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000352 [Term] id: CL:0000370 name: transfer cell namespace: cell def: "Obsolete. Use PO:0000078 from Plant Ontology instead. Parenchyma cell with the wall ingrowth (or invaginations) that increase the surface of the plasmalemma. Appears to be specialized for short-distance transfer of solutes." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000078 synonym: "intermediary cell" RELATED [] [Term] id: CL:0000371 name: protoplast namespace: cell def: "The cell protoplasm after removal of the cell wall." [ISBN:08199377X] is_a: CL:0000578 ! experimentally modified cell in vitro [Term] id: CL:0000372 name: tormogen cell namespace: cell def: "An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization that forms a socket around the base of a cuticular specialization produced by a trichogen cell." [ISBN:978-0801481253] synonym: "socket cell" BROAD [ISBN:978-0801481253] xref: FBbt:00005171 is_a: CL:0000463 ! epidermal cell (sensu arthropoda) [Term] id: CL:0000373 name: histoblast namespace: cell xref: FBbt:00001789 is_a: CL:0000146 ! simple columnar epithelial cell [Term] id: CL:0000374 name: trichogen cell namespace: cell def: "An epidermal cell that is part of a cell cluster organ of the insect integument (such as a sensillum) and that secretes a cuticular specialization, often in the form of a hair, bristle, peg or scale. The base of this specialization is often surrounded by a socket produced by a closely associated tormogen cell." [ISBN:978-0801481253] synonym: "hair cell" BROAD [] xref: BTO:0004744 xref: FBbt:00005169 is_a: CL:0000463 ! epidermal cell (sensu arthropoda) [Term] id: CL:0000375 name: osteoprogenitor cell namespace: cell is_obsolete: true replaced_by: CL:0007010 ! preosteoblast xref: BTO:0002051 [Term] id: CL:0000376 name: humidity receptor cell namespace: cell is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:0000377 name: tracheoblast namespace: cell is_a: CL:0000069 ! branched duct epithelial cell [Term] id: CL:0000378 name: support cell (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000630 ! supportive cell [Term] id: CL:0000379 name: sensory processing neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000380 name: thecogen cell namespace: cell def: "The support cell that makes the thecogen dendritic cap - a cuticle-like matrix around the tip of the eo-dendrite and which encloses the soma of the eo-neuron." [Fbbt:00005173] synonym: "fly sheath cell" EXACT [] is_a: CL:0000378 ! support cell (sensu Nematoda and Protostomia) [Term] id: CL:0000381 name: neurosecretory neuron namespace: cell xref: FBbt:00005130 is_a: CL:0000527 ! efferent neuron [Term] id: CL:0000382 name: scolopidium namespace: cell synonym: "scolopale cell" EXACT [] xref: FBbt:00005217 is_a: CL:0000378 ! support cell (sensu Nematoda and Protostomia) [Term] id: CL:0000383 name: nephrogenic mesenchyme stem cell namespace: cell is_a: CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000384 name: ligament cell namespace: cell is_a: CL:0000630 ! supportive cell [Term] id: CL:0000385 name: prohemocyte (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00005062 is_a: CL:0000390 ! blood cell (sensu Nematoda and Protostomia) [Term] id: CL:0000386 name: attachment cell namespace: cell is_a: CL:0000630 ! supportive cell [Term] id: CL:0000387 name: hemocyte (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00005063 is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) relationship: develops_from CL:0000385 ! prohemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000388 name: tendon cell namespace: cell def: "A fibrocyte that is part of a tendon." [GOC:tfm] synonym: "muscle attachment cell" EXACT [] synonym: "tenocyte" RELATED [] is_a: CL:0000135 ! fibrocyte is_a: CL:0000386 ! attachment cell relationship: part_of UBERON:0000043 ! tendon [Term] id: CL:0000389 name: socket cell (sensu Nematoda) namespace: cell is_a: CL:0000619 ! support cell (sensu Nematoda) is_a: CL:0000658 ! cuticle secreting cell [Term] id: CL:0000390 name: blood cell (sensu Nematoda and Protostomia) namespace: cell is_a: CL:0000081 ! blood cell [Term] id: CL:0000391 name: podocyte (sensu Diptera) namespace: cell def: "An insect immune cell that develops from plasmatocyte." [PMID:12930778] xref: FBbt:00001688 is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) relationship: develops_from CL:0000394 ! plasmatocyte [Term] id: CL:0000392 name: crystal cell namespace: cell xref: FMA:63847 is_a: CL:0000391 ! podocyte (sensu Diptera) [Term] id: CL:0000393 name: electrically responsive cell namespace: cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000394 name: plasmatocyte namespace: cell xref: FBbt:00001685 is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000395 name: procrystal cell namespace: cell xref: FBbt:00001689 is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000396 name: lamellocyte namespace: cell xref: FBbt:00001687 is_a: CL:0000394 ! plasmatocyte [Term] id: CL:0000397 name: ganglion interneuron namespace: cell is_a: CL:0000099 ! interneuron relationship: part_of UBERON:0000045 ! ganglion [Term] id: CL:0000398 name: polygonal cell namespace: cell xref: FBbt:00001691 is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000399 name: phloem element namespace: cell def: "Obsolete. Consult Plant Ontology instead. OBSOLETED, not defined prior to obsoletion." [GOC:tfm] is_obsolete: true [Term] id: CL:0000400 name: pavement cell namespace: cell def: "Obsolete. Use PO:0000332 from Plant Ontology instead. An epidermal cell with a characteristic convoluted anticlinal cell wall that gives a jigsaw like appearance to the lamina." [ISBN:087694289] is_obsolete: true comment: replaced_by: PO:0000332 [Term] id: CL:0000401 name: macrophage (sensu Diptera) namespace: cell xref: FBbt:00001686 is_a: CL:0000394 ! plasmatocyte [Term] id: CL:0000402 name: CNS interneuron namespace: cell is_a: CL:0000099 ! interneuron is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000404 name: electrically signaling cell namespace: cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000405 name: neuroepidermoblast namespace: cell xref: FBbt:00005148 is_a: CL:0000338 ! neuroblast (sensu Nematoda and Protostomia) [Term] id: CL:0000406 name: CNS short range interneuron namespace: cell is_a: CL:0000402 ! CNS interneuron [Term] id: CL:0000407 name: scolopidial ligament cell namespace: cell xref: FBbt:00005221 is_a: CL:0000384 ! ligament cell [Term] id: CL:0000408 name: male gamete namespace: cell xref: BTO:0001277 is_a: CL:0000015 ! male germ cell is_a: CL:0000300 ! gamete [Term] id: CL:0000409 name: scolopidial sheath cell namespace: cell xref: FBbt:00005219 is_a: CL:0000618 ! sheath cell [Term] id: CL:0000410 name: CNS long range interneuron namespace: cell is_a: CL:0000402 ! CNS interneuron [Term] id: CL:0000411 name: flatworm hypodermal cell namespace: cell def: "An epithelial cell of the hypodermis of flatworms." [GOC:tfm, http://www.wormatlas.org/hermaphrodite/hypodermis/mainframe.htm] xref: WBbt:0007846 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000228 ! multinucleate cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000412 name: polyploid cell namespace: cell def: "A cell whose nucleus, or nuclei, each contain more than two haploid genomes." [FB:ma] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000413 name: haploid cell namespace: cell def: "A cell whose nucleus contains a single haploid genome." [FB:ma, GOC:tfm] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000414 name: cell by ploidy namespace: cell def: "A classification of cells by the number of haploid genome equivalents of their nucleus or nuclei." [FB:ma, GOC:tfm] is_obsolete: true consider: CL:0000000 ! cell consider: CL:0000003 ! cell in vivo consider: CL:0000255 ! eukaryotic cell consider: CL:0001034 ! cell in vitro comment: This term was made obsolete because there is no difference in meaning between it and 'cell', as any cell with chromosomes can be classified by its ploidy. If you have used this term in annotation, please replace it with cell (CL:0000000), native cell (CL:0000003), eukaryotic cell (CL:0000255) or cell in vitro (CL:0001034) as appropriate. is_a: CL:0000012 ! cell by class ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000415 name: diploid cell namespace: cell def: "A cell whose nucleus has two haploid genomes." [FB:ma] xref: FMA:72300 is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000416 name: polytene cell namespace: cell is_a: CL:0000412 ! polyploid cell [Term] id: CL:0000417 name: endopolyploid cell namespace: cell is_a: CL:0000412 ! polyploid cell [Term] id: CL:0000418 name: arcade cell namespace: cell def: "An epithelial cell found in C. elegans that firmly hold the outer body wall and the lips to the inner cylinder of the pharynx in a manner that keeps these organs from breaking apart, while still giving each organ freedom of movement during feeding." [GOC:tfm, http://www.wormatlas.org/ver1/handbook/hypodermis/hypsupportother.htm#arcadecells] xref: WBbt:0005793 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000419 name: seam cell namespace: cell def: "An epithelial fate stem cell found in flatworms." [GOC:tfm, http://www.wormatlas.org/hermaphrodite/seam%20cells/mainframe.htm] xref: BTO:0003039 is_a: CL:0000036 ! epithelial fate stem cell [Term] id: CL:0000420 name: syncytial epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0000228 ! multinucleate cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000421 name: coelomocyte namespace: cell def: "A free floating cell, including amebocytes and eleocytes, in the coelom of certain animals, especially annelids." [GOC:tfm, ISBN:0721662544] xref: BTO:0002856 xref: WBbt:0005751 is_a: CL:0000080 ! circulating cell is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000422 name: mitogenic signaling cell namespace: cell def: "A cell whose primary function is to cause growth by stimulating cell division in its immediate cellular environment." [FB:ma] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000423 name: tip cell namespace: cell is_a: CL:0000422 ! mitogenic signaling cell [Term] id: CL:0000424 name: excretory cell namespace: cell def: "A cell involved in the elimination of metabolic and foreign toxins, and in maintaining the ionic, acid-base and water balance of biological fluids." [GOC:tfm, PMID:19783135] xref: WBbt:0005812 is_a: CL:0000151 ! secretory cell [Term] id: CL:0000425 name: pore cell namespace: cell def: "Forms the terminal part of the cuticle-lined excretory duct of C. elegans." [JB:jb] is_a: CL:0000658 ! cuticle secreting cell [Term] id: CL:0000426 name: scaffold cell namespace: cell is_a: CL:0000445 ! apoptosis fated cell [Term] id: CL:0000427 name: GLR cell namespace: cell def: "A scaffolding cell type found in C. elegans, this cell plays a supportive role to the muscle arms. May also have an endocrine role." [GOC:tfm, http://wormatlas.psc.edu/hermaphrodite/muscleGLR/mainframe.htm] is_a: CL:0002320 ! connective tissue cell [Term] id: CL:0000428 name: yolk cell namespace: cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000349 ! extraembryonic cell [Term] id: CL:0000429 name: imaginal disc cell namespace: cell is_a: CL:0000146 ! simple columnar epithelial cell [Term] id: CL:0000430 name: xanthophore namespace: cell def: "A pigment cell derived from the neural crest. Contains cartenoid pigments in structures called pterinosomes or xanthosomes. This gives an appearance ranging from a golden yellow to orange and red." [SANBI:mhl] is_a: CL:0000147 ! pigment cell relationship: develops_from CL:0005002 ! xanthoblast [Term] id: CL:0000431 name: iridophore namespace: cell def: "A pigment cell derived from the neural crest. The cell contains flat light-reflecting platelets, probably of guanine, in stacks called reflecting platets or iridisomes. The color-generating components produce a silver, gold, or iridescent color." [SANBI:mhl] synonym: "guanophore" RELATED [] is_a: CL:0000147 ! pigment cell relationship: develops_from CL:0005001 ! iridoblast [Term] id: CL:0000432 name: reticular cell namespace: cell def: "Large, stellate fibroblast found along the network of collagen fibers of the reticulum of the spleen; synthesize the matrix components of the reticulum." [GOC:tfm, ISBN:0517223651, http://en.wikipedia.org/wiki/Reticular_cell] synonym: "reticulum cell" EXACT [] xref: FMA:62877 is_a: CL:0000057 ! fibroblast [Term] id: CL:0000433 name: functional megaspore namespace: cell def: "Obsolete. Use PO:0000244 from Plant Ontology instead. In monosporic and bisporic megasporogenesis: the megaspore(s) that will undergo megagametogenesis." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0000244 [Term] id: CL:0000434 name: eccrine cell namespace: cell def: "A secretory cell that discharges its product without loss of cytoplasm." [ISBN:0198547684] is_a: CL:0000150 ! glandular epithelial cell [Term] id: CL:0000435 name: alkali secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000436 name: vaginal lubricant secreting cell namespace: cell is_a: CL:0000151 ! secretory cell relationship: part_of UBERON:0000996 ! vagina [Term] id: CL:0000437 name: gonadtroph namespace: cell def: "A rounded cell that is usually situated next to sinusoids; secretes follicular stimulating hormone (FSH) and luteinizing hormone (LH)." [GOC:tfm, ISBN:0517223651, http://en.wikipedia.org/wiki/Gonadotroph] synonym: "delta basophil" EXACT [] synonym: "follicle stimulating hormone secreting cell" EXACT [] synonym: "gonadotrope" EXACT [] synonym: "gonadotrope cell" EXACT [] synonym: "gonadotroph" EXACT [] synonym: "gonadotropic cell" EXACT [] synonym: "pituitary delta cell" EXACT [] xref: BTO:0002482 xref: FMA:83100 is_a: CL:0000438 ! luteinizing hormone secreting cell is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis [Term] id: CL:0000438 name: luteinizing hormone secreting cell namespace: cell def: "A peptide hormone secreting cell pituitary that produces luteinizing hormone." [GOC:tfm] is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000439 name: prolactin secreting cell namespace: cell def: "A peptide hormone cell that secretes prolactin." [GOC:tfm, SANBI:mhl] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000440 name: melanocyte stimulating hormone secreting cell namespace: cell def: "A cell of the intermediate pituitary that produces melanocyte stimulating hormone." [SANBI:mhl] synonym: "melanotrope" EXACT [] synonym: "melanotroph" EXACT [] xref: BTO:0002277 is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000441 name: follicle stem cell namespace: cell xref: FBbt:00004903 is_a: CL:0000036 ! epithelial fate stem cell [Term] id: CL:0000442 name: follicular dendritic cell namespace: cell def: "A cell with extensive dendritic processes found in the B cell areas (primary follicles and germinal centers) of lymphoid tissue. They are unrelated to the dendritic cell associated with T cells. Follicular dendritic cells have Fc receptors and C3b receptors, but unlike other dendritic cells, they do not process or present antigen in a way that allows recognition by T cells. Instead, they hold antigen in the form of immune complexes on their surfaces for long periods and can present antigen to B cells during an immune response." [ISBN:127520252] comment: Due to its unique lineage and distinct function, this is not a type of dendritic cell; CL:0000451. xref: BTO:0004267 xref: FMA:83037 is_a: CL:0000473 ! defensive cell [Term] id: CL:0000443 name: calcitonin secreting cell namespace: cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000444 name: obliquely striated muscle cell namespace: cell is_a: CL:0000737 ! striated muscle cell [Term] id: CL:0000445 name: apoptosis fated cell namespace: cell is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0000446 name: chief cell of parathyroid gland namespace: cell def: "An epithelial cell of the parathyroid gland that is arranged in wide, irregular interconnecting columns; responsible for the synthesis and secretion of parathyroid hormone." [FMA:69078, GOC:tfm, ISBN:0517223651] synonym: "parathyroid chief cell" EXACT [] synonym: "parathyroid gland chief cell" EXACT [] synonym: "parathyroid hormone secreting cell" EXACT [] synonym: "principal cell of parathyroid gland" EXACT [] xref: BTO:0004712 xref: FMA:69078 is_a: CL:0000167 ! peptide hormone secreting cell is_a: CL:0002260 ! epithelial cell of parathyroid gland [Term] id: CL:0000447 name: carbohydrate secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000448 name: white fat cell namespace: cell def: "Fat cells with light coloration and few mitochondria. They contain a scant ring of cytoplasm surrounding a single large lipid droplet or vacuole." [GOC:tfm, MESH:A11.329.114.500] synonym: "white adipocyte" RELATED [] synonym: "white adipose cell" EXACT [] synonym: "white fat cell" EXACT [] xref: FMA:83434 is_a: CL:0000136 ! fat cell relationship: develops_from CL:0002334 ! preadipocyte relationship: part_of UBERON:0001347 ! white adipose tissue [Term] id: CL:0000449 name: brown fat cell namespace: cell def: "A cell from the thermogenic form of adipose tissue found in newborns of many species, including humans, and in hibernating mammals. Brown fat is capable of rapid liberation of energy and seems to be important in the maintenance of body temperature immediately after birth and upon waking from hibernation." [MESH:A10.165.114.322] synonym: "brown adipocyte" EXACT [] synonym: "brown adipose cell" EXACT [] xref: FMA:83435 is_a: CL:0000136 ! fat cell relationship: develops_from CL:0002335 ! brown preadipocyte relationship: part_of UBERON:0001348 ! brown adipose tissue [Term] id: CL:0000451 name: dendritic cell namespace: cell def: "A cell of hematopoietic origin, typically resident in particular tissues, specialized in the uptake, processing, and transport of antigens to lymph nodes for the purpose of stimulating an immune response via T cell activation. These cells are lineage negative (CD3-negative, CD19-negative, CD34-negative, and CD56-negative)." [GOC:add, ISBN:0781735149] synonym: "interdigitating cell" RELATED [] synonym: "veiled cell" RELATED [] xref: BTO:0002042 xref: FMA:83036 is_a: CL:0000738 ! leukocyte [Term] id: CL:0000452 name: thyroid hormone secreting cell namespace: cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000453 name: Langerhans cell namespace: cell def: "Langerhans cell is a conventional dendritic cell that has plasma membrane part CD207. A Langerhans cell is a stellate dendritic cell of myeloid origin, that appears clear on light microscopy and has a dark-staining, indented nucleus and characteristic inclusions (Birbeck granules) in the cytoplasm; Langerhans cells are found principally in the stratum spinosum of the epidermis, but they also occur in other stratified epithelia and have been identified in the lung, lymph nodes, spleen, and thymus." [GOC:add, GOC:amm, GO_REF:0000031, ISBN:0721601464, ISBN:0781735149, PMCID:PMC2346585, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000021 )(PMID:19243617). These cells are also CD1a-high, CD14-negative, CD207-positive (langerin), CD324-positive (E-cadherin), and DCIR-positive. They reside in the epidermis. synonym: "LC" EXACT [] synonym: "Langerhans' cell" EXACT [] xref: BTO:0000705 xref: FMA:63072 is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0000763 ! myeloid cell [Term] id: CL:0000454 name: epinephrine secreting cell namespace: cell def: "A cell capable of producing epinephrine. Epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme, which is expressed in the adrenal glands, androgenic neurons, and in other cell types." [GOC:tfm, PMID:12438093] synonym: "adrenaline secreting cell" EXACT [GO:0048242] synonym: "epinephrin secreting cell" EXACT [] is_a: CL:0000457 ! biogenic amine secreting cell [Term] id: CL:0000455 name: starch sheath cell namespace: cell def: "Obsolete. Use PO:0004531 from Plant Ontology instead. A cell characterized by conspicuous and rather stable accumulation of starch." [ISBN:044174520] is_obsolete: true comment: replaced_by: PO:0004531 [Term] id: CL:0000456 name: mineralocorticoid secreting cell namespace: cell is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000457 name: biogenic amine secreting cell namespace: cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000458 name: serotonin secreting cell namespace: cell def: "A cell type that secretes 5-Hydroxytryptamine (serotonin)." [GOC:tfm, PMID:19630576] synonym: "5-HT secreting cell" EXACT [] synonym: "5-Hydroxytryptamine secreting cell" EXACT [] is_a: CL:0000457 ! biogenic amine secreting cell [Term] id: CL:0000459 name: norepinephrin secreting cell namespace: cell def: "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme." [GOC:tfm, ISBN:068340007X] synonym: "noradrenalin secreting cell" EXACT [] is_a: CL:0000457 ! biogenic amine secreting cell [Term] id: CL:0000460 name: glucocorticoid secreting cell namespace: cell is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000462 name: adepithelial cell namespace: cell xref: FBbt:00003219 is_a: CL:0000680 ! muscle precursor cell [Term] id: CL:0000463 name: epidermal cell (sensu arthropoda) namespace: cell def: "An epidermal cell that secretes chitinous cuticle from its apical side." [FlyBase:ds, ISBN:ISBN:978-0801481253] comment: While insect epidermis is generally columnar/cuboidal, there are certainly well studied cases where it is not (e.g.- Rhodnius prolixus when starved). So it would be safer to add this as a differentium for particular species where this is known. -DSJ. is_a: CL:0000362 ! epidermal cell relationship: develops_from CL:0000464 ! epidermoblast [Term] id: CL:0000464 name: epidermoblast namespace: cell def: "An epidermal progenitor cell that arises from neuroectoderm and in turn gives rise to the epidermal sheath of ventral and cephalic regions." [GOC:tfm, PMID:7576311] xref: FBbt:00004994 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: develops_from CL:0000114 ! surface ectodermal cell [Term] id: CL:0000465 name: cardioblast (sensu Arthropoda) namespace: cell xref: FBbt:00001666 is_a: CL:0000513 ! cardiac muscle myoblast [Term] id: CL:0000467 name: adrenocorticotropic hormone secreting cell namespace: cell alt_id: CL:0000640 def: "A peptide hormone secreting cell that produces adrenocorticotropin, or corticotropin." [GOC:tfm, SANBI:mhl] synonym: "ACTH secreting cell" EXACT [GO:0051458] synonym: "adrenocorticotrophic hormone secreting cell" EXACT [] synonym: "corticotrophin hormone secreting cell" EXACT [] synonym: "corticotropin hormone secreting cell" EXACT [] synonym: "corticotropin secreting cell" EXACT [GO:0051458] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000468 name: neuroglioblast namespace: cell xref: FBbt:00005147 is_a: CL:0000047 ! neuronal stem cell is_a: CL:0000055 ! non-terminally differentiated cell [Term] id: CL:0000469 name: ganglion mother cell namespace: cell xref: FBbt:00005149 is_a: CL:0000468 ! neuroglioblast [Term] id: CL:0000470 name: digestive enzyme secreting cell namespace: cell is_a: CL:0000154 ! protein secreting cell [Term] id: CL:0000472 name: chlorenchyma cell namespace: cell def: "Obsolete. Use PO:0000076 from Plant Ontology instead. OBSOLETE, use term from Plant Ontology. Parenchyma cells containing chloroplasts; a component of leaf mesophyll and other green parenchyma tissue." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000076 [Term] id: CL:0000473 name: defensive cell namespace: cell def: "A cell whose primary function is to protect the organism." [JB:jb] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000474 name: pericardial nephrocyte namespace: cell def: "an insect renal cell that filters hemolymph and is found with other pericardial nephrocytes in two rows flanking the dorsal vessel." [FBbt:00003184, GO:0061320, GOC:tfm, PMID:19783135] synonym: "pericardial cell" NARROW [FBbt:00005058, GO:0061320] xref: FBbt:00005058 is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) is_a: CL:0002520 ! nephrocyte [Term] id: CL:0000475 name: degenerate megaspore namespace: cell def: "Obsolete. Use PO:0000245 from Plant Ontology instead. In monosporic and bisporic megasporogenesis: the megaspore(s) that do not participate in megagametogenesis." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0000245 [Term] id: CL:0000476 name: thyrotroph namespace: cell def: "A basophil cell of the anterior pituitary that produces thyroid stimulating hormone, thyrotrophin. This cell type is elongated, polygonal and lie in clusters towards the adenohypophyseal center." [ISBN:0517223651, SANBI:mhl] synonym: "beta-basophil" EXACT [] synonym: "thyroid stimulating hormone secreting cell" EXACT [] synonym: "thyrotrope" EXACT [] xref: FMA:83099 is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis [Term] id: CL:0000477 name: follicle cell namespace: cell comment: Editors note: check this. Currently used in goxp synonym: "ovarian follicle cell" EXACT [GO:0007297] xref: FBbt:00004904 is_a: CL:0000075 ! columnar/cuboidal epithelial cell relationship: develops_from CL:0000441 ! follicle stem cell [Term] id: CL:0000478 name: oxytocin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes oxytocin stimulating hormone" [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000479 name: vasopressin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes vasopressin stimulating hormone" [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000480 name: secretin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes secretin stimulating hormone" [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000481 name: cholecystokin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes cholecystokin stimulating hormone" [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000482 name: juvenile hormone secreting cell namespace: cell def: "An endocrine cell that secretes juvenile hormone." [GO:tfm] is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000483 name: bombesin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes cholecystokin stimulating hormone" [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000484 name: connective tissue type mast cell namespace: cell def: "Mast cell subtype whose granules contain both the serine proteases tryptase and chymase. These cells are primarily found in connective tissue, such as the peritoneal cavity, skin, and intestinal submucosa. Their development is T-cell independent." [GOC:add, GOC:dsd, GOC:tfm, PMID:19923473, PMID:9354811] comment: They are CD88-positive. The cytoplasmic granules contain high levels of histamine and heparin (mouse) or major neutral proteases, tryptase, chymase, carboxypeptidase A, and cathepsin G (humans). Reportedly, they cannot produce leukotrienes (LTC4) and IL-4. They are reportedly very heterogeneous depending upon location and can convert to the MC(T) phenotype. synonym: "MC(TC)" EXACT [] synonym: "MCTC" EXACT [] synonym: "TC mast cells" EXACT [] is_a: CL:0000097 ! mast cell is_a: CL:0002320 ! connective tissue cell relationship: part_of UBERON:0002384 ! connective tissue [Term] id: CL:0000485 name: mucosal type mast cell namespace: cell def: "Mast cell subtype that contains only the serine protease trypase in its granules. These cells are primarily found in mucosal tissue, such as intestinal mucosa and alveoli. They depend upon T-cells for development of phenotype." [GOC:add, GOC:dsd, PMID:19923473, PMID:9354811] comment: They are CD88-negative. The cytoplasmic granules contain low levels of histamine and high levels of chondroitin sulfate (mouse) or major neutral proteases and tryptase (humans). Additionally, they can produce leukotrienes (LTC4), IL-5, IL-6, and low levels of IL-4. They are reportedly very heterogeneous depending upon location and can convert to the MC(T) phenotype. synonym: "MC(T)" EXACT [] synonym: "MCT" EXACT [] synonym: "T mast cells" EXACT [] is_a: CL:0000097 ! mast cell relationship: part_of UBERON:0001961 ! mucosa-associated lymphoid tissue [Term] id: CL:0000486 name: garland cell namespace: cell def: "A large binucleate cell that forms a 'garland' around the anterior end of the proventriculus (cardia) at its junction with the esophagus in both adults and larvae flies. Each cell is surrounded by a basement membrane and there are numerous micro-invaginations (lacunae) extending from the surface into the cytoplasm. At the mouth of each lacuna is a doubled filament forming a specialised filtration system (diaphragm). The filtrate is endocytosed from the lacunae." [GOC:tfm, PMID:19783135, fbbt:00005059] synonym: "garland nephrocyte" BROAD [GO:0061321] xref: BTO:0004596 xref: FBbt:00005059 is_a: CL:0000227 ! binucleate cell is_a: CL:0000519 ! phagocyte (sensu Nematoda and Protostomia) is_a: CL:0002520 ! nephrocyte [Term] id: CL:0000487 name: oenocyte namespace: cell def: "A large secretory cell found in clusters underlying the epidermis of the abdominal segments of larval abdominal segments." [GOC:bf, PMID:11171397] xref: FBbt:00004995 is_a: CL:0000151 ! secretory cell [Term] id: CL:0000488 name: visible light photoreceptor cell namespace: cell def: "A photoreceptor cell that detects visible light." [GOC:tfm] is_a: CL:0000210 ! photoreceptor cell [Term] id: CL:0000489 name: scotopic photoreceptor cell namespace: cell is_a: CL:0000210 ! photoreceptor cell [Term] id: CL:0000490 name: photopic photoreceptor cell namespace: cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000491 name: cytotoxic T cell namespace: cell def: "OBSOLETE: A cell responsible for spontaneous cytotoxicity of a variety of tumor cells without prior immunization. These natural killer cells are found in non-immune humans and experimental animals and are thought by some to be the same as killer cells (killing by antibody-dependent cell cytotoxicity), but they can also kill in the absence of antibody." [] is_obsolete: true comment: This term had an incorrect definition and was overly broad. Consider using 'cytotoxic T cell ; CL:0000910' (in most cases) or another lymphocyte cell type if cytotoxicity is shown to be part of the cell's phenotype in a particular experimental situation. [Term] id: CL:0000492 name: CD4-positive helper T cell namespace: cell def: "A CD4-positive, alpha-beta T cell that cooperates with other lymphocytes via direct contact or cytokine release to initiate a variety of immune functions." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, ISBN:0781735149, MESH:A11.118.637.555.567.569.200.400] synonym: "CD4-positive T-helper cell" EXACT [] synonym: "CD4-positive helper T lymphocyte" EXACT [] synonym: "CD4-positive helper T-cell" EXACT [] synonym: "CD4-positive helper T-lymphocyte" EXACT [] xref: FMA:70572 is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000912 ! helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000493 name: regulatory T cell namespace: cell def: "OBSOLETE: Subpopulation of CD4+ cells which induce CD8+ suppressor T cells to suppress antibody production by B cells. They also stimulate other cellular immune responses." [] is_obsolete: true comment: This term was defined too narrowly; consider using the term 'regulatory T cell ; CL:0000815' instead. [Term] id: CL:0000494 name: UV sensitive photoreceptor cell namespace: cell def: "A photoreceptor cell that detects ultraviolet light." [GOC:tfm] is_a: CL:0000210 ! photoreceptor cell [Term] id: CL:0000495 name: blue sensitive photoreceptor cell namespace: cell def: "A photoreceptor cell that is sensitive to blue light." [GO:tfm] is_a: CL:0000490 ! photopic photoreceptor cell [Term] id: CL:0000496 name: green sensitive photoreceptor cell namespace: cell def: "A photoreceptor cell that is sensitive to green light." [GO:tfm] is_a: CL:0000490 ! photopic photoreceptor cell [Term] id: CL:0000497 name: red sensitive photoreceptor cell namespace: cell def: "A photoreceptor cell that is sensitive to red light." [GO:tfm] is_a: CL:0000490 ! photopic photoreceptor cell [Term] id: CL:0000498 name: inhibitory interneuron namespace: cell def: "An interneuron (also called relay neuron, association neuron or local circuit neuron) is a multipolar neuron which connects afferent neurons and efferent neurons in neural pathways. Like motor neurons, interneuron cell bodies are always located in the central nervous system (CNS)." [GOC:tfm, http://en.wikipedia.org/wiki/Interneuron] xref: FMA:84776 is_a: CL:0000099 ! interneuron [Term] id: CL:0000499 name: stromal cell namespace: cell def: "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere." [GOC:tfm, MESH:A.11.329.830, MESH:A11.329.830] xref: BTO:0002064 xref: FMA:83624 is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000500 name: follicular epithelial cell namespace: cell is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000501 name: granulosa cell namespace: cell def: "A supporting cell for the developing female gamete in the ovary of mammals. They develop from the coelomic epithelial cells of the gonadal ridge. Granulosa cells form a single layer around the mammalian oocyte in the primordial ovarian follicle and advance to form a multilayered cumulus oophorus surrounding the ovum in the Graafian follicle. The major functions of granulosa cells include the production of steroids and LH receptors." [MESH:A05.360.319.114.630.535.200] synonym: "granulosa cell of ovary" EXACT [] xref: BTO:0000542 xref: FMA:18718 is_a: CL:0000174 ! steroid hormone secreting cell is_a: CL:0002174 ! follicular cell of ovary [Term] id: CL:0000502 name: type D enteroendocrine cell namespace: cell def: "A cell found throughout the gastrointestinal tract and in the pancreas. They secrete somatostatin in both an endocrine and paracrine manner. Somatostatin inhibits gastrin, cholecystokinin, insulin, glucagon, pancreatic enzymes, and gastric hydrochloric acid. A variety of substances which inhibit gastric acid secretion (vasoactive intestinal peptide, calcitonin gene-related peptide, cholecystokinin, beta-adrenergic agonists, and gastric inhibitory peptide) are thought to act by releasing somatostatin." [MESH:A03.492.766.440.175] synonym: "D cell" EXACT [] xref: FMA:62935 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000172 ! somatostatin secreting cell [Term] id: CL:0000503 name: theca cell namespace: cell def: "A flattened stroma cell forming a sheath or theca outside the basal lamina lining the mature ovarian follicle. Thecal interstitial or stromal cells are steroidogenic, and produce primarily androgens which serve as precusors of estrogens in the granulosa cells." [MESH:A05.360.319.114.630.535.400] xref: BTO:0002850 xref: FMA:18690 is_a: CL:0000499 ! stromal cell is_a: CL:0000593 ! androgen secreting cell [Term] id: CL:0000504 name: enterochromaffin-like cell namespace: cell def: "A enteroendocrine cell part of the glands of the gastric mucosa. They produce histamine and peptides such as chromogranins. This cell type respond to gastrin by releasing histamine which acts as a paracrine stimulator of the release of hydrochloric acid from the gastric parietal cells." [GOC:tfm, MESH:A06.224.365] comment: Consider enterochromaffin cell (CL:0002065). For several years this cell type was \"enterochromaffin cell\" despite a MESH dbxref and a free text definition that clearly meant enterochromaffin-like cell. synonym: "ECL" EXACT [] xref: BTO:0002692 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0002274 ! histamine secreting cell [Term] id: CL:0000505 name: substance P secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes substance P." [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000506 name: enkephalin secreting cell namespace: cell def: "An endorphine cell that secretes enkephalin." [GO:tfm] is_a: CL:0000507 ! endorphin secreting cell [Term] id: CL:0000507 name: endorphin secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes endorphin." [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000508 name: type G enteroendocrine cell namespace: cell def: "An endocrine cell found in the pyloric gland mucosa (antral mucosa) of the stomach of mammals and responsible for the secretion of gastrin and enkephalin. Most abundant in pyloric antrum, pyramidal in form with a narrow apex bearing long microvilli." [GOC:tfm, ISBN:0517223651, MESH:A03.492.766.440.300] synonym: "G cell " EXACT [] xref: BTO:0004108 xref: FMA:67609 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000506 ! enkephalin secreting cell is_a: CL:0000509 ! gastrin secreting cell [Term] id: CL:0000509 name: gastrin secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes gastrin." [GO:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000510 name: paneth cell namespace: cell def: "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix." [GOC:tfm, ISBN:0517223651, MESH:A03.492.411.369.700] xref: BTO:0000993 xref: FMA:62897 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000323 ! lysozyme secreting cell is_a: CL:0002563 ! intestinal epithelial cell relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0000511 name: androgen binding protein secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes androgen binding protein." [GO:tfm] is_a: CL:0000154 ! protein secreting cell [Term] id: CL:0000512 name: paracrine cell namespace: cell def: "A paracrine cell is a secretory cell that secretes an agonist into intercellular spaces in which it diffuses to a target cell other than that which produced it." [GOC:tfm, ISBN:0198529171] is_a: CL:0000151 ! secretory cell [Term] id: CL:0000513 name: cardiac muscle myoblast namespace: cell alt_id: CL:0000714 def: "A precursor cell destined to differentiate into cardiac muscle cell." [GOC:tfm, MESH:A11.635.470] xref: FMA:84797 is_a: CL:0000056 ! myoblast is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0001133 ! cardiac muscle tissue [Term] id: CL:0000514 name: smooth muscle myoblast namespace: cell def: "A precursor cell destined to differentiate into smooth muscle myocytes." [GOC:tfm, MESH:A11.635.510, MESH:D032390] synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 is_a: CL:0000056 ! myoblast relationship: part_of UBERON:0001135 ! smooth muscle tissue [Term] id: CL:0000515 name: skeletal muscle myoblast namespace: cell def: "A myoblast that differentiates into skeletal muscle fibers." [SANBI:mhl] synonym: "skeletal myoblast" EXACT [] xref: FMA:84799 is_a: CL:0000056 ! myoblast relationship: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0000516 name: perineuronal satellite cell namespace: cell def: "A non-neuronal cell that surrounds the neuronal cell bodies of the ganglia." [GOC:tfm, MESH:A08.340.685] synonym: "perineural satellite cell" EXACT [] synonym: "perineuronal satellite oligodendroglial cell" EXACT [] synonym: "satellite oligodendrocyte" EXACT [] xref: FMA:54550 is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) is_a: CL:0000243 ! glial cell (sensu Vertebrata) relationship: develops_from CL:0000339 ! glioblast (sensu Vertebrata) [Term] id: CL:0000517 name: macrophage derived foam cell namespace: cell def: "A type of foam cell derived from a macrophage containing lipids in small vacuoles and typically seen in atherolosclerotic lesions, as well as other conditions." [GOC:add, PMID:20213546] is_a: CL:0000891 ! foam cell relationship: develops_from CL:0000235 ! macrophage [Term] id: CL:0000518 name: phagocyte (sensu Vertebrata) namespace: cell def: "A phagocyte in vertebrates that is able to phagocytosis." [GOC:tfm] is_a: CL:0000234 ! phagocyte [Term] id: CL:0000519 name: phagocyte (sensu Nematoda and Protostomia) namespace: cell def: "A phagocyte from organisms in the Nematoda or Protostomia clades." [GOC:tfm] is_a: CL:0000234 ! phagocyte [Term] id: CL:0000520 name: prokaryotic cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000521 name: fungal cell namespace: cell is_a: CL:0000255 ! eukaryotic cell [Term] id: CL:0000522 name: spore namespace: cell def: "The reproductive structure of bacteria, fungi and cryptograms." [ISBN:08199377X] is_obsolete: true [Term] id: CL:0000523 name: mononuclear cytotrophoblast cell namespace: cell def: "A cell from the inner layer of the trophoblast of the early mammalian embryo that gives rise to the outer surface and villi of the chorion. Mononuclear crytoblasts fuse to give rise to a multinuclear cytotrophoblast." [GOC:tfm, ISBN:0323052908] synonym: "Langhans' cell" EXACT [] xref: FMA:83042 is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0000524 name: spheroplast namespace: cell def: "A cell, usually of bacteria or yeast, which has partially lost its cell wall." [MESH:A11.868] synonym: "sphaeroplast" EXACT [] is_a: CL:0000371 ! protoplast [Term] id: CL:0000525 name: syncytiotrophoblast cell namespace: cell def: "A cell from the outer syncytial layer of the trophoblast of an early mammalian embryo. It It secretes hCG in order to maintain progesterone secretion and sustain a pregnancy." [GOC:tfm, ISBN:0323052908] synonym: "plasmidotrophoblast" RELATED [] synonym: "syncytial trophoblast" RELATED [] synonym: "syntrophoblast" RELATED [] xref: FMA:83043 is_a: CL:0000228 ! multinucleate cell is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0000526 name: afferent neuron namespace: cell def: "A neuron which conveys sensory information centrally from the periphery." [GOC:tfm, MESH:A.08.663.650, MESH:A08.663.650] synonym: "input neuron" RELATED [] xref: FMA:87653 is_a: CL:0000540 ! neuron [Term] id: CL:0000527 name: efferent neuron namespace: cell def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." [MESH:A.08.663.655, MESH:A08.663.655] synonym: "output neuron" RELATED [] is_a: CL:0000540 ! neuron [Term] id: CL:0000528 name: nitrergic neuron namespace: cell def: "A nerve cell where transmission is mediated by nitric oxide." [MESH:A08.663.748] xref: FMA:84792 is_a: CL:0000540 ! neuron [Term] id: CL:0000529 name: pigmented epithelial cell namespace: cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000530 name: primary neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000531 name: primary sensory neuron namespace: cell is_a: CL:0000101 ! sensory neuron is_a: CL:0000530 ! primary neuron [Term] id: CL:0000532 name: CAP motoneuron namespace: cell is_a: CL:0000533 ! primary motor neuron [Term] id: CL:0000533 name: primary motor neuron namespace: cell xref: FMA:83619 is_a: CL:0000100 ! motor neuron is_a: CL:0000530 ! primary neuron [Term] id: CL:0000534 name: primary interneuron namespace: cell is_a: CL:0000099 ! interneuron is_a: CL:0000530 ! primary neuron [Term] id: CL:0000535 name: secondary neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000536 name: secondary motor neuron namespace: cell xref: FMA:83620 is_a: CL:0000100 ! motor neuron is_a: CL:0000535 ! secondary neuron [Term] id: CL:0000537 name: antipodal cell namespace: cell def: "Obsolete. Use PO:0020093 from Plant Ontology instead. OBSOLETE, use term from plant ontology. A cell located at the chalazal end of the mature embryo sac in angiosperms." [ISBN:047125208] is_obsolete: true comment: replaced_by: PO:0020093 [Term] id: CL:0000538 name: epidermal initial namespace: cell def: "Obsolete. Use PO:0000349 from Plant Ontology instead. A relatively unspecialized cell that will give rise to specialized cell types of the epidermis." [TAIR:lr] is_obsolete: true comment: replaced_by: PO:0000349 [Term] id: CL:0000539 name: idioblast namespace: cell def: "A cell in a tissue that markedly differs in form, size, or contents from other cells in the same tissue." [ISBN:0471245208] is_obsolete: true [Term] id: CL:0000540 name: neuron namespace: cell def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [MESH:A.08.663, MESH:A08.663, MESH:D009474, http://en.wikipedia.org/wiki/Neuron] comment: These cells are also reportedly CD4-negative and CD200-positive. They are also capable of producing CD40L and IFN-gamma. synonym: "nerve cell" RELATED [] xref: BTO:0000938 xref: FBbt:00005106 xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell relationship: develops_from CL:0000031 ! neuroblast [Term] id: CL:0000541 name: melanoblast namespace: cell def: "A cell that originates from the neural crest and differentiates into a pigment cell." [GOC:tfm, SANBI:mhl] comment: Derived from UBERON:0002342 neural crest. xref: BTO:0003217 xref: FMA:83377 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0000542 name: lymphocyte namespace: cell def: "A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin." [GOC:add, ISBN:0683073696, ISBN:0781735149] comment: Editors note: consider adding taxon constraint to vertebrata (PMID:18025161) xref: BTO:0000775 xref: FMA:62863 xref: VHOG:0001535 is_a: CL:0002087 ! nongranular leukocyte is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000051 ! common lymphoid progenitor [Term] id: CL:0000543 name: sieve tube member namespace: cell def: "Obsolete. Use PO:0000289 from Plant Ontology instead. One of the series of cellular components of a sieve tube. It shows a more or less pronounced differentiation between sieve plates (wide pores) and lateral sieve areas (narrow pores). Also sieve tube element and the obsolete sieve tube segment." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000289 synonym: "sieve tube element" EXACT [] [Term] id: CL:0000544 name: slowly adapting mechanoreceptor cell namespace: cell is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0000545 name: T-helper 1 cell namespace: cell def: "A CD4-positive, alpha-beta T cell that has the phenotype T-bet-positive and produces interferon-gamma." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19375293, PMID:20303875] synonym: "T helper cells type 1" EXACT [PMID:9419219] synonym: "T(H)-1 cell" EXACT [] synonym: "Th1 T cell" EXACT [] synonym: "Th1 T lymphocyte" EXACT [] synonym: "Th1 T-cell" EXACT [] synonym: "Th1 T-lymphocyte" EXACT [] synonym: "Th1 cell" EXACT [] synonym: "helper T cell type 1" EXACT [] xref: BTO:0001678 xref: FMA:84382 is_a: CL:0000492 ! CD4-positive helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000546 name: T-helper 2 cell namespace: cell def: "A CD4-positive, alpha-beta T cell that has the phenotype GATA-3-positive and produces interleukin-4." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19375293, PMID:20103781] synonym: "T helper cells type 2" EXACT [PMID:9419219] synonym: "T(H)-2 cell" EXACT [] synonym: "Th2 T cell" EXACT [] synonym: "Th2 T lymphocyte" EXACT [] synonym: "Th2 T-cell" EXACT [] synonym: "Th2 T-lymphocyte" EXACT [] synonym: "Th2 cell" EXACT [] synonym: "helper T cell type 2" EXACT [] xref: BTO:0001679 xref: FMA:84385 is_a: CL:0000492 ! CD4-positive helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000547 name: proerythroblast namespace: cell def: "An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers." [ISBN:0721601464, MESH:A11.118.290.350.200, PMID:1638021] synonym: "pronormoblast" RELATED [] synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000038 ! erythroid progenitor cell [Term] id: CL:0000548 name: animal cell namespace: cell subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis is_a: CL:0000255 ! eukaryotic cell [Term] id: CL:0000549 name: basophilic erythroblast namespace: cell def: "A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers." [GOC:tfm, ISBN:0721601464] synonym: "basophilic normoblast" EXACT [ISBN:0721601464] synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 is_a: CL:0000765 ! erythroblast relationship: develops_from CL:0000547 ! proerythroblast [Term] id: CL:0000550 name: polychromatophilic erythroblast namespace: cell def: "A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers." [ISBN:0721601464] synonym: "intermediate erythroblast" EXACT [ISBN:0721601464] synonym: "intermediate normoblast" EXACT [ISBN:0721601464] synonym: "polychromatic erythroblast" EXACT [ISBN:0721601464] synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 is_a: CL:0000765 ! erythroblast relationship: develops_from CL:0000549 ! basophilic erythroblast [Term] id: CL:0000551 name: unimodal nocireceptor namespace: cell is_a: CL:0000198 ! pain receptor cell [Term] id: CL:0000552 name: orthochromatic erythroblast namespace: cell def: "The final stage of the nucleated, immature erythrocyte, before nuclear loss. Typically the cytoplasm is described as acidophilic, but it still shows a faint polychromatic tint. The nucleus is small and initially may still have coarse, clumped chromatin, as in its precursor, the polychromatophilic erythroblast, but ultimately it becomes pyknotic, and appears as a deeply staining, blue-black, homogeneous structureless mass. The nucleus is often eccentric and sometimes lobulated." [ISBN:0721601464] synonym: "acidophilic erythroblast" EXACT [ISBN:0721601464] synonym: "eosinophilic erythroblast" EXACT [ISBN:0721601464] synonym: "late erythoblast" EXACT [] synonym: "orthochromatic normoblast" EXACT [ISBN:0721601464] synonym: "pyknotic eto enrythroblast" EXACT [ISBN:0721601464] xref: FMA:84646 is_a: CL:0000765 ! erythroblast relationship: develops_from CL:0000550 ! polychromatophilic erythroblast [Term] id: CL:0000553 name: megakaryocyte progenitor cell namespace: cell def: "The earliest cytologically identifiable precursor in the thrombocytic series. This cell is capable of endomitosis and lacks expression of hematopoieitic lineage markers (lin-negative)." [GOC:dsd, GOC:tfm, ISBN:0721601464] comment: Lineage negative is described here as CD2-negative, CD3-negative, CD4-negative, CD5-negative, CD8a-negative, CD14-negative, CD19-negative, CD20-negative, CD56-negative, Ly6g-negative, and Ter119-negative. synonym: "CFU-Meg" EXACT [PMID:11722431, PMID:12482498] synonym: "Meg-CFC" EXACT [PMCID:PMC1794060] synonym: "MkP" EXACT [PMID:21116988] synonym: "colony-forming unit-megakaryocyte" EXACT [] synonym: "megacaryoblast" EXACT [] synonym: "megacaryocyte progenitor cell" EXACT [] synonym: "megakaryoblast" EXACT [] synonym: "megakaryocytic progenitor cell" EXACT [PMID:12482498] synonym: "promegacaryocyte" RELATED [] synonym: "promegakaryocyte" RELATED [] xref: BTO:0001164 xref: FMA:84235 is_a: CL:0000839 ! myeloid lineage restricted progenitor cell relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0000554 name: gastrin stimulating hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes gastrin stimulating hormone." [GOC:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000555 name: neuronal brush cell namespace: cell is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000556 name: megakaryocyte namespace: cell def: "A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm." [ISBN:0721601464, MESH:D008533, http://en.wikipedia.org/wiki/Megakaryocyte] comment: Megakaryocytes are reportedly CD181-positive and CD182-positive. synonym: "megacaryocyte" EXACT [] synonym: "megalocaryocyte" EXACT [] synonym: "megalokaryocyte" EXACT [] xref: BTO:0000843 xref: FMA:83555 is_a: CL:0000763 ! myeloid cell is_a: CL:0002092 ! bone marrow cell relationship: develops_from CL:0000553 ! megakaryocyte progenitor cell relationship: part_of UBERON:0002371 ! bone marrow [Term] id: CL:0000557 name: granulocyte monocyte progenitor cell namespace: cell def: "A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1." [GOC:amm, GOC:dsd, GOC:tfm, GO_REF:0000031, ISBN:0721601464, MESH:D055014, PMCID:PMC2213186, PMCID:PMC548021, PMID:16551251, PMID:16647566, http://en.wikipedia.org/wiki/CFU-GM, http://www.copewithcytokines.de] comment: Originally described in the dendritic cell ontology (DC_CL:0000042)(PMID:19243617). GMPs are reportedly CD16-positive, CD32-positive, CD34-positive, CD38-positive, CD45RA-positive, CD110-negative, CD117-positive, CD123-positive, and SCA1-negative. synonym: "CFU-C , Colony forming unit in culture" BROAD [http://www.copewithcytokines.de] synonym: "CFU-GM" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "GMP" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "colony forming unit granulocyte macrophage" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte-macrophage progenitor" EXACT [ISBN:0721601464, PMCID:PMC2213186, PMCID:PMC548021] synonym: "granulocyte/monocyte precursor" EXACT [] synonym: "granulocyte/monocyte progenitor" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell is_a: CL:0002092 ! bone marrow cell relationship: develops_from CL:0000049 ! common myeloid progenitor relationship: part_of UBERON:0002371 ! bone marrow [Term] id: CL:0000558 name: reticulocyte namespace: cell def: "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." [GOC:add, GOC:tfm, PMID:15946868, PMID:2037622] xref: BTO:0001173 is_a: CL:0000764 ! erythroid lineage cell relationship: develops_from CL:0000552 ! orthochromatic erythroblast [Term] id: CL:0000559 name: promonocyte namespace: cell def: "A precursor in the monocytic series, being a cell intermediate in development between the monoblast and monocyte. This cell is CD11b-positive and has fine azurophil granules." [GOC:tfm, ISBN:0721601464] comment: Morphology: Mononuclear cell, diameter 14-18 _M, fine azurophilic granules; markers: CD11b (shared with many other myeloid cells); location: Adult: bone marrow; Fetal: Liver, Yolk Sac; role or process: hematopoiesis, monocyte development; lineage: hematopoietic, myeloid. xref: BTO:0004657 xref: FMA:83551 is_a: CL:0002194 ! monopoietic cell relationship: develops_from CL:0000040 ! monoblast [Term] id: CL:0000560 name: band form neutrophil namespace: cell def: "A late neutrophilic metamyelocyte in which the nucleus is indented to more than half the distance to the farthest nuclear margin but in no area being condensed to a single filament. The nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature neutrophil. These cells are fMLP receptor-positive, CD11b-positive, CD35-negative, and CD49d-negative." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, PMID:10618520, PMID:12560239, PMID:15514007, http://www.cap.org] comment: Found in the Band 1 fraction. synonym: "band" BROAD [] synonym: "band cell" BROAD [] synonym: "band form" BROAD [] synonym: "rod neutrophil" EXACT [] synonym: "stab cell" BROAD [] is_a: CL:0000776 ! immature neutrophil is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000582 ! neutrophilic metamyelocyte [Term] id: CL:0000561 name: amacrine cell namespace: cell def: "Interneuron of the vertebrate retina. They integrate, modulate, and interpose a temporal domain in the visual message presented to the retinal ganglion cells, with which they synapse in the inner plexiform layer. They lack large axons." [GOC:tfm, MESH:A08.663.358.050] comment: Not clear if this term overlaps with retinal bipolar neuron (CL:0000748). synonym: "amacrine neuron" EXACT [] xref: BTO:0004044 xref: FBbt:00005127 xref: FMA:67766 is_a: CL:0000099 ! interneuron [Term] id: CL:0000562 name: nucleate erythrocyte namespace: cell def: "An erythrocyte having a nucleus." [GOC:add, GOc:tfm] synonym: "RBC" BROAD [] synonym: "red blood cell" BROAD [] is_a: CL:0000232 ! erythrocyte is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0002421 ! nucleated reticulocyte [Term] id: CL:0000563 name: endospore namespace: cell def: "A rounded, inactive form that certain bacteria assume under conditions of extreme temperature, dryness, or lack of food. The bacterium develops a waterproof cell wall that protects it from being dried out or damaged." [GOC:tfm, ISBN:0618947256] synonym: "bacterial spore" EXACT [] xref: BTO:0002779 is_a: CL:0000520 ! prokaryotic cell [Term] id: CL:0000564 name: neutrophilic promyelocyte namespace: cell def: "A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, PMID:12560239, PMID:15514007] comment: These cells are CD11b-negative, CD15-positive, CD16-negative, CD49d-positive, CD68-positive, CD35-negative, and fMLP receptor-negative. They are found in the Band 3 fraction. synonym: "neutrophilic premyelocyte" EXACT [] synonym: "neutrophilic progranulocyte" EXACT [] xref: FMA:84196 is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000836 ! promyelocyte relationship: develops_from CL:0000042 ! neutrophilic myeloblast [Term] id: CL:0000565 name: fat body cell namespace: cell def: "A cell whose primary function is intermediary metabolism." [FB:ma] is_a: CL:0000181 ! metabolising cell [Term] id: CL:0000566 name: angioblastic mesenchymal cell namespace: cell def: "A mesenchymal stem cell capable of developing into blood vessel endothelium." [GOC:dsd, GOC:tfm, PMID:12768659] comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] is_a: CL:0000134 ! mesenchymal cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000567 name: polymodal nocireceptor namespace: cell is_a: CL:0000198 ! pain receptor cell [Term] id: CL:0000568 name: APUD cell namespace: cell def: "A cell that originates in the neural crest, that has certain cytochemical and ultrastructural characteristics and is found scattered throughout the body; types include melanocytes, the cells of the chromaffin system, and cells in the hypothalamus, hypophysis, thyroid, parathyroids, lungs, gastrointestinal tract, and pancreas. This cell type concentrates the amino acid precursors of certain amines and decarboxylate them, forming amines that function as regulators and neurotransmitters. This cell type produces substances such as epinephrine, norepinephrine, dopamine, serotonin, enkephalin, somatostatin, neurotensin, and substance P, the actions of which may affect contiguous cells, nearby groups of cells, or distant cells, thus functioning as local or systemic hormones. The name is an acronym for amine precursor uptake and decarboxylation cell." [GOC:tfm, ISBN:0721662544, MESH:A11.070] synonym: "amine precursor uptake and decarboxylation cell" EXACT [] xref: BTO:0003866 xref: FMA:83114 is_a: CL:0000165 ! neuroendocrine cell [Term] id: CL:0000569 name: cardiac mesenchymal cell namespace: cell def: "A mesenchymal cell found in the developing heart." [PMID:18816864] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0002494 ! cardiocyte relationship: develops_from CL:0000011 ! migratory trunk neural crest cell relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0000570 name: parafollicular cell namespace: cell def: "A neuroepithelial cells that occurs singly or in small groups, close to the outer follicular borders but within the follicular basement membrane of the thyroid. Expresses a form of the neural cell adhesion molecule (N-CAM) on their surface. Secretes calcitonin, 5-hydroxytryptamine and dopamine." [GOC:tfm, ISBN:0517223651] synonym: "C cell" EXACT [] synonym: "C cell of thyroid gland" EXACT [FMA:68653] synonym: "clear cell of thyroid gland" EXACT [FMA:68653] synonym: "parafollicular cell of thyroid gland" EXACT [FMA:68653] synonym: "thyroid parafollicular cell" EXACT [FMA:68653] xref: FMA:68653 xref: SCTID:176770005 is_a: CL:0000443 ! calcitonin secreting cell is_a: CL:0000458 ! serotonin secreting cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: develops_from CL:0000333 ! migratory neural crest cell relationship: part_of UBERON:0001747 ! parenchyma of thyroid gland [Term] id: CL:0000571 name: leucophore namespace: cell def: "A pigment cell derived from the neural crest. Contains uric acid or other purine crystals deposited in stacks called leucosomes. The crystals reflect light and this gives a white appearance under white light." [SANBI:mhl] is_a: CL:0000147 ! pigment cell relationship: develops_from CL:0005003 ! leucoblast [Term] id: CL:0000573 name: retinal cone cell namespace: cell def: "One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision." [MESH:A08.663.650.650.670.100] xref: BTO:0001036 xref: FMA:67748 is_a: CL:0000287 ! eye photoreceptor cell relationship: develops_from CL:0002672 ! retinal progenitor cell [Term] id: CL:0000574 name: erythrophore namespace: cell def: "A pigment cell derived from the neural crest. Contains pteridine and/or carotenoid pigments in structures called pterinosomes or erythrosomes. This gives an orange to red appearance." [SANBI:mhl] is_a: CL:0000147 ! pigment cell relationship: develops_from CL:0005004 ! pigment erythroblast [Term] id: CL:0000575 name: corneal epithelial cell namespace: cell alt_id: CL:1000431 def: "An epithelial cell of the cornea." [GOC:tfm] synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: FMA:70551 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell relationship: part_of UBERON:0000964 ! cornea [Term] id: CL:0000576 name: monocyte namespace: cell def: "Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells." [GO_REF:0000031, MESH:A11.118.637.555.652] comment: Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid. xref: BTO:0000876 xref: FMA:62864 is_a: CL:0000766 ! myeloid leukocyte is_a: CL:0002087 ! nongranular leukocyte relationship: develops_from CL:0000559 ! promonocyte [Term] id: CL:0000577 name: type EC enteroendocrine cell namespace: cell alt_id: CL:0002065 def: "A subtype of enteroendocrine cells found in the gastrointestinal mucosa, particularly in the glands of pyloric antrum; duodenum; and ileum. These cell type secretes serotonin and some neurotransmitters including enkephalins and substance P. Their secretory granules stain readily with silver (argentaffin stain)." [MESH:A03.492.766.440.250, PMID:9505449] synonym: "Kulchitsky cell" EXACT [] synonym: "argentaffin cell" EXACT [] synonym: "enterochromaffin cell" EXACT [] xref: FMA:62934 xref: FMA:83132 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000166 ! chromaffin cell is_a: CL:0000458 ! serotonin secreting cell is_a: CL:0000506 ! enkephalin secreting cell [Term] id: CL:0000578 name: experimentally modified cell in vitro namespace: cell def: "A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure." [FB:ma, ReO:mhb] comment: This class has been re-labeled to imply reference only to in vitro experimentally modified cells, similarly, the definition has been slightly updated to reflect this. 'experimentally modified cell' refers only to cells in vitro, and not modified in vivo/in environment cells. There is currently no class representing unmodified in vitro cells (other than the parent 'cell in vitro'), or a class representing modified native cells. More granular subclassing of experimentally modified cell can be found in ReO. MHB 1.12.12 is_a: CL:0001034 ! cell in vitro [Term] id: CL:0000579 name: border follicle cell namespace: cell xref: FBbt:00004905 is_a: CL:0000477 ! follicle cell [Term] id: CL:0000580 name: neutrophilic myelocyte namespace: cell def: "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte; in this stage, production of primary granules is complete and neutrophil-specific granules has started. No nucleolus is present. This cell type is CD13-positive, CD16-negative, integrin alpha-M-positive, CD15-positive, CD33-positive, CD24-positive, C/EBP-a-positive, C/EBPe-positive, PU.1-positive, lactotransferrin-positive, myeloperoxidase-positive and NGAL-positive." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, PMID:10618520, PMID:12560239, PMID:15514007, http://www.cap.org] comment: These cells are also CD15-positive, CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. xref: BTO:0003455 xref: FMA:83540 is_a: CL:0000776 ! immature neutrophil is_a: CL:0002087 ! nongranular leukocyte is_a: CL:0002193 ! myelocyte relationship: develops_from CL:0000564 ! neutrophilic promyelocyte [Term] id: CL:0000581 name: peritoneal macrophage namespace: cell def: "A macrophage resident in the peritoneum under non-inflammatory conditions. Markers include F4/80-high, CD11b-high, CD68-positive, SIGNR1-positive, CD115-high, MHC-II-negative, and Dectin-1-positive." [MESH:A11.329.372.630, PMID:15771589, PMID:19201820] comment: Markers: Mouse: F4/80-high, CD11b-high, CD68+, SIGNR1+, Dectin-1+. xref: BTO:0001034 xref: FMA:83025 is_a: CL:0000864 ! tissue-resident macrophage [Term] id: CL:0000582 name: neutrophilic metamyelocyte namespace: cell def: "A neutrophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and the band form neutrophil. The protein synthesis seen in earlier stages decreases or stops; the nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare; and the cytoplasm becomes amphophilic like that of a mature granulocyte. This cell type is integrin alpha-M-positive, CD13-negative, CD15-positive, CD16-positive, CD33-positive, CD24-positive, fMLP receptor-negative and has expression of C/EBP-a, C/EBP-e, PU.1 transcription factor, lactotransferrin, myeloperoxidase and neutrophil gelatinase associated lipocalin." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0721601464, PMID:10618520, PMID:12560239, PMID:15514007, http://www.cap.org] comment: These cells are also CD35-negative, CD49d-positive, and fMLP receptor-negative. They are found in the Band 2 fraction. synonym: "juvenile neutrophil" EXACT [] xref: FMA:84197 is_a: CL:0000776 ! immature neutrophil is_a: CL:0002192 ! metamyelocyte is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000580 ! neutrophilic myelocyte [Term] id: CL:0000583 name: alveolar macrophage namespace: cell def: "A tissue-resident macrophage found in the alveoli of the lungs. Ingests small inhaled particles resulting in degradation and presentation of the antigen to immunocompetent cells. Markers include F4/80-positive, CD11b-/low, CD11c-positive, CD68-positive, sialoadhesin-positive, dectin-1-positive, MR-positive, CX3CR1-negative." [GOC:ana, GOC:dsd, GOC:tfm, GO_REF:0000031, MESH:A11.329.372.600] comment: Markers: Mouse: F4/80mid, CD11b-/low, CD11c+, CD68+, sialoadhesin+, dectin-1+, MR+, CX3CR1-. synonym: "MF.Lu" RELATED [] synonym: "dust cell" EXACT [] xref: BTO:0000802 xref: FMA:83023 is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0002299 ! alveolus of lung [Term] id: CL:0000584 name: enterocyte namespace: cell def: "An epithelial cell that has its apical plasma membrane folded into microvilli to provide ample surface for the absorption of nutrients from the intestinal lumen." [SANBI:mhl] xref: BTO:0000398 xref: FMA:62122 is_a: CL:0000239 ! brush border epithelial cell is_a: CL:0000677 ! gut absorptive cell is_a: CL:0002563 ! intestinal epithelial cell [Term] id: CL:0000585 name: null cell namespace: cell def: "OBSOLETE: A class of lymphocytes characterized by the lack of surface markers specific for either T or B cells." [] is_obsolete: true comment: This term is rather archaic; consider using 'natural killer cell ; CL:0000623', 'pro-B cell ; CL:0000826', 'pro-T cell ; CL:0000827', or other appropriate lymphocyte-related term depending on the context. [Term] id: CL:0000586 name: germ cell namespace: cell def: "The reproductive cell in multicellular organisms." [MESH:A.05.360.490, MESH:A05.360.490] xref: BTO:0000535 xref: VHOG:0001534 xref: WBbt:0006796 is_a: CL:0000039 ! germ line cell [Term] id: CL:0000587 name: cold sensing thermoreceptor cell namespace: cell def: "A thermoreceptor cell that detects reduced temperatures." [GOC:tfm] is_a: CL:0000205 ! thermoreceptor cell [Term] id: CL:0000588 name: odontoclast namespace: cell def: "A specialized osteoclast associated with the absorption and removal of cementum." [GOC:add, MESH:A11.329.679] xref: BTO:0002516 xref: FMA:83027 is_a: CL:0000092 ! osteoclast [Term] id: CL:0000589 name: cochlear inner hair cell namespace: cell def: "A bulbous cell that is medially placed in one row in the organ of Corti. In contrast to the outer hair cells, the inner hair cells are fewer in number, have fewer sensory hairs, and are less differentiated." [MESH:A08.663.650.250.250] synonym: "inner hair cell" BROAD [] xref: BTO:0003667 xref: FMA:62365 is_a: CL:0000202 ! auditory hair cell [Term] id: CL:0000590 name: small luteal cell namespace: cell def: "A progesterone secreting cell in the corpus luteum that develops from theca cells." [GOC:tfm, MESH:A05.360.319.114.630.278.400] synonym: "small lutein cell" EXACT [] synonym: "theca lutein cell" EXACT [] xref: BTO:0002850 xref: FMA:18690 is_a: CL:0000175 ! luteal cell relationship: develops_from CL:0000503 ! theca cell [Term] id: CL:0000591 name: warmth sensing thermoreceptor cell namespace: cell def: "A thermoreceptor cell that detects reduced temperatures." [GOC:tfm] is_a: CL:0000205 ! thermoreceptor cell [Term] id: CL:0000592 name: large luteal cell namespace: cell def: "A large, progesterone secreting cell in the corpus luteum that develops from the granulosa cells." [GOC:tfm, MESH:A05.360.319.114.630.278.400] synonym: "granulosa lutein cell" EXACT [] synonym: "granulosoluteocytus" RELATED [] xref: FMA:18689 is_a: CL:0000175 ! luteal cell is_a: CL:0000177 ! testosterone secreting cell relationship: develops_from CL:0000501 ! granulosa cell [Term] id: CL:0000593 name: androgen secreting cell namespace: cell def: "A steroid hormone secreting cell that secretes androgen." [GOC:tfm] is_a: CL:0000174 ! steroid hormone secreting cell [Term] id: CL:0000594 name: skeletal muscle satellite cell namespace: cell def: "An elongated, spindle-shaped, quiescent myoblast that are located between the basal lamina and the plasmalemma of the muscle fibres. They are thought to play a role in muscle repair and regeneration." [GOC:tfm, MESH:A11.635.500.700] is_a: CL:0000035 ! single fate stem cell is_a: CL:0000188 ! skeletal muscle cell is_a: CL:0000680 ! muscle precursor cell [Term] id: CL:0000595 name: enucleate erythrocyte namespace: cell def: "An erythrocyte lacking a nucleus." [GOC:add, GOC:tfm] synonym: "RBC" BROAD [] synonym: "red blood cell" BROAD [] is_a: CL:0000232 ! erythrocyte relationship: develops_from CL:0002422 ! enucleated reticulocyte [Term] id: CL:0000596 name: sexual spore namespace: cell def: "A spore formed following meiosis. Sometimes following meiosis, prospores may undergo one or more rounds of mitosis before they are fully mature." [FAO:0000017, GOC:tfm, SGD:clt] synonym: "meiotically-derived spore" EXACT [] xref: FAO:0000017 is_a: CL:0002369 ! fungal spore [Term] id: CL:0000597 name: microconidium namespace: cell def: "The smaller of two types of asexual spores formed by some fungi. An ovoid to pear-shaped asexual spore that contains very little cytoplasm and organelles, is uninucleate, and forms in vegetative hypae within a mycelium. Micronidia are extruded from the hyphal cell wall." [GOC:tfm, ISBN:0471940526, PMID:8357339, SGD:clt] xref: FAO:0000028 is_a: CL:0002381 ! uninucleate conidium [Term] id: CL:0000598 name: pyramidal cell namespace: cell def: "A projection neuron in the cerebral cortex and the hippocampus. Pyramidal cells have a pyramid-shaped soma with the apex and an apical dendrite pointed toward the pial surface and other dendrites and an axon emerging from the base. The axons may have local collaterals but also project outside their cortical region." [GOC:tfm, MESH:A08.186.211.577.405.700] synonym: "projection neuron" EXACT [] synonym: "pyramidal neuron" EXACT [] xref: BTO:0003102 xref: FMA:67310 xref: FMA:86775 xref: NIF_Cell:sao862606388 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000599 name: conidium namespace: cell def: "An asexual, nonmotile spore formed by higher fungi; conidia are usually made from the side or tip of specialized sporogenous cells and do not form by progressive cleavage of the cytoplasm." [ISBN:08199377X, PMID:2524423, PMID:9529886, SGD:clt] xref: BTO:0000283 xref: FAO:0000024 is_a: CL:0000605 ! fungal asexual spore [Term] id: CL:0000600 name: heterokaryon namespace: cell def: "A fungal cell with two or more genetically distinct nuclei." [ISBN:08199377X] is_a: CL:0000228 ! multinucleate cell is_a: CL:0000521 ! fungal cell [Term] id: CL:0000601 name: outer hair cell namespace: cell def: "A mechanoreceptor in the organ of Corti. In mammals the outer hair cells are arranged in three rows which are further from the modiolus than the single row of inner hair cells. The motile properties of the outer hair cells may contribute actively to tuning the sensitivity and frequency selectivity of the cochlea." [MESH:A08.663.650.250.315] synonym: "cochlear outer hair cell" EXACT [] xref: BTO:0003666 xref: FMA:62366 is_a: CL:0000202 ! auditory hair cell [Term] id: CL:0000602 name: pressoreceptor cell namespace: cell def: "A receptor in the vascular system, particularly the aorta and carotid sinus, which is sensitive to stretch of the vessel walls." [MESH:A08.800.050.800.900.700] is_a: CL:1000082 ! stretch receptor cell [Term] id: CL:0000603 name: dikaryon namespace: cell def: "A fungal cell with two genetically distinct haploid nuclei." [ISBN:08199377X] is_a: CL:0000227 ! binucleate cell is_a: CL:0000600 ! heterokaryon [Term] id: CL:0000604 name: retinal rod cell namespace: cell def: "One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision." [MESH:A08.663.650.650.670.650] xref: BTO:0001024 xref: FMA:67747 is_a: CL:0000287 ! eye photoreceptor cell relationship: develops_from CL:0002672 ! retinal progenitor cell [Term] id: CL:0000605 name: fungal asexual spore namespace: cell def: "A spore formed following mitosis or mitoses." [GOC:tfm, PMID:2524423, PMID:9529886, SGD:clt] xref: FAO:0000023 is_a: CL:0002369 ! fungal spore [Term] id: CL:0000606 name: macroconidium namespace: cell def: "The larger of two types of asexual spores formed by some fungi; usually round or oblong." [GOC:tfm, ISBN:0471940526, SGD:clt] xref: FAO:0000038 is_a: CL:0000599 ! conidium [Term] id: CL:0000607 name: ascospore namespace: cell def: "A thick walled spore that stores and protects one or more nuclei following sexual reproduction in an Ascomycete." [GOC:tfm, ISBN:08199377X, SGD:clt] xref: BTO:0000097 xref: FAO:0000020 is_a: CL:0000596 ! sexual spore [Term] id: CL:0000608 name: zygospore namespace: cell def: "A thick walled, sexual, resting spore formed by Zygomycetes; sometimes refers to the spore and the multi-layered cell wall that encloses the spore, the zygosporangium." [ISBN:0471940526, ISBN:08199377X, SGD:clt] xref: FAO:0000040 is_a: CL:0000596 ! sexual spore [Term] id: CL:0000609 name: vestibular hair cell namespace: cell def: "A mechanoreceptor located in the acoustic maculae and the semicircular canals that mediates the sense of balance, movement, and head position. The vestibular hair cells are connected to accessory structures in such a way that movements of the head displace their stereocilia. This influences the membrane potential of the cells which relay information about movements via the vestibular part of the vestibulocochlear nerve to the brain stem." [GOC:tfm, MESH:A08.663.650.250.380] synonym: "vestibular receptor cell" EXACT [] xref: FMA:62351 is_a: CL:0002374 ! ear hair cell [Term] id: CL:0000610 name: plant cell namespace: cell is_obsolete: true consider: PO:0009002 comment: This term was obsoleted as it is redundant with PO:0009002 in the cell ontology (PO) [Term] id: CL:0000611 name: eosinophil progenitor cell namespace: cell comment: These cells are CD34-positive, CD45RA-negative, CD71-negative, and lineage-negative (CD2, CD3 epsilon, CD4, CD5, CD8a, CD14, CD19, CD20, integrin alpha-M, NCAM-1, SCA-1, Ly6G, Ly76). synonym: "CFU-Eo" RELATED [] synonym: "EoP" EXACT [PMCID:PMC2212039, PMCID:PMC2626675] synonym: "colony forming unit eosinophil" RELATED [] synonym: "eosinophil stem cell" RELATED [] is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell [Term] id: CL:0000612 name: eosinophilic myelocyte namespace: cell def: "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte;in this stage, production of primary granules is complete and eosinophil-specific granules has started. No nucleolus is present. These cells are integrin alpha-M-positive, CD13-positive, CD15-positive, CD16-negative, CD24-positive, and CD33-positive." [GOC:add, GOC:dsd, ISBN:0721601464, PMID:19622087, http://www.cap.org] xref: BTO:0003454 xref: FMA:83542 is_a: CL:0000772 ! immature eosinophil is_a: CL:0002087 ! nongranular leukocyte is_a: CL:0002193 ! myelocyte [Term] id: CL:0000613 name: basophil progenitor cell namespace: cell def: "A progenitor cell committed to the basophil lineage. This cell lacks hematopoietic lineage markers (lin-negative) and is CD34-positive, T1/ST2-low, CD117-negative, and FceRIa-high. This cell also expresses Gata-1, Gata-2 and C/EBPa." [GOC:add, GOC:dsd, PMCID:PMC1312421, http://www.copewithcytokines.de] comment: BaP are also CD13-low and integrin beta-7-low. They are lin-negative (CD2, CD3e, CD4, CD5, CD8, CD11b, CD14, CD19, CD20, ly6g, ly76, and NCAM-1). They also lack expression of mast cell protease 1 (MCP-1) and microphthalmia-associated transcription factor (mitf). synonym: "BaP" EXACT [] synonym: "CFU-Bas" RELATED [] synonym: "basophilic stem cell" RELATED [] synonym: "colony forming unit basophil" RELATED [] is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0002028 ! basophil mast progenitor cell [Term] id: CL:0000614 name: basophilic myelocyte namespace: cell def: "A basophil precursor in the granulocytic series, being a cell intermediate in development between a promyelocyte and a metamyelocyte; in this stage, production of primary granules is complete and basophil-specific granules has started. No nucleolus is present. Markers are being integrin alpha-M-positive, fucosyltransferase FUT4-positive, CD33-positive, CD24-positive, aminopeptidase N-positive." [GOC:add, GOC:tfm, ISBN:0721601464, PMID:18466030, http://www.cap.org] xref: BTO:0003456 xref: FMA:83543 is_a: CL:0000768 ! immature basophil is_a: CL:0002087 ! nongranular leukocyte relationship: develops_from CL:0000830 ! basophilic promyelocyte [Term] id: CL:0000615 name: basidiospore namespace: cell def: "A thick walled spore containing one or more haploid nuclei produced by sexual reproduction in an Basidiomycete; formed externally on extrusions of the basidium." [GOC:clt, ISBN:0471940526, ISBN:08199377X] xref: BTO:0002166 xref: FAO:0000021 is_a: CL:0000596 ! sexual spore [Term] id: CL:0000616 name: sporangiospore namespace: cell def: "A walled spore produced in a sporangium." [ISBN:08199377X] is_obsolete: true [Term] id: CL:0000617 name: GABAergic neuron namespace: cell def: "A neuron that uses GABA as a vesicular neurotransmitter" [GOC:tfm] synonym: "GABA-ergic neuron" EXACT [] xref: FMA:84788 xref: WBbt:0005190 is_a: CL:0000540 ! neuron [Term] id: CL:0000618 name: sheath cell namespace: cell is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000619 name: support cell (sensu Nematoda) namespace: cell is_a: CL:0000124 ! glial cell (sensu Nematoda and Protostomia) is_a: CL:0000378 ! support cell (sensu Nematoda and Protostomia) [Term] id: CL:0000620 name: zoospore namespace: cell def: "A sporangiospore that is motile, having flagella." [ISBN:08199377X] is_obsolete: true xref: FAO:0000039 [Term] id: CL:0000621 name: fusion competent myoblast namespace: cell is_a: CL:0000056 ! myoblast [Term] id: CL:0000622 name: acinar cell namespace: cell def: "A secretory cell that is grouped together with other cells of the same type to form grape shaped clusters known as acini (singular acinus)." [GOC:tfm, http://www.copewithcytokines.de] synonym: "acinic cell" EXACT [] synonym: "acinous cell" EXACT [] xref: FMA:83625 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000154 ! protein secreting cell relationship: part_of UBERON:0009842 ! acinus [Term] id: CL:0000623 name: natural killer cell namespace: cell def: "A lymphocyte that can spontaneously kill a variety of target cells without prior antigenic activation via germline encoded activation receptors and also regulate immune responses via cytokine release and direct contact with other cells." [GOC:add, ISBN:0781735149, PMID:15771571] synonym: "NK cell" EXACT [] synonym: "large granular lymphocyte" BROAD [] synonym: "null cell" BROAD [] xref: BTO:0000914 xref: BTO:0004716 xref: FMA:63147 xref: FMA:83601 xref: VHOG:0001697 is_a: CL:0000542 ! lymphocyte relationship: develops_from CL:0000825 ! pro-NK cell [Term] id: CL:0000624 name: CD4-positive, alpha-beta T cell namespace: cell def: "A mature alpha-beta T cell that expresses an alpha-beta T cell receptor and the CD4 coreceptor." [GOC:add, ISBN:0781735149] synonym: "CD4-positive, alpha-beta T lymphocyte" EXACT [] synonym: "CD4-positive, alpha-beta T-cell" EXACT [] synonym: "CD4-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000791 ! mature alpha-beta T cell [Term] id: CL:0000625 name: CD8-positive, alpha-beta T cell namespace: cell def: "A T cell expressing an alpha-beta T cell receptor and the CD8 coreceptor." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "CD8-positive, alpha-beta T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta T-cell" EXACT [] synonym: "CD8-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000791 ! mature alpha-beta T cell [Term] id: CL:0000626 name: olfactory granule cell namespace: cell def: "Granule cell that is part of the olfactory bulb." [GOC:mah] is_a: CL:0000120 ! granule cell [Term] id: CL:0000627 name: transporting cell namespace: cell def: "A cell involved in transporting nutrients, minerals, water, gases and other chemicals between cells for a variety of purposes including conveying nutrition to other tissues, removing waste products from the tissues, conveying gases for respiration, distributing heat and repelling invasion of foreign substances." [TAIR:sr] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000628 name: photosynthetic cell namespace: cell def: "A cell that can perform photosynthesis, in which carbohydrates are synthesized from carbon dioxide and water, using light as the energy source." [TAIR:sr] comment: see PMID:21177950, The making of a photosynthetic animal. is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000629 name: storage cell namespace: cell def: "A cell that is specialized to store a particular substance(s), which is(are) later released from the store for a particular purpose." [FB:ma] is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000630 name: supportive cell namespace: cell def: "A cell whose primary function is to support other cell types." [FB:ma, GOC:tfm] xref: BTO:0002315 xref: FMA:86947 xref: ZFA:0000688 is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000631 name: labyrinth supporting cell namespace: cell def: "Cells forming a framework supporting the organ of Corti. Specific cells are those of Claudius, Deiters and Hensen." [MESH:A09.246.631.246.577.543] is_a: CL:0000630 ! supportive cell [Term] id: CL:0000632 name: hepatic stellate cell namespace: cell def: "A cell that is found in the perisinusoidal space of the liver that is capable of multiple roles including storage of retinol, presentation of antigen to T cells (including CD1d-restricted NKT cells), and upon activation, production of extracellular matrix components that can contribute to liver fibrosis. This activated state has a myofibroblast-like phenotype, though it's not clear in the literature if this is terminally differentiated. This cell type comprises approximately 8-15% of total cells in the liver." [GOC:dsd, MESH:D055166, PMID:12808230, PMID:17239632, PMID:18222966, PMID:9302568, http://en.wikipedia.org/wiki/Hepatic_stellate_cell] comment: Hepatic stellate cells are CD271-positive, desmin-positive, DDR-2-positive, GFAP-positive, synamin-positive, synaptophysin-positive, vimentin-positive, They are capable of producing angiotensin II, fibronectin, laminin, MMP-1, MMP-2, MMP-3, MMP-9, MMP-11, TGF-beta1, TIMP-1, TIMP-2, type I collagen, type III collagen, type IV collagen, and type VI collagen. synonym: "Ito cell" EXACT [] synonym: "fat-storing cell" RELATED [] synonym: "hepatic perisinusoidal cell" EXACT [] synonym: "lipocyte" RELATED [] synonym: "perisinusoidal cell" EXACT [] synonym: "vitamin A-storing cells" RELATED [PMID:12808230] xref: BTO:0002741 xref: FMA:67763 is_a: CL:0000057 ! fibroblast is_a: CL:0000327 ! extracellular matrix secreting cell relationship: part_of UBERON:0002107 ! liver [Term] id: CL:0000633 name: Hensen cell namespace: cell def: "A tall supporting cell that is arranged in rows adjacent to the last row of outer phalangeal cells. This cell type constitutes the outer border of the organ of Corti." [GOC:tfm, ISBN:0721662544] synonym: "Hensen's cell" EXACT [] synonym: "cell of Hensen" EXACT [] synonym: "external limiting cell of organ of Corti" EXACT [] xref: FMA:79799 is_a: CL:0002490 ! organ of Corti supporting cell [Term] id: CL:0000634 name: Claudius cell namespace: cell def: "A cuboidal cell which along with Boettcher's cells form the floor of the external spiral sulcus, external to the organ of Corti." [GOC:tfm, ISBN:0721662544] synonym: "cell of Claudius" EXACT [] synonym: "external supporting cell of Claudius" EXACT [] synonym: "external supporting cell of vestibular epithelium" EXACT [] xref: FMA:79802 is_a: CL:0002315 ! supporting cell of cochlea [Term] id: CL:0000635 name: Deiter's cell namespace: cell def: "The outer phalangeal cells of the organ of Corti. This cell holds the base of the hair cell in a cup-shaped depression." [GOC:tfm, ISBN:0721662544, http://www.britannica.com/EBchecked/topic/156177/Deiters-cell] synonym: "Deiters cell" EXACT [] synonym: "outer phalangeal cell" EXACT [] xref: FMA:75725 is_a: CL:0002165 ! phalangeal cell [Term] id: CL:0000636 name: Mueller cell namespace: cell xref: BTO:0003064 is_a: CL:0000127 ! astrocyte [Term] id: CL:0000637 name: chromophil cell of anterior pituitary gland namespace: cell def: "A cell that stains readily in the anterior pituitary gland." [GOC:tfm, ISBN:0618947256] xref: FMA:83089 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000166 ! chromaffin cell is_a: CL:0000167 ! peptide hormone secreting cell relationship: part_of UBERON:0002196 ! adenohypophysis [Term] id: CL:0000638 name: acidophil cell of pars distalis of adenohypophysis namespace: cell def: "An acidophilic chromophil cell that of the anterior pituitary gland." [GOC:tfm] synonym: "acidophil cell of pars anterior of adenohypophysis" EXACT [] synonym: "acidophil of pars anterior of adenohypophysis" EXACT [] synonym: "acidophil of pars distalis of adenohypophysis" EXACT [] synonym: "pituitary alpha cell" EXACT [] xref: FMA:83093 is_a: CL:0000637 ! chromophil cell of anterior pituitary gland [Term] id: CL:0000639 name: basophil cell of pars distalis of adenohypophysis namespace: cell def: "A basophillic chromophil cell that of the anterior pituitary gland." [GOC:tfm] synonym: "basophil cell of anterior lobe of hypophysis" EXACT [] synonym: "beta cell" RELATED [] synonym: "pituitary beta cell" RELATED [] xref: FMA:83094 is_a: CL:0000637 ! chromophil cell of anterior pituitary gland [Term] id: CL:0000641 name: chromophobe cell namespace: cell def: "A cell that is resistant to stains." [GOC:tfm] synonym: "chromophobic cell" EXACT [] xref: FMA:83626 is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000642 name: folliculostellate cell namespace: cell def: "A supportive cell of the vertebrate pituitary that provides macromolecular transport and secretes hormones." [JB:jb] is_a: CL:0000163 ! endocrine cell is_a: CL:0000630 ! supportive cell [Term] id: CL:0000644 name: Bergmann glial cell namespace: cell def: "Type of radial astrocyte in the cerebellar cortex that have their cell bodies in the Purkinje cell layer and processes that extend into the molecular layer, terminating with bulbous endfeet at the pial surface. Bergmann glia express high densities of glutamate transporters that limit diffusion of the neurotransmitter glutamate during its release from synaptic terminals. Besides their role in early development of the cerebellum, Bergmann glia are also required for the pruning or addition of synapses." [GOC:tfm, http://www.neurolex.org/wiki/Category:Bergmann_Glial_Cell] synonym: "Bergmann astrocyte" EXACT [] synonym: "Bergmann glial cell of cerebellum" EXACT [] xref: FMA:54559 is_a: CL:0000127 ! astrocyte [Term] id: CL:0000645 name: pituicyte namespace: cell def: "A cell with long processes running parallel to adjacent axons in the proximal infundibulum of the neurohypophysis. These processes form a three-dimensional network among the axons of the hypothalamic neurosecretory cells and are connected by gap junctions which provide for their metabolic coupling. This cell type constitutes most of the nonexcitable tissue in the neurohypophsis; function may include possibly acting as an intermediate in the modulation of oxytocin and vasopressin release. This cell type is highly variable in size and shape and commonly contain lipid droplets and deposits of lipochrome pigment." [ISBN:0412046911, ISBN:0517223651, http://en.wikipedia.org/wiki/Pituicyte] xref: BTO:0003793 xref: FMA:83503 is_a: CL:0000127 ! astrocyte [Term] id: CL:0000646 name: basal cell namespace: cell def: "Undifferentiated; mitotic stem cell for other epithelial cell types; rounded or elliptical with little cytoplasm and few organelles; contain cytokeratin intermediate filament." [GOC:tfm, ISBN:0517223651] xref: BTO:0000939 xref: FMA:62516 is_a: CL:0000036 ! epithelial fate stem cell [Term] id: CL:0000647 name: multinucleated giant cell namespace: cell def: "A phagocytic cell formed by the fusion of macrophages, occurs in chronic inflammatory responses to persistent microorganism such as M.tuberculosis, component of granulomas. Sometimes used to refer to megakaryocytes." [GOC:add, GOC:tfm, ISBN:0702022918, ISBN:0702024783] comment: Role or process: Chronic infection, granulomatous inflammation. Consider also megakaryocyte (CL:0000556) as sometimes multinucleated giant cell is used to refer to this. synonym: "Langerhans giant cell" EXACT [ISBN:0702022918, ISBN:0702024783] synonym: "foreign body giant cell" EXACT [ISBN:0702022918, ISBN:0702024783] synonym: "macrophage polykaryon" EXACT [ISBN:0702022918, ISBN:0702024783] synonym: "multinucleate giant cell" EXACT [ISBN:0702022918, ISBN:0702024783] synonym: "syncytial giant cell" EXACT [ISBN:0702022918, ISBN:0702024783] xref: BTO:0003107 xref: FMA:83035 is_a: CL:0000228 ! multinucleate cell is_a: CL:0000766 ! myeloid leukocyte relationship: develops_from CL:0000235 ! macrophage [Term] id: CL:0000648 name: kidney granular cell namespace: cell alt_id: CL:0000461 def: "A smooth muscle cell that synthesizes, stores, and secretes the enzyme renin. This cell type are located in the wall of the afferent arteriole at the entrance to the glomerulus. While having a different origin than other kidney smooth muscle cells, this cell type expresses smooth muscle actin upon maturation." [GOC:cvs, GOC:tfm, PMID:11457727] synonym: "JG cell" EXACT [] synonym: "juxtaglomerular cell" BROAD [] synonym: "renin secreting cell" EXACT [] xref: FMA:84138 is_a: CL:0000154 ! protein secreting cell is_a: CL:0000192 ! smooth muscle cell is_a: CL:1000618 ! juxtaglomerular complex cell [Term] id: CL:0000649 name: prickle cell namespace: cell alt_id: CL:0002186 def: "A cell with delicate radiating processes known as desmosomes that form intercellular bridges between other cells of this type. This cell type forms the stratum spinosum (prickle cell layer. A function of this cell is to generate keratin." [GOC:tfm, ISBN:0721662544, ISBN:0815332181] synonym: "prickle cell of epidermis" EXACT [] xref: FMA:69059 is_a: CL:0000312 ! keratinocyte [Term] id: CL:0000650 name: mesangial cell namespace: cell def: "A cell type that encapsulates the capillaries and venules in the kidney. This cell secretes mesangial matrix that provides the structural support for the capillaries." [GOC:tfm, http://www.copewithcytokines.de/cope.cgi?key=mesangial%20cells] xref: BTO:0000853 xref: FMA:70972 is_a: CL:0000669 ! pericyte cell relationship: develops_from CL:0000134 ! mesenchymal cell [Term] id: CL:0000651 name: neck cell namespace: cell def: "A mucus-secreting cell, with numerous apical secretory vesicles containing mucins; nucleus are basally displaced; numerous at the neck of mucus secreting glands" [GOC:tfm] synonym: "mucous neck cell" EXACT [] is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000319 ! mucus secreting cell [Term] id: CL:0000652 name: pinealocyte namespace: cell def: "This cell type produces and secretes melatonin and forms the pineal parenchyma. Extending from each cell body, which has a spherical, oval or lobulated mucleus, are one or more tortuous basophilic processes, containing parallel microtubules known as synaptic ribbons. These processes end in expanded terminal buds near capillaries or less, frequently, ependymal cells of the pineal recess. The terminal buds contain granular endoplasmic reticulum, mitochondria and electron-dense cored vesicles, which store monoamines and polypeptide hormones, release of which appears to require sympathetic innervation." [GOC:tfm, ISBN:0517223651, PMID:16687276, http://en.wikipedia.org/wiki/Pinealocyte] xref: BTO:0001068 xref: FMA:83417 is_a: CL:0000163 ! endocrine cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000653 name: glomerular visceral epithelial cell namespace: cell def: "A glomerular visceral epithelial cell is a specialized kidney epithelial cell that contains \"feet\" that interdigitate with the \"feet\" of other glomerular epithelial cells." [GOC:tfm] comment: GO has podocyte as a related synonym due to concern this may refer to more than one cell type. However, this did not turn up in my search. If podocyte does refer to more than one cell type, then we should classify the synonym to 'related'[tfm]. synonym: "epithelial cell of visceral layer of glomerular capsule" BROAD [FMA:70967] synonym: "glomerular podocyte" EXACT [FMA:70967] synonym: "podocyte" EXACT [] xref: BTO:0002295 is_a: CL:0002522 ! renal filtration cell is_a: CL:1000451 ! epithelial cell of visceral layer of glomerular capsule relationship: part_of UBERON:0005751 ! visceral layer of glomerular capsule [Term] id: CL:0000654 name: primary oocyte namespace: cell def: "A primary oocyte is an oocyte that has not completed female meosis I." [GOC:tfm, ISBN:0721662544] synonym: "primary oogonium" RELATED [] xref: BTO:0000512 xref: FMA:18645 is_a: CL:0000023 ! oocyte relationship: develops_from CL:0000024 ! oogonial cell [Term] id: CL:0000655 name: secondary oocyte namespace: cell def: "A secondary oocyte is an oocyte that has not completed meiosis II." [GOC:tfm, ISBN:0721662544] synonym: "primary oogonium" RELATED [] xref: BTO:0003094 xref: FMA:18646 is_a: CL:0000023 ! oocyte relationship: develops_from CL:0000654 ! primary oocyte [Term] id: CL:0000656 name: primary spermatocyte namespace: cell def: "A diploid cell that has derived from a spermatogonium and can subsequently begin meiosis and divide into two haploid secondary spermatocytes." [GOC:tfm, ISBN:0721662544] xref: BTO:0001115 xref: FMA:72292 is_a: CL:0000017 ! spermatocyte [Term] id: CL:0000657 name: secondary spermatocyte namespace: cell def: "One of the two haploid cells into which a primary spermatocyte divides, and which in turn gives origin to spermatids." [GOC:tfm, ISBN:0721662544] xref: BTO:0000709 xref: FBbt:00004941 xref: FMA:72293 is_a: CL:0000017 ! spermatocyte is_a: CL:0000413 ! haploid cell relationship: develops_from CL:0000656 ! primary spermatocyte [Term] id: CL:0000658 name: cuticle secreting cell namespace: cell def: "An epithelial cell that secretes cuticle." [GOC:tfm] is_a: CL:0000066 ! epithelial cell is_a: CL:0000327 ! extracellular matrix secreting cell [Term] id: CL:0000659 name: eggshell secreting cell namespace: cell def: "An extracellular matrix secreting cell that secretes eggshell." [GOC:tfm] is_a: CL:0000327 ! extracellular matrix secreting cell is_a: CL:0000500 ! follicular epithelial cell [Term] id: CL:0000660 name: glycocalyx secreting cell namespace: cell def: "An extracellular matrix secreting cell that secretes glycocalyx." [GOC:tfm] is_a: CL:0000327 ! extracellular matrix secreting cell [Term] id: CL:0000661 name: distal tip cell (sensu Nematoda) namespace: cell is_a: CL:0000422 ! mitogenic signaling cell [Term] id: CL:0000662 name: neuroglioblast (sensu Nematoda) namespace: cell is_a: CL:0000468 ! neuroglioblast [Term] id: CL:0000663 name: valve cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000664 name: closable valve cell namespace: cell is_a: CL:0000185 ! myoepithelial cell is_a: CL:0000663 ! valve cell [Term] id: CL:0000665 name: permanently open valve cell namespace: cell is_a: CL:0000663 ! valve cell [Term] id: CL:0000666 name: fenestrated cell namespace: cell synonym: "window cell" EXACT [] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000667 name: collagen secreting cell namespace: cell def: "An extracellular matrix secreting cell that secretes collagen." [GOC:tfm] is_a: CL:0000327 ! extracellular matrix secreting cell [Term] id: CL:0000668 name: obsolete parenchymal cell namespace: cell def: "The cell characteristic of an organ, as distinguished from associated connective or supporting tissues." [ISBN:0471245208] is_obsolete: true comment: OBSOLETE: Term was made obsolete to avoid confusion with plant parenchymal cell. Cell type has a similar but slightly different meaning in botany (plants): see PO:0000074. xref: BTO:0002174 xref: FMA:84638 [Term] id: CL:0000669 name: pericyte cell namespace: cell alt_id: CL:0000184 def: "An elongated, contractile cell found wrapped about precapillary arterioles outside the basement membrane. Pericytes are present in capillaries where proper adventitia and muscle layer are missing (thus distingushing this cell type from adventitial cells). They are relatively undifferentiated and may become fibroblasts, macrophages, or smooth muscle cells." [GOC:dsd, GOC:tfm, ISBN:0721662544, MESH:D020286, PMID:16807374, PMID:17986482, PMID:20024907] comment: Pericytes are CD10-positive, CD13-positive, CD31-negative, CD45-negative, CD106-positive, CD117-negative, CD140-positive, CD144-negative, CD146-positive, CD271-positive, CD325-positive, NG2-positive, RGS5-positive, SMA-positive, and desmin-positive. A subpopulation is CD248-positive. They are also capable of producing angiopoietin 1, CXCL12, TGF-beta, and VEGF-A. synonym: "ARC" EXACT [PMID:17986482] synonym: "adventitial cell" RELATED [] synonym: "adventitial reticular cell" EXACT [] synonym: "cell of Rouget" EXACT [] synonym: "pericyte" EXACT [] synonym: "pericyte of Rouget" EXACT [] xref: BTO:0002441 xref: FMA:63174 is_a: CL:0000183 ! contractile cell is_a: CL:0000630 ! supportive cell is_a: CL:0002320 ! connective tissue cell [Term] id: CL:0000670 name: primordial germ cell namespace: cell def: "A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells." [GOC:tfm, PMID:1381289] synonym: "Gonocyte" EXACT [] synonym: "Primitive germ cell" EXACT [] synonym: "gonocyte" EXACT [] synonym: "primitive germ cell" EXACT [] xref: FMA:70567 is_a: CL:0000039 ! germ line cell is_a: CL:0000219 ! motile cell relationship: part_of UBERON:0000922 ! embryo [Term] id: CL:0000671 name: centripetally migrating follicle cell namespace: cell xref: FBbt:00004906 is_a: CL:0000477 ! follicle cell [Term] id: CL:0000672 name: tracheary element namespace: cell def: "Obsolete. Use PO:0000290 from Plant Ontology instead. A water conducting cell, tracheid or vessel member." [ISBN:0471245208] is_obsolete: true comment: replaced_by: PO:0000290 [Term] id: CL:0000673 name: Kenyon cell namespace: cell is_a: CL:0000028 ! CNS neuron (sensu Nematoda and Protostomia) [Term] id: CL:0000674 name: interfollicle cell namespace: cell synonym: "fly stalk cell" EXACT [] xref: FBbt:00004910 is_a: CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: CL:0000675 name: female gamete namespace: cell def: "A mature sexual reproductive cell of the female germline." [GOC:tfm] is_a: CL:0000021 ! female germ cell is_a: CL:0000300 ! gamete [Term] id: CL:0000676 name: cap cell namespace: cell xref: BTO:0001033 is_a: CL:0000378 ! support cell (sensu Nematoda and Protostomia) [Term] id: CL:0000677 name: gut absorptive cell namespace: cell def: "Cell of the intestinal epithelium with a brush border made up of many parallel packed microvilli; associated with absorption, particularly of macromolecules." [JB:jb] is_a: CL:0000212 ! absorptive cell [Term] id: CL:0000678 name: commisural neuron namespace: cell is_a: CL:0000372 ! tormogen cell [Term] id: CL:0000679 name: glutamatergic neuron namespace: cell xref: WBbt:0006829 is_a: CL:0000540 ! neuron [Term] id: CL:0000680 name: muscle precursor cell namespace: cell is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0000681 name: radial glial cell namespace: cell def: "A cell present in the developing CNS. Functions as both a precursor cell and as a scaffold to support neuronal migration." [GOC:dph] comment: Unlike that of mammals, the brain of adult teleost fish exhibits an intense and widespread neurogenic activity as a result of the persistence ofnradial glial cells acting as neural progenitors throughout life. synonym: "forebrain radial glial cell" EXACT [] is_a: CL:0000243 ! glial cell (sensu Vertebrata) relationship: develops_from CL:0000031 ! neuroblast [Term] id: CL:0000682 name: M cell namespace: cell def: "An absorptive cell of the gut epithelium that endocytoses microorganisms and intact macromolecules from the gut lumen and transports them to the subepithelial space where they are presented to antigen-presenting cells and lymphocytes." [GOC:jb, GOC:tfm] synonym: "M-cell" EXACT [] synonym: "microfold cell" EXACT [] xref: BTO:0003600 xref: FMA:62929 is_a: CL:0000066 ! epithelial cell is_a: CL:0000473 ! defensive cell is_a: CL:0000627 ! transporting cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000683 name: ependymoglial cell namespace: cell def: "A cell that transports hormones from neurosecretory cells. This nerve cell is characterized by bipolar shape and endfeet that contact a basal lamina around blood vessels, and/or the pia mater or vitreous body of the eye and additionally contact the ventricular surface or sub-retinal space." [JB:jb, http://neurolex.org/wiki/Category:Ependymoglial_Cell] synonym: "ependymal astrocyte" EXACT [] is_a: CL:0000127 ! astrocyte [Term] id: CL:0000684 name: littoral cell of liver namespace: cell is_a: CL:0000077 ! mesothelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000685 name: meristematic cell namespace: cell def: "Obsolete. Use PO:0004010 from Plant Ontology instead. A cell synthesizing protoplasm and producing new cells by division and with only a primary cell wall." [PO:0004010] is_obsolete: true comment: replaced_by: PO:0004010 [Term] id: CL:0000686 name: cerebrospinal fluid secreting cell namespace: cell def: "A columnar/cuboidal epithelial cell that secretes cerebrospinal fluid." [GOC:tfm] is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0000151 ! secretory cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0000687 name: R1 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000688 name: perijunctional fibroblast namespace: cell def: "A fibroblast-like cell that provides support at neuromuscular junctions in vertebrates and are localized outside the synaptic basal lamina." [JB:jb] is_a: CL:0000057 ! fibroblast is_a: CL:0000630 ! supportive cell [Term] id: CL:0000689 name: myoendocrine cell namespace: cell def: "A cell with both myofibrils and secretory granules." [JB:jb] is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000690 name: R2 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000691 name: stellate interneuron namespace: cell is_a: CL:0000099 ! interneuron [Term] id: CL:0000692 name: terminal Schwann cell namespace: cell def: "A neuroglial cell of the peripheral nervous system inside the basal lamina of the neuromuscular junction providing chemical and physical support to the synapse." [JB:jb, PMID:16136171] synonym: "Schwann cell" BROAD [] is_a: CL:0000630 ! supportive cell is_a: CL:0002376 ! non-myelinating Schwann cell [Term] id: CL:0000693 name: neuroglioform cell namespace: cell def: "A stellate interneuron having 7-10 dendrites that may branch." [JB:jb] synonym: "spiderweb cell" EXACT [] is_a: CL:0000691 ! stellate interneuron [Term] id: CL:0000694 name: R3 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000695 name: Cajal-Retzius cell namespace: cell def: "One of a transient population of pioneering neurons in the cerebral cortex. These cells are slender bipolar cells of the developing marginal zone. One feature of these cells in mammals is that they express the Reelin gene." [PMID:10600995, PMID:9728912] is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000696 name: PP cell namespace: cell def: "A cell that stores and secretes pancreatic polypeptide hormone." [GOC:tfm, JB:jb, PMID:15153415] synonym: "type F enteroendocrine cell" EXACT [] xref: FMA:62938 xref: FMA:83409 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000697 name: R4 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000698 name: paraganglial cell namespace: cell is_obsolete: true [Term] id: CL:0000699 name: paraganglial type 1 cell namespace: cell def: "A type of glomus or chief cell, is sensitive to hypoxia and produce catecholamines." [GOC:tfm] is_a: CL:0000165 ! neuroendocrine cell [Term] id: CL:0000700 name: dopaminergic neuron namespace: cell def: "A neuron that releases dopamine as a neurotransmitter." [GOC:dhill] synonym: "dopaminergic cell" EXACT [] xref: BTO:0004032 xref: FMA:84787 xref: WBbt:0006746 is_a: CL:0000540 ! neuron [Term] id: CL:0000701 name: paraganglia type 2 cell namespace: cell def: "Supports paraganglial type 1 cell." [JB:jb] is_a: CL:0000630 ! supportive cell [Term] id: CL:0000702 name: R5 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000703 name: sustentacular cell namespace: cell def: "Cell that provides some or all mechanical, nutritional and phagocytic support to their neighbors." [JB:jb] xref: BTO:0002315 is_a: CL:0000630 ! supportive cell [Term] id: CL:0000704 name: endothelial tip cell namespace: cell def: "A specialized endothelial cell that senses extracellular signals and guides the directed growth of blood vessels." [PMID:15376331] is_a: CL:0000071 ! blood vessel endothelial cell [Term] id: CL:0000705 name: R6 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000706 name: choroid plexus epithelial cell namespace: cell alt_id: CL:1000430 def: "Specialized ependymal cell that produces the cerebrospinal fluid from the blood and secretes it into the lumen of the brain and spinal chord." [GOC:add, GOC:tfm, JB:jb, PMID:9550134] synonym: "epithelial cell of choroid plexus" EXACT [] xref: FMA:70549 is_a: CL:0000065 ! ependymal cell is_a: CL:0000627 ! transporting cell relationship: part_of UBERON:0001886 ! choroid plexus [Term] id: CL:0000707 name: R7 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000494 ! UV sensitive photoreceptor cell [Term] id: CL:0000708 name: leptomeningeal cell namespace: cell def: "Stromal cell that forms the internal covering of the vertebrate brain and produces ECM for this and the choroid plexus." [JB:jb] synonym: "leptomemingeal cell" RELATED [] is_a: CL:0000327 ! extracellular matrix secreting cell relationship: part_of UBERON:0003210 ! blood-cerebrospinal fluid barrier [Term] id: CL:0000709 name: R8 photoreceptor cell namespace: cell is_a: CL:0000287 ! eye photoreceptor cell is_a: CL:0000488 ! visible light photoreceptor cell [Term] id: CL:0000710 name: neurecto-epithelial cell namespace: cell def: "Epithelial cells derived from neural plate and neural crest." [GOC:tfm] comment: The term \"neuroepithelial cell\" is used to describe both this cell type and sensory epithelial cell (CL:0000098). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 xref: FMA:70557 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002077 ! ecto-epithelial cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000711 name: cumulus cell namespace: cell def: "Cumulus cell is a specialized granulosa cell that surrounds and nourishes the oocyte. This cell-type surrounds the fully-grown oocyte to form a cumulus-oocyte complex (abbr. COC). The terms cumulus oophorus cells, cumulus granulosa cells, cumulus oophorous granulosa cells, granulosa-cumulus cells are used to make a distinction between this cell and the other functionally different subpopulation of granulosa cells at the wall of the Graafian follicle." [GOC:tfm, http://www.copewithcytokines.org/cope.cgi?key=cumulus%20cells] xref: BTO:0002236 is_a: CL:0000154 ! protein secreting cell is_a: CL:0002174 ! follicular cell of ovary relationship: develops_from CL:0000501 ! granulosa cell [Term] id: CL:0000712 name: stratum granulosum cell namespace: cell is_a: CL:0000362 ! epidermal cell [Term] id: CL:0000713 name: corona radiata cell namespace: cell is_a: CL:0000711 ! cumulus cell [Term] id: CL:0000715 name: embryonic crystal cell namespace: cell is_a: CL:0000392 ! crystal cell is_a: CL:0000736 ! embryonic gland hemocyte [Term] id: CL:0000716 name: lymph gland crystal cell namespace: cell is_a: CL:0000392 ! crystal cell is_a: CL:0000735 ! lymph gland hemocyte [Term] id: CL:0000717 name: fusimotor neuron namespace: cell def: "A subset of motor neurons that innervates intrafusal muscle fibers and has small diameter axons." [PMID:15582775] is_a: CL:0000100 ! motor neuron [Term] id: CL:0000718 name: cone cell (sensu Endopterygota) namespace: cell is_a: CL:0000306 ! crystallin accumulating cell [Term] id: CL:0000719 name: posterior cone cell (sensu Endopterygota) namespace: cell is_a: CL:0000718 ! cone cell (sensu Endopterygota) [Term] id: CL:0000720 name: anterior cone cell (sensu Endopterygota) namespace: cell is_a: CL:0000718 ! cone cell (sensu Endopterygota) [Term] id: CL:0000721 name: equatorial cone cell (sensu Endopterygota) namespace: cell is_a: CL:0000718 ! cone cell (sensu Endopterygota) [Term] id: CL:0000722 name: cystoblast namespace: cell is_a: CL:0000586 ! germ cell [Term] id: CL:0000723 name: somatic stem cell namespace: cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: FMA:63368 is_a: CL:0000034 ! stem cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000724 name: heterocyst namespace: cell def: " A differentiated cell that functions as a site of nitrogen fixation under aerobic conditions." [MA:ma] xref: BTO:0000600 is_a: CL:0000520 ! prokaryotic cell is_a: CL:0000725 ! nitrogen fixing cell [Term] id: CL:0000725 name: nitrogen fixing cell namespace: cell is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000726 name: chlamydospore namespace: cell def: "An asexual 1-celled spore (primarily for perennation, not dissemination). Originates endogenously and singly within part of a pre-existing cell by the contraction of the protoplast. Possesses an inner secondary and often thickened hyaline or brown wall, usually impregnated with hydrophobic material." [GOC:tfm, ISBN:085199377X] comment: Considering obsoleting as sometimes used to refer to protozoans too. But reference indicates term was intended for fungus. is_a: CL:0000605 ! fungal asexual spore [Term] id: CL:0000727 name: primary pigment cell namespace: cell is_a: CL:0001658 ! visual pigment cell (sensu Nematoda and Protostomia) [Term] id: CL:0000728 name: secondary pigment cell namespace: cell is_a: CL:0001658 ! visual pigment cell (sensu Nematoda and Protostomia) [Term] id: CL:0000729 name: tertiary pigment cell namespace: cell is_a: CL:0001658 ! visual pigment cell (sensu Nematoda and Protostomia) [Term] id: CL:0000730 name: leading edge cell namespace: cell def: "A cell at the front of a migrating epithelial sheet." [MA:ma] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000731 name: urothelial cell namespace: cell def: "A cell of a layer of transitional epithelium in the wall of the bladder, ureter, and renal pelvis, external to the lamina propria." [GOC:tfm, MA:ma] synonym: "bladder transitional cell" NARROW [] synonym: "transitional epithelial cell of urinary bladder" NARROW [] synonym: "urinary tract transitional epithelial cell" NARROW [] xref: FMA:84127 is_a: CL:0000244 ! transitional epithelial cell relationship: part_of UBERON:0000365 ! urothelium [Term] id: CL:0000732 name: amoeboid cell namespace: cell is_a: CL:0000219 ! motile cell [Term] id: CL:0000733 name: lymph gland plasmatocyte namespace: cell is_a: CL:0000394 ! plasmatocyte is_a: CL:0000735 ! lymph gland hemocyte [Term] id: CL:0000734 name: embryonic gland plasmatocyte namespace: cell is_a: CL:0000394 ! plasmatocyte is_a: CL:0000736 ! embryonic gland hemocyte [Term] id: CL:0000735 name: lymph gland hemocyte namespace: cell is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000736 name: embryonic gland hemocyte namespace: cell is_a: CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) [Term] id: CL:0000737 name: striated muscle cell namespace: cell def: "Muscle cell which has as its direct parts myofilaments organized into sarcomeres." [GOC:tfm, ISBN:0721662544] xref: BTO:0002916 xref: FMA:86936 is_a: CL:0000187 ! muscle cell [Term] id: CL:0000738 name: leukocyte namespace: cell def: "An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." [GOC:add, GOC:tfm, ISBN:978-0-323-05290-0] synonym: "immune cell" EXACT [] synonym: "leucocyte" EXACT [] synonym: "white blood cell" EXACT [] xref: BTO:0000751 xref: FMA:62852 is_a: CL:0000219 ! motile cell is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0000037 ! hematopoietic stem cell [Term] id: CL:0000740 name: retinal ganglion cell namespace: cell def: "The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve." [GOC:dph] synonym: "RGC" EXACT [] synonym: "gangliocyte" EXACT [] synonym: "ganglion cell of retina" EXACT [] xref: BTO:0001800 xref: FMA:67765 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) [Term] id: CL:0000741 name: spinal accessory motor neuron namespace: cell def: "A motor neuron that is located in the cervical region of the spinal cord and selectively innervates the sternocleidmastoid or trapezius muscle. Unlike other motor neurons, they extend axons dorsally along lateral margins of the spinal cord." [PMID:16267219] synonym: "SACMN" EXACT [] is_a: CL:0000100 ! motor neuron [Term] id: CL:0000742 name: periarticular chondrocyte namespace: cell def: "A round chondrocyte that first differentiates in the late embryonic growth plate of bone." [PMID:15951842] is_a: CL:0000138 ! chondrocyte relationship: part_of UBERON:0010996 ! articular cartilage of joint [Term] id: CL:0000743 name: hypertrophic chondrocyte namespace: cell def: "Chondrocyte that is terminally differentiated, produces type X collagen, is large in size, and often associated with the replacement of cartilage by bone (endochondral ossification)." [GO_REF:0000034, PMID:15951842] comment: is hypertrophic pathological or normal? and can it be described using a pato term? is_a: CL:0000138 ! chondrocyte [Term] id: CL:0000744 name: columnar chondrocyte namespace: cell def: "A columnar chondrocyte that differentiates in the late embryonic growth plate of bone. Columnar chondrocytes vigorously proliferate and form columns in the growth plate." [PMID:15951842] is_a: CL:0000138 ! chondrocyte [Term] id: CL:0000745 name: horizontal cell namespace: cell def: "A neuron that laterally connects other neurons in the inner nuclear layer of the retina." [ISBN:0195088433] xref: BTO:0004120 is_a: CL:0000099 ! interneuron [Term] id: CL:0000746 name: cardiac muscle cell namespace: cell alt_id: FMA:83808 def: "A myocyte located in the heart. The contractile fiber resembles those of skeletal muscle but are only one third as large in diameter, are richer in sarcoplasm, and contain centrally located instead of peripheral nuclei." [GOC:mtg_cardiacconduct_nov11, GOC:tfm, ISBN:0323052908] synonym: "cardiac muscle fiber" EXACT [GO:0048739] synonym: "cardiac myocyte" RELATED [] synonym: "cardiocyte" RELATED [] synonym: "cardiomyocyte" RELATED [] synonym: "heart muscle cell" RELATED [] xref: BTO:0001539 xref: FMA:14067 is_a: CL:0000737 ! striated muscle cell is_a: CL:0002494 ! cardiocyte relationship: develops_from CL:0000513 ! cardiac muscle myoblast relationship: part_of UBERON:0007100 ! circulatory organ [Term] id: CL:0000747 name: cyanophore namespace: cell def: "A pigment cell derived from the neural crest. Contains blue pigment of unknown chemical composition in fibrous organelles termed cyanosomes. This gives a blue appearance." [SANBI:mhl] synonym: "blue chromatophore" RELATED [] is_a: CL:0000147 ! pigment cell relationship: develops_from CL:0005005 ! cyanoblast [Term] id: CL:0000748 name: retinal bipolar neuron namespace: cell def: "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner plexiform layer." [PMID:14689473] is_a: CL:0000103 ! bipolar neuron [Term] id: CL:0000749 name: ON-bipolar cell namespace: cell def: "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the inner half of the inner plexiform layer. These cells depolarize in response to light stimulation of their corresponding photoreceptors." [PMID:14689473] is_a: CL:0000748 ! retinal bipolar neuron [Term] id: CL:0000750 name: OFF-bipolar cell namespace: cell def: "A bipolar neuron found in the retina and having connections with photoreceptors cells and neurons in the outer half of the inner plexiform layer. These cells hyperpolarize in response to light stimulation of their corresponding photoreceptors." [PMID:14689473] is_a: CL:0000748 ! retinal bipolar neuron [Term] id: CL:0000751 name: rod bipolar cell namespace: cell def: "A bipolar neuron found in the retina and having connections with rod photoreceptor cells and neurons in the inner plexiform layer." [GOC:tfm, PMID:14689473] xref: FMA:67750 is_a: CL:0000749 ! ON-bipolar cell [Term] id: CL:0000752 name: cone retinal bipolar cell namespace: cell def: "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer." [PMID:14689473] is_a: CL:0000748 ! retinal bipolar neuron [Term] id: CL:0000753 name: type 1 cone bipolar cell (sensu Mus) namespace: cell def: "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The cell body of these cells is in the middle of the inner plexiform layer. The dendritic tree is stout and the axon terminates in sublamina 1. The axonal terminal is wide and has only a few varicosities." [PMID:14689473] synonym: "DB1 cone bipolar cell" EXACT [] is_a: CL:0000750 ! OFF-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000754 name: type 2 cone bipolar cell (sensu Mus) namespace: cell def: "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The dendritic tree is not well filled and the dendrites are more delicate than in type 1 cells. The axon terminal is bushier and exhibits a dense plexus of varicosities in the inner part of sublamina 1." [PMID:14689473] synonym: "FMB cone bipolar cell" EXACT [] is_a: CL:0000750 ! OFF-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000755 name: type 3 cone bipolar cell (sensu Mus) namespace: cell def: "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The dendritic tree is delicate and the dendritic tips appear small when compared with type 1 cells. The axon terminal is stratified and restricted to sublamina 2 of the inner plexiform layer." [PMID:14689473] synonym: "DB2 cone bipolar cell" EXACT [] is_a: CL:0000750 ! OFF-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000756 name: type 4 cone bipolar cell (sensu Mus) namespace: cell def: "An OFF-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the outer half of the inner plexiform layer. The cell has a diffuse axon terminal with varicosities in sublaminae 1 and 2 of the inner plexiform layer." [PMID:14689473] synonym: "DB3 cone bipolar cell" EXACT [] is_a: CL:0000750 ! OFF-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000757 name: type 5 cone bipolar cell (sensu Mus) namespace: cell def: "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The axon terminal is restricted to sublamina 3 of the inner plexiform layer. It is narrowly stratified and branched. The dendritic tree has many delicate branches." [PMID:14689473] synonym: "DB4 cone bipolar cell" EXACT [] is_a: CL:0000749 ! ON-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000758 name: type 6 cone bipolar cell (sensu Mus) namespace: cell def: "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The cell has a loose, delicate axon terminal that opens in sublamina 3 of the inner plexiform layer and descends into sublamina 4." [PMID:14689473] synonym: "DB5 cone bipolar cell" EXACT [] is_a: CL:0000749 ! ON-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000759 name: type 7 cone bipolar cell (sensu Mus) namespace: cell def: "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The axon terminal is narrowly stratified and are found just below a calretinin-expressing band in sublamina 4 of the inner plexiform layer." [PMID:14689473] synonym: "IMB cone bipolar cell" EXACT [] is_a: CL:0000749 ! ON-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000760 name: type 8 cone bipolar cell (sensu Mus) namespace: cell def: "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. This cell has the widest dendritic field and the widest axon terminal of all retinal bipolar cells. The axon terminal is delicate and stratified through sublaminae 4 and 5 of the inner plexiform layer." [PMID:14689473] synonym: "DB6 cone bipolar cell" EXACT [] is_a: CL:0000749 ! ON-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000761 name: type 9 cone bipolar cell (sensu Mus) namespace: cell def: "An ON-bipolar neuron found in the retina and having connections with cone photoreceptors cells and neurons in the inner half of the inner plexiform layer. The dendritic tree is wide and the dendritic convergence indicates cone selectivity. The axon terminal is sparsely branched and terminates in sublamina 5 of the inner plexiform layer." [PMID:14689473] synonym: "BB cone bipolar cell" EXACT [] is_a: CL:0000749 ! ON-bipolar cell is_a: CL:0000752 ! cone retinal bipolar cell [Term] id: CL:0000762 name: nucleated thrombocyte namespace: cell def: "A nucleated blood cell involved in coagulation, typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:16360205] comment: Note that this is a non-mammalian cell type. Use platelet ; CL:0000233 for thrombocytes (platelets) in mammals. is_a: CL:0000226 ! single nucleate cell is_a: CL:0000763 ! myeloid cell relationship: develops_from CL:0000828 ! thromboblast [Term] id: CL:0000763 name: myeloid cell namespace: cell def: "A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage." [GOC:add] xref: BTO:0001441 is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0000049 ! common myeloid progenitor [Term] id: CL:0000764 name: erythroid lineage cell namespace: cell alt_id: CL:0002156 def: "A immature or mature cell in the lineage leading to and including erythrocytes." [GOC:add, GOC:tfm] comment: Note that in FMA erythropoietic cells are types of nucleated erythrocytes and thus don't include erythrocytes. synonym: "erythropoietic cell" EXACT [] xref: FMA:62845 xref: FMA:83516 is_a: CL:0000763 ! myeloid cell [Term] id: CL:0000765 name: erythroblast namespace: cell def: "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers." [GOC:add, ISBN:0721601464, PMID:18174176] synonym: "normoblast" EXACT [] xref: BTO:0001571 xref: FMA:83504 is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000547 ! proerythroblast [Term] id: CL:0000766 name: myeloid leukocyte namespace: cell def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] is_a: CL:0000738 ! leukocyte is_a: CL:0000763 ! myeloid cell relationship: develops_from CL:0000049 ! common myeloid progenitor [Term] id: CL:0000767 name: basophil namespace: cell def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has an irregularly shaped, pale-staining nucleus that is partially constricted into two lobes, and with cytoplasm that contains coarse, bluish-black granules of variable size. Basophils contain vasoactive amines such as histamine and serotonin, which are released on appropriate stimulation. A basophil is CD123-positive, CD193-positive, CD203c-positive, and FceRIa-positive." [GOC:add, GOC:amm, GOC:dsd, GOC:tfm, ISBN:0721601464, MESH:D001491, PMCID:PMC2626675, PMID:11927641, PMID:19741522, PMID:21236338, PMID:9933081] comment: Matures in the bone marrow and account for <1% of leukocytes in the peripheral blood, spleen, and bone marrow. Basophils are described as being CD11a-positive, CD11b-positive, CD13-positive, CD15-positive, CD18-positive, CD21-positive, CD25-positive, CD29-positive, CD35-positive, CD40-positive, CD40L-positive, CD44-positive, CD45R-negative, CD46-positive, CD49a-positive, CD49b-positive, CD49d-positive, CD55-positive, CD59-positive, CD62L-positive, CD63-positive, CD69-positive, CD90-negative, CD116-positive, CD117-negative, CD124-positive, CD125-positive, CD131-positive, CD161-positive, CD184-positive, CD191-positive, CD192-positive, CD197-positive, CD200R3-positive, CD218-positive, CD282-positive, CD284-positive, CD289-positive, CD290-positive, CD294-positive, natural killer cell receptor 2B4-positive, smad1-positive, CD3-negative, CD4-negative, CD7-negative, CD8-negative, CD14-negative, CD15-negative, CD16-negative, CD19-negative, CD20-negative, CD34-negative, CD36-negative, CD45R-negative, CD56-negative, CD57-negative, CD235a-negative, and GR1-negative. Transcription factors- GATA1-positive, PU.1-positive. synonym: "basophilic leucocyte" EXACT [] synonym: "basophilic leukocyte" EXACT [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] xref: BTO:0000129 xref: FMA:62862 is_a: CL:0000094 ! granulocyte [Term] id: CL:0000768 name: immature basophil namespace: cell def: "Any of the immature forms of a basophil, in which basophilic specific granules are present but other phenotypic features of the mature form may be lacking." [GOC:add, ISBN:0721601464] synonym: "immature basophilic leucocyte" EXACT [] synonym: "immature basophilic leukocyte" EXACT [] is_a: CL:0000767 ! basophil relationship: develops_from CL:0000830 ! basophilic promyelocyte [Term] id: CL:0000769 name: basophilic metamyelocyte namespace: cell def: "A basophil precursor in the granulocytic series, being a cell intermediate in development between a basophilic myelocyte and a band form basophil. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare. Markers are CD11b-positive, CD15-positive, CD16-positive, CD24-positive, CD33-positive, and CD13-positive." [GOC:tfm, ISBN:0721601464, PMID:18466030] xref: FMA:84198 is_a: CL:0000768 ! immature basophil is_a: CL:0002192 ! metamyelocyte is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000614 ! basophilic myelocyte [Term] id: CL:0000770 name: band form basophil namespace: cell def: "A late basophilic metamyelocyte in which the nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature basophil." [GOC:add, ISBN:0721601464, PMID:18466030, http://www.cap.org] is_a: CL:0000768 ! immature basophil is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000769 ! basophilic metamyelocyte [Term] id: CL:0000771 name: eosinophil namespace: cell def: "Any of the immature or mature forms of a granular leukocyte with a nucleus that usually has two lobes connected by one or more slender threads of chromatin, and cytoplasm containing coarse, round granules that are uniform in size and which can be stained by the dye eosin. Eosinophils are CD9-positive, CD191-positive, and CD193-positive." [GOC:add, GOC:amm, GOC:dsd, GOC:tfm, ISBN:0721601464, PMCID:PMC2626675, PMID:10914487, PMID:1662676] comment: Eosinophils are also CD14-negative, CD32-positive, CD44-positive, CD48-positive, CD69-positive, CD192-negative, MBP1-positive, MBP2-positive, TLR2-negative, TLR4-negative, and lineage-negative (B220, CD2, CD14, CD19, CD56, CD71, CD117, CD123, CD235a (glycophorin A), and TER119). The cytokines IL-3, IL-5, and GM-CSF are involved in their development and differentiation. Usually considered CD16-negative, CD16 is observed on eosinophilic metamyelocyte. synonym: "eosinocyte" EXACT [] synonym: "eosinophilic granulocyte" EXACT [] synonym: "eosinophilic leucocyte" EXACT [] synonym: "eosinophilic leukocyte" EXACT [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] xref: BTO:0000399 xref: FMA:62861 is_a: CL:0000094 ! granulocyte [Term] id: CL:0000772 name: immature eosinophil namespace: cell def: "Any of the immature forms of an eosinophil, in which eosinophilic specific granules are present but other phenotypic features of the mature form may be lacking." [GOC:add, ISBN:0721601464] synonym: "immature eosinocyte" EXACT [] synonym: "immature eosinophilic leucocyte" EXACT [] synonym: "immature eosinophilic leukocyte" EXACT [] is_a: CL:0000771 ! eosinophil relationship: develops_from CL:0000833 ! eosinophilic promyelocyte [Term] id: CL:0000773 name: eosinophilic metamyelocyte namespace: cell def: "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a eosinophilic myelocyte and a band form eosinophil. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare. Markers are integrin alpha-M-positive, fucosyltransferase FUT4-positive, low affinity immunoglobulin gamma Fc region receptor III-positive, CD33-positive, CD24-positive and aminopeptidase N-negative." [GOC:add, GOC:tfm, ISBN:0721601464, PMID:19622087] is_a: CL:0000772 ! immature eosinophil is_a: CL:0002192 ! metamyelocyte is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000612 ! eosinophilic myelocyte [Term] id: CL:0000774 name: band form eosinophil namespace: cell def: "A late eosinophilic metamyelocyte in which the nucleus is in the form of a curved or coiled band, not having acquired the typical multilobar shape of the mature basophil." [GOC:add, GOC:tfm, ISBN:0721601464, PMID:19622087, http://www.cap.org] is_a: CL:0000772 ! immature eosinophil is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000773 ! eosinophilic metamyelocyte [Term] id: CL:0000775 name: neutrophil namespace: cell def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." [GOC:add, GOC:amm, GOC:tfm, ISBN:0721601464] synonym: "PMN" BROAD [] synonym: "neutrocyte" EXACT [] synonym: "neutrophil leucocyte" EXACT [] synonym: "neutrophil leukocyte" EXACT [] synonym: "neutrophilic leucocyte" EXACT [] synonym: "neutrophilic leukocyte" EXACT [] synonym: "poly" BROAD [] synonym: "polymorphonuclear leucocyte" BROAD [] synonym: "polymorphonuclear leukocyte" BROAD [] synonym: "polymorphonuclear neutrophil" BROAD [] synonym: "polynuclear neutrophilic leucocyte" BROAD [] synonym: "polynuclear neutrophilic leukocyte" BROAD [] xref: BTO:0000130 xref: FMA:62860 is_a: CL:0000094 ! granulocyte [Term] id: CL:0000776 name: immature neutrophil namespace: cell def: "Any of the immature forms of a neutrophil in which neutrophilic specific granules are present but other phenotypic features of the mature form may be lacking." [GOC:add, ISBN:0721601464] synonym: "immatuer neutrophilic leukocyte" EXACT [] synonym: "immature neutrocyte" EXACT [] synonym: "immature neutrophil leucocyte" EXACT [] synonym: "immature neutrophil leukocyte" EXACT [] synonym: "immature neutrophilic leucocyte" EXACT [] is_a: CL:0000775 ! neutrophil relationship: develops_from CL:0000564 ! neutrophilic promyelocyte [Term] id: CL:0000777 name: mesangial phagocyte namespace: cell def: "A tissue-resident macrophage of the renal glomerular mesangium involved in the disposal and degradation of filtration residues, presentation of antigen to T cells and in tissue remodeling." [GOC:add, GOC:tfm, ISBN:0702022918, ISBN:3540536663, PMID:1600140, PMID:16146841] synonym: "mesangial cell" BROAD [] is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:0002681 ! kidney cortical cell is_a: CL:1000500 ! kidney interstitial cell relationship: part_of UBERON:0002320 ! glomerular mesangium [Term] id: CL:0000778 name: mononuclear osteoclast namespace: cell def: "A specialized mononuclear osteoclast associated with the absorption and removal of bone, precursor of multinuclear osteoclasts." [GOC:add, GOC:tfm, PMID:12713016, PMID:15055519, PMID:17380158, PMID:9415452] comment: Morphology: mononuclear, highly vesicular. is_a: CL:0000092 ! osteoclast is_a: CL:0000226 ! single nucleate cell [Term] id: CL:0000779 name: multinuclear osteoclast namespace: cell def: "A specialized multinuclear osteoclast associated with the absorption and removal of bone." [GOC:add, PMID:12713016, PMID:9415452] comment: Morphology: multinucleated, highly vesicular. synonym: "multinucleated osteoclast" EXACT [] is_a: CL:0000092 ! osteoclast is_a: CL:0000228 ! multinucleate cell relationship: develops_from CL:0000778 ! mononuclear osteoclast [Term] id: CL:0000780 name: multinuclear odontoclast namespace: cell def: "A specialized multinuclear osteoclast associated with the absorption and removal of cementum." [GOC:add, PMID:9415452] comment: Morphology: multinucleated, highly vesicular; location: roots of deciduous (milk) teeth. synonym: "multinucleated odontoclast" EXACT [] is_a: CL:0000588 ! odontoclast is_a: CL:0000779 ! multinuclear osteoclast relationship: develops_from CL:0000781 ! mononuclear odontoclast [Term] id: CL:0000781 name: mononuclear odontoclast namespace: cell def: "A specialized mononuclear osteoclast associated with the absorption and removal of cementum." [GOC:add, PMID:9415452] comment: Morphology: Mononuclear, highly vesicular; location: roots of deciduous (milk) teeth. is_a: CL:0000588 ! odontoclast is_a: CL:0000778 ! mononuclear osteoclast [Term] id: CL:0000782 name: myeloid dendritic cell namespace: cell def: "A dendritic cell of the myeloid lineage." [GOC:add, PMID:10449155, PMID:17332250, PMID:9521319] comment: These cells are CD1a-negative, CD1b-positive, CD11a-positive, CD11c-positive, CD13-positive, CD14-negative, CD20-negative, CD21-negative, CD33-positive, CD40-negative, CD50-positive, CD54-positive, CD58-positive, CD68-negative, CD80-negative, CD83-negative, CD85j-positive, CD86-positive, CD89-negative, CD95-positive, CD120a-negative, CD120b-positive, CD123-negative, CD178-negative, CD206-negative, CD207-negative, CD209-negative, and TNF-alpha-negative. Upon TLR stimulation, they are capable of producing high levels of TNF-alpha, IL-6, CXCL8 (IL-8). synonym: "CD11c+CD123- DC" EXACT [] synonym: "interdigitating cell" BROAD [] synonym: "mDC" EXACT [] synonym: "veiled cell" BROAD [] xref: BTO:0004721 is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0000576 ! monocyte relationship: develops_from CL:0000763 ! myeloid cell [Term] id: CL:0000783 name: multinucleated phagocyte namespace: cell def: "A phagocyte formed by the fusion of mononuclear phagocytes." [GOC:add, GOC:tfm] is_a: CL:0000228 ! multinucleate cell is_a: CL:0000518 ! phagocyte (sensu Vertebrata) [Term] id: CL:0000784 name: plasmacytoid dendritic cell namespace: cell def: "A dendritic cell type of distinct morphology, localization, and surface marker expression (CD123-positive) from other dendritic cell types and associated with early stage immune responses, particularly the release of physiologically abundant amounts of type I interferons in response to infection." [GOC:add, GOC:dsd, PMCID:PMC2118448, PMCID:PMC538703, PMID:15549123, PMID:17332250, PMID:17850486, PMID:20304825] synonym: "DC2" EXACT [] synonym: "IPC" EXACT [] synonym: "T-associated plasma cell" EXACT [] synonym: "interferon-producing cell" EXACT [] synonym: "lymphoid dendritic cell" EXACT [] synonym: "pDC" EXACT [] synonym: "plasmacytoid T cell" EXACT [] synonym: "plasmacytoid monocyte" EXACT [] synonym: "type 2 DC" EXACT [] xref: BTO:0004625 is_a: CL:0000451 ! dendritic cell relationship: develops_from CL:0000037 ! hematopoietic stem cell [Term] id: CL:0000785 name: mature B cell namespace: cell def: "A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen." [GOC:add, GOC:dsd, ISBN:0781735149] comment: Mature B cells are also reportedly CD10-negative, CD19-positive, CD22-positive, CD34-negative, CD48-positive, CD79a-positive, CD84-positive, CD127-negative, CD352-positive, RAG-negative, TdT-negative, Vpre-B-negative, and pre-BCR-negative. Transcription factors expressed: Pax5-positive. synonym: "mature B lymphocyte" EXACT [] synonym: "mature B-cell" EXACT [] synonym: "mature B-lymphocyte" EXACT [] is_a: CL:0000236 ! B cell relationship: develops_from CL:0000818 ! transitional stage B cell [Term] id: CL:0000786 name: plasma cell namespace: cell def: "A terminally differentiated, post-mitotic, antibody secreting cell of the B cell lineage with the phenotype CD138-positive, surface immunonoglobulin-negative, and MHC Class II-negative. Plasma cells are oval or round with extensive rough endoplasmic reticulum, a well-developed Golgi apparatus, and a round nucleus having a characteristic cartwheel heterochromatin pattern and are devoted to producing large amounts of immunoglobulin." [GOC:add, GOC:dsd, GO_REF:0000031, ISBN:0721601464, ISBN:0781735149, PMID:19447676, PMID:20081059, PMID:20839338, PMID:20951740, http://en.wikipedia.org/wiki/Plasma_cell] comment: Plasma cells develop in the spleen and migrate to the bone marrow. Plasma cells are also reportedly CD5-negative, CD10-negative, CD19-positive, CD20-negative, CD21-negative, CD22-negative, CD23-negative, CD24-negative, CD25-negative, CD27-positive, CD34-negative, CD38-positive, CD40-positive, CD43-positive, CD45-positive, CD48-positive, CD53-low, CD80-negative, CD81-positive, CD86-positive, CD95-positive, CD196-negative, CD229-positive, CD270-positive, CD352-positive, CD361-positive, and IgD-negative. Transcription factors: BLIMP1-positive, IRF4-positive, PAX5-negative, SpiB-negative, Ets1-negative, and XBP1-positive. synonym: "effector B cell" RELATED [] synonym: "effector B-cell" RELATED [] synonym: "plasma B cell" EXACT [] synonym: "plasma B-cell" EXACT [] synonym: "plasmacyte" EXACT [] synonym: "plasmocyte" EXACT [] xref: BTO:0000392 xref: FMA:70574 is_a: CL:0000946 ! antibody secreting cell relationship: develops_from CL:0000980 ! plasmablast [Term] id: CL:0000787 name: memory B cell namespace: cell def: "A memory B cell is a mature B cell that is long-lived, readily activated upon re-encounter of its antigenic determinant, and has been selected for expression of higher affinity immunoglobulin. This cell type has the phenotype CD19-positive, CD20-positive, MHC Class II-positive, and CD138-negative." [GOC:add, GOC:dsd, GOC:rhs, GO_REF:0000031, ISBN:0781735149, PMID:20081059, PMID:20839338, http://en.wikipedia.org/wiki/Memory_B_cell] comment: Memory B-cells are also reportedly CD5-negative, CD10-negative, CD21-positive, CD22-positive, CD23-negative, CD24-positive, CD25-positive, CD27-positive, CD34-negative, CD38-negative, CD40-positive, CD43-negative, CD44-positive, CD45-positive, CD53-positive, CD80-negative, CD81-negative, CD86-positive, and CD196/CCR6-positive. synonym: "memory B lymphocyte" EXACT [] synonym: "memory B-cell" EXACT [] synonym: "memory B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell [Term] id: CL:0000788 name: naive B cell namespace: cell def: "A naive B cell is a mature B cell that has the phenotype surface IgD-positive, surface IgM-positive, CD27-negative and that has not yet been activated by antigen in the periphery." [GOC:add, GOC:dsd, GOC:rhs, GO_REF:0000031, ISBN:0781765196, PMID:19447676, PMID:20081059, PMID:20839338, PMID:20933013] comment: NaC/ve B-cells are also reportedly CD10-negative, CD19-positive, CD20-positive, CD21-positive, CD22-positive, CD25-negative, CD27-negative, CD34-negative, CD40-positive, CD43-negative, CD45-positive, CD48-positive, CD53-positive, CD80-negative, CD81-positive, CD84-positive, CD86-negative, CD95-negative, CD138-negative, CD150-positive, CD184/CXCR4-positive, CD185/CXCR5-positive, CD196/CCR6-positive, CD200-positive, CD229-positive, CD243-positive, CD289-positive, CD290-positive, CD352-positive, MHCII/HLA-DR-positive, cadherin 9-positive, and sIgH-positive, Transcription factors: Pax5-positive, ETS1-positive, FOXO1A-positive, KLF4-positive, KLF9-positive, MiTF-positive, OBF1-positive, PLZF-positive, and SpiB-positive. synonym: "naive B lymphocyte" EXACT [] synonym: "naive B-cell" EXACT [] synonym: "naive B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell relationship: develops_from CL:0000818 ! transitional stage B cell [Term] id: CL:0000789 name: alpha-beta T cell namespace: cell def: "A T cell that expresses an alpha-beta T cell receptor complex." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "alpha-beta T lymphocyte" EXACT [] synonym: "alpha-beta T-cell" EXACT [] synonym: "alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000084 ! T cell [Term] id: CL:0000790 name: immature alpha-beta T cell namespace: cell def: "An alpha-beta T cell that has an immature phenotype and has not completed T cell selection." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "immature alpha-beta T lymphocyte" EXACT [] synonym: "immature alpha-beta T-cell" EXACT [] synonym: "immature alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000789 ! alpha-beta T cell is_a: CL:0002420 ! immature T cell [Term] id: CL:0000791 name: mature alpha-beta T cell namespace: cell def: "A alpha-beta T cell that has a mature phenotype." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "mature alpha-beta T lymphocyte" EXACT [] synonym: "mature alpha-beta T-cell" EXACT [] synonym: "mature alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000789 ! alpha-beta T cell is_a: CL:0002419 ! mature T cell relationship: develops_from CL:0000790 ! immature alpha-beta T cell [Term] id: CL:0000792 name: CD4-positive, CD25-positive, alpha-beta regulatory T cell namespace: cell def: "A CD4-positive, CD25-positive, alpha-beta T cell that regulates overall immune responses as well as the responses of other T cell subsets through direct cell-cell contact and cytokine release." [GOC:add, GOC:tfm, ISBN:0781735149, PMID:19464985] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T lymphocyte" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-cell" EXACT [] synonym: "CD4-positive, CD25-positive, alpha-beta regulatory T-lymphocyte" EXACT [] synonym: "suppressor T cell" BROAD [] synonym: "suppressor T lymphocyte" BROAD [] synonym: "suppressor T-cell" BROAD [] synonym: "suppressor T-lymphocyte" BROAD [] xref: FMA:84070 is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000815 ! regulatory T cell [Term] id: CL:0000793 name: CD4-positive, alpha-beta intraepithelial T cell namespace: cell def: "A CD4-positive, alpha-beta T cell that is found in the columnar epithelium of the gastrointestinal tract." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "CD4-positive, alpha-beta intraepithelial T lymphocyte" EXACT [] synonym: "CD4-positive, alpha-beta intraepithelial T-cell" EXACT [] synonym: "CD4-positive, alpha-beta intraepithelial T-lymphocyte" EXACT [] synonym: "IEL" BROAD [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000797 ! alpha-beta intraepithelial T cell relationship: develops_from CL:0000810 ! CD4-positive, alpha-beta thymocyte relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0000794 name: CD8-positive, alpha-beta cytotoxic T cell namespace: cell def: "A CD8-positive, alpha-beta T cell that is capable of killing target cells in an antigen specific manner with the phenotype perforin-positive and granzyme B-positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, ISBN:0781735149] comment: Note that while T cells of this subset are loosely referred to 'cytotoxic T cells,' as many other T cell types, including CD4-positive, alpha-beta T cells and gamma-delta T cells exhibit cytotoxicity in vitro and in vivo. synonym: "CD8-positive, alpha-beta cytotoxic T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta cytotoxic T-cell" EXACT [] synonym: "CD8-positive, alpha-beta cytotoxic T-lymphocyte" EXACT [] synonym: "cytotoxic T cell" BROAD [] synonym: "cytotoxic T lymphocyte" BROAD [] synonym: "cytotoxic T-cell" BROAD [] synonym: "cytotoxic T-lymphocyte" BROAD [] synonym: "killer T cell" BROAD [] synonym: "killer T lymphocyte" BROAD [] synonym: "killer T-cell" BROAD [] synonym: "killer T-lymphocyte" BROAD [] xref: FMA:70573 is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000910 ! cytotoxic T cell relationship: develops_from CL:0000906 ! activated CD8-positive, alpha-beta T cell [Term] id: CL:0000795 name: CD8-positive, alpha-beta regulatory T cell namespace: cell def: "A CD8-positive, alpha-beta T cell that regulates overall immune responses as well as the responses of other T cell subsets through direct cell-cell contact and cytokine release." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "CD8+ T(reg)" EXACT [] synonym: "CD8+ Treg" EXACT [] synonym: "CD8+ regulatory T cell" EXACT [] synonym: "CD8-positive T(reg)" EXACT [] synonym: "CD8-positive Treg" EXACT [] synonym: "CD8-positive, alpha-beta Treg" EXACT [] synonym: "CD8-positive, alpha-beta regulatory T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta regulatory T-cell" EXACT [] synonym: "CD8-positive, alpha-beta regulatory T-lymphocyte" EXACT [] synonym: "suppressor T cell" BROAD [] synonym: "suppressor T lymphocyte" BROAD [] synonym: "suppressor T-cell" BROAD [] synonym: "suppressor T-lymphocyte" BROAD [] xref: FMA:84070 is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000815 ! regulatory T cell [Term] id: CL:0000796 name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell namespace: cell def: "A alpha-beta intraepithelial T cell found in the columnar epithelium of the gastrointestinal tract. Intraepithelial T cells often have distinct developmental pathways and activation requirements." [GOC:add, ISBN:0781735149] synonym: "CD8-positive, alpha-beta intraepithelial T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta intraepithelial T-cell" EXACT [] synonym: "CD8-positive, alpha-beta intraepithelial T-lymphocyte" EXACT [] synonym: "IEL" BROAD [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000797 ! alpha-beta intraepithelial T cell [Term] id: CL:0000797 name: alpha-beta intraepithelial T cell namespace: cell def: "A mature alpha-beta T cell of the columnar epithelium of the gastrointestinal tract. Intraepithelial T cells often have distinct developmental pathways and activation requirements." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "IEL" BROAD [] synonym: "alpha-beta intraepithelial T lymphocyte" EXACT [] synonym: "alpha-beta intraepithelial T-cell" EXACT [] synonym: "alpha-beta intraepithelial T-lymphocyte" EXACT [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000791 ! mature alpha-beta T cell is_a: CL:0002496 ! intraepithelial lymphocyte relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0000798 name: gamma-delta T cell namespace: cell def: "A T cell that expresses a gamma-delta T cell receptor complex." [GOC:add, GOC:tfm, ISBN:0781735149] comment: Note that gamma-delta T cells have both thymic and extrathymic differentiation pathways. synonym: "gamma-delta T lymphocyte" EXACT [] synonym: "gamma-delta T-cell" EXACT [] synonym: "gamma-delta T-lymphocyte" EXACT [] synonym: "gammadelta T cell" EXACT [] synonym: "gd T cell" RELATED [] is_a: CL:0000084 ! T cell [Term] id: CL:0000799 name: immature gamma-delta T cell namespace: cell def: "A gamma-delta T cell that has an immature phenotype." [GOC:add, ISBN:0781735149] comment: Note that gamma-delta T cells have both thymic and extrathymic differentiation pathways. synonym: "immature gamma-delta T lymphocyte" EXACT [] synonym: "immature gamma-delta T-cell" EXACT [] synonym: "immature gamma-delta T-lymphocyte" EXACT [] is_a: CL:0000798 ! gamma-delta T cell is_a: CL:0002420 ! immature T cell relationship: develops_from CL:0000807 ! DN3 thymocyte [Term] id: CL:0000800 name: mature gamma-delta T cell namespace: cell def: "A gamma-delta T cell that has a mature phenotype. These cells can be found in tissues and circulation where they express unique TCR repertoire depending on their location." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "mature gamma-delta T lymphocyte" EXACT [] synonym: "mature gamma-delta T-cell" EXACT [] synonym: "mature gamma-delta T-lymphocyte" EXACT [] is_a: CL:0000798 ! gamma-delta T cell is_a: CL:0002419 ! mature T cell relationship: develops_from CL:0000799 ! immature gamma-delta T cell [Term] id: CL:0000801 name: gamma-delta intraepithelial T cell namespace: cell def: "A mature gamma-delta T cell that is found in the columnar epithelium of the gastrointestinal tract. These cells participate in mucosal immune responses." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "IEL" BROAD [] synonym: "gamma-delta intraepithelial T lymphocyte" EXACT [] synonym: "gamma-delta intraepithelial T-cell" EXACT [] synonym: "gamma-delta intraepithelial T-lymphocyte" EXACT [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000800 ! mature gamma-delta T cell is_a: CL:0002496 ! intraepithelial lymphocyte relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0000802 name: CD8-alpha alpha positive, gamma-delta intraepithelial T cell namespace: cell def: "A gamma-delta intraepithelial T cell that has the phenotype CD8-alpha alpha-positive." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "CD8-positive, gamma-delta intraepithelial T lymphocyte" EXACT [] synonym: "CD8-positive, gamma-delta intraepithelial T-cell" EXACT [] synonym: "CD8-positive, gamma-delta intraepithelial T-lymphocyte" EXACT [] synonym: "IEL" BROAD [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000801 ! gamma-delta intraepithelial T cell [Term] id: CL:0000803 name: CD4-negative CD8-negative gamma-delta intraepithelial T cell namespace: cell def: "A gamma-delta intraepithelial T cell that has the phenotype CD4-negative and CD8-negative." [GOC:add, GOC:tfm, ISBN:0781735149] synonym: "CD4-positive, gamma-delta intraepithelial T lymphocyte" EXACT [] synonym: "CD4-positive, gamma-delta intraepithelial T-cell" EXACT [] synonym: "CD4-positive, gamma-delta intraepithelial T-lymphocyte" EXACT [] synonym: "IEL" BROAD [] synonym: "intraepithelial lymphocyte" BROAD [] is_a: CL:0000801 ! gamma-delta intraepithelial T cell [Term] id: CL:0000805 name: immature single positive thymocyte namespace: cell def: "A thymocyte that has the phenotype CD4-negative, CD8-positive, CD44-negative, CD25-negative, and pre-TCR-positive." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149, http://www.immgen.org/index_content.html] comment: Note that this type of thymocyte has passed the beta-selection checkpoint and is rapidly proliferating and rearranging the T cell receptor alpha chain and expressing the CD8 coreceptor. This stage comes between the DN4 and DP stages. synonym: "ISP" EXACT [] synonym: "T.ISP.th" EXACT [] synonym: "immature single positive T cell" EXACT [] synonym: "immature single positive T lymphocyte" EXACT [] synonym: "immature single positive T-lymphocyte" EXACT [] is_a: CL:0000893 ! thymocyte relationship: develops_from CL:0000808 ! DN4 thymocyte [Term] id: CL:0000806 name: DN2 thymocyte namespace: cell def: "A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-positive, and CD25-positive." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] comment: Note that this type of thymocyte is at the earliest stage of T cell receptor rearrangement of the beta, gamma, and delta T cell receptor chains. synonym: "DN2 alpha-beta immature T lymphocyte" EXACT [] synonym: "DN2 alpha-beta immature T-cell" EXACT [] synonym: "DN2 alpha-beta immature T-lymphocyte" EXACT [] synonym: "DN2 cell" EXACT [] synonym: "DN2 immature T cell" EXACT [] synonym: "TN2 cell" EXACT [] synonym: "TN2 thymocyte" EXACT [] synonym: "double negative 2" EXACT [] synonym: "preT.DN2.Th" EXACT [] is_a: CL:0002489 ! double negative thymocyte relationship: develops_from CL:0000894 ! DN1 thymic pro-T cell [Term] id: CL:0000807 name: DN3 thymocyte namespace: cell def: "A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, and CD25-positive and expressing the T cell receptor beta-chain in complex with the pre-T cell receptor alpha chain." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] synonym: "DN3 alpha-beta immature T lymphocyte" EXACT [] synonym: "DN3 alpha-beta immature T-cell" EXACT [] synonym: "DN3 alpha-beta immature T-lymphocyte" EXACT [] synonym: "DN3 cell" EXACT [] synonym: "DN3 immature T cell" EXACT [] synonym: "TN3 cell" EXACT [] synonym: "TN3 thymocyte" EXACT [] synonym: "double negative 3" EXACT [] synonym: "preT.DN3.Th" EXACT [] is_a: CL:0002489 ! double negative thymocyte relationship: develops_from CL:0000806 ! DN2 thymocyte [Term] id: CL:0000808 name: DN4 thymocyte namespace: cell def: "A thymocyte that has the phenotype CD4-negative, CD8-negative, CD44-negative, CD25-negative, and pre-TCR-positive." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] comment: Note that this type of thymocyte has passed the beta-selection checkpoint and is rapidly proliferating and beginning to rearrange the T cell receptor alpha chain. synonym: "DN4 alpha-beta immature T lymphocyte" EXACT [] synonym: "DN4 alpha-beta immature T-lymphocyte" EXACT [] synonym: "DN4 cell" EXACT [] synonym: "DN4 immature T cell" EXACT [] synonym: "DN4 immature T-cell" EXACT [] synonym: "T.DN4.th" EXACT [] synonym: "double negative 4" EXACT [] is_a: CL:0002489 ! double negative thymocyte relationship: develops_from CL:0000807 ! DN3 thymocyte [Term] id: CL:0000809 name: double-positive, alpha-beta thymocyte namespace: cell def: "A thymocyte expressing the alpha-beta T cell receptor complex as well as both the CD4 and CD8 coreceptors." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] comment: Thymocytes of this stage are undergoing positive and negative selection. synonym: "DP cell" EXACT [] synonym: "DP thymocyte" EXACT [] synonym: "double-positive, alpha-beta immature T lymphocyte" EXACT [] is_a: CL:0000790 ! immature alpha-beta T cell is_a: CL:0000893 ! thymocyte relationship: develops_from CL:0000805 ! immature single positive thymocyte relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000810 name: CD4-positive, alpha-beta thymocyte namespace: cell def: "An immature alpha-beta T cell that is located in the thymus and is CD4-positive and CD8-negative." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] synonym: "CD4-positive, alpha-beta immature T lymphocyte" EXACT [] synonym: "CD4-positive, alpha-beta immature T-cell" EXACT [] synonym: "CD4-positive, alpha-beta immature T-lymphocyte" EXACT [] synonym: "SP CD4 cell" EXACT [] is_a: CL:0000790 ! immature alpha-beta T cell is_a: CL:0000893 ! thymocyte relationship: develops_from CL:0000809 ! double-positive, alpha-beta thymocyte relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000811 name: CD8-positive, alpha-beta thymocyte namespace: cell def: "An immature alpha-beta T cell that is located in the thymus and is CD8-positive and CD4-negative." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149] synonym: "CD8-positive, alpha-beta immature T cell" RELATED [] synonym: "CD8-positive, alpha-beta immature T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta immature T-cell" EXACT [] synonym: "CD8-positive, alpha-beta immature T-lymphocyte" EXACT [] synonym: "SP CD8 cell" EXACT [] is_a: CL:0000790 ! immature alpha-beta T cell is_a: CL:0000893 ! thymocyte relationship: develops_from CL:0000809 ! double-positive, alpha-beta thymocyte relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000813 name: memory T cell namespace: cell def: "A distinctly differentiated long-lived T cell that has the phenotype CD45RO-positive and CD127-positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, ISBN:0781735149] synonym: "memory T lymphocyte" EXACT [] synonym: "memory T-cell" EXACT [] synonym: "memory T-lymphocyte" EXACT [] xref: BTO:0003435 is_a: CL:0002419 ! mature T cell [Term] id: CL:0000814 name: mature NK T cell namespace: cell def: "A mature alpha-beta T cell of a distinct lineage that bears natural killer markers and a T cell receptor specific for a limited set of ligands. NK T cells have activation and regulatory roles particularly early in an immune response." [GOC:add, ISBN:0781735149] synonym: "mature NK T lymphocyte" EXACT [] synonym: "mature NK T-cell" EXACT [] synonym: "mature NK T-lymphocyte" EXACT [] synonym: "mature NKT cell" EXACT [] synonym: "mature natural killer T cell" EXACT [] synonym: "mature natural killer T lymphocyte" EXACT [] synonym: "mature natural killer T-cell" EXACT [] synonym: "mature natural killer T-lymphocyte" EXACT [] is_a: CL:0000791 ! mature alpha-beta T cell is_a: CL:0002127 ! innate effector T cell relationship: develops_from CL:0002042 ! immature NK T cell stage IV [Term] id: CL:0000815 name: regulatory T cell namespace: cell def: "A T cell which regulates overall immune responses as well as the responses of other T cell subsets through direct cell-cell contact and cytokine release." [GOC:add, GO_REF:0000031] comment: This cell type may express FoxP3 and CD25 and secretes IL-10 and TGF-beta. synonym: "regulatory T lymphocyte" EXACT [] synonym: "regulatory T-cell" EXACT [] synonym: "regulatory T-lymphocyte" EXACT [] synonym: "suppressor T cell" BROAD [] synonym: "suppressor T lymphocyte" BROAD [] synonym: "suppressor T-cell" BROAD [] synonym: "suppressor T-lymphocyte" BROAD [] xref: BTO:0004520 xref: FMA:84070 is_a: CL:0002419 ! mature T cell [Term] id: CL:0000816 name: immature B cell namespace: cell def: "An immature B cell is a precursor B cell that has the phenotype surface IgM-positive and surface IgD-negative, and have not undergone class immunoglobulin class switching or peripheral encounter with antigen and activation." [GOC:add, GOC:dsd, GOC:rhs, GOC:tfm, GO_REF:0000031, ISBN:0781735149, PMID:20081059, PMID:20839338] comment: Immature B cells are also reportedly CD5-positive, CD10-positive, CD19-positive, CD20-positive, CD21-positive, CD22-positive, CD24-positive, CD25-negative, CD27-negative, CD34-negative, CD38-positive, CD40-positive, CD43-negative, CD45-positive, CD48-positive, CD53-positive, CD79a-positive, CD80-negative, CD81-positive, CD86-negative, CD95-negative, CD127-negative, CD138-negative, CD185-positive, CD196-positive, MHCII/HLA-DR-positive, RAG-positive, TdT-negative, Vpre-B-negative, and preBCR-negative. Transcription factors expressed: Pax5-positive. synonym: "immature B lymphocyte" EXACT [] synonym: "immature B-cell" EXACT [] synonym: "immature B-lymphocyte" EXACT [] synonym: "newly formed B cell" EXACT [ISBN:781735149] is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0000954 ! small pre-B-II cell [Term] id: CL:0000817 name: precursor B cell namespace: cell def: "A precursor B cell is a B cell with the phenotype CD10-positive." [GOC:rhs, GOC:tfm, GO_REF:0000031] synonym: "pre-B cell" EXACT [] xref: BTO:0001133 is_a: CL:0000236 ! B cell [Term] id: CL:0000818 name: transitional stage B cell namespace: cell def: "An immature B cell of an intermediate stage between the pre-B cell stage and the mature naive stage with the phenotype surface IgM-positive and CD19-positive, and are subject to the process of B cell selection. A transitional B cell migrates from the bone marrow into the peripheral circulation, and then to the spleen." [GOC:add, GO_REF:0000031, ISBN:0781735149, PMID:12810111] synonym: "T1 B cell" NARROW [] synonym: "T2 B cell" NARROW [] synonym: "T3 B cell" NARROW [] synonym: "transitional stage B lymphocyte" EXACT [] synonym: "transitional stage B-cell" EXACT [] synonym: "transitional stage B-lymphocyte" EXACT [] is_a: CL:0000236 ! B cell relationship: develops_from CL:0000816 ! immature B cell [Term] id: CL:0000819 name: B-1 B cell namespace: cell def: "A B cell of distinct lineage and surface marker expression. B-1 B cells are thought to be the primary source of natural IgM immunoglobulin, that is, IgM produced in large quantities without prior antigenic stimulation and generally reactive against various microorganisms, as well as the source of T-independent IgA immunoglobulin in the mucosal areas. These cells are CD43-positive." [GOC:add, GOC:dsd, GO_REF:0000031, PMID:11861604, PMID:20933013, PMID:21220451, http://en.wikipedia.org/wiki/B-1_cell] comment: There are small numbers of B-1 cells found in the lymph nodes and spleen, while larger numbers can be found in the peritoneal and pleural cavities. B-1 B cells are reportedly CD11b-positive, CD20-positive, CD21-positive, CD27-positive, CD44-positive, CD45RB-positive, CD48-positive, CD70-negative, CD150-positive, CD244-negative, CD352-positive, sIgM-positive, and sIgD-low. synonym: "B-1 B lymphocyte" EXACT [] synonym: "B-1 B-cell" EXACT [] synonym: "B-1 B-lymphocyte" EXACT [] synonym: "B-1 cell" EXACT [] synonym: "B1 B cell" EXACT [] synonym: "B1 B lymphocyte" EXACT [] synonym: "B1 B-cell" EXACT [] synonym: "B1 B-lymphocyte" EXACT [] synonym: "B1 cell" EXACT [] is_a: CL:0000785 ! mature B cell [Term] id: CL:0000820 name: B-1a B cell namespace: cell def: "A B-1 B cell that has the phenotype CD5-positive." [GOC:add, PMID:11861604] synonym: "B-1a B lymphocyte" EXACT [] synonym: "B-1a B-cell" EXACT [] synonym: "B-1a B-lymphocyte" EXACT [] synonym: "B1a B cell" EXACT [] synonym: "B1a B lymphocyte" EXACT [] synonym: "B1a B-cell" EXACT [] synonym: "B1a B-lymphocyte" EXACT [] synonym: "B1a cell" EXACT [] synonym: "CD5(+) B1 cell" EXACT [] synonym: "CD5+ B1 cell" EXACT [] synonym: "CD5-positive B1 cell" EXACT [] is_a: CL:0000819 ! B-1 B cell [Term] id: CL:0000821 name: B-1b B cell namespace: cell def: "A B-1 B cell that has the phenotype CD5-negative, but having other phenotypic attributes of a B-1 B cell." [GOC:add, PMID:11861604] synonym: "B-1b B lymphocyte" EXACT [] synonym: "B-1b B-cell" EXACT [] synonym: "B-1b B-lymphocyte" EXACT [] synonym: "B1b B cell" EXACT [] synonym: "B1b B lymphocyte" EXACT [] synonym: "B1b B-cell" EXACT [] synonym: "B1b B-lymphocyte" EXACT [] synonym: "B1b cell" EXACT [] is_a: CL:0000819 ! B-1 B cell [Term] id: CL:0000822 name: B-2 B cell namespace: cell def: "A conventional B cell subject to antigenic stimulation and dependent on T cell help and with a distinct surface marker expression pattern from B-1 B cells. These cells are CD43-negative." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0781735149, PMID:11861604, PMID:20933013] comment: B-2 B cells are reportedly CD48-positive, CD244-negative, and CD352-positive. synonym: "B-0 B cell" RELATED [] synonym: "B-2 B lymphocyte" EXACT [] synonym: "B-2 B-cell" EXACT [] synonym: "B-2 B-lymphocyte" EXACT [] synonym: "B2 B cell" EXACT [] synonym: "B2 B lymphocyte" EXACT [] synonym: "B2 B-cell" EXACT [] synonym: "B2 B-lymphocyte" EXACT [] synonym: "B2 cell" EXACT [] is_a: CL:0000785 ! mature B cell [Term] id: CL:0000823 name: immature natural killer cell namespace: cell def: "A natural killer cell that is developmentally immature and expresses natural killer cell receptors (NKR)." [GOC:add, GO_REF:0000031, ISBN:0781735149, PMID:12457618] comment: In mouse the NKR are Ly49 molecules and in human these cells express KIR molecules. synonym: "immature NK cell" EXACT [] synonym: "p-NK" RELATED [PMID:12457618] is_a: CL:0000623 ! natural killer cell relationship: develops_from CL:0000937 ! pre-natural killer cell [Term] id: CL:0000824 name: mature natural killer cell namespace: cell def: "A natural killer cell that is developmentally mature and expresses a variety of inhibitory and activating receptors that recognize MHC class I and other stress related molecules." [GOC:add, GO_REF:0000031, ISBN:0781735149, PMID:14685782] synonym: "LAK cell" BROAD [PMID:14685782] synonym: "lymphokine activated killer cell" BROAD [PMID:14685782] synonym: "mature NK cell" EXACT [] is_a: CL:0000623 ! natural killer cell relationship: develops_from CL:0000823 ! immature natural killer cell [Term] id: CL:0000825 name: pro-NK cell namespace: cell def: "A lymphoid progenitor cell that is committed to the natural killer cell lineage, expressing CD122 (IL-15) receptor, but lacking many of the phenotypic characteristics of later stages of natural killer cell development such as expression of NK activating and inhibitory molecules. In human this cell has the phenotype CD34-positive, CD45RA-positive, CD10-positive, CD117-negative, and CD161 negative." [GOC:add, GOC:pam, GO_REF:0000031, PMID:11532393, PMID:12457618, PMID:15032583, PMID:15766674] comment: Most markers only described for human pro NK cells. synonym: "NKP" EXACT [PMID:12457618, PMID:15032583, PMID:15766674] synonym: "natural killer cell progenitor" EXACT [] synonym: "null cell" RELATED [PMID:11532393] synonym: "preNK cell" RELATED [PMID:11532393] synonym: "pro-natural killer cell" EXACT [] is_a: CL:0000838 ! lymphoid lineage restricted progenitor cell relationship: develops_from CL:0000051 ! common lymphoid progenitor [Term] id: CL:0000826 name: pro-B cell namespace: cell def: "A progenitor cell of the B cell lineage, with some lineage specific activity such as early stages of recombination of B cell receptor genes, but not yet fully committed to the B cell lineage until the expression of PAX5 occurs." [GOC:add, GOC:dsd, ISBN:0781735149, PMID:12633665, PMID:16551251, PMID:18432934] comment: Human pro-B cells are reportedly CD10-positive, CD22-positive, CD34-positive, CD38-positive, CD45-low, CD48-positive, CD79a-positive, CD127-positive, CD184-positive, RAG-positive, TdT-positive, Vpre-B-positive, pre-BCR-negative, IgD-negative, and IgM-negative. Transcription factors expressed: Pax5-positive, EBF-positive, E2A-negative, Ikaros-negative, and PU.1-negative. synonym: "pre-B cell (Philadelphia nomenclature)" RELATED [PMID:11244048] synonym: "pre-pro B cell" BROAD [PMID:17582343] synonym: "pro-B lymphocyte" EXACT [] synonym: "pro-B-cell" EXACT [] synonym: "pro-B-lymphocyte" EXACT [] synonym: "progenitor B cell" EXACT [] synonym: "progenitor B lymphocyte" EXACT [] synonym: "progenitor B-cell" EXACT [] synonym: "progenitor B-lymphocyte" EXACT [] xref: BTO:0003104 is_a: CL:0000838 ! lymphoid lineage restricted progenitor cell relationship: develops_from CL:0000051 ! common lymphoid progenitor [Term] id: CL:0000827 name: pro-T cell namespace: cell def: "A lymphoid progenitor cell of the T cell lineage, with some lineage specific marker expression, but not yet fully committed to the T cell lineage." [GOC:add, ISBN:0781735149] synonym: "DN1 cell" NARROW [] synonym: "DN1 thymocyte" NARROW [] synonym: "TN1 cell" NARROW [] synonym: "pro-T lymphocyte" EXACT [] synonym: "progenitor T cell" EXACT [] is_a: CL:0000838 ! lymphoid lineage restricted progenitor cell relationship: develops_from CL:0000051 ! common lymphoid progenitor [Term] id: CL:0000828 name: thromboblast namespace: cell def: "A progenitor cell of the thrombocyte, a nucleated blood cell involved in coagulation typically seen in birds and other non-mammalian vertebrates." [GOC:add, GOC:tfm, PMID:7758949] comment: Note that this is a non-mammalian cell type. is_a: CL:0000226 ! single nucleate cell is_a: CL:0000839 ! myeloid lineage restricted progenitor cell relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0000829 name: basophilic myeloblast namespace: cell def: "A myeloblast committed to the basophil lineage." [GOC:add, ISBN:0721601464] is_a: CL:0000835 ! myeloblast relationship: develops_from CL:0000613 ! basophil progenitor cell [Term] id: CL:0000830 name: basophilic promyelocyte namespace: cell def: "A promyelocyte committed to the basophil lineage." [GOC:add, ISBN:0721601464] xref: FMA:84208 is_a: CL:0000836 ! promyelocyte relationship: develops_from CL:0000829 ! basophilic myeloblast [Term] id: CL:0000831 name: mast cell progenitor namespace: cell def: "A progenitor cell of the mast cell lineage. Markers for this cell are FceRIa-low, CD117-positive, CD9-positive, T1/ST2-positive, SCA1-negative, and lineage-negative." [GOC:add, GOC:dsd, PMCID:PMC1183570, PMCID:PMC1312421, PMID:8629001, PMID:9354811, http://www.copewithcytokines.de] comment: MCP are CD16-positive, CD32-positive, CD34-positive, CD45-positive, integrin beta-7-positive, and lin-negative (CD2, CD3e, CD4, CD5, CD8a, CD14, CD19, CD20, CD27, integrin alpha-M, ly6c, ly6g, NCAM-1, and ter119). These cells also express the transcription factors GATA-1, GATA-2, and MITF, but not C/EBPa. synonym: "CFU-MC" RELATED [] synonym: "CFU-Mast " RELATED [] synonym: "MCP" EXACT [] synonym: "colony forming unit mast cell" RELATED [] is_a: CL:0000839 ! myeloid lineage restricted progenitor cell relationship: develops_from CL:0002028 ! basophil mast progenitor cell [Term] id: CL:0000832 name: eosinophilic myeloblast namespace: cell def: "A myeloblast committed to the eosinophil lineage." [GOC:add, ISBN:0721601464] is_a: CL:0000835 ! myeloblast relationship: develops_from CL:0000611 ! eosinophil progenitor cell [Term] id: CL:0000833 name: eosinophilic promyelocyte namespace: cell def: "A promyelocyte committed to the eosinophil lineage." [GOC:add, ISBN:0721601464] xref: FMA:84199 is_a: CL:0000836 ! promyelocyte relationship: develops_from CL:0000832 ! eosinophilic myeloblast [Term] id: CL:0000834 name: neutrophil progenitor cell namespace: cell def: "A progenitor cell of the neutrophil lineage." [GOC:add, GOC:tfm, ISBN:0721601464] synonym: "neutrophil stem cell" RELATED [] is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell [Term] id: CL:0000835 name: myeloblast namespace: cell def: "The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow." [GOC:add, ISBN:0721601464, http://en.wikipedia.org/wiki/Myeloblast, http://www.cap.org] xref: BTO:0000187 xref: FMA:83524 is_a: CL:0002191 ! granulocytopoietic cell is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell [Term] id: CL:0000836 name: promyelocyte namespace: cell def: "A precursor in the granulocytic series, being a cell intermediate in development between a myeloblast and myelocyte, that has distinct nucleoli, a nuclear-to-cytoplasmic ratio of 5:1 to 3:1, and containing a few primary cytoplasmic granules. Markers for this cell are fucosyltransferase FUT4-positive, CD33-positive, integrin alpha-M-negative, low affinity immunoglobulin gamma Fc region receptor III-negative, and CD24-negative." [GOC:add, GOC:amm, GOC:tfm, ISBN:0721601464, http://www.cap.org] xref: FMA:83530 is_a: CL:0002191 ! granulocytopoietic cell is_a: CL:0002242 ! nucleate cell relationship: develops_from CL:0000835 ! myeloblast [Term] id: CL:0000837 name: hematopoietic multipotent progenitor cell namespace: cell def: "A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans." [GOC:add, GOC:tfm, PMID:19022770] comment: Markers differ between mouse and human. synonym: "MPP" EXACT [] synonym: "hemopoietic progenitor cell" EXACT [] xref: BTO:0000725 is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0000037 ! hematopoietic stem cell [Term] id: CL:0000838 name: lymphoid lineage restricted progenitor cell namespace: cell def: "A progenitor cell restricted to the lymphoid lineage." [GOC:add, GOC:tfm] comment: Note that this is a class of cell types, not an identified single cell type. synonym: "lymphoid progenitor cell" BROAD [] xref: BTO:0004731 xref: FMA:70338 is_a: CL:0002031 ! hematopoietic lineage restricted progenitor cell [Term] id: CL:0000839 name: myeloid lineage restricted progenitor cell namespace: cell def: "A progenitor cell restricted to the myeloid lineage." [GOC:add, GOC:tfm, PMID:19022770] comment: Note that this is a class of cell types, not an identified single cell type. synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: FMA:70339 is_a: CL:0002031 ! hematopoietic lineage restricted progenitor cell [Term] id: CL:0000840 name: immature conventional dendritic cell namespace: cell def: "An immature cell of the conventional dendritic cell lineage, characterized by high levels of antigen uptake via endocytosis, macropinocytosis, and phagocytosis, and typically found resident in the tissues. Markers for this cell are CD80-low, CD86-low, and MHC-II-low." [GOC:add, GOC:tfm, PMID:9521319] synonym: "immature myeloid dendritic cell" NARROW [] is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0001029 ! common dendritic progenitor [Term] id: CL:0000841 name: mature conventional dendritic cell namespace: cell def: "A mature cell of the conventional dendritic cell lineage, characterized by a high capacity for antigen presentation and typically found in a lymph node." [GOC:add, GOC:tfm, PMID:9521319] synonym: "mature myeloid dendritic cell" NARROW [] xref: FMA:83038 is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0000840 ! immature conventional dendritic cell [Term] id: CL:0000842 name: mononuclear cell namespace: cell def: "A leukocyte with a single non-segmented nucleus in the mature form." [GOC:add] synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: FMA:86713 is_a: CL:0000226 ! single nucleate cell is_a: CL:0002087 ! nongranular leukocyte [Term] id: CL:0000843 name: follicular B cell namespace: cell def: "A resting mature B cell that has the phenotype IgM-positive, IgD-positive, CD23-positive and CD21-positive, and found in the B cell follicles of the white pulp of the spleen or the corticol areas of the peripheral lymph nodes. This cell type is also described as being CD19-positive, B220-positive, AA4-negative, CD43-negative, and CD5-negative." [GOC:add, GOC:dsd, ISBN:0781735149, PMCID:PMC2193793, PMID:20933013, http://en.wikipedia.org/wiki/Follicular_B_Cells] comment: Follicular B cells are also reportedly CD48-positive, CD84-positive, CD229-positive, and CD352-positive. synonym: "Fo B cell" EXACT [] synonym: "Fo B-cell" EXACT [] synonym: "follicular B lymphocyte" EXACT [] synonym: "follicular B-cell" EXACT [] synonym: "follicular B-lymphocyte" EXACT [] is_a: CL:0000822 ! B-2 B cell [Term] id: CL:0000844 name: germinal center B cell namespace: cell def: "A rapidly cycling mature B cell that has distinct phenotypic characteristics and is involved in T-dependent immune responses and located typically in the germinal centers of lymph nodes. This cell type expresses Ly77 after activation." [GOC:add, GOC:dsd, GOC:tfm, ISBN:0781735149, PMID:19447676, PMID:20933013] comment: Germinal center B cells are also reportedly CD10-positive, CD19-positive, CD20-positive, CD38-positive, CD44-low, CD45-positive, CD48-positive, CD95-positive, CD352-positive, and HLA-DR-positive. Transcription factors: BCL6-positive, Ets1-positive, IRF8-positive, MTA3-positive, OBF1-positive, PAX5-positive, SpiB-positive, and STAT3-positive. synonym: "GC B cell" EXACT [] synonym: "GC B lymphocyte" EXACT [] synonym: "GC B-cell" EXACT [] synonym: "GC B-lymphocyte" EXACT [] synonym: "germinal center B lymphocyte" EXACT [] synonym: "germinal center B-cell" EXACT [] synonym: "germinal center B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell relationship: develops_from CL:0000843 ! follicular B cell relationship: part_of UBERON:0001745 ! secondary nodular lymphoid tissue [Term] id: CL:0000845 name: marginal zone B cell namespace: cell def: "A mature B cell that is located in the marginal zone of the spleen with the phenotype CD23-negative and CD21-positive and expressing a B cell receptor usually reactive to bacterial cell wall components or senescent self components such as oxidized-LDL. This cell type is also described as being CD19-positive, B220-positive, IgM-high, AA4-negative, CD35-high." [GOC:add, GOC:dsd, ISBN:0781735149, PMID:10933592, PMID:20933013, http://en.wikipedia.org/wiki/Marginal-zone_B_cell] comment: MZ B cells are reportedly CD1-positive (mice), CD20-positive, CD48-positive, CD84-positive, CD150-positive, CD229-positive, and CD352-positive. synonym: "MZ B cell" EXACT [] synonym: "MZ B lymphocyte" EXACT [] synonym: "MZ B-cell" EXACT [] synonym: "MZ B-lymphocyte" EXACT [] synonym: "marginal zone B lymphocyte" EXACT [] synonym: "marginal zone B-cell" EXACT [] synonym: "marginal zone B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell relationship: part_of UBERON:0001251 ! marginal zone of spleen [Term] id: CL:0000846 name: vestibular dark cell namespace: cell def: "An epithelial cell of the vestibular sensory organ that is characterized by intense enzymatic activities and numerous basal membrane infoldings." [PMID:11223304] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000847 name: ciliated olfactory receptor neuron namespace: cell def: "An olfactory receptor cell in which the apical ending of the dendrite is a pronounced ciliated olfactory knob." [PMID:16841163] synonym: "ciliated olfactory sensory neuron" EXACT [] synonym: "ciliated sensory neuron" EXACT [] is_a: CL:0000064 ! ciliated cell is_a: CL:0000207 ! olfactory receptor cell [Term] id: CL:0000848 name: microvillous olfactory receptor neuron namespace: cell def: "An olfactory receptor cell in which the apical ending of the dendrite is a knob that bears numerous microvilli." [PMID:16841163] synonym: "microvillous olfactory sensory neuron" EXACT [] synonym: "microvillous sensory neuron" RELATED [] is_a: CL:0000207 ! olfactory receptor cell [Term] id: CL:0000849 name: crypt olfactory receptor neuron namespace: cell def: "An olfactory receptor cell with short cilia growing in an invagination bordered by microvilli." [PMID:16841163] synonym: "crypt cell" EXACT [] synonym: "crypt olfactory sensory neuron" EXACT [] synonym: "crypt sensory neuron" EXACT [] is_a: CL:0000207 ! olfactory receptor cell [Term] id: CL:0000850 name: serotonergic neuron namespace: cell alt_id: CL:0000403 def: "A neuron that releases serotonin as a neurotransmitter." [SANBI:mhl] synonym: "5-HT neuron" EXACT [] synonym: "5-hydroxytryptamine neuron" EXACT [] synonym: "serotinergic neuron" RELATED [] xref: FBbt:00005133 xref: WBbt:0006837 is_a: CL:0000540 ! neuron [Term] id: CL:0000851 name: neuromast mantle cell namespace: cell def: "Neuromast mantle cell is a non-sensory cell. Neuromast mantle cells surround the neuromast support cells and neuromast hair cells, separating the neuromast from the epidermis, and secrete cupula in which the ciliary bundles of all the hair cells are embedded." [ISBN:0125296509] is_a: CL:0000151 ! secretory cell [Term] id: CL:0000852 name: neuromast support cell namespace: cell def: "Neuromast support cell is a non-sensory cell of the neuromast that extend between the sensory hair cells from the basement membrane to the apical surface; neuromast support cells are surrounded by neuromast mantle cells." [ISBN:0125296509] is_a: CL:0000630 ! supportive cell [Term] id: CL:0000853 name: olfactory epithelial support cell namespace: cell def: "Olfactory epithelial support cell is a columnar cell that extends from the epithelial free margin to the basement membrane of the olfactory epithelium. This cell type has a large, vertically, elongate, euchromatic nucleus, along with other nuclei, forms a layer superficial to the cell body of the receptor cell; sends long somewhat irregular microvilli into the mucus layer; at the base, with expanded end-feet containing numerous lamellated dense bodies resembling lipofuscin of neurons." [GOC:tfm, ISBN:0517223651, SANBI:mhl] synonym: "olfactory sustentacular cell" EXACT [] synonym: "supporting cell of olfactory epithelium" EXACT [] synonym: "sustentaculocyte of olfactory epithelium" EXACT [] xref: FMA:62302 is_a: CL:0000630 ! supportive cell is_a: CL:0002167 ! olfactory epithelial cell [Term] id: CL:0000854 name: interneuromast cell namespace: cell def: "Interneuromast cell is a neuroectodermal cell deposited by the migrating lateral line primordium between the neuromasts. Interneuromast cells proliferate and migrate to form additional neuromasts." [SANBI:mhl] is_a: CL:0000133 ! neurectodermal cell relationship: develops_from CL:0000032 ! neuroplacodal cell [Term] id: CL:0000855 name: sensory hair cell namespace: cell def: "Hair cell is a mechanoreceptor cell that is sensitive to movement of the hair-like projections (stereocilia and kinocilia) which relay the information centrally in the nervous system." [SANBI:mhl] synonym: "hair cell" BROAD [] xref: BTO:0004744 is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0000856 name: neuromast hair cell namespace: cell def: "Neuromast hair cell is a hair cell that acts as a sensory receptor of the neuromast; it is morphologically polarized as a result of the relative position of the single kinocilium and the clusters of stereocilia on its apical surface." [SANBI:mhl] is_a: CL:0000855 ! sensory hair cell [Term] id: CL:0000857 name: slow muscle myoblast namespace: cell def: "A skeletal muscle myoblast that differentiates into slow muscle fibers." [SANBI:mhl] is_a: CL:0000515 ! skeletal muscle myoblast [Term] id: CL:0000858 name: fast muscle myoblast namespace: cell def: "A skeletal muscle myoblast that differentiates into fast muscle fibers." [SANBI:mhl] is_a: CL:0000515 ! skeletal muscle myoblast [Term] id: CL:0000860 name: classical monocyte namespace: cell def: "A type of monocyte that responds rapidly to microbial stimuli by secreting cytokines and antimicrobial factors. This cell type is characterized by high expression of CCR2 in both rodents and humans, and of being larger size than non-classical monocytes." [GO_REF:0000031, PMID:16322748, PMID:18303997, PMID:20628149, PMID:20870168] comment: Markers: CCR2+CXCCR1 (human, mouse, rat). synonym: "inflammatory monocyte" EXACT [] is_a: CL:0000234 ! phagocyte is_a: CL:0000576 ! monocyte [Term] id: CL:0000861 name: elicited macrophage namespace: cell def: "A macrophage which develops from an inflammatory monocyte and is recruited into the tissues in response to injury and infection as part of an inflammatory response. Markers include CD11b-positive, CD68-positive, and F4/80-positive." [GOC:add, GOC:ana, GOC:tfm, GO_REF:0000031, PMID:15771589] comment: Markers: CD11b+, CD68+; Mouse: F4/80+; role or process: immune, inflammation (inflammatory response). synonym: "free macrophage" EXACT [] synonym: "wandering histiocyte" EXACT [] xref: FMA:84643 xref: FMA:84645 is_a: CL:0000235 ! macrophage relationship: develops_from CL:0000860 ! classical monocyte [Term] id: CL:0000862 name: suppressor macrophage namespace: cell def: "A macrophage that suppresses immune responses." [GOC:add, GOC:tfm, PMID:20402419] comment: Markers: May express: IL10, TGFbeta. is_a: CL:0000861 ! elicited macrophage [Term] id: CL:0000863 name: inflammatory macrophage namespace: cell def: "An elicited macrophage that is recruited into the tissues in response to injury and infection as part of an inflammatory response, expresses high levels of pro-inflammatory cytokines, ROS and NO, and shows potent microbicidal activity." [GOC:ana, GO_REF:0000031, PMID:19132917] comment: Markers: Express: TNFa, IL1b, IL6, iNOS, NADPH-oxidase; produce: reactive oxygen species, nitric oxide; role or process: immune, inflammation (inflammatory response). synonym: "M1 macrophage" RELATED [] synonym: "classically activated macrophage" EXACT [] is_a: CL:0000861 ! elicited macrophage [Term] id: CL:0000864 name: tissue-resident macrophage namespace: cell def: "A macrophage constitutively resident in a particular tissue under non-inflammatory conditions, and capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." [GOC:ana, GO_REF:0000031, PMID:19770654] synonym: "fixed macrophage" EXACT [] synonym: "resting histiocyte" EXACT [] xref: FMA:84642 xref: FMA:84644 is_a: CL:0000235 ! macrophage relationship: part_of UBERON:0000479 ! tissue [Term] id: CL:0000865 name: gastrointestinal tract (lamina propria) macrophage namespace: cell def: "A gut-associated lymphoid tissue macrophage found in lamina propria of the gut." [GOC:ana, GOC:tfm, GO_REF:0000031] is_a: CL:0000885 ! gut-associated lymphoid tissue macrophage relationship: part_of UBERON:0001238 ! lamina propria of small intestine [Term] id: CL:0000866 name: thymic macrophage namespace: cell def: "A tissue-resident macrophage resident found in the thymus, involved in the clearance of apoptotic thymocytes." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:9048205] comment: Role or process: immune, clearance of apoptotic thymocytes, antigen-presentation. is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000867 name: secondary lymphoid organ macrophage namespace: cell def: "A tissue-resident macrophage found in a secondary lymphoid organ." [GOC:ana, GOC:tfm, GO_REF:0000031] is_a: CL:0000864 ! tissue-resident macrophage [Term] id: CL:0000868 name: lymph node macrophage namespace: cell def: "A secondary lymphoid organ macrophage found in a lymph node. This cell is CD169-high." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:11971865] comment: Marker was observed on rat cells. synonym: "MF.LN" EXACT [] is_a: CL:0000867 ! secondary lymphoid organ macrophage relationship: part_of UBERON:0000029 ! lymph node [Term] id: CL:0000869 name: tonsillar macrophage namespace: cell def: "A gut-associated lymphoid tissue macrophage found in tonsils." [GOC:ana, GO_REF:0000031, PMID:16048540] is_a: CL:0000884 ! mucosa-associated lymphoid tissue macrophage relationship: part_of UBERON:0002372 ! tonsil [Term] id: CL:0000870 name: Peyer's patch macrophage namespace: cell def: "A gut-associated lymphoid tissue macrophage found in the Peyer's patches." [GOC:ana, GOC:tfm, GO_REF:0000031] is_a: CL:0000885 ! gut-associated lymphoid tissue macrophage relationship: part_of UBERON:0001211 ! Peyer's patch [Term] id: CL:0000871 name: splenic macrophage namespace: cell def: "A secondary lymphoid organ macrophage found in the spleen." [GO_REF:0000031, PMID:15771589, PMID:16322748] comment: Role or process: immune, clearance of apoptotic and senescent cells. xref: FMA:83026 is_a: CL:0000867 ! secondary lymphoid organ macrophage relationship: part_of UBERON:0002106 ! spleen [Term] id: CL:0000872 name: splenic marginal zone macrophage namespace: cell def: "A splenic macrophage found in the marginal zone of the spleen, involved in recognition and clearance of particulate material from the splenic circulation. Markers include F4/80-negative, MARCO-positive, SR-A-positive, SIGN-R1-positive, and Dectin2-positive." [GOC:ana, GO_REF:0000031, PMID:16861066] comment: Markers: Mouse: F4/80-, MARCO+, SR-A+, SIGN-R1+, Dectin2+. is_a: CL:0000871 ! splenic macrophage relationship: part_of UBERON:0001251 ! marginal zone of spleen [Term] id: CL:0000873 name: splenic metallophillic macrophage namespace: cell def: "A splenic macrophage found in the areas surrounding the white pulp of the spleen, adjacent to the marginal sinus. Markers include F4/80-negative, Dectin2-low, sialoadhesin-positive." [GOC:ana, GO_REF:0000031, PMID:20018690] comment: Markers: Mouse: F4/80-, Dectin2-low, sialoadhesin+. is_a: CL:0000871 ! splenic macrophage relationship: part_of UBERON:0001251 ! marginal zone of spleen [Term] id: CL:0000874 name: splenic red pulp macrophage namespace: cell def: "A splenic macrophage found in the red-pulp of the spleen, and involved in immune responses to blood-borne pathogens and in the clearance of senescent erythrocytes. Markers include F4/80-positive, CD68-positive, MR-positive, Dectin2-positive, macrosialin-positive, and sialoadhesin-low." [GOC:ana, GO_REF:0000031, PMID:19644016] comment: Markers: Mouse: F4/80+, CD68+, MR+, Dectin2+, macrosialin+, sialoadhesin-low; role or process: immune, clearance of senescent erythrocytes. is_a: CL:0000871 ! splenic macrophage relationship: part_of UBERON:0001250 ! red pulp of spleen [Term] id: CL:0000875 name: non-classical monocyte namespace: cell def: "Subset of monocytes characterized by low expression of CCR2, low responsiveness to monocyte chemoattractant CCL2/MCP1, low phagocytic activity, but increased co-stimulatory activity. May also play a role in tissue repair." [GO_REF:0000031, PMID:16322748, PMID:18303997, PMID:20628149, PMID:20870168] comment: Markers: CCR2-CX3CCR1+ (human, mouse, rat); human: CD16+, CCR5+, CD32/FcgRII-high, MHCII+, CD86+; mouse: CD62L-Ly6C-. synonym: "patrolling monocyte" EXACT [] synonym: "resident monocyte" EXACT [] is_a: CL:0000576 ! monocyte [Term] id: CL:0000876 name: splenic white pulp macrophage namespace: cell def: "A splenic macrophage found in the white pulp of the spleen. Markers include F4/80-negative, CD68-positive, and macrosialin-positive." [GOC:ana, GO_REF:0000031, PMID:11207597] comment: Markers: Mouse: F4/80-, CD68+, macrosialin+. is_a: CL:0000871 ! splenic macrophage relationship: part_of UBERON:0001959 ! white pulp of spleen [Term] id: CL:0000877 name: splenic tingible body macrophage namespace: cell def: "A splenic white pulp macrophage found in and around the germinal centers of the white pulp of the spleen that participates in phagocytosis of apoptotic B cells from the germinal centers. A marker for a cell of this type is Mertk-positive." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:19631584] is_a: CL:0000876 ! splenic white pulp macrophage relationship: part_of UBERON:0001249 ! spleen lymphoid follicle [Term] id: CL:0000878 name: central nervous system macrophage namespace: cell def: "A tissue-resident macrophage found in the central nervous system." [GO_REF:0000031, PMID:16322748] synonym: "CNS macrophage" EXACT [] is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000879 name: meningeal macrophage namespace: cell def: "A central nervous system macrophage found in the meninges (the three membranes that surround the brain). This macrophage types is highly phagocytic and expresses scavenger receptors." [GOC:ana, GO_REF:0000031, PMID:11591794] is_a: CL:0000878 ! central nervous system macrophage relationship: part_of UBERON:0002360 ! meninx [Term] id: CL:0000880 name: choroid-plexus macrophage namespace: cell def: "A central nervous system macrophage found at the interface between the blood and the cerebrospinal fluid in the brain. This cell expresses scavenger receptors." [GOC:ana, GO_REF:0000031, PMID:9550136] is_a: CL:0000878 ! central nervous system macrophage [Term] id: CL:0000881 name: perivascular macrophage namespace: cell def: "A central nervous system macrophage found in small blood vessels in the brain. Markers include CD14+CD16+CD163+." [GOC:tfm, GO_REF:0000031, PMID:16507898] comment: Markers: Human/monkey, mice: CD163. Human: CD14+CD16+CD163+. is_a: CL:0000878 ! central nervous system macrophage relationship: part_of UBERON:0001981 ! blood vessel [Term] id: CL:0000882 name: thymic medullary macrophage namespace: cell def: "A thymic macrophage found in the thymic medulla." [GOC:ana, GO_REF:0000031, PMID:9048205] is_a: CL:0000866 ! thymic macrophage relationship: part_of UBERON:0002124 ! medulla of thymus [Term] id: CL:0000883 name: thymic cortical macrophage namespace: cell def: "A thymic macrophage found in the thymic cortex." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:9048205] is_a: CL:0000866 ! thymic macrophage relationship: part_of UBERON:0002123 ! cortex of thymus [Term] id: CL:0000884 name: mucosa-associated lymphoid tissue macrophage namespace: cell def: "A tissue-resident macrophage found in the mucosa associated lymphoid tissue." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:19906191] is_a: CL:0000867 ! secondary lymphoid organ macrophage relationship: part_of UBERON:0001961 ! mucosa-associated lymphoid tissue [Term] id: CL:0000885 name: gut-associated lymphoid tissue macrophage namespace: cell def: "A mucosa-associated lymphoid tissue macrophage found in the mucosa-associated lymphoid tissues of the gut." [GOC:ana, GO_REF:0000031, PMID:19906191] is_a: CL:0000884 ! mucosa-associated lymphoid tissue macrophage relationship: part_of UBERON:0001962 ! gut-associated lymphoid tissue [Term] id: CL:0000886 name: nasal and broncial associated lymphoid tissue macrophage namespace: cell def: "A mucosa-associated lymphoid tissue macrophage found in the nasal and bronchial mucosa-associated lymphoid tissues." [GOC:ana, GO_REF:0000031, PMID:16048540] is_a: CL:0000884 ! mucosa-associated lymphoid tissue macrophage relationship: part_of UBERON:0001963 ! bronchial-associated lymphoid tissue [Term] id: CL:0000887 name: lymph node subcapsular sinus macrophage namespace: cell def: "A lymph node macrophage found in the subcapsular sinus of lymph nodes that participates in sensing, clearance, and antigen presentation of lymph-borne particulate antigens. This macrophage is capable of activating invaraint NKT cells and is CD169-positive." [GOC:tfm, GO_REF:0000031, PMID:14668803, PMID:17934446, PMID:20228797] is_a: CL:0000868 ! lymph node macrophage [Term] id: CL:0000888 name: lymph node tingible body macrophage namespace: cell def: "A lymph node macrophage found in the cortex of lymph nodes, in particular in and around the germinal centers, and that participates in phagocytosis of apoptotic B cells from the germinal centers." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:19631584] is_a: CL:0000868 ! lymph node macrophage relationship: part_of UBERON:0002006 ! cortex of lymph node [Term] id: CL:0000889 name: myeloid suppressor cell namespace: cell def: "An immature myeloid leukocyte of heterogeneous phenotype found particularly in cancer and sepsis patients that is capable of suppressing activity of T cells in ex vivo assays. This cell type is CD45-positive, CD11b-positive." [GOC:add, GOC:ana, GO_REF:0000031, PMID:16168663, PMID:17016554, PMID:17016559] comment: Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. is_a: CL:0000766 ! myeloid leukocyte [Term] id: CL:0000890 name: alternatively activated macrophage namespace: cell def: "An elicited macrophage characterized by low production of pro-inflammatory and Th1 polarizing cytokines and high expression of arginase-1, and associated with tissue remodelling." [GOC:ana, GOC:tfm, GO_REF:0000031, PMID:20510870] comment: Role or process: tissue remodeling. synonym: "M2 macrophage" RELATED [] is_a: CL:0000861 ! elicited macrophage [Term] id: CL:0000891 name: foam cell namespace: cell def: "A type of cell containing lipids in small vacuoles and typically seen in atherolosclerotic lesions, as well as other conditions." [GOC:add] xref: BTO:0003872 xref: FMA:83586 is_a: CL:0000003 ! cell in vivo [Term] id: CL:0000892 name: smooth muscle cell derived foam cell namespace: cell def: "A type of foam cell derived from a smooth muscle cell containing lipids in small vacuoles and typically seen in atherolosclerotic lesions, as well as other conditions." [GOC:add] is_a: CL:0000891 ! foam cell relationship: develops_from CL:0000192 ! smooth muscle cell [Term] id: CL:0000893 name: thymocyte namespace: cell def: "An immature T cell located in the thymus." [GOC:add, GOC:tfm, GO_REF:0000031, PMID:12415312] synonym: "immature T cell" BROAD [] synonym: "immature T lymphocyte" BROAD [] synonym: "immature T-cell" BROAD [] synonym: "immature T-lymphocyte" BROAD [] synonym: "thymic lymphocyte" EXACT [] xref: BTO:0001372 xref: FMA:72202 xref: XAO:0003159 is_a: CL:0002420 ! immature T cell relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000894 name: DN1 thymic pro-T cell namespace: cell def: "A pro-T cell that has the phenotype CD4-negative, CD8-negative, CD44-positive, and CD25-negative." [GOC:add, GOC:tfm, GO_REF:0000031] synonym: "DN1 thymic pro-T lymphocyte" EXACT [] synonym: "DN1 thymic pro-T-cell" EXACT [] synonym: "DN1 thymic pro-T-lymphocyte" EXACT [] synonym: "DN1 thymic progenitor T cell" EXACT [] synonym: "DN1 thymocyte" EXACT [] synonym: "double negative 1" EXACT [] synonym: "preT.DN1.Th" EXACT [] is_a: CL:0000827 ! pro-T cell relationship: develops_from CL:0002425 ! early T lineage precursor relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000895 name: naive thymus-derived CD4-positive, alpha-beta T cell namespace: cell def: "An antigen inexperienced CD4-positive, alpha-beta T cell with the phenotype CCR7-positive, CD127-positive and CD62L-positive. This cell type develops in the thymus. This cell type is also described as being CD25-negative, CD62L-high, and CD44-low." [GOC:add, GOC:tfm, GO_REF:0000031, PMID:19100699, http://www.immgen.org/index_content.html] comment: These cells have not been exposed to antigen following thymic T-cell selection; found in blood and secondary lymphoid organs. synonym: "T.4Nve.Sp" EXACT [] synonym: "Th0" EXACT [GOC:tfm] synonym: "naive thymus-derived CD4-positive, alpha-beta T lymphocyte" EXACT [] synonym: "naive thymus-derived CD4-positive, alpha-beta T-cell" EXACT [] synonym: "naive thymus-derived CD4-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000898 ! naive T cell relationship: develops_from CL:0002436 ! mature CD4 single-positive thymocyte [Term] id: CL:0000896 name: activated CD4-positive, alpha-beta T cell namespace: cell def: "A recently activated CD4-positive, alpha-beta T cell with the phenotype CD69-positive, CD62L-negative, CD127-negative, and CD25-positive." [GOC:add, GOC:pam, GO_REF:0000031] synonym: "activated CD4-positive, alpha-beta T lymphocyte" EXACT [] synonym: "activated CD4-positive, alpha-beta T-cell" EXACT [] synonym: "activated CD4-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell relationship: develops_from CL:0000895 ! naive thymus-derived CD4-positive, alpha-beta T cell [Term] id: CL:0000897 name: CD4-positive, alpha-beta memory T cell namespace: cell def: "CD4-positive, alpha-beta long-lived T cell with the phenotype CD45RO-positive and CD127-positive. This cell type is also described as being CD25-negative, CD44-high, and CD122- high." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149, http://www.immgen.org/index_content.html] synonym: "CD4-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "CD4-positive, alpha-beta memory T-cell" EXACT [] synonym: "CD4-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "T4.Mem.Sp" RELATED [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000813 ! memory T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000898 name: naive T cell namespace: cell def: "Mature T cell not yet exposed to antigen with the phenotype CCR7-positive, CD45RA-positive, and CD127-positive. This cell type is also described as being CD25-negative, CD62L-high and CD44-low." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19100699] synonym: "naive T lymphocyte" EXACT [] synonym: "naive T-cell" EXACT [] synonym: "naive T-lymphocyte" EXACT [] is_a: CL:0002419 ! mature T cell [Term] id: CL:0000899 name: T-helper 17 cell namespace: cell def: "CD4-positive, alpha-beta T cell with the phenotype RORgamma-t-positive that produces IL-17." [GOC:add, GOC:pam, GO_REF:0000031, PMID:20303875, PMID:20969597] synonym: "IL-17-producing CD4+ T helper" EXACT [] synonym: "T helper cells type 17" EXACT [] synonym: "T(H)-17 cell" EXACT [] synonym: "Th17 T cell" EXACT [] synonym: "Th17 T lymphocyte" EXACT [] synonym: "Th17 T-cell" EXACT [] synonym: "Th17 T-lymphocyte" EXACT [] synonym: "Th17 cell" EXACT [] synonym: "helper T cell type 17" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000900 name: naive thymus-derived CD8-positive, alpha-beta T cell namespace: cell def: "A CD8-positive, alpha-beta T cell that has not experienced activation via antigen contact and has the phenotype CD45RA-positive, CCR7-positive and CD127-positive. This cell type is also described as being CD25-negative, CD62L-high and CD44-low." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0781735149, http://www.immgen.org/index_content.html] comment: Additional markers in human are CD45RA. This cell traffics in secondary lymphoid organs and blood. synonym: "T.8Nve.Sp" NARROW [] synonym: "naive thymus-dervied CD8-positive, alpha-beta T lymphocyte" EXACT [] synonym: "naive thymus-dervied CD8-positive, alpha-beta T-cell" EXACT [] synonym: "naive thymus-dervied CD8-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000898 ! naive T cell relationship: develops_from CL:0002437 ! mature CD8 single-positive thymocyte [Term] id: CL:0000901 name: Tr1 cell namespace: cell def: "CD4-positive alpha-beta T cell with regulatory function that produces IL-10." [GOC:add, GOC:pam, GO_REF:0000031, PMID:16903904] comment: These cells are reportedly induced by IL-10 and are capable of producing IFN-gamma, IL-5, IL-10, and TGF-beta.) synonym: "T-regulatory T cell type 1" EXACT [] synonym: "Tr1 T cell" EXACT [] synonym: "Tr1 T lymphocyte" EXACT [] synonym: "Tr1 T-cell" EXACT [] synonym: "Tr1 T-lymphocyte" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell is_a: CL:0000815 ! regulatory T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000902 name: induced T-regulatory cell namespace: cell def: "CD4-positive alpha-beta T cell with the phenotype CD25-positive, CTLA-4-positive, and FoxP3-positive with regulatory function." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19464985] synonym: "aTreg" RELATED [] synonym: "adaptive Treg" RELATED [] synonym: "iTreg" EXACT [] synonym: "induced Treg" EXACT [] synonym: "induced regulatory T cell" EXACT [] synonym: "induced regulatory T lymphocyte" EXACT [] synonym: "induced regulatory T-cell" EXACT [] synonym: "induced regulatory T-lymphocyte" EXACT [] is_a: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000903 name: natural T-regulatory cell namespace: cell def: "CD4-positive alpha-beta T cell with the phenotype FoxP3-positive, CD25-positive, CD62L-positive, and CTLA-4 positive with regulatory function." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19464985] synonym: "nTreg" EXACT [] synonym: "natural Treg" EXACT [] synonym: "natural regulatory T cell" EXACT [] synonym: "natural regulatory T lymphocyte" EXACT [] synonym: "natural regulatory T-cell" EXACT [] synonym: "natural regulatory T-lymphocyte" EXACT [] is_a: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell relationship: develops_from CL:0000809 ! double-positive, alpha-beta thymocyte [Term] id: CL:0000904 name: central memory CD4-positive, alpha-beta T cell namespace: cell def: "CD4-positive, alpha-beta memory T cell with the phenotype CCR7-positive, CD127-positive, CD45RO-positive, and CD25-negative." [GOC:add, GOC:pam, GO_REF:0000031] synonym: "central CD4-positive, alpha-beta memory T cell" EXACT [] synonym: "central CD4-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "central CD4-positive, alpha-beta memory T-cell" EXACT [] synonym: "central CD4-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "central memory CD4-positive, alpha-beta T lymphocyte" EXACT [] synonym: "central memory CD4-positive, alpha-beta T-cell" EXACT [] synonym: "central memory CD4-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000897 ! CD4-positive, alpha-beta memory T cell [Term] id: CL:0000905 name: effector memory CD4-positive, alpha-beta T cell namespace: cell def: "CD4-positive, alpha-beta memory T cell with the phenotype CCR7-negative, CD127-positive, CD45RO-positive, and CD25-negative." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031] synonym: "effector CD4-positive, alpha-beta memory T cell" EXACT [] synonym: "effector CD4-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "effector CD4-positive, alpha-beta memory T-cell" EXACT [] synonym: "effector CD4-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "effector memory CD4-positive, alpha-beta T lymphocyte" EXACT [] synonym: "effector memory CD4-positive, alpha-beta T-cell" EXACT [] synonym: "effector memory CD4-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000897 ! CD4-positive, alpha-beta memory T cell [Term] id: CL:0000906 name: activated CD8-positive, alpha-beta T cell namespace: cell def: "A CD8-positive, alpha-beta T cell with the phenotype CD69-positive, CD62L-negative, CD127-negative, CD25-positive, and CCR7-negative." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031] synonym: "activated CD8-positive, alpha-beta T lymphocyte" EXACT [] synonym: "activated CD8-positive, alpha-beta T-cell" EXACT [] synonym: "activated CD8-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell relationship: develops_from CL:0000900 ! naive thymus-derived CD8-positive, alpha-beta T cell [Term] id: CL:0000907 name: central memory CD8 positive, alpha-beta T cell namespace: cell def: "A CD8-positive, alpha beta memory T cell with the phenotype CCR7-positive, CD127-positive, CD45RO-positive, and CD25-negative." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:20146720] synonym: "central CD8-positive, alpha-beta memory T cell" EXACT [] synonym: "central CD8-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "central CD8-positive, alpha-beta memory T-cell" EXACT [] synonym: "central CD8-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "central memory CD8-positive, alpha-beta T lymphocyte" EXACT [] synonym: "central memory CD8-positive, alpha-beta T-cell" EXACT [] synonym: "central memory CD8-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000909 ! CD8-positive, alpha-beta memory T cell [Term] id: CL:0000908 name: CD8-positive, alpha-beta cytokine secreting effector T cell namespace: cell def: "A CD8-positive, alpha-beta T cell with the phenotype CD69-positive, CD62L-negative, CD127-negative, and CD25-positive, that secretes cytokines." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:20146720] synonym: "CD8-positive, alpha-beta cytokine secreting effector T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta cytokine secreting effector T-cell" EXACT [] synonym: "CD8-positive, alpha-beta cytokine secreting effector T-lymphocyte" EXACT [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000912 ! helper T cell relationship: develops_from CL:0000906 ! activated CD8-positive, alpha-beta T cell [Term] id: CL:0000909 name: CD8-positive, alpha-beta memory T cell namespace: cell def: "A CD8-positive, alpha-beta T cell with memory phenotype indicated by being CD45RO and CD127-positive. This cell type is also described as being CD25-negative, CD44-high, and CD122- high." [GOC:tfm, GO_REF:0000031, PMID:20146720] synonym: "CD8-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "CD8-positive, alpha-beta memory T-cell" EXACT [] synonym: "CD8-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "T.8Mem.Sp" EXACT [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell is_a: CL:0000813 ! memory T cell relationship: develops_from CL:0000906 ! activated CD8-positive, alpha-beta T cell [Term] id: CL:0000910 name: cytotoxic T cell namespace: cell def: "A mature T cell that differentiated and acquired cytotoxic function with the phenotype perforin-positive and granzyme-B positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:18395547] synonym: "cytotoxic T lymphocyte" EXACT [] synonym: "cytotoxic T-cell" EXACT [] synonym: "cytotoxic T-lymphocyte" EXACT [] xref: BTO:0000289 xref: FMA:70573 is_a: CL:0000911 ! effector T cell [Term] id: CL:0000911 name: effector T cell namespace: cell def: "A differentiated T cell with ability to traffic to peripheral tissues and is capable of mounting a specific immune response." [GOC:PAM-ADD, GOC:tfm, ISBN:0877799148, PMID:18395547] synonym: "effector T lymphocyte" EXACT [] synonym: "effector T-cell" EXACT [] synonym: "effector T-lymphocyte" EXACT [] is_a: CL:0002419 ! mature T cell [Term] id: CL:0000912 name: helper T cell namespace: cell def: "A effector T cell that provides help in the form of secreted cytokines to other immune cells." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:18395547] synonym: "T-helper cell" EXACT [] synonym: "helper T lymphocyte" EXACT [] synonym: "helper T-cell" EXACT [] synonym: "helper T-lymphocyte" EXACT [] xref: BTO:0002417 is_a: CL:0000911 ! effector T cell [Term] id: CL:0000913 name: effector memory CD8-positive, alpha-beta T cell namespace: cell def: "A CD8-positive, alpha beta memory T cell with the phenotype CCR7-negative, CD127-positive, CD45RO-positive, and CD25-negative." [GOC:add, GOC:pam, GO_REF:0000031, PMID:20146720] synonym: "effector CD8-positive, alpha-beta memory T cell" EXACT [] synonym: "effector CD8-positive, alpha-beta memory T lymphocyte" EXACT [] synonym: "effector CD8-positive, alpha-beta memory T-cell" EXACT [] synonym: "effector CD8-positive, alpha-beta memory T-lymphocyte" EXACT [] synonym: "effector memory CD8-positive, alpha-beta T lymphocyte" EXACT [] synonym: "effector memory CD8-positive, alpha-beta T-cell" EXACT [] synonym: "effector memory CD8-positive, alpha-beta T-lymphocyte" EXACT [] is_a: CL:0000909 ! CD8-positive, alpha-beta memory T cell [Term] id: CL:0000914 name: immature NK T cell namespace: cell def: "An immature alpha-beta T-cell that express Egr2. These cells give rise to T cells expressing NK markers." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17589542, PMID:19169262] synonym: "immature NK T lymphocyte" EXACT [] synonym: "immature NK T-cell" EXACT [] synonym: "immature NK T-lymphocyte" EXACT [] synonym: "immature NKT cell" EXACT [] is_a: CL:0000790 ! immature alpha-beta T cell relationship: develops_from CL:0000809 ! double-positive, alpha-beta thymocyte [Term] id: CL:0000915 name: CD8-alpha-alpha-positive, alpha-beta intraepithelial T cell namespace: cell def: "An alpha-beta intraepithelial T cell with the phenotype CD8-alpha-alpha-positive located in the columnar epithelium of the gastrointestinal tract. These cells have a memory phenotype of CD2-negative and CD5-negative." [GOC:add, GOC:pam, GO_REF:0000031, PMID:11685222] synonym: "CD8-alpha-alpha-positive, alpha-beta intraepithelial T lymphocyte" EXACT [] synonym: "CD8-alpha-alpha-positive, alpha-beta intraepithelial T-cell" EXACT [] synonym: "CD8-alpha-alpha-positive, alpha-beta intraepithelial T-lymphocyte" EXACT [] is_a: CL:0000797 ! alpha-beta intraepithelial T cell relationship: develops_from CL:0000811 ! CD8-positive, alpha-beta thymocyte [Term] id: CL:0000916 name: dendritic epidermal T cell namespace: cell def: "A mature gamma-delta T cell located in the epidermis that regulates wound healing." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:11976459] comment: In mice, DETC have an invariant T cell receptor. synonym: "DETC" EXACT [] synonym: "dendritic epidermal T lymphocyte" EXACT [] synonym: "dendritic epidermal T-cell" EXACT [] synonym: "dendritic epidermal T-lymphocyte" EXACT [] is_a: CL:0000800 ! mature gamma-delta T cell relationship: develops_from CL:0002401 ! mature dendritic epithelial T cell precursor relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:0000917 name: Tc1 cell namespace: cell def: "A CD8-positive, alpha-beta positive T cell expressing T-bet and eomesodermin and secreting interferon-gamma." [GOC:add, GOC:pam, GO_REF:0000031, PMID:9914231] synonym: "T-cytotoxic T cell type 1" EXACT [] synonym: "Tc1 T cell" EXACT [] synonym: "Tc1 T lymphocyte" EXACT [] synonym: "Tc1 T-cell" EXACT [] synonym: "Tc1 T-lymphocyte" EXACT [] xref: BTO:0004793 xref: BTO:0004888 xref: FMA:84793 is_a: CL:0000908 ! CD8-positive, alpha-beta cytokine secreting effector T cell [Term] id: CL:0000918 name: Tc2 cell namespace: cell def: "A CD8-positive, alpha-beta positive T cell expressing GATA-3 and secreting IL-4." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:9914231] synonym: "T-cytotoxic T cell type 2" EXACT [] synonym: "Tc2 T cell" EXACT [] synonym: "Tc2 T lymphocyte" EXACT [] synonym: "Tc2 T-cell" EXACT [] synonym: "Tc2 T-lymphocyte" EXACT [] xref: BTO:0004794 xref: FMA:84794 is_a: CL:0000908 ! CD8-positive, alpha-beta cytokine secreting effector T cell [Term] id: CL:0000919 name: CD8-positive, CD25-positive, alpha-beta regulatory T cell namespace: cell def: "A CD8-positive alpha beta-positive T cell with the phenotype FoxP3-positive and having suppressor function." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19118505] synonym: "CD8+CD25+ T cell" EXACT [] synonym: "CD8+CD25+ T lymphocyte" EXACT [] synonym: "CD8+CD25+ T(reg)" EXACT [] synonym: "CD8+CD25+ T-cell" EXACT [] synonym: "CD8+CD25+ T-lymphocyte " EXACT [] synonym: "CD8+CD25+ Treg" EXACT [] synonym: "CD8-positive, CD25-positive Treg" EXACT [] synonym: "CD8-positive, CD25-positive, alpha-beta regulatory T lymphocyte" EXACT [] synonym: "CD8-positive, CD25-positive, alpha-beta regulatory T-cell" EXACT [] synonym: "CD8-positive, CD25-positive, alpha-beta regulatory T-lymphocyte" EXACT [] is_a: CL:0000795 ! CD8-positive, alpha-beta regulatory T cell relationship: develops_from CL:0000906 ! activated CD8-positive, alpha-beta T cell [Term] id: CL:0000920 name: CD8-positive, CD28-negative, alpha-beta regulatory T cell namespace: cell def: "CD8-positive, alpha-beta positive regulatory T cell with the phenotype CD28-negative and FoxP3-positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19118505] synonym: "CD8+CD28- T cell" EXACT [] synonym: "CD8+CD28- T lymphocyte" EXACT [] synonym: "CD8+CD28- T(reg)" EXACT [] synonym: "CD8+CD28- T-cell" EXACT [] synonym: "CD8+CD28- T-lymphocyte " EXACT [] synonym: "CD8+CD28- Treg" EXACT [] synonym: "CD8-positive, CD28-negative T(reg)" EXACT [] synonym: "CD8-positive, CD28-negative Treg" EXACT [] synonym: "CD8-positive, CD28-negative, alpha-beta regulatory T lymphocyte" EXACT [] synonym: "CD8-positive, CD28-negative, alpha-beta regulatory T-cell" EXACT [] synonym: "CD8-positive, CD28-negative, alpha-beta regulatory T-lymphocyte" EXACT [] is_a: CL:0000795 ! CD8-positive, alpha-beta regulatory T cell relationship: develops_from CL:0000906 ! activated CD8-positive, alpha-beta T cell [Term] id: CL:0000921 name: type I NK T cell namespace: cell def: "An alpha-beta T cell expressing NK cell markers that is CD1d restricted and expresses specific V-alpha chains. NK T cells of this type recognize the glycolipid alpha-galactosylceramide in the context of CD1d." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:15039760] comment: In mouse the canonical TCR is V-alpha-14, and in humans it is V-alpha 24. synonym: "classical NK T cell" EXACT [] synonym: "invariant NK T cell" RELATED [] synonym: "type I NK T lymphocyte" EXACT [] synonym: "type I NK T-cell" EXACT [] synonym: "type I NK T-lymphocyte" EXACT [] synonym: "type I NKT cell" EXACT [] is_a: CL:0000814 ! mature NK T cell [Term] id: CL:0000922 name: type II NK T cell namespace: cell def: "An alpha-beta T cell expressing NK call markers that is CD1d restricted and expresses a diverse TCR repertoire. Type II NKT cells do not become activated by alpha-galactosylceramide when presented by CD1d." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:15039760] synonym: "type II NK T lymphocyte" EXACT [] synonym: "type II NK T-cell" EXACT [] synonym: "type II NK T-lymphocyte" EXACT [] synonym: "type II NKT cell" EXACT [] is_a: CL:0000814 ! mature NK T cell [Term] id: CL:0000923 name: CD4-positive type I NK T cell namespace: cell def: "A type I NK T cell that has the phenotype CD4-positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "CD4-positive type I NK T lymphocyte" EXACT [] synonym: "CD4-positive type I NK T-cell" EXACT [] synonym: "CD4-positive type I NK T-lymphocyte" EXACT [] synonym: "CD4-positive type I NKT cell" EXACT [] synonym: "NKT.4+.SP" NARROW [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000921 ! type I NK T cell [Term] id: CL:0000924 name: CD4-negative, CD8-negative type I NK T cell namespace: cell def: "A type I NK T cell that has the phenotype CD4-negative and CD8-negative." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:18997862] synonym: "CD4-negative, CD8-negative type I NK T lymphocyte" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-cell" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-lymphocyte" EXACT [] synonym: "CD4-negative, CD8-negative type I NKT cell" EXACT [] synonym: "NKT.4-.Sp" NARROW [] is_a: CL:0000921 ! type I NK T cell [Term] id: CL:0000925 name: activated CD4-positive type I NK T cell namespace: cell def: "A type I NK T cell that has been recently activated, secretes interferon-gamma and IL-4, and has the phenotype CD4-positive, CD69-positive, and downregulated NK markers." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "activated CD4-positive type I NK T lymphocyte" EXACT [] synonym: "activated CD4-positive type I NK T-cell" EXACT [] synonym: "activated CD4-positive type I NK T-lymphocyte" EXACT [] synonym: "activated CD4-positive type I NKT cell" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell is_a: CL:0000923 ! CD4-positive type I NK T cell relationship: develops_from CL:0000923 ! CD4-positive type I NK T cell [Term] id: CL:0000926 name: CD4-positive type I NK T cell secreting interferon-gamma namespace: cell def: "A mature NK T cell that secretes interferon-gamma and enhances type 1 immune responses." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "CD4-positive type I NK T cell secreting IFN-gamma" EXACT [] synonym: "CD4-positive type I NK T lymphocyte secreting interferon-gamma" EXACT [] synonym: "CD4-positive type I NK T-cell secreting interferon-gamma" EXACT [] synonym: "CD4-positive type I NK T-lymphocyte secreting interferon-gamma" EXACT [] synonym: "CD4-positive type I NKT cell secreting interferon-gamma" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell is_a: CL:0000923 ! CD4-positive type I NK T cell relationship: develops_from CL:0000925 ! activated CD4-positive type I NK T cell [Term] id: CL:0000927 name: CD4-positive type I NK T cell secreting interleukin-4 namespace: cell def: "A mature NK T cell that predominantly secretes type 2 cytokines such as interleukin-4 and interleukin-13 and enhances type 2 immune responses." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031] synonym: "CD4-positive type I NK T cell secreting IL-4" EXACT [] synonym: "CD4-positive type I NK T lymphocyte secreting interleukin-4" EXACT [] synonym: "CD4-positive type I NK T-cell secreting interleukin-4" EXACT [] synonym: "CD4-positive type I NK T-lymphocyte secreting interleukin-4" EXACT [] synonym: "CD4-positive type I NKT cell secreting interleukin-4" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell is_a: CL:0000923 ! CD4-positive type I NK T cell relationship: develops_from CL:0000925 ! activated CD4-positive type I NK T cell [Term] id: CL:0000928 name: activated CD4-negative, CD8-negative type I NK T cell namespace: cell def: "A type I NK T cell that has been recently activated, secretes interferon-gamma and interleukin-4, and has phenotype CD4-negative, CD8-negative, CD69-positive, and downregulated NK markers." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "activated CD4-negative, CD8-negative type I NK T lymphocyte" EXACT [] synonym: "activated CD4-negative, CD8-negative type I NK T-cell" EXACT [] synonym: "activated CD4-negative, CD8-negative type I NK T-lymphocyte" EXACT [] synonym: "activated CD4-negative, CD8-negative type I NKT cell" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000924 ! CD4-negative, CD8-negative type I NK T cell relationship: develops_from CL:0000924 ! CD4-negative, CD8-negative type I NK T cell [Term] id: CL:0000929 name: CD4-negative, CD8-negative type I NK T cell secreting interferon-gamma namespace: cell def: "A mature NK T cell that secretes interferon-gamma and enhances Th1 immune responses." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "CD4-negative, CD8-negative type I NK T cell secreting IFN-gamma" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T lymphocyte secreting interferon-gamma" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-cell secreting interferon-gamma" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-lymphocyte secreting interferon-gamma" EXACT [] synonym: "CD4-negative, CD8-negative type I NKT cell secreting interferon-gamma" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000924 ! CD4-negative, CD8-negative type I NK T cell relationship: develops_from CL:0000928 ! activated CD4-negative, CD8-negative type I NK T cell [Term] id: CL:0000930 name: CD4-negative, CD8-negative type I NK T cell secreting interleukin-4 namespace: cell def: "A mature NK T cell that secretes interleukin-4 and enhances Th2 immune responses." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17303398] synonym: "CD4-negative, CD8-negative type I NK T cell secreting IL-4" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T lymphocyte secreting interleukin-4" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-cell secreting interleukin-4" EXACT [] synonym: "CD4-negative, CD8-negative type I NK T-lymphocyte secreting interleukin-4" EXACT [] synonym: "CD4-negative, CD8-negative type I NKT cell secreting interleukin-4" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000924 ! CD4-negative, CD8-negative type I NK T cell relationship: develops_from CL:0000928 ! activated CD4-negative, CD8-negative type I NK T cell [Term] id: CL:0000931 name: activated type II NK T cell namespace: cell def: "A type II NK T cell that has been recently activated, secretes interferon-gamma and interleukin-4, and has the phenotype CD69-positive and downregulated NK markers." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17964217] synonym: "activated type II NK T lymphocyte" EXACT [] synonym: "activated type II NK T-cell" EXACT [] synonym: "activated type II NK T-lymphocyte" EXACT [] synonym: "activated type II NKT cell" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000922 ! type II NK T cell [Term] id: CL:0000932 name: type II NK T cell secreting interferon-gamma namespace: cell def: "A type II NK T cell that has been recently activated, secretes interferon-gamma, and has the phenotype CD69-positive and downregulated NK markers." [GOC:add, GOC:pam, GO_REF:0000031, PMID:17964217] synonym: "type II NK T cell secreting IFN-gamma" EXACT [] synonym: "type II NK T lymphocyte secreting interferon-gamma" EXACT [] synonym: "type II NK T-cell secreting interferon-gamma" EXACT [] synonym: "type II NK T-lymphocyte secreting interferon-gamma" EXACT [] synonym: "type II NKT cell secreting interferon-gamma" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000922 ! type II NK T cell relationship: develops_from CL:0000931 ! activated type II NK T cell [Term] id: CL:0000933 name: type II NK T cell secreting interleukin-4 namespace: cell def: "A type II NK T cell that has been recently activated, secretes interleukin-4, and has the phenotype CD69-positive and downregulated NK markers." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:17964217] synonym: "type II NK T cell secreting IL-4" EXACT [] synonym: "type II NK T lymphocyte secreting interleukin-4" EXACT [] synonym: "type II NK T-cell secreting interleukin-4" EXACT [] synonym: "type II NK T-lymphocyte secreting interleukin-4" EXACT [] synonym: "type II NKT cell secreting interleukin-4" EXACT [] is_a: CL:0000912 ! helper T cell is_a: CL:0000922 ! type II NK T cell relationship: develops_from CL:0000931 ! activated type II NK T cell [Term] id: CL:0000934 name: CD4-positive, alpha-beta cytotoxic T cell namespace: cell def: "A CD4-positive, alpha-beta T cell that has cytotoxic function." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:18440213] synonym: "CD4-positive, alpha-beta cytotoxic T lymphocyte" EXACT [] synonym: "CD4-positive, alpha-beta cytotoxic T-cell" EXACT [] synonym: "CD4-positive, alpha-beta cytotoxic T-lymphocyte" EXACT [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell is_a: CL:0000910 ! cytotoxic T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0000935 name: CD4-negative, CD8-negative, alpha-beta intraepithelial T cell namespace: cell def: "A CD4-negative, CD8-negative, alpha-beta intraepithelial T cell that is found in the columnar epithelium of the gastrointestinal tract." [GOC:add, GOC:pam, GO_REF:0000031, PMID:11685222] synonym: "CD4-negative, CD8-negative, alpha-beta intraepithelial T lymphocyte" EXACT [] synonym: "CD4-negative, CD8-negative, alpha-beta intraepithelial T-cell" EXACT [] synonym: "CD4-negative, CD8-negative, alpha-beta intraepithelial T-lymphocyte" EXACT [] is_a: CL:0000797 ! alpha-beta intraepithelial T cell [Term] id: CL:0000936 name: early lymphoid progenitor namespace: cell def: "A lymphoid progenitor cell that is found in bone marrow, gives rise to B cells, T cells, natural killer cells and dendritic cells, and has the phenotype Lin-negative, Kit-positive, Sca-1-positive, FLT3-positive, CD34-positive, CD150 negative, and GlyA-negative." [GOC:add, GOC:dsd, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19022770] comment: Markers are associated with mouse cells. ELP transcription factors include E2A-positive, Ikaros-positive, EBF-negative, Pax5-negative, PU.1-negative. synonym: "ELP" EXACT [] synonym: "GMLP" RELATED [PMID:18371378] synonym: "LMPP" EXACT [] synonym: "lymphoid-primed multipotent progenitor" EXACT [] is_a: CL:0000837 ! hematopoietic multipotent progenitor cell relationship: develops_from CL:0002035 ! Slamf1-negative multipotent progenitor cell [Term] id: CL:0000937 name: pre-natural killer cell namespace: cell def: "Cell committed to natural killer cell lineage that has the phenotype CD122-positive, CD34-positive, and CD117-positive. This cell type lacks expression of natural killer receptor proteins." [GOC:add, GOC:dsd, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:16551251, PMID:17100874] comment: These cells are also reportedly CD7-low, CD10-negative, CD45RA-positive, alpha-4-beta-7 integrin-high. synonym: "pre-NK cell" EXACT [] is_a: CL:0000623 ! natural killer cell [Term] id: CL:0000938 name: CD56-bright cytokine secreting natural killer cell namespace: cell def: "NK cell that has the phenotype CD56-bright, CD16-negative, and CD84-positive with the function to secrete interferon-gamma but is not cytotoxic." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19796267] comment: Markers are associated with human cell types. synonym: "CD56-bright cytokine secreting NK cell" EXACT [] is_a: CL:0000824 ! mature natural killer cell [Term] id: CL:0000939 name: cytotoxic CD56-dim natural killer cell namespace: cell def: "A mature natural killer cell that has the phenotype CD56-low and CD16-positive and is capable of cytotoxic function and cytokine production." [GOC:add, GOC:pam, GO_REF:0000031, PMID:19796267] comment: This population is mainly found in human. synonym: "cytotoxic CD56-dim NK cell" EXACT [] is_a: CL:0000824 ! mature natural killer cell [Term] id: CL:0000940 name: mucosal invariant T cell namespace: cell def: "An alpha-beta T cell that is found in the lamina propria of mucosal tissues and is restricted by the MR-1 molecule." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19416870] synonym: "mucosal invariant T lymphocyte" EXACT [] synonym: "mucosal invariant T-cell" EXACT [] synonym: "mucosal invariant T-lymphocyte" EXACT [] is_a: CL:0000791 ! mature alpha-beta T cell is_a: CL:0002127 ! innate effector T cell [Term] id: CL:0000941 name: thymic conventional dendritic cell namespace: cell def: "A dendritic cell arising in thymus that has the phenotype CD11c-positive, CD11b-negative, and CD45RA-negative." [GOC:add, GOC:pam, GO_REF:0000031, PMID:19273629] comment: In the mouse this cell expresses CD8-alpha-alpha. is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0000894 ! DN1 thymic pro-T cell relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0000942 name: thymic plasmacytoid dendritic cell namespace: cell def: "A plasmacytoid dendritic cell developing in the thymus with phenotype CD11c-negative or low, CD45RA-positive, CD11b-negative, and CD123-positive." [GOC:add, GOC:pam, GOC:tfm, GO_REF:0000031, PMID:19941119] is_a: CL:0000784 ! plasmacytoid dendritic cell relationship: develops_from CL:0000894 ! DN1 thymic pro-T cell [Term] id: CL:0000943 name: Be1 Cell namespace: cell def: "A Be cell that facilitates development of T-helper 1 (Th1) phenotype in CD4-positive T cells, and secretes high levels of interleukin-2, tumor necrosis factor-alpha and interferon-gamma." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMID:11101868, PMID:20224569] comment: Be1 cells are also reportedly capable of secreting IL-6, IL-10, and IL-12. They are also reportedly CD11b-negative and B220-positive. synonym: "B effector 1 cell" EXACT [PMID:11101868, PMID:20224569] synonym: "B effector cell type 1" RELATED [] is_a: CL:0000968 ! Be cell [Term] id: CL:0000944 name: Be2 cell namespace: cell def: "A Be cell that facilitates development of T-helper 2 (Th2) phenotype T cells, and secretes high levels of interleukin-2, interleukin-10, interleukin-4, and interleukin-6." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMID:11101868, PMID:20224569] comment: Be2 cells are also reportedly capable of secreting IL-13 and TNF. They are also reportedly CD11b-negative and B220-positive. synonym: "B effector 2 cell" EXACT [PMID:11101868, PMID:20224569] synonym: "B effector cell type 2" RELATED [] is_a: CL:0000968 ! Be cell [Term] id: CL:0000945 name: lymphocyte of B lineage namespace: cell def: "A lymphocyte of B lineage is a lymphocyte that expresses CD19 on the cell surface. An additional defining characteristic is the commitment to express an immunoglobulin complex." [GOC:add, GOC:rhs, GOC:tfm, GO_REF:0000031, ISBN:0781735149] comment: Types of B lineage lymphocytes include B cells and antibody secreting cells (plasmablasts and plasma cells). is_a: CL:0000542 ! lymphocyte relationship: develops_from CL:0000826 ! pro-B cell [Term] id: CL:0000946 name: antibody secreting cell namespace: cell def: "A lymphocyte of B lineage that is devoted to secreting large amounts of immunoglobulin." [GOC:add, GOC:tfm, GO_REF:0000031, ISBN:0721601464, ISBN:0781735149] is_a: CL:0000945 ! lymphocyte of B lineage [Term] id: CL:0000947 name: IgE plasma cell namespace: cell def: "A long lived plasma cell that secretes IgE." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000974 ! long lived plasma cell [Term] id: CL:0000948 name: IgE memory B cell namespace: cell def: "A class switched memory B cell that expresses IgE on the cell surface." [GOC:rhs, GO_REF:0000031, ISBN:0781765196] synonym: "IgE memory B lymphocyte" EXACT [] synonym: "IgE memory B-cell" EXACT [] synonym: "IgE memory B-lymphocyte" EXACT [] synonym: "memory IgE B cell" EXACT [] synonym: "memory IgE B lymphocyte" EXACT [] synonym: "memory IgE B-cell" EXACT [] synonym: "memory IgE B-lymphocyte" EXACT [] is_a: CL:0000972 ! class switched memory B cell [Term] id: CL:0000949 name: IgD plasmablast namespace: cell def: "A plasmablast that secretes IgD, and which occur in a small proportion of B cells in the adult." [GOC:msz, GO_REF:0000031] is_a: CL:0000980 ! plasmablast [Term] id: CL:0000950 name: IgE plasmablast namespace: cell def: "A plasmablast that secretes IgE." [GOC:msz, GO_REF:0000031] is_a: CL:0000980 ! plasmablast [Term] id: CL:0000951 name: IgE short lived plasma cell namespace: cell def: "A short lived plasma cell that secretes IgE." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000975 ! short lived plasma cell [Term] id: CL:0000952 name: preBCR-positive large pre-B-II cell namespace: cell def: "An preBRC-positive large pre-B-II cell is a large pre-B-II cell that is pre-B cell receptor-positive, composed of surrogate light chain protein (SL), which is composed of VpreB , Lambda 5/14.1, in complex with immunoglobulin mu heavy chain (IgHmu) on the cell surface." [GOC:rhs, GOC:tfm, GO_REF:0000031, PMID:9785673] is_a: CL:0000957 ! large pre-B-II cell [Term] id: CL:0000953 name: preBCR-negative large pre-B-II cell namespace: cell def: "A pre-BCR-negative large pre-B-II cell is a large pre-B-II cell that is pre-B cell receptor-negative, composed of surrogate light chain protein (SL), which is composed of VpreB and Lambda 5/14.1, in complex with immunoglobulin mu heavy chain (IgHmu), on the cell surface, and lack a DNA rearrangement of immunoglobulin light chain genes." [GOC:rhs, GOC:tfm, GO_REF:0000031, PMID:9785673] is_a: CL:0000957 ! large pre-B-II cell [Term] id: CL:0000954 name: small pre-B-II cell namespace: cell def: "A small pre-B-II cell is a pre-B-II cell that is Rag1-positive, Rag2-positive, pre-BCR-negative, and BCR-negative, is not proliferating, and carries a DNA rearrangement of one or more immunoglobulin light chain genes." [GOC:dsd, GOC:rhs, GOC:tfm, GO_REF:0000031, PMID:16551251, PMID:18432934, PMID:9785673] comment: Small pre-B-II cells are also reportedly CD10-positive, CD19-positive, CD34-negative, CD79a-positive, CD127-negative, TdT-negative, Vpre-B-negative, sIgM-negative, and sIgD-negative. Transcription factors: PU.1-positive, Ikaros-positive, E2A-positive, and PAX5-positive. synonym: "small pre-BII cell" EXACT [] is_a: CL:0000955 ! pre-B-II cell [Term] id: CL:0000955 name: pre-B-II cell namespace: cell def: "A pre-B-II cell is a precursor B cell that expresses immunoglobulin mu heavy chain (IgHmu+), and lack expression of CD34, TdT, immunoglobulin kappa light chain and immunoglobulin lambda light chain." [GOC:dsd, GOC:rhs, GOC:tfm, GO_REF:0000031, PMID:9785673] comment: pre-B-II cell are also reportedly CD19-positive, CD22-positive, CD38-positive, CD45-positive, and CD48-positive. synonym: "pre-B-lymphocyte" EXACT [] synonym: "pre-BII cell" EXACT [] xref: BTO:0001133 is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0000826 ! pro-B cell [Term] id: CL:0000956 name: pre-B-I cell namespace: cell def: "A pre-B-I cell is a precursor B cell that expresses CD34 and surrogate immunoglobulin light chain (VpreB , Lambda 5 (mouse)/14.1 (human)) on the cell surface, and TdT, Rag1,and Rag2 intracellularly. Cell type carries a D-JH DNA rearrangement, and lacks expression of immunglobulin heavy chain protein." [GOC:dsd, GOC:rhs, GOC:tfm, GO_REF:0000031, PMID:16551251, PMID:18432934, PMID:20839338, PMID:9785673] comment: Human pre-B-I cells are reportedly CD10-positive, CD19-positive, CD22-positive, CD38-positive, CD45-low, CD79a-positive, CD127-negative, pre-BCR-negative, IgM-negative, IgD-negative, and Tdt-positive. Transcription factors expressed: Pax5-positive. synonym: "pre-BI cell" EXACT [] synonym: "pro-B cell (Philadelphia nomenclature)" RELATED [PMID:11244048] is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0000826 ! pro-B cell [Term] id: CL:0000957 name: large pre-B-II cell namespace: cell def: "A large pre-B-II cell is a pre-B-II cell that is proliferating and is Rag1-negative and Rag2-negative." [GOC:dsd, GOC:rhs, GO_REF:0000031, PMID:16551251, PMID:18432934, PMID:9785673] comment: Large pre-B-II cells are also reportedly CD10-positive, CD19-positive, CD34-negative, CD79a-positive, CD127-negative, TdT-negative, Vpre-B-positive, pre-BCR-positive, sIgM-negative, and sIgD-negative. Transcription factors: PU.1-positive, Ikaros-positive, E2A-positive, and PAX5-positive. synonym: "large pre-B cell" BROAD [PMID:11244048] synonym: "large pre-BII cell" EXACT [] is_a: CL:0000955 ! pre-B-II cell [Term] id: CL:0000958 name: T1 B cell namespace: cell def: "A transitional stage B cell that migrates from the bone marrow into the peripheral circulation, and finally to the spleen. This cell type has the phenotype surface IgM-positive, surface IgD-negative, CD21-negative, CD23-negative, and CD62L-negative, and CD93-positive. This cell type has also been described as IgM-high, CD19-positive, B220-positive, AA4-positive, and CD23-negative." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMCID:PMC2193793, PMID:12810111] comment: T1 B cells are also reportedly CD10-negative/positive??, CD20-positive, CD24-positive, CD38-positive, CD48-positive, CD84-positive, CD150-positive, CD244-negative, and CD352-positive. synonym: "T1 B lymphocyte" EXACT [] synonym: "T1 B-cell" EXACT [] synonym: "T1 B-lymphocyte" EXACT [] synonym: "transitional stage 1 B cell" EXACT [] is_a: CL:0000818 ! transitional stage B cell [Term] id: CL:0000959 name: T2 B cell namespace: cell def: "A transitional stage B cell that has the phenotype surface IgM-positive, surface IgD-postive, CD21-positive, CD23-positive, CD62L-negative, CD93-positive and is located in the splenic B follicles. This cell type has also been described as IgM-high, CD19-positive, B220-positive, AA4-positive, and CD23-positive." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMCID:PMC2193793, PMID:12810111] comment: T2 B cells are also reportedly CD20-positive, CD24-positive, CD38-positive, CD48-positive, CD84-positive, CD150-positive, CD244-negative, and CD352-positive. synonym: "T2 B lymphocyte" EXACT [] synonym: "T2 B-cell" EXACT [] synonym: "T2 B-lymphocyte" EXACT [] synonym: "transitional stage 2 B cell" EXACT [] is_a: CL:0000818 ! transitional stage B cell relationship: develops_from CL:0000958 ! T1 B cell [Term] id: CL:0000960 name: T3 B cell namespace: cell def: "A transitional stage B cell that expresses surface IgM and IgD, and CD62L. This cell type appears to be an anergic B cell that does not proliferate upon BCR signaling, is found in the spleen and lymph nodes, and has the phenotype surface IgM-positive, surface IgD-positive, CD21-positive, CD23-positive, CD62L-positive, and CD93-positive. This cell type has also been described as IgM-low, CD19-positive, B220-positive, AA4-positive, and CD23-positive (i.e. this cell-type is distinguished from T2 cells by surface expression of IgM)." [GOC:msz, GOC:tfm, GO_REF:0000031, PMID:12810111, PMID:17174121, http://www.immgen.org/index_content.html] synonym: "An1 B cell" EXACT [PMID:17174121] synonym: "T3 B lymphocyte" EXACT [] synonym: "T3 B-cell" EXACT [] synonym: "T3 B-lymphocyte" EXACT [] synonym: "transitional stage 3 B cell" EXACT [] is_a: CL:0000818 ! transitional stage B cell relationship: develops_from CL:0000959 ! T2 B cell [Term] id: CL:0000961 name: Bm1 B cell namespace: cell def: "A follicular B cell that is IgD-positive, CD23-negative, and CD38-negative. This naive cell type is activated in the extrafollicular areas through interaction with interdigitating dendritic cells and antigen-specific CD4-positive T cells." [GOC:dsd, GOC:msz, GO_REF:0000031, PMID:17992590, PMID:18432934, PMID:8006591] comment: These cells are also reportedly CD10-negative, CD39-positive, CD44-positive, CD71-negative, CD77-negative, IgM-positive, IgG-negative, IgA-negative, and IgE-negative. synonym: "Bm1 B lymphocyte" EXACT [] synonym: "Bm1 B-cell" EXACT [] synonym: "Bm1 B-lymphocyte" EXACT [] is_a: CL:0000843 ! follicular B cell is_a: CL:0002056 ! Fraction F mature B cell relationship: develops_from CL:0000818 ! transitional stage B cell [Term] id: CL:0000962 name: Bm2 B cell namespace: cell def: "A follicular B cell that is IgD-positive and CD23-positive and CD38-positive. This naive cell type is activated in the extrafollicular areas via interaction with dendritic cells and antigen specific T cells." [GOC:dsd, GOC:msz, GO_REF:0000031, PMID:17992590, PMID:18432934, PMID:8006591] comment: These cells are also CD10-negative, CD39-positive, CD44-positive, CD71-negative, CD77-negative, IgM-positive, IgG-negative, IgA-negative, and IgE-negative. synonym: "Bm2 B lymphocyte" EXACT [] synonym: "Bm2 B-cell" EXACT [] synonym: "Bm2 B-lymphocyte" EXACT [] is_a: CL:0000843 ! follicular B cell relationship: develops_from CL:0000961 ! Bm1 B cell [Term] id: CL:0000963 name: Bm3-delta B cell namespace: cell def: "A germinal center B cell that develops from a Bm3 B cell. This cell has the phenotype IgM-negative, IgD-positive, and CD38-positive." [GOC:add, GOC:msz, GOC:tfm, GO_REF:0000031, PMID:9280752] synonym: "Bm3-delta B lymphocyte" EXACT [] synonym: "Bm3-delta B-cell" EXACT [] synonym: "Bm3-delta B-lymphocyte" EXACT [] is_a: CL:0000844 ! germinal center B cell relationship: develops_from CL:0000965 ! Bm3 B cell [Term] id: CL:0000964 name: Bm2' B cell namespace: cell def: "A germinal center B cell that founds a germinal center, and has the phenotype IgD-positive, CD38-positive, and CD23-negative." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMID:17992590, PMID:18432934, PMID:8006591] comment: Bm2' B cells are also reportedly CD10-positive, CD39-negative, CD44-negative, CD71-positive, CD77-negative, IgM-positive, IgG-negative, IgA-negative, and IgE-negative. synonym: "Bm2' B lymphocyte" EXACT [] synonym: "Bm2' B-cell" EXACT [] synonym: "Bm2' B-lymphocyte" EXACT [] synonym: "Bm2-prime B cell" EXACT [] synonym: "Bm2-prime B lymphocyte " EXACT [] synonym: "Bm2-prime B-cell " EXACT [] synonym: "Bm2-prime B-lymphocyte " EXACT [] synonym: "germinal center founder cell" RELATED [] is_a: CL:0000844 ! germinal center B cell relationship: develops_from CL:0000962 ! Bm2 B cell [Term] id: CL:0000965 name: Bm3 B cell namespace: cell def: "A germinal center B cell that is rapidly dividing and has the phenotype IgD-negative, CD38-positive, and CD77-positive. Somatic hypermutation of the immunoglobulin V gene region can occur during proliferation of this cell type." [GOC:dsd, GOC:msz, GO_REF:0000031, PMID:18432934, PMID:8006591] comment: Bm3 B cells are also reportedly CD10-positive, CD23-negative, CD39-negative, CD44-negative, CD71-positive, and CD77-positive. synonym: "Bm3 B lymphocyte" EXACT [] synonym: "Bm3 B-cell" EXACT [] synonym: "Bm3 B-lymphocyte" EXACT [] synonym: "centroblast" RELATED [PMID:8006591] is_a: CL:0000844 ! germinal center B cell relationship: develops_from CL:0000964 ! Bm2' B cell [Term] id: CL:0000966 name: Bm4 B cell namespace: cell def: "A germinal center B cell that has the phenotype CD77-negative, IgD-negative, and CD38-positive. These cells have undergone somatic mutation of the B cell receptor." [GOC:dsd, GOC:msz, GO_REF:0000031, PMID:18432934, PMID:8006591] comment: Bm4 B cells are also reportedly CD10-positive, CD23-negative, CD39-negative, CD44-positive, and CD71-positive. synonym: "Bm4 B lymphocyte" EXACT [] synonym: "Bm4 B-cell" EXACT [] synonym: "Bm4 B-lymphocyte" EXACT [] synonym: "centrocyte" RELATED [PMID:17992590] is_a: CL:0000844 ! germinal center B cell relationship: develops_from CL:0000963 ! Bm3-delta B cell [Term] id: CL:0000967 name: Bm5 B cell namespace: cell def: "A memory B cell arising in the germinal center that is IgD-negative and has undergone somatic mutation of the variable region of the immunoglobulin heavy and light chain genes." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMID:18432934, PMID:8006591] comment: Bm5 B cells are also reportedly CD10-positive, CD23-negative, CD38-negative, CD39-positive, CD44-positive, CD71-positive, and CD77-negative. synonym: "Bm5 B lymphocyte" EXACT [] synonym: "Bm5 B-cell" EXACT [] synonym: "Bm5 B-lymphocyte" EXACT [] is_a: CL:0000787 ! memory B cell relationship: develops_from CL:0000966 ! Bm4 B cell [Term] id: CL:0000968 name: Be cell namespace: cell def: "A mature B cell that produces cytokines that can influence CD4 T cell differentiation." [GOC:msz, GOC:tfm, GO_REF:0000031, PMID:11101868, PMID:20224569] synonym: "B effector cell" EXACT [] synonym: "effector B cell" EXACT [] synonym: "effector B lymphocyte" EXACT [] synonym: "effector B-cell" EXACT [] synonym: "effector B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell [Term] id: CL:0000969 name: regulatory B cell namespace: cell def: "A mature B cell that has the phenotype CD1d-positive and expresses interleukin-10. This cell type has been associated with suppression of chronic inflammatory responses and T cell responses." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, MESH:D060151, PMID:11869683, PMID:18482568, PMID:20224569, PMID:20809522] comment: Regulatory B cells reportedly represent 1-2% of the spleen and 7-8% of the peritoneal B220-positive cells in mice. They are also found in the bone marrow, lymph node, and blood of mice. These cells are also reportedly capable of secreting IL-10 and are reportedly CD5-positive, CD21-positive, CD24-positive, CD93-negative, B220-positive, IgM-positive, and IgD-positive. synonym: "B(reg)" EXACT [] synonym: "B10 cell" EXACT [] synonym: "Breg" EXACT [] synonym: "regulatory B lymphocyte" EXACT [] synonym: "regulatory B-cell" EXACT [] synonym: "regulatory B-lymphocyte" EXACT [] is_a: CL:0000785 ! mature B cell [Term] id: CL:0000970 name: unswitched memory B cell namespace: cell def: "An unswitched memory B cell is a memory B cell that has the phenotype IgM-positive and/or IgD-positive, CD27-positive, CD138-negative, IgG-negative, IgE-negative, and IgA-negative." [GOC:dsd, GOC:rhs, GO_REF:0000031, ISBN:0781765196, PMID:20933013] comment: Unswitched memory B cells are also reportedly CD48-positive, CD84-positive, CD229-positive, and CD352-positive. synonym: "unswitched memory B lymphocyte" EXACT [] synonym: "unswitched memory B-cell" EXACT [] synonym: "unswitched memory B-lymphocyte" EXACT [] is_a: CL:0000787 ! memory B cell relationship: develops_from CL:0000980 ! plasmablast [Term] id: CL:0000971 name: IgM memory B cell namespace: cell def: "An IgM memory B cell is an unswitched memory B cell with the phenotype IgM-positive and IgD-negative." [GOC:dsd, GOC:rhs, GO_REF:0000031, ISBN:0781765196, PMID:19447676] comment: IgM memory B cells are also reportedly CD1c-positive, CD95-positive, CD80-positive, CD84-positive, CD86-positive, CD150-negative, CD229-positive, CD289-positive, and CD290-positive. Transcription factors: Notch2-positive, PAX5-positive, SpiB-positive, Ets1-positive, and OBF1-positive. synonym: "IgM memory B lymphocyte" EXACT [] synonym: "IgM memory B-cell" EXACT [] synonym: "IgM memory B-lymphocyte" EXACT [] synonym: "memory IgM B cell" EXACT [] synonym: "memory IgM B lymphocyte" EXACT [] synonym: "memory IgM B-cell" EXACT [] synonym: "memory IgM B-lymphocyte" EXACT [] is_a: CL:0000970 ! unswitched memory B cell [Term] id: CL:0000972 name: class switched memory B cell namespace: cell def: "A class switched memory B cell is a memory B cell that has undergone Ig class switching and therefore is IgM-negative on the cell surface. These cells are usually CD27-positive and have either IgG, IgE, or IgA on the cell surface." [GOC:dsd, GOC:rhs, GO_REF:0000031, ISBN:0781765196, PMID:20933013] comment: Class switched memory B cells are also reportedly CD48-positive, CD229-positive, and CD352-positive. synonym: "class switched memory B lymphocyte" EXACT [] synonym: "class switched memory B-cell" EXACT [] synonym: "class switched memory B-lymphocyte" EXACT [] is_a: CL:0000787 ! memory B cell relationship: develops_from CL:0000970 ! unswitched memory B cell [Term] id: CL:0000973 name: IgA memory B cell namespace: cell def: "A class switched memory B cell that expresses IgA." [GOC:dsd, GOC:msz, GO_REF:0000031, ISBN:0781765196] comment: IgA memory B cell are also reportedly RORalpha-positive. synonym: "IgA memory B lymphocyte" EXACT [] synonym: "IgA memory B-cell" EXACT [] synonym: "IgA memory B-lymphocyte" EXACT [] synonym: "memory IgA B cell" EXACT [] synonym: "memory IgA B lymphocyte" EXACT [] synonym: "memory IgA B-cell" EXACT [] synonym: "memory IgA B-lymphocyte" EXACT [] is_a: CL:0000972 ! class switched memory B cell [Term] id: CL:0000974 name: long lived plasma cell namespace: cell def: "A fully differentiated plasma cell that lives for years, as opposed to months, secretes immunoglobulin, and has the phenotype weakly CD19-positive, CD20-negative, CD38-negative, strongly CD138-positive, MHC Class II-negative, surface immunoglobulin-negative, IgD-negative, and strongly CXCR4-positive. The majority of these cells of this type reside in the bone marrow." [GOC:msz, GOC:tfm, GO_REF:0000031, ISBN:9780781765190, PMID:16014527] is_a: CL:0000786 ! plasma cell relationship: develops_from CL:0000975 ! short lived plasma cell [Term] id: CL:0000975 name: short lived plasma cell namespace: cell def: "A fully differentiated plasma cell that lives for months." [GOC:msz, GO_REF:0000031, PMID:16014527] is_a: CL:0000786 ! plasma cell relationship: develops_from CL:0000980 ! plasmablast [Term] id: CL:0000976 name: IgA short lived plasma cell namespace: cell def: "A short lived plasma cell that secretes IgA. These cells may be found in the bone marrow as well as in the mucosal immune system." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000975 ! short lived plasma cell [Term] id: CL:0000977 name: IgG short lived plasma cell namespace: cell def: "A short lived plasma cell that secretes IgG." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000975 ! short lived plasma cell [Term] id: CL:0000978 name: IgM short lived plasma cell namespace: cell def: "A short lived plasma cell that secretes IgM." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000975 ! short lived plasma cell [Term] id: CL:0000979 name: IgG memory B cell namespace: cell def: "An IgG memory B cell is a class switched memory B cell that is class switched and expresses IgG on the cell surface." [GOC:rhs, GO_REF:0000031, ISBN:0781765196] synonym: "IgG memory B lymphocyte" EXACT [] synonym: "IgG memory B-cell" EXACT [] synonym: "IgG memory B-lymphocyte" EXACT [] synonym: "memory IgG B cell" EXACT [] synonym: "memory IgG B lymphocyte" EXACT [] synonym: "memory IgG B-cell" EXACT [] synonym: "memory IgG B-lymphocyte" EXACT [] is_a: CL:0000972 ! class switched memory B cell [Term] id: CL:0000980 name: plasmablast namespace: cell def: "An activated mature (naive or memory) B cell that is secreting immunoglobulin, typified by being CD27-positive, CD38-positive, CD138-negative." [GOC:dsd, GOC:msz, GOC:tfm, GO_REF:0000031, PMCID:PMC2673126] comment: Plasmablasts are also reportedly CD48-positive, CD63-positive, CD229-positive, CD270-positive, CD319-positive, CD352-positive, CD361-positive, and IgD-negative. xref: FMA:84371 is_a: CL:0000785 ! mature B cell is_a: CL:0000946 ! antibody secreting cell relationship: develops_from CL:0000785 ! mature B cell [Term] id: CL:0000981 name: double negative memory B cell namespace: cell def: "A memory B cell with the phenotype IgD-negative and CD27-negative." [GOC:msz, GOC:tfm, GO_REF:0000031] synonym: "dn memory B cell" EXACT [] synonym: "dn memory B lymphocyte" EXACT [] synonym: "dn memory B-cell" EXACT [] synonym: "dn memory B-lymphocyte" EXACT [] synonym: "double negative memory B lymphocyte" EXACT [] synonym: "double negative memory B-cell" EXACT [] synonym: "double negative memory B-lymphocyte" EXACT [] is_a: CL:0000787 ! memory B cell [Term] id: CL:0000982 name: IgG plasmablast namespace: cell def: "A plasmablast that secretes IgG." [GOC:msz, GO_REF:0000031] is_a: CL:0000980 ! plasmablast [Term] id: CL:0000983 name: IgM plasmablast namespace: cell def: "A plasmablast that secretes IgM." [GOC:msz, GO_REF:0000031] is_a: CL:0000980 ! plasmablast [Term] id: CL:0000984 name: IgA plasmablast namespace: cell def: "A plasmablast that secretes IgA." [GOC:msz, GO_REF:0000031] is_a: CL:0000980 ! plasmablast [Term] id: CL:0000985 name: IgG plasma cell namespace: cell def: "A fully differentiated plasma cell that secretes IgG." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000974 ! long lived plasma cell [Term] id: CL:0000986 name: IgM plasma cell namespace: cell def: "A fully differentiated plasma cell that secretes IgM." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000974 ! long lived plasma cell [Term] id: CL:0000987 name: IgA plasma cell namespace: cell def: "A fully differentiated plasma cell that secretes IgA." [GOC:msz, GO_REF:0000031, ISBN:781735149] is_a: CL:0000974 ! long lived plasma cell [Term] id: CL:0000988 name: hematopoietic cell namespace: cell def: "A cell of a hematopoietic lineage." [GOC:add, GO_REF:0000031] synonym: "haematopoietic cell" RELATED [] synonym: "haemopoietic cell" RELATED [] synonym: "hemopoietic cell" RELATED [] xref: BTO:0000574 xref: FMA:70366 xref: FMA:83598 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000989 name: CD11c-low plasmacytoid dendritic cell namespace: cell def: "CD11c-low plasmacytoid dendritic cell is a leukocyte that is CD11c-low, CD45R-positive, GR1-positive and CD11b-negative." [GOC:amm, GOC:dsd, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000001)(PMID:19243617). These cells are CD281-positive (TLR1), CD282-positive (TLR2), CD285-positive (TLR5), CD286-positive (TLR6), and CD288-positive (TLR8). is_a: CL:0000784 ! plasmacytoid dendritic cell [Term] id: CL:0000990 name: conventional dendritic cell namespace: cell def: "Conventional dendritic cell is a dendritic cell that is CD11c-high." [GOC:amm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000003)(PMID:19243617) These cells are also CD20-negative, MHCII-positive. synonym: "DC1" EXACT [] synonym: "cDC" EXACT [] synonym: "dendritic reticular cell" EXACT [] synonym: "interdigitating cell" BROAD [] synonym: "type 1 DC" EXACT [] synonym: "veiled cell" BROAD [] xref: FMA:84191 is_a: CL:0000451 ! dendritic cell [Term] id: CL:0000991 name: CD11c-negative plasmacytoid dendritic cell namespace: cell def: "CD11c-negative plasmacytoid dendritic cell is a leukocyte is CD11c-negative, CD45RA-positive, CD85g-positive(ILT7), CD123-positive, CD303-positive." [GOC:amm, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000004)(PMID:19243617). These cells are CD281-positive (TLR1), CD286-positive (TLR6), and CD290-positive (TLR10). synonym: "CD303-positive dendritic cell" EXACT [] is_a: CL:0000784 ! plasmacytoid dendritic cell [Term] id: CL:0000992 name: immature CD11c-low plasmacytoid dendritic cell namespace: cell def: "Immature CD11c-low plasmacytoid dendritic cell is a CD11c-low plasmacytoid dendritic cell that is CD80-low and CD86-low." [GOC:amm, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000006)(PMID:19243617). is_a: CL:0000989 ! CD11c-low plasmacytoid dendritic cell relationship: develops_from CL:0001029 ! common dendritic progenitor [Term] id: CL:0000993 name: mature CD11c-low plasmacytoid dendritic cell namespace: cell def: "Mature CD11c-low plasmacytoid dendritic cell is a CD11c-low plasmacytoid dendritic cell that is CD83-high and is CD80-positive, CD86-positive, and MHCII-positive." [GOC:amm, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000007)(PMID:19243617). is_a: CL:0000989 ! CD11c-low plasmacytoid dendritic cell relationship: develops_from CL:0000992 ! immature CD11c-low plasmacytoid dendritic cell [Term] id: CL:0000994 name: immature CD11c-negative plasmacytoid dendritic cell namespace: cell def: "Immature CD11c-negative plasmacytoid dendritic cell is a CD11c-negative plasmacytoid dendritic cell is CD80-negative, CD86-low and MHCII-low." [GOC:amm, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000008)(PMID:19243617). is_a: CL:0000991 ! CD11c-negative plasmacytoid dendritic cell relationship: develops_from CL:0000995 ! CD34-positive, CD38-positive common myeloid progenitor OR CD34-positive, CD38-positive common lymphoid progenitor [Term] id: CL:0000995 name: CD34-positive, CD38-positive common myeloid progenitor OR CD34-positive, CD38-positive common lymphoid progenitor namespace: cell comment: Originally described in the dendritic cell ontology (DC_CL:1100000)(PMID:19243617). synonym: "CD71-positive common myeloid precursor OR CD7-negative lymphoid precursor OR CD7-positive lymphoid" BROAD [] is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell union_of: CL:0001021 ! CD34-positive, CD38-positive common lymphoid progenitor union_of: CL:0001026 ! CD34-positive, CD38-positive common myeloid progenitor [Term] id: CL:0000996 name: mature CD11c-negative plasmacytoid dendritic cell namespace: cell def: "Mature CD11c-negative plasmacytoid dendritic cell is a CD11c-negative plasmacytoid dendritic cell is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GO_REF:0000031, PMID:15771572, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000009)(PMID:19243617). is_a: CL:0000991 ! CD11c-negative plasmacytoid dendritic cell relationship: develops_from CL:0000994 ! immature CD11c-negative plasmacytoid dendritic cell [Term] id: CL:0000997 name: immature CD8_alpha-negative CD11b-positive dendritic cell namespace: cell def: "Immature CD8_alpha-negative CD11b-positive dendritic cell is a CD8_alpha-negative CD11b-positive dendritic cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000010)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0000999 ! CD4-positive CD11b-positive dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0000998 name: CD8_alpha-negative CD11b-negative dendritic cell namespace: cell def: "CD8_alpha-negative CD11b-negative dendritic cell is a conventional dendritic cell that is CD11b-negative, CD4-negative CD8_alpha-negative and is CD205-positive. This cell is able to cross- present antigen to CD8-alpha-positive T cells." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585, http:www.immgen.org/index_content.html] comment: These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000011)(PMID:19243617). synonym: "DC.8-4-11b-" EXACT [] synonym: "triple negative dendritic cell" EXACT [] is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0000999 name: CD4-positive CD11b-positive dendritic cell namespace: cell def: "CD8_alpha-negative CD11b-positive dendritic cell is a conventional dendritic cell that is CD11b-positive, CD4-positive and is CD205-negative and CD8_alpha-negative." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: Defined as having a disposition to secreting anti-inflammatory cytokines. These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000012)(PMID:19243617). synonym: "DC.4+" EXACT [] is_a: CL:0002465 ! CD11b-positive dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0001000 name: CD8_alpha-positive CD11b-negative dendritic cell namespace: cell def: "CD8_alpha-positive CD11b-negative dendritic cell is a conventional dendritic cell that is CD11b-negative, CD4-negative and is CD205-positive and CD8_alpha-positive." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: Cells are defined as having a disposition to secreting inflammatory cytokines. Originally described in the dendritic cell ontology (DC_CL:0000013)(PMID:19243617). synonym: "DC.8+" EXACT [] is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0001001 name: immature CD8_alpha-negative CD11b-negative dendritic cell namespace: cell def: "Immature CD8_alpha-negative CD11b-negative dendritic cell is a CD8_alpha-negative CD11b-negative dendritic cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000014)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0000998 ! CD8_alpha-negative CD11b-negative dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0001002 name: mature CD8_alpha-negative CD11b-negative dendritic cell namespace: cell def: "Mature CD8_alpha-negative CD11b-negative dendritic cell is a CD8_alpha-negative CD11b-negative dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: These markers are associated with mouse cells. Defined as having a disposition to secretion of anti-inflammatory cytokines. Originally described in the dendritic cell ontology (DC_CL:0000015)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0000998 ! CD8_alpha-negative CD11b-negative dendritic cell relationship: develops_from CL:0001001 ! immature CD8_alpha-negative CD11b-negative dendritic cell [Term] id: CL:0001003 name: mature CD8_alpha-negative CD11b-positive dendritic cell namespace: cell def: "Mature CD8_alpha-negative CD11b-positive dendritic cell is a CD8_alpha-negative CD11b-positive dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000016)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0000999 ! CD4-positive CD11b-positive dendritic cell relationship: develops_from CL:0000997 ! immature CD8_alpha-negative CD11b-positive dendritic cell [Term] id: CL:0001004 name: immature CD8_alpha-positive CD11b-negative dendritic cell namespace: cell def: "Immature CD8_alpha-positive CD11b-negative dendritic cell is a CD8_alpha-positive CD11b-negative dendritic cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000017)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0001000 ! CD8_alpha-positive CD11b-negative dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0001005 name: mature CD8_alpha-positive CD11b-negative dendritic cell namespace: cell def: "Mature CD8_alpha-positive CD11b-negative dendritic cell is a CD8_alpha-positive CD11b-negative dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000018)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0001000 ! CD8_alpha-positive CD11b-negative dendritic cell relationship: develops_from CL:0001004 ! immature CD8_alpha-positive CD11b-negative dendritic cell [Term] id: CL:0001006 name: dermal dendritic cell namespace: cell def: "Dermal dendritic cell is a conventional dendritic cell that is CD11b-positive, CD205-positive and CD8 alpha-negative." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000019)(PMID:19243617). These cells are also CD281-positive (TLR1), CD282-positive (TLR2), CD283-positive (TLR3), CD284-positive (TLR4), CD285-positive (TLR5), CD288-positive (TLR8), and CD289-positive (TLR9). xref: BTO:0004812 is_a: CL:0002465 ! CD11b-positive dendritic cell relationship: part_of UBERON:0002067 ! dermis [Term] id: CL:0001007 name: interstitial dendritic cell namespace: cell def: "Interstitial dendritic cell is a conventional dendritic cell that is CD11b-positive, CD1a-positive, CD206-positive, CD209-positive, and CD36-positive." [GOC:amm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000020)(PMID:19243617). These cells are also CD281-positive (TLR1), CD282-positive (TLR2), CD283-positive (TLR3), CD284-positive (TLR4), CD286-positive (TLR6), CD288-positive (TLR8), and CD290-positive (TLR10). is_a: CL:0002465 ! CD11b-positive dendritic cell [Term] id: CL:0001008 name: Kit and Sca1-positive hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell that has plasma membrane part Kit-positive, SCA-1-positive, CD150-positive and CD34-negative." [GOC:add, GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17952047, PMID:19022770] comment: Cell markers are associated with mouse hematopoietic stem cell. Originally described in the dendritic cell ontology (DC_CL:0000043)(PMID:19243617). synonym: "LSK stem cell" EXACT [] synonym: "Sca1-positive hematopoietic stem cell" EXACT [] is_a: CL:0000037 ! hematopoietic stem cell [Term] id: CL:0001009 name: immature dermal dendritic cell namespace: cell def: "Immature dermal dendritic cell is a dermal dendritic cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000022)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0001006 ! dermal dendritic cell relationship: develops_from CL:0001029 ! common dendritic progenitor [Term] id: CL:0001010 name: mature dermal dendritic cell namespace: cell def: "Mature dermal dendritic cell is a dermal dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: Originally described in the dendritic cell ontology (DC_CL:0000023)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0001006 ! dermal dendritic cell relationship: develops_from CL:0001009 ! immature dermal dendritic cell [Term] id: CL:0001011 name: immature interstitial dendritic cell namespace: cell def: "Immature interstitial dendritic cell is a interstitial dendritic cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000024)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0001007 ! interstitial dendritic cell relationship: develops_from CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor [Term] id: CL:0001012 name: CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor namespace: cell comment: Originally described in the dendritic cell ontology (DC_CL:1110000)(PMID:19243617). is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell union_of: CL:0000557 ! granulocyte monocyte progenitor cell union_of: CL:0001027 ! CD7-negative lymphoid progenitor cell [Term] id: CL:0001013 name: mature interstitial dendritic cell namespace: cell def: "Mature interstitial dendritic cell is a interstitial dendritic cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000025)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0001007 ! interstitial dendritic cell relationship: develops_from CL:0001011 ! immature interstitial dendritic cell [Term] id: CL:0001014 name: CD1a-positive Langerhans cell namespace: cell def: "CD1a-positive Langerhans cell is a Langerhans_cell that is CD1a-positive and CD324-positive." [GOC:amm, GO_REF:0000031, PMID:17850486] comment: These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000026)(PMID:19243617). These cells are also CD281-positive (TLR1), CD282-positive (TLR2), CD284-positive (TLR4), CD286-positive (TLR6), CD287-positive (TLR7), and CD290-positive (TLR10). When activated, these cells are capable of producing IL-6, IL-8, and IL-15. synonym: "CD1a-LC" EXACT [] is_a: CL:0000453 ! Langerhans cell [Term] id: CL:0001015 name: CD8_alpha-low Langerhans cell namespace: cell def: "CD8_alpha-low Langerhans cell is a Langerhans cell that is CD205-high and is CD8_alpha-low." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000027)(PMID:19243617). They are also CD205-high, CD281-positive (TLR1), CD282-positive (TLR2), CD283-positive (TLR3), CD285-positive (TLR5), CD286-positive (TLR6), and CD289-positive (TLR9). is_a: CL:0000453 ! Langerhans cell [Term] id: CL:0001016 name: immature CD1a-positive Langerhans cell namespace: cell def: "Immature CD1a-positive Langerhans cell is a CD1a-positive Langerhans cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000028)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0001014 ! CD1a-positive Langerhans cell [Term] id: CL:0001017 name: mature CD1a-positive Langerhans cell namespace: cell def: "Mature CD1a-positive Langerhans cell is a CD1a-positive Langerhans cell that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000029)(PMID:19243617). When activated, these cells produce IL-6, IL-8, and IL-15. is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0001014 ! CD1a-positive Langerhans cell relationship: develops_from CL:0001016 ! immature CD1a-positive Langerhans cell [Term] id: CL:0001018 name: immature CD8_alpha-low Langerhans cell namespace: cell def: "Immature CD8_alpha-low Langerhans cell is a CD8_alpha-low Langerhans cell that is CD80-low, CD86-low, and MHCII-low." [GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585] comment: These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000030)(PMID:19243617). is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0001015 ! CD8_alpha-low Langerhans cell relationship: develops_from CL:0001019 ! CD115-positive monocyte OR common dendritic progenitor [Term] id: CL:0001019 name: CD115-positive monocyte OR common dendritic progenitor namespace: cell comment: Originally described in the dendritic cell ontology (DC_CL:1111000)(PMID:19243617). is_a: CL:0002031 ! hematopoietic lineage restricted progenitor cell union_of: CL:0001022 ! CD115-positive monocyte union_of: CL:0001029 ! common dendritic progenitor [Term] id: CL:0001020 name: mature CD8_alpha-low Langerhans cell namespace: cell def: "Mature CD8_alpha-low Langerhans cell is a CD8_alpha-low Langerhans cell that that is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:amm, GO_REF:0000031, PMCID:PMC2346585] comment: These markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000031)(PMID:19243617). is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0001015 ! CD8_alpha-low Langerhans cell relationship: develops_from CL:0001018 ! immature CD8_alpha-low Langerhans cell [Term] id: CL:0001021 name: CD34-positive, CD38-positive common lymphoid progenitor namespace: cell def: "A common lymphoid progenitor that is CD10-positive, CD45RA-positive, CD34-positive and CD38-positive." [GOC:add, GOC:amm, GOC:tfm, GO_REF:0000031, PMCID:PMC2346585, PMID:19022770] comment: These markers are associated with human common lymphoid progenitors. Originally described in the dendritic cell ontology (DC_CL:0000032)(PMID:19243617). synonym: "CD10-positive common lymphocyte precursor" EXACT [] synonym: "CD10-positive common lymphocyte progenitor" EXACT [] synonym: "CD10-positive common lymphoid precursor" EXACT [] is_a: CL:0000051 ! common lymphoid progenitor relationship: develops_from CL:0002043 ! CD34-positive, CD38-negative multipotent progenitor cell [Term] id: CL:0001022 name: CD115-positive monocyte namespace: cell def: "CD115-positive monocyte is a monocyte that is CD115-positive and CD11b-positive." [GOC:add, GOC:amm, GO_REF:0000031, PMID:17952047] comment: These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000033)(PMID:19243617). is_a: CL:0000576 ! monocyte relationship: develops_from CL:0002001 ! CD34-positive, CD38-positive granulocyte monocyte progenitor [Term] id: CL:0001023 name: Kit-positive, CD34-positive common myeloid progenitor namespace: cell def: "A common myeloid progenitor that is Kit-positive and CD34-positive, Il7ra-negative, and is SCA1-low and Fcgr2-low and Fcgr3-low." [GOC:add, GOC:amm, GOC:tfm, GO_REF:0000031, PMID:1261582, PMID:17952047, http://www.immgen.org/index_content.html] comment: Markers are associated with mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000034)(PMID:19243617). synonym: "CD117-positive common myeloid precursor" BROAD [] is_a: CL:0000049 ! common myeloid progenitor relationship: develops_from CL:0002035 ! Slamf1-negative multipotent progenitor cell [Term] id: CL:0001024 name: CD34-positive, CD38-negative hematopoietic stem cell namespace: cell def: "CD133-positive hematopoietic stem cell is a hematopoietic stem cell that is CD34-positive, CD90-positive, and CD133-positive." [GOC:add, GOC:amm, GOC:tfm, GO_REF:0000031, PMID:10430905, PMID:11750107, PMID:16551251, PMID:20024907, PMID:9389721] comment: Cell markers are associated with human hematopoietic stem cells. Originally described in the dendritic cell ontology (DC_CL:0000035)(PMID:19243617). synonym: "CD133-positive hematopoietic stem cell" EXACT [PMID:16140871] xref: FMA:86475 is_a: CL:0000037 ! hematopoietic stem cell [Term] id: CL:0001025 name: Kit-positive, Sca1-positive common lymphoid progenitor namespace: cell def: "A common lymphoid progenitor that is Kit-low, FLT3-positive, IL7ralpha-positive, and SCA1-low." [GOC:add, GOC:amm, GOC:tfm, GO_REF:0000031, PMID:17952047, http://www.immgen.org/index_content.html] comment: Markers are associated with mouse cells. synonym: "CD217-positive common lymphocyte precursor" EXACT [] synonym: "CD217-positive common lymphocyte progenitor" EXACT [] synonym: "CD217-positive common lymphoid precursor" EXACT [] is_a: CL:0000051 ! common lymphoid progenitor relationship: develops_from CL:0000936 ! early lymphoid progenitor [Term] id: CL:0001026 name: CD34-positive, CD38-positive common myeloid progenitor namespace: cell def: "A common myeloid progenitor that is CD34-positive, CD38-positive, IL3ra-low, CD10-negative, CD7-negative, CD45RA-negative, and IL-5Ralpha-negative." [GOC:add, GOC:amm, GO_REF:0000031, PMCID:PMC2626675, PMID:16551251] comment: Markers are associated with human cell type. Originally described in the dendritic cell ontology (DC_CL:0000038)(PMID:19243617). synonym: "CD71-positive common myeloid precursor" NARROW [] is_a: CL:0000049 ! common myeloid progenitor relationship: develops_from CL:0002043 ! CD34-positive, CD38-negative multipotent progenitor cell [Term] id: CL:0001027 name: CD7-negative lymphoid progenitor cell namespace: cell def: "CD7-negative lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-negative and CD45RA-negative." [GOC:amm, GO_REF:0000031, PMID:16551251] comment: These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000039)(PMID:19243617). synonym: "CD7-negative lymphoid precursor" EXACT [] is_a: CL:0000051 ! common lymphoid progenitor relationship: develops_from CL:0001021 ! CD34-positive, CD38-positive common lymphoid progenitor [Term] id: CL:0001028 name: CD7-positive lymphoid progenitor cell namespace: cell def: "CD7-positive lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-positive and is CD45RA-negative." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:16551251, PMID:19491395] comment: These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000040)(PMID:19243617). synonym: "CD7-positive lymphoid precursor" EXACT [] is_a: CL:0000051 ! common lymphoid progenitor relationship: develops_from CL:0001027 ! CD7-negative lymphoid progenitor cell [Term] id: CL:0001029 name: common dendritic progenitor namespace: cell def: "Common dendritic precursor is a hematopoietic progenitor cell that is CD117-low, CD135-positive, CD115-positive and lacks plasma membrane parts for hematopoietic lineage markers." [GOC:amm, GOC:tfm, GO_REF:0000031, PMID:16551251, PMID:17922016, PMID:19286519] comment: Surface markers are for mouse cells. Originally described in the dendritic cell ontology (DC_CL:0000041) CDP are reportedly CD2-negative, CD3-negative, CD4-negative, CD5-negative, CD8a-negative, CD11c-positive, CD14-negative, CD19-negative, CD20-negative, CD56-negative, B220-negative, Ly6g-negative, MHCII-positive, and Ter119-negative. (PMID:19243617). synonym: "CDP" EXACT [PMID:21219184] synonym: "common dendritic precursor" EXACT [] synonym: "pro-DCs" EXACT [PMID:21219184] is_a: CL:0002031 ! hematopoietic lineage restricted progenitor cell relationship: develops_from CL:0002009 ! macrophage dendritic cell progenitor [Term] id: CL:0001030 name: CD117-positive common myeloid progenitor OR CD217-positive common lymphoid progenitor namespace: cell comment: Originally described in the dendritic cell ontology (DC_CL:1111100)(PMID:19243617). is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell union_of: CL:0001023 ! Kit-positive, CD34-positive common myeloid progenitor union_of: CL:0001025 ! Kit-positive, Sca1-positive common lymphoid progenitor [Term] id: CL:0001031 name: cerebellar granule cell namespace: cell def: "Granule cell that is part of the cerebellum." [GOC:mah] xref: BTO:0004278 is_a: CL:0000120 ! granule cell relationship: part_of UBERON:0002037 ! cerebellum [Term] id: CL:0001032 name: cortical granule cell namespace: cell def: "Granule cell that is part of the cerebral cortex." [GOC:mah] is_a: CL:0000120 ! granule cell is_a: CL:0002609 ! neuron of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: CL:0001033 name: hippocampal granule cell namespace: cell def: "Granule cell that is part of the hippocampus." [GOC:mah] is_a: CL:0001032 ! cortical granule cell is_a: CL:0002608 ! hippocampal neuron relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: CL:0001034 name: cell in vitro namespace: cell def: "A cell that has been removed from a natural environment, and placed in a controlled artificial environment for use in some investigation. Includes multicellular organism cells removed from an organism, and unicellular organisms removed from a natural environment." [ReO:mhb] comment: 'In vitro', translating literally to 'in glass', typically refers to a controlled, often sterile, laboratory setting where cells or other specimens are placed by some agent for the purpose of studying or manipulating them as part of some research investigation. This term is intended to contrast with 'native', which refers to cells or other biological entities that are found in a natural setting. is_a: CL:0000000 ! cell [Term] id: CL:0001035 name: bone cell namespace: cell def: "A connective tissue cell found in bone." [GOC:add, GO_REF:0000034] is_a: CL:0000548 ! animal cell relationship: part_of UBERON:0001474 ! bone element [Term] id: CL:0001041 name: CD8-positive, CXCR3-positive, alpha-beta regulatory T cell namespace: cell def: "A CD8-positive alpha-beta-positive T cell with the phenotype CXCR3-positive and having suppressor function. They are capable of producing IL-10, suppressing proliferation, and suppressing IFN-gamma production." [GOC:dsd, PMID:19609979] comment: These cells may be the human equivalent of murine CD8-positive, CD122-positive alpha-beta regulatory T cell. They are also found in the CD45RA-negative and CD62L-positive fraction. synonym: "CD8+CXCR3+ T cell" EXACT [] synonym: "CD8+CXCR3+ T lymphocyte" EXACT [] synonym: "CD8+CXCR3+ T(reg)" EXACT [] synonym: "CD8+CXCR3+ T-cell" EXACT [] synonym: "CD8+CXCR3+ T-lymphocyte " EXACT [] synonym: "CD8+CXCR3+ Treg" EXACT [] synonym: "CD8-positive, CXCR3-positive, T(reg)" EXACT [] synonym: "CD8-positive, CXCR3-positive, Treg" EXACT [] synonym: "CD8-positive, CXCR3-positive, alpha-beta regulatory T lymphocyte" EXACT [] synonym: "CD8-positive, CXCR3-positive, alpha-beta regulatory T-cell" EXACT [] synonym: "CD8-positive, CXCR3-positive, alpha-beta regulatory T-lymphocyte" EXACT [] is_a: CL:0000795 ! CD8-positive, alpha-beta regulatory T cell [Term] id: CL:0001042 name: T-helper 22 cell namespace: cell def: "CD4-positive, alpha-beta T cell that produces IL-22." [GOC:dsd, PMID:19578368, PMID:19578369] comment: TH22 cells are also reportedly CCR4-positive, CCR6-positive, CCR10-positive, CXCR3-negative. TH22 cells are reportedly capable of secreting IL-13. synonym: "T(H)-22 cell" EXACT [] synonym: "Th22 T cell" EXACT [] synonym: "Th22 T lymphocyte" EXACT [] synonym: "Th22 T-cell" EXACT [] synonym: "Th22 T-lymphocyte" EXACT [] synonym: "Th22 cell" EXACT [] synonym: "helper T cell type 22" EXACT [] is_a: CL:0000492 ! CD4-positive helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0001658 name: visual pigment cell (sensu Nematoda and Protostomia) namespace: cell xref: FBbt:00004230 is_a: CL:0000149 ! visual pigment cell is_a: CL:0000341 ! pigment cell (sensu Nematoda and Protostomia) [Term] id: CL:0002000 name: Kit-positive erythroid progenitor cell namespace: cell def: "An erythroid progenitor cell is Kit-positive, Ly6A-negative, CD41-negative, CD127-negative, and CD123-negative. This cell type is also described as being lin-negative, Kit-positive, CD150-negative, CD41-negative, CD105-positive, and FcgR-negative." [GOC:ak, GOC:tfm, PMID:19805084, http://www.immgen.org/index_content.html] comment: Markers found on mouse cells. is_a: CL:0000038 ! erythroid progenitor cell relationship: develops_from CL:0002006 ! Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell [Term] id: CL:0002001 name: CD34-positive, CD38-positive granulocyte monocyte progenitor namespace: cell def: "A granulocyte monocyte progenitor is CD34-positive, CD38-positive, IL-3receptor-alpha-positive and is CD45RA-negative." [GOC:tfm, PMID:12615892, PMID:19022770] comment: Markers are for human cells. According to different research groups, CD45RA is present or absent on this cell population. is_a: CL:0000557 ! granulocyte monocyte progenitor cell relationship: develops_from CL:0001026 ! CD34-positive, CD38-positive common myeloid progenitor [Term] id: CL:0002002 name: Kit-positive granulocyte monocyte progenitor namespace: cell def: "A granulocyte monocyte progenitor that is Kit-positive, CD34-positive, Fc-gamma receptor II/II-positive, and is Sca-1-negative, Il7ra-negative, Cxc3r1-negative, and CD90-negative." [GOC:tfm, PMID:12615892, PMID:16322423, PMID:19022770, PMID:19273628, http://www.immgen.org/index_content.html] comment: Markers are found on mouse cells. is_a: CL:0000557 ! granulocyte monocyte progenitor cell relationship: develops_from CL:0001023 ! Kit-positive, CD34-positive common myeloid progenitor [Term] id: CL:0002003 name: CD34-positive, GlyA-negative erythroid progenitor cell namespace: cell def: "An erythroid progenitor cell that is CD34-positive and is GlyA-negative." [GOC:ak, GOC:tfm, PMID:19621348] comment: Cell markers associated with human cells. xref: FMA:83517 is_a: CL:0000038 ! erythroid progenitor cell relationship: develops_from CL:0002005 ! CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell [Term] id: CL:0002004 name: CD34-negative, GlyA-negative proerythroblast namespace: cell def: "A proerythoblast that is CD34-negative and GlyA-negative." [GOC:ak, GOC:tfm, PMID:19621348] comment: Cell surface markers are associated with human cells. is_a: CL:0000547 ! proerythroblast relationship: develops_from CL:0002003 ! CD34-positive, GlyA-negative erythroid progenitor cell [Term] id: CL:0002005 name: CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell namespace: cell def: "A megakaryocyte erythroid progenitor cell is CD34-positive, CD38-positive and is IL3-receptor alpha-negative and CD45RA-negative." [GOC:tfm, PMID:12615892, PMID:190227700] comment: Markers are associated with human cell type. is_a: CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0002006 name: Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell namespace: cell def: "A megakaryocyte erythroid progenitor cell that is Kit-positive and is Sca1-negative, CD34-negative, CD90-negative, IL7r-alpha-negative and Fcgr II/III-low." [GOC:tfm, PMID:12615892, PMID:19022770, http://www.immgen.org/index_content.html] comment: Markers are associated with mouse cells. is_a: CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0002007 name: Kit-low, CD34-positive eosinophil progenitor cell namespace: cell def: "A lineage marker-negative, CD34-positive, IL5r-alpha-positive, and Sca1-negative eosinophil progenitor cell." [GOC:tfm, PMID:17582345] comment: Markers are found on mouse cells. is_a: CL:0000611 ! eosinophil progenitor cell relationship: develops_from CL:0002002 ! Kit-positive granulocyte monocyte progenitor [Term] id: CL:0002008 name: CD34-positive, CD38-positive eosinophil progenitor cell namespace: cell def: "A lineage marker-negative, CD34-positive, CD38-positive, IL3r-alpha-positive, IL5r-alpha-positive, and CD45RA-negative eosinophil progenitor cell." [GOC:tfm, PMCID:PMC2626675] comment: Markers are associated with human cells. is_a: CL:0000611 ! eosinophil progenitor cell relationship: develops_from CL:0002001 ! CD34-positive, CD38-positive granulocyte monocyte progenitor [Term] id: CL:0002009 name: macrophage dendritic cell progenitor namespace: cell def: "A progenitor cell that can give rise to plasmacytoid and myeloid dendritic cells, and to monocytes and macrophages." [GOC:tfm, PMID:19273628] synonym: "MDP" EXACT [] is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell [Term] id: CL:0002010 name: pre-conventional dendritic cell namespace: cell def: "A lin-negative, MHC-II-negative, CD11c-positive, FLT3-positive cell with intermediate expression of SIRP-alpha." [GOC:tfm] is_a: CL:0002031 ! hematopoietic lineage restricted progenitor cell relationship: develops_from CL:0001029 ! common dendritic progenitor [Term] id: CL:0002011 name: Kit-positive macrophage dendritic cell progenitor namespace: cell def: "A progenitor cell that can give rise to plasmacytoid and myeloid dendritic cells, and to monocytes and macrophages. Marker for this cell is Kit-high, CD115-positive, CD135-positive, Cx3cr1-positive, and is Il7ra-negative." [GOC:tfm, PMID:19273628] comment: Markers are associated with mouse cells. synonym: "murine MDP" EXACT [] is_a: CL:0002009 ! macrophage dendritic cell progenitor relationship: develops_from CL:0002002 ! Kit-positive granulocyte monocyte progenitor [Term] id: CL:0002012 name: Kit-low proerythroblast namespace: cell def: "A proerythoblast that is Kit-low, Lyg76-positive, and CD71-positive." [GOC:ak, GOC:tfm, PMID:19805084] comment: Markers are associated with mouse cells. is_a: CL:0000547 ! proerythroblast relationship: develops_from CL:0002000 ! Kit-positive erythroid progenitor cell [Term] id: CL:0002013 name: GlyA-positive basophillic erythroblast namespace: cell def: "A basophilic erythroblast that is GlyA-positive." [GOC:ak, GOC:tfm, PMID:1638021] comment: Markers are associated with human cells. is_a: CL:0000549 ! basophilic erythroblast relationship: develops_from CL:0002004 ! CD34-negative, GlyA-negative proerythroblast [Term] id: CL:0002014 name: Kit-negative, Ly-76 high basophilic erythroblast namespace: cell def: "A basophilic erythroblast that is Lyg 76-high and is Kit-negative." [GOC:ak, GOC:tfm, PMID:19805084] comment: Cell surface markers are associated with mouse cells. is_a: CL:0000549 ! basophilic erythroblast relationship: develops_from CL:0002012 ! Kit-low proerythroblast [Term] id: CL:0002015 name: Kit-negative, Ly-76 high polychromatophilic erythroblast namespace: cell def: "A polychromatophilic erythroblast that is Lyg 76-high and is Kit-negative." [GOC:ak, GOC:tfm, PMID:19805084] synonym: "late basophilic and polychromatophilic erythroblast" BROAD [] is_a: CL:0000550 ! polychromatophilic erythroblast relationship: develops_from CL:0002014 ! Kit-negative, Ly-76 high basophilic erythroblast [Term] id: CL:0002016 name: CD71-low, GlyA-positive polychromatic erythroblast namespace: cell def: "A polychromatiic erythroblast that is Gly-A-positive and CD71-low." [GOC:ak, GOC:tfm, PMID:1638021] comment: Cell surface markers are associated with human cells. is_a: CL:0000550 ! polychromatophilic erythroblast relationship: develops_from CL:0002013 ! GlyA-positive basophillic erythroblast [Term] id: CL:0002017 name: Kit-negative, Ly-76 high orthochromatophilic erythroblasts namespace: cell def: "An orthochromatophilic erythroblast that is ter119-high, CD71-low, and Kit-negative." [GOC:ak, GOC:tfm, PMID:19805084] comment: Cell surface markers associated with mouse cells. is_a: CL:0000552 ! orthochromatic erythroblast relationship: develops_from CL:0002015 ! Kit-negative, Ly-76 high polychromatophilic erythroblast [Term] id: CL:0002018 name: CD71-negative, GlyA-positive orthochromatic erythroblast namespace: cell def: "An erythroblast that is GlyA-positive and CD71-negative." [GOC:ak, GOC:tfm, PMID:1638021] comment: Markers associated with human cells. is_a: CL:0000552 ! orthochromatic erythroblast relationship: develops_from CL:0002016 ! CD71-low, GlyA-positive polychromatic erythroblast [Term] id: CL:0002019 name: Ly-76 high reticulocyte namespace: cell def: "A reticulocyte that is Ly76-high and is Kit-negative." [GOC:ak, GOC:tfm, PMID:18539294] comment: Marker associated with mouse cells. is_a: CL:0002422 ! enucleated reticulocyte relationship: develops_from CL:0002017 ! Kit-negative, Ly-76 high orthochromatophilic erythroblasts [Term] id: CL:0002020 name: GlyA-positive reticulocytes namespace: cell def: "A reticulocyte that is GlyA-positive." [GOC:ak, GOC:tfm, PMID:1638021] comment: Markers is associated with human cells. is_a: CL:0002422 ! enucleated reticulocyte relationship: develops_from CL:0002018 ! CD71-negative, GlyA-positive orthochromatic erythroblast [Term] id: CL:0002021 name: GlyA-positive erythrocyte namespace: cell def: "An enucleate erythrocyte that is GlyA-positive." [GOC:ak, GOC:tfm, PMID:20134094] comment: Marker is associated with human cell types. is_a: CL:0000595 ! enucleate erythrocyte relationship: develops_from CL:0002020 ! GlyA-positive reticulocytes [Term] id: CL:0002022 name: Ly-76 high positive erythrocyte namespace: cell def: "An enucleate erythrocyte that is Lyg-76-high." [GOC:ak, GOC:tfm, PMID:19805084] comment: Marker is associated with mouse cell types. is_a: CL:0000595 ! enucleate erythrocyte relationship: develops_from CL:0002019 ! Ly-76 high reticulocyte [Term] id: CL:0002023 name: CD34-positive, CD41-positive, CD42-positive megakaryocyte progenitor cell namespace: cell def: "A megakaroycotye progenitor cell that is CD34-positive, CD41-positive and CD42-positive on the cell surface." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are associated with human cell type. is_a: CL:0000553 ! megakaryocyte progenitor cell relationship: develops_from CL:0002025 ! CD34-positive, CD41-positive, CD42-negative megakaryocyte progenitor cell [Term] id: CL:0002024 name: Kit-positive megakaryocyte progenitor cell namespace: cell def: "A megakaryocyte progenitor cell that is Kit-positive, CD41-positive, CD9-positive, Sca-1-negative, IL7ralpha-negative, CD150-negative, and Fcgamma receptor II/III-low." [GOC:ak, GOC:tfm, PMID:16951553] comment: Markers are associated with mouse cells. is_a: CL:0000553 ! megakaryocyte progenitor cell relationship: develops_from CL:0002006 ! Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell [Term] id: CL:0002025 name: CD34-positive, CD41-positive, CD42-negative megakaryocyte progenitor cell namespace: cell def: "A megakaryocyte progenitor cell that is CD34-positive, CD41-positive, and CD42-negative." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are commonly associated with human cells. is_a: CL:0000553 ! megakaryocyte progenitor cell relationship: develops_from CL:0002005 ! CD34-positive, CD38-positive megakaryocyte erythroid progenitor cell [Term] id: CL:0002026 name: CD34-negative, CD41-positive, CD42-positive megakaryocyte cell namespace: cell def: "A megakaryocyte progenitor cell that is CD34-negative, CD41-positive and CD42-positive." [GOC:ak, GOC:tfm, PMID:15232614] comment: Markers are commonly associated with human cells. is_a: CL:0000556 ! megakaryocyte relationship: develops_from CL:0002023 ! CD34-positive, CD41-positive, CD42-positive megakaryocyte progenitor cell [Term] id: CL:0002027 name: CD9-positive, CD41-positive megakaryocyte cell namespace: cell def: "A megakaryocyte cell with is CD9-positive and CD41-positive." [GOC:tfm] comment: Markers are commonly associated with mouse cells. is_a: CL:0000556 ! megakaryocyte relationship: develops_from CL:0002024 ! Kit-positive megakaryocyte progenitor cell [Term] id: CL:0002028 name: basophil mast progenitor cell namespace: cell def: "A cell type that can give rise to basophil and mast cells. This cell is CD34-positive, CD117-positive, CD125-positive, FceRIa-negative, and T1/ST2-negative, and expresses Gata-1, Gata-2, C/EBPa" [GOC:ak, GOC:dsd, GOC:tfm, PMCID:PMC1312421] comment: There may be an intermediate cell type. These cells also CD13-positive, CD16-positive, CD32-positive, and integrin beta 7-positive. Transcription factors: GATA1-positive, MCP-1-positive, mitf-positive, PU.1-positive, and CEBP/a-low. synonym: "BMCP" EXACT [] is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell [Term] id: CL:0002029 name: Fc-epsilon RIalpha-low mast cell progenitor namespace: cell def: "A lineage-negative, Kit-positive, CD45-positive mast cell progenitor that is Fc-epsilon RIalpha-low." [GOC:tfm, PMCID:PMC1312421] is_a: CL:0000831 ! mast cell progenitor relationship: develops_from CL:0002044 ! Kit-positive, integrin beta7-high basophil mast progenitor cell [Term] id: CL:0002030 name: Fc-epsilon RIalpha-high basophil progenitor cell namespace: cell def: "A lineage negative, Sca1-negative basophil progenitor cell that is Fc epsilon RIalpha-high." [GOC:tfm, PMCID:PMC1312421] comment: Markers are associated with mouse cells. is_a: CL:0000613 ! basophil progenitor cell relationship: develops_from CL:0002044 ! Kit-positive, integrin beta7-high basophil mast progenitor cell [Term] id: CL:0002031 name: hematopoietic lineage restricted progenitor cell namespace: cell def: "A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells." [GOC:tfm, PMID:19022770] is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0002032 ! hematopoietic oligopotent progenitor cell [Term] id: CL:0002032 name: hematopoietic oligopotent progenitor cell namespace: cell def: "A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities. Cell lacks hematopoeitic lineage markers." [GOC:tfm, PMID:19022770] is_a: CL:0000988 ! hematopoietic cell relationship: develops_from CL:0000837 ! hematopoietic multipotent progenitor cell [Term] id: CL:0002033 name: short term hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell capable of rapid replenishment of myeloerythroid progenitors and limited self renewal capability. This cell is Kit-positive, Sca1-positive, CD34-positive, CD150-positive, and is Flt3-negative." [GOC:tfm, PMID:15572596, PMID:19022770] comment: Markers are associated with mouse cells. These cells are also reportedly CD11b-low and CD90-low. synonym: "ST stem cell" EXACT [] synonym: "ST-HSC" EXACT [] is_a: CL:0001008 ! Kit and Sca1-positive hematopoietic stem cell relationship: develops_from CL:0002034 ! long term hematopoietic stem cell [Term] id: CL:0002034 name: long term hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell with long term self renewal capability. This cell is Kit-positive, Sca1-positive, CD150-positive, CD90-low, CD34-negative and Flt3-negative." [GOC:tfm, PMID:15572596, PMID:17582345] comment: Markers are associated with mouse cells. synonym: "LT stem cell" EXACT [] synonym: "LT-HSC" EXACT [] is_a: CL:0001008 ! Kit and Sca1-positive hematopoietic stem cell [Term] id: CL:0002035 name: Slamf1-negative multipotent progenitor cell namespace: cell def: "A hematopoietic progenitor that has restricted self-renewal capability. Cell is Kit-positive, Ly6-positive, CD150-negative and Flt3-negative." [GOC:tfm, PMID:19022770] comment: Markers are associated with mouse cells. is_a: CL:0000837 ! hematopoietic multipotent progenitor cell relationship: develops_from CL:0002036 ! Slamf1-positive multipotent progenitor cell [Term] id: CL:0002036 name: Slamf1-positive multipotent progenitor cell namespace: cell def: "A hematopoietic progenitor that has some limited self-renewal capability. Cells are lin-negative, Kit-positive, CD34-positive, and Slamf1-positive." [GOC:tfm, PMID:19022770] comment: Markers are associated with mouse cells. synonym: "KSL cell" EXACT [] is_a: CL:0000837 ! hematopoietic multipotent progenitor cell relationship: develops_from CL:0002033 ! short term hematopoietic stem cell [Term] id: CL:0002037 name: CD2-positive, CD5-positive, CD44-positive alpha-beta intraepithelial T cell namespace: cell def: "Intraepithelial T cells with a memory phenotype of CD2-positive, CD5-positive, and CD44-positive." [GOC:tfm, PMID:16048545] synonym: "memory alpha beta IEL" EXACT [PMID:16048545] is_a: CL:0000793 ! CD4-positive, alpha-beta intraepithelial T cell [Term] id: CL:0002038 name: T follicular helper cell namespace: cell def: "A CD4-positive, CXCR5-positive, CCR7-negative alpha-beta T cell located in follicles of secondary lymph nodes that expresses is BCL6-high, ICOS-high and PD1-high, and stimulates follicular B cells to undergo class-switching and antibody production." [GOC:tfm, PMID:19855402, PMID:20107805, PMID:22043829] synonym: "T(FH)" EXACT [PMID:20207847] synonym: "Tfh" EXACT [PMID:20107805, PMID:20383172] synonym: "follicular B helper T cell" RELATED [PMID:22043829] synonym: "follicular T cell" RELATED [PMID:20107805, PMID:21914188] synonym: "follicular T-cell" RELATED [] synonym: "follicular T-helper cell" RELATED [PMID:22552227] synonym: "follicular helper T cell" RELATED [PMID:22649468] synonym: "follicular helper T-cell" RELATED [PMID:22508770] is_a: CL:0000492 ! CD4-positive helper T cell relationship: develops_from CL:0000896 ! activated CD4-positive, alpha-beta T cell [Term] id: CL:0002039 name: immature NK T cell stage I namespace: cell def: "A CD24-high, CD4-low, CD8-low, CD44-negative, NK1.1-negative NK T cell." [GOC:tfm, PMID:17589542] is_a: CL:0000914 ! immature NK T cell relationship: develops_from CL:0000809 ! double-positive, alpha-beta thymocyte [Term] id: CL:0002040 name: immature NK T cell stage II namespace: cell def: "A CD24-low, CD44-negative, NK1.1-negative NK T cell." [GOC:tfm, PMID:17589542, http://www.immgen.org/index_content.html] comment: NKT.44-NK1.1-.Th was assigned as an exact synonym based on sorting strategy displayed at immgene.org. synonym: "NKT.44-NK1.1-.Th" EXACT [] is_a: CL:0000914 ! immature NK T cell relationship: develops_from CL:0002039 ! immature NK T cell stage I [Term] id: CL:0002041 name: immature NK T cell stage III namespace: cell def: "A CD24-low, CD44-positive, DX5-low, NK1.1-negative NK T cell." [PMID:17589542] synonym: "NKT.44+.NK1.1-.Th" BROAD [] is_a: CL:0000914 ! immature NK T cell relationship: develops_from CL:0002040 ! immature NK T cell stage II [Term] id: CL:0002042 name: immature NK T cell stage IV namespace: cell def: "A CD24-low, CD44-positive, DX5-high, NK1.1-negative NK T cell." [GOC:tfm, PMID:17589542, http://www.immgen.org/index_content.html] synonym: "NKT.44+.NK1.1-.Th" BROAD [] is_a: CL:0000914 ! immature NK T cell relationship: develops_from CL:0002041 ! immature NK T cell stage III [Term] id: CL:0002043 name: CD34-positive, CD38-negative multipotent progenitor cell namespace: cell def: "A hematopoietic multipotent progenitor cell that is CD34-positive, CD38-negative, CD45RA-negative, and CD90-negative." [GOC:tfm, PMID:18371405, PMID:19022770] comment: Cell markers are associated with human hematopoietic multipotent progenitor cells. is_a: CL:0000837 ! hematopoietic multipotent progenitor cell relationship: develops_from CL:0001024 ! CD34-positive, CD38-negative hematopoietic stem cell [Term] id: CL:0002044 name: Kit-positive, integrin beta7-high basophil mast progenitor cell namespace: cell def: "A basophil mast progenitor cell that is Beta-7 integrin-high, Kit-positive FcRgammaII/III-positive and Sca1-negative." [GOC:ak, GOC:tfm] comment: Markers are associated with mouse cells. is_a: CL:0002028 ! basophil mast progenitor cell [Term] id: CL:0002045 name: Fraction A pre-pro B cell namespace: cell def: "A pro-B cell that CD45R/B220-positive, CD43-positive, HSA-low, BP-1-negative and Ly6c-negative. This cell type is also described as being lin-negative, AA4-positive, Kit-positive, IL7Ra-positive and CD45R-positive." [GOC:ak, GOC:tfm, PMID:12633665, PMID:17582343, http://www.immgen.org/index_content.html] comment: Markers associated with mouse cells. synonym: "fraction A" EXACT [] synonym: "pre pro B cell" RELATED [] is_a: CL:0000826 ! pro-B cell [Term] id: CL:0002046 name: early pro-B cell namespace: cell def: "A pro-B cell that is CD22-positive, CD34-positive, CD38-positive and TdT-positive (has TdT activity). Pre-BCR is expressed on the cell surface. Cell is CD19-negative, CD20-negative, complement receptor type 2-negative and CD10-low. D-to-J recombination of the heavy chain occurs at this stage." [GOC:dsd, GOC:tfm, PMID:18432934] comment: Markers are commonly associated with human cells. These cells are also reportedly CD21-negative. Transcription factors: PU.1-positive, Ikaros-positive, E2A-positive, and PAX5-positive. is_a: CL:0000826 ! pro-B cell [Term] id: CL:0002047 name: Fraction B precursor B cell namespace: cell def: "A precursor B cell that is CD45RA-positive, CD43-positive, CD24-positive and BP-1-negative." [GOC:ak, GOC:tfm, PMID:18432934] comment: Markers are commonly associated with mouse cells. These cells are also reportedly RAG1-positive and RAG2-positive. synonym: "Fr. B" EXACT [] synonym: "Fraction B" EXACT [] is_a: CL:0002400 ! Fraction B/C precursor B cell relationship: develops_from CL:0002045 ! Fraction A pre-pro B cell [Term] id: CL:0002048 name: late pro-B cell namespace: cell def: "A pre-B cell precursor is CD19-low, CD22-positive , CD34-positive, CD38-positive." [GOC:dsd, GOC:tfm, PMID:18432934] comment: Late pro-B cells are also reportedly CD10-positive, CD20-negative, CD21-negative, and TdT-positive. Transcription factors: PU.1-positive, Ikaros-positive, E2A-positive, and PAX5-positive. is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0002046 ! early pro-B cell [Term] id: CL:0002049 name: Fraction C precursor B cell namespace: cell def: "A precursor B cell is CD45R-positive, CD43-positive, CD24-positive, and BP-positive. Intracellularly expression of surrogate light chain, Rag1 and Rag2, TdT, occurs while there is no expression of mu heavy chain." [GOC:tfm, PMID:17582343] synonym: "Fraction C" RELATED [] is_a: CL:0002400 ! Fraction B/C precursor B cell relationship: develops_from CL:0002047 ! Fraction B precursor B cell [Term] id: CL:0002050 name: Fraction C' precursor B cell namespace: cell def: "A pre-BCR-positive precursor B cell that is CD24-high, CD25-positive, CD43-positive, CD45R-positive and BP-positive." [GOC:tfm, PMID:17582343] synonym: "Fr. C'" EXACT [] synonym: "Fraction C-prime" EXACT [] is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0002049 ! Fraction C precursor B cell [Term] id: CL:0002051 name: CD38-high pre-BCR positive cell namespace: cell def: "A pre-BCR positive T cell that is CD38-high." [GOC:tfm, PMID:18432934] comment: Markers are associated with human cells. synonym: "large pre-B cell type I" RELATED [] is_a: CL:0000952 ! preBCR-positive large pre-B-II cell relationship: develops_from CL:0002048 ! late pro-B cell [Term] id: CL:0002052 name: Fraction D precursor B cell namespace: cell def: "A pre-B cell that is pre-BCR-negative, and the kappa- and lambda- light immunoglobulin light chain-negative, CD43-low, and is BP-1-positive, CD45R-positive and CD25-positive. This cell type is also described as being AA4-positive, IgM-negative, CD19-positive, CD43-low/negative, and HSA-positive." [GOC:ak, GOC:dsd, GOC:tfm, PMID:17582343, PMID:18432934, http://www.immgen.org/index_content.html] comment: Fraction D precursor B cells are also reportedly CD24-positive and sIgD-negative. synonym: "Fr. D" EXACT [] synonym: "Fraction D pre-B cell" EXACT [GOC:tfm] is_a: CL:0000817 ! precursor B cell relationship: develops_from CL:0002050 ! Fraction C' precursor B cell [Term] id: CL:0002053 name: CD22-positive, CD38-low small pre-B cell namespace: cell def: "A small pre-B cell that is CD22-positive and CD38-low." [GOC:tfm, PMID:18432934] comment: Markers are associated with human cell. RAG expression maybe diminishing. synonym: "small pre-B cell" EXACT [] is_a: CL:0000954 ! small pre-B-II cell relationship: develops_from CL:0002051 ! CD38-high pre-BCR positive cell [Term] id: CL:0002054 name: Fraction E immature B cell namespace: cell def: "An immature B cell that is IgM-positive, CD45R-positive, CD43-low, CD25-negative, and CD127-negative. This cell type has also been described as being AA4-positive, IgM-positive, CD19-positive, CD43-low/negative, and HSA-positive." [GOC:ak, GOC:dsd, GOC:tfm, PMID:17582343, PMID:18432934] comment: Markers associated with mouse cells. These cells are also reportedly sIgD-negative. is_a: CL:0000816 ! immature B cell relationship: develops_from CL:0002052 ! Fraction D precursor B cell [Term] id: CL:0002055 name: CD38-negative immature B cell namespace: cell def: "An immature B cell that is CD38-negative, CD10-low, CD21-low, and CD22-high." [GOC:tfm, PMID:18432934] comment: Markers are associated with human cell type. is_a: CL:0000816 ! immature B cell relationship: develops_from CL:0002053 ! CD22-positive, CD38-low small pre-B cell [Term] id: CL:0002056 name: Fraction F mature B cell namespace: cell def: "A mature B cell subset originally defined as having being CD45R-positive, IgM-positive, IgD-positive and CD43-negative. Subsequent research demonstrated being CD21-positive and CD23-negative and CD93 negative." [GOC:tfm, PMID:17582343] is_a: CL:0000822 ! B-2 B cell relationship: develops_from CL:0002054 ! Fraction E immature B cell [Term] id: CL:0002057 name: CD14-positive, CD16-negative classical monocyte namespace: cell def: "A monocyte that is CD14-positive, CD16-negative, CD64-positive, CD163-positive," [GOC:tfm, PMID:15615263, PMID:1706877, PMID:19689341] comment: Markers are associated with human monocytes. is_a: CL:0000860 ! classical monocyte [Term] id: CL:0002058 name: Gr1-low non-classical monocyte namespace: cell def: "A resident monocyte that is Gr-1 low, CD43-positive, and CX3CR1-positive." [GOC:tfm, PMID:8890901] comment: Markers are associated with mice. The Gr epitope is used to describe this cell type is found on both Ly6c and Ly6g. However, its the Ly6c that is considered the specific marker, and thus used in the cross-product. Also, this cell-type is sometimes described as being Gr1-negative. is_a: CL:0000875 ! non-classical monocyte is_a: CL:0001022 ! CD115-positive monocyte relationship: develops_from CL:0002398 ! Gr1-positive, CD43-positive monocyte [Term] id: CL:0002059 name: CD8alpha-positive thymic conventional dendritic cell namespace: cell def: "A conventional thymic dendritic cell that is CD8alpha-positive." [GOC:tfm, PMID:19273629, http://www.immgen.org/index_content.html] synonym: "CD8alpha-alpha-positive thymic conventional dendritic cell" EXACT [] synonym: "DC.8+.Th" EXACT [] is_a: CL:0000941 ! thymic conventional dendritic cell [Term] id: CL:0002060 name: melanophage namespace: cell def: "A melanin-containing macrophage that obtains the pigment by phagocytosis of melanosomes." [GOC:tfm, PMID:20479296, PMID:2943821] is_a: CL:0000864 ! tissue-resident macrophage relationship: part_of UBERON:0002097 ! skin of body [Term] id: CL:0002061 name: T-helper 9 cell namespace: cell def: "A T-helper cell that is characterized by secreting interleukin 9 and responding to helminth infections. This cell-type can derives from Th2 cells in the presence of TGF-beta and IL-4. Th2 cytokine production is surpressed." [GOC:tfm, PMID:18931678, PMID:19604299, PMID:20154671] synonym: "T helper cells type 9" EXACT [] synonym: "T(H)-9 cell" EXACT [] synonym: "Th9" EXACT [PMID:18931678] is_a: CL:0000492 ! CD4-positive helper T cell [Term] id: CL:0002062 name: type I pneumocyte namespace: cell def: "A type I pneumocyte is a flattened, branched pneumocyte that covers more than 98% of the alveolar surface. This large cell has thin (50-100 nm) cytoplasmic extensions to form the air-blood barrier essential for normal gas exchange." [GOC:tfm, PMID:20054144, http://www.copewithcytokines.de] synonym: "AT1" EXACT [] synonym: "ATI" EXACT [] synonym: "lung type 1 cells" EXACT [] synonym: "membranous pneumocytes" EXACT [] synonym: "pulmonary alveolar type I cell" EXACT [] synonym: "small alveolar cells" EXACT [] synonym: "squamous alveolar cell" EXACT [] synonym: "squamous alveolar lining cell" EXACT [] synonym: "type 1 alveolar epithelial cells" EXACT [] synonym: "type 1 pneumocyte" EXACT [] synonym: "type I alveolar cells" EXACT [] synonym: "type I alveolar epithelial cells" EXACT [] xref: BTO:0000780 xref: FMA:62500 is_a: CL:0000322 ! pneumocyte [Term] id: CL:0002063 name: type II pneumocyte namespace: cell def: "A type II pneumocyte is a pneumocyte that modulates the fluid surrounding the alveolar epithelium by secreting and recycling surfactants. This cell type also contributes to tissue repair and can differentiate after injury into a type I pneumocyte. Thicker than squamous alveolar cells, have a rounded apical surface that projects above the level of surrounding epithelium. The free surface is covered by short microvilli." [GOC:tfm, ISBN:0412046911, PMID:8540632, http://www.copewithcytokines.de] synonym: "AT2" EXACT [] synonym: "ATII" EXACT [] synonym: "TII" EXACT [] synonym: "cuboidal type II cell" EXACT [] synonym: "granular pneumocyte" EXACT [] synonym: "great alveolar cell" EXACT [] synonym: "lung type 2 cell" EXACT [] synonym: "lung type II cell" RELATED [] synonym: "type 2 alveolar epithelial cell" EXACT [] synonym: "type 2 alveolocyte" EXACT [] synonym: "type 2 pneumocyte" EXACT [] synonym: "type II alveolar cell" EXACT [] synonym: "type II alveolar epithelial cell" EXACT [] synonym: "type II alveolocyte" EXACT [] xref: BTO:0000538 xref: FMA:62501 is_a: CL:0000157 ! surfactant secreting cell is_a: CL:0000322 ! pneumocyte [Term] id: CL:0002064 name: pancreatic acinar cell namespace: cell def: "A secretory cell found in pancreatic acini that secretes digestive enzymes and mucins. This cell is a typical zymogenic cell, have a basal nucleus and basophilic cytoplasm consisting of regular arrays of granular endoplasmic reticulum with mitochondria and dense secretory granules." [GOC:tfm, ISBN:0517223651, PMID:20395539, http://www.copewithcytokines.de/cope.cgi?key=pancreatic%20acinar%20cells] synonym: "acinar cell of pancreas" EXACT [] xref: BTO:0000028 xref: CALOHA:TS-0737 xref: FMA:63032 is_a: CL:0000622 ! acinar cell is_a: CL:1001433 ! epithelial cell of exocrine pancreas relationship: part_of UBERON:0001263 ! pancreatic acinus [Term] id: CL:0002066 name: Feyrter cell namespace: cell def: "A neuroendocrine cell found in the epithelium of the lungs and respiratory tract. This cell type is rounded or elliptical in shape, situated mainly in the basal part of the epithelium; regulates bronchial secretion, smooth muscle contraction, lobular growth, ciliary activity and chemoreception. Cell has an electron-lucent cytoplasm, contains numerous dense-cored vesicles with a clear halo between the core and the limiting membrane." [GOC:tfm, ISBN:0412046911, ISBN:0517223651] synonym: "Kultschitzky cell of bronchiole" EXACT [] synonym: "P cell" BROAD [] synonym: "bronchiolar Kulchitsky cell" EXACT [] synonym: "respiratory enterochromaffin cell " EXACT [] xref: FMA:14118 is_a: CL:0000165 ! neuroendocrine cell [Term] id: CL:0002067 name: type A enterocrine cell namespace: cell def: "An enterocrine cell that produces glucagon." [GOC:tfm, ISBN:0412046911] xref: FMA:62939 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000170 ! glucagon secreting cell [Term] id: CL:0002068 name: Purkinje myocyte namespace: cell def: "Specialized cardiac myocyte that is subendocardially interspersed with the regular cardiac muscle cell. They are uninucleate cylindrical cells, associated end-to-end in long rows, continue from the node to the atrioventricular bundle; relatively short compared to ordinary myocytes but are nearly twice their diameter." [FMA:0412046911, GOC:tfm, PMID:19939742] synonym: "Purkinje cell fiber" EXACT [] synonym: "Purkinje muscle cell" EXACT [] synonym: "myocytus conducens cardiacus" EXACT [] xref: BTO:0001032 xref: FMA:14146 is_a: CL:0002086 ! specialized cardiac myocyte [Term] id: CL:0002069 name: type II vestibular sensory cell namespace: cell def: "Mostly cylindrical, resemble Type 1 in their contents and the presence of a kinocilium and stereocilium apically; much greater variation in size, some almost span the entire thickness of the sensory epithelium, while others are smaller than Type 1; receive multiple efferent nerve boutons around their bases as well as afferent endings, which are small expansions rather than chalices." [GOC:tfm, ISBN:0517223651] synonym: "type 2 vestibular hair cell" EXACT [] synonym: "type 2 vestibular sensory cell" EXACT [] synonym: "type II hair cell" EXACT [] xref: FMA:67909 is_a: CL:0000609 ! vestibular hair cell [Term] id: CL:0002070 name: type I vestibular sensory cell namespace: cell def: "Bottle-shaped with narrow neck; broad, rounded basal portion where nucleus is located; stereocilia and a single kinocilium is present apically; receive nerve bouton at their base from an afferent cup-shaped (chalice or calyx) nerve ending." [GOC:tfm, ISBN:0517223651] synonym: "type 1 vestibular hair cell" EXACT [] synonym: "type 1 vestibular sensory cell" EXACT [] synonym: "type I hair cell" EXACT [] xref: FMA:62352 is_a: CL:0000609 ! vestibular hair cell [Term] id: CL:0002071 name: enterocyte of epithelium of large intestine namespace: cell def: "Columnar cell which populate the epithelium of large intestine and absorb water. This cell is the most numerous of the epithelial cell types in the large intestine; bear apical microvilli, contain secretory granules in their apical cytoplasm; secretion appears to be largely mucins, but is also rich in antibodies of the IgA type." [GOC:tfm, ISBN:0517223651] synonym: "columnar cell" BROAD [] synonym: "columnar cell of the colon" EXACT [] synonym: "vacuolar absorptive cell" EXACT [] xref: BTO:0002484 xref: FMA:63638 xref: FMA:66771 is_a: CL:0000584 ! enterocyte is_a: CL:0002253 ! epithelial cell of large intestine relationship: part_of UBERON:0001278 ! epithelium of large intestine [Term] id: CL:0002072 name: nodal myocyte namespace: cell def: "A specialized cardiac myocyte in the sinoatrial and atrioventricular nodes. The cell is slender and fusiform confined to the nodal center, circumferentially arranged around the nodal artery." [FMA:67101, GOC:tfm] synonym: "P cell" EXACT [] synonym: "cardiac pacemaker cell" EXACT [GOC:pr] synonym: "myocytus nodalis" EXACT [] synonym: "pacemaker cell" BROAD [] xref: BTO:0004190 xref: FMA:67101 is_a: CL:0002086 ! specialized cardiac myocyte [Term] id: CL:0002073 name: transitional myocyte namespace: cell def: "Specialized cardiac myocyte which is in the internodal tract and atrioventricular node. The cell is more slender than ordinary atrial myocytes and has more myofibrils than nodal myocytes." [FMA:67142, GOC:tfm] xref: FMA:67142 is_a: CL:0002086 ! specialized cardiac myocyte [Term] id: CL:0002074 name: myocardial endocrine cell namespace: cell def: "The myoendocrine cellis a specialized myocyte localized mainly in the right and left atrial appendages, and also scattered within other areas of the atria and along the conductive system in the ventricular septum. The most conspicuous feature distinguishing myoendocrine cells from other atrial myoctyes is the presence of membane-bounded secretory granules (these granules contain precursor of cardiodilatins or atrial natriuretic polypeptides)." [FMA:67111, GOC:tfm] xref: FMA:67111 is_a: CL:0000163 ! endocrine cell is_a: CL:0002086 ! specialized cardiac myocyte [Term] id: CL:0002075 name: brush cell of trachebronchial tree namespace: cell def: "Infrequent type of columnar epithelial cell. This cell is characterized by the presence of a tuft of blunt, squat microvilli (approximately 120-140/cell) on the cell surface. The microvilli contain filaments that stretch into the underlying cytoplasm. They have a distinctive pear shape with a wide base and a narrow microvillous apex. Function not known." [GOC:tfm, ISBN:0517223651, PMID:15817800] synonym: "pulmonary brush cell" RELATED [] is_a: CL:0002202 ! epithelial cell of tracheobronchial tree is_a: CL:0002204 ! brush cell relationship: part_of UBERON:0007196 ! tracheobronchial tree [Term] id: CL:0002076 name: endo-epithelial cell namespace: cell def: "An epithelial cell derived from endoderm." [FMA:69075, GOC:tfm] xref: FMA:69075 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000223 ! endodermal cell [Term] id: CL:0002077 name: ecto-epithelial cell namespace: cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000221 ! ectodermal cell [Term] id: CL:0002078 name: meso-epithelial cell namespace: cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000222 ! mesodermal cell [Term] id: CL:0002079 name: pancreatic ductal cell namespace: cell def: "Epithelial cell found in the ducts of the pancreas. This cell type contributes to the high luminal pH." [FMA:63099, GOC:tfm, PMID:14740223] xref: FMA:63099 is_a: CL:1000488 ! cholangiocyte is_a: CL:1001433 ! epithelial cell of exocrine pancreas relationship: part_of UBERON:0001064 ! ventral pancreatic duct [Term] id: CL:0002080 name: pancreatic centro-acinar cell namespace: cell def: "A cubodial epithelial cell that is continuous with the lining of intercalated ducts that drain the acinus. This cell type secretes a high pH solution to aid in activation of zymogens, and can differentiate into endocrine and exocrine pancreatic cell types." [GOC:tfm, PMID:12142741, PMID:20018761, PMID:8185160] synonym: "centroacinar cell of Langerhans" EXACT [] synonym: "pancreatic centroacinar cell" EXACT [] xref: FMA:62455 is_a: CL:1001433 ! epithelial cell of exocrine pancreas relationship: part_of UBERON:0001263 ! pancreatic acinus [Term] id: CL:0002081 name: type II cell of carotid body namespace: cell def: "This cell resembles a glia cell, express the glial marker S100 and act as a supporting cell to type I cell. This cell is located in a small cluster of type I and type II cells near the fork of the carotid artery." [GOC:tfm, PMID:7938227, http://en.wikipedia.org/wiki/Carotid_body] synonym: "sheath cell of carotid body" EXACT [] xref: FMA:84187 is_a: CL:0000703 ! sustentacular cell is_a: CL:0002256 ! supporting cell of carotid body [Term] id: CL:0002082 name: type II cell of adrenal medulla namespace: cell def: "A chromaffin cell of the adrenal medulla that produces epinephrine." [GOC:tfm] synonym: "adremergic chromaffin cell" EXACT [] synonym: "adrenal secreting cell of the adrenal medulla" EXACT [] synonym: "epiniphrine secreting cell of the adrenal medulla" EXACT [] xref: FMA:69322 is_a: CL:0000336 ! adrenal medulla chromaffin cell is_a: CL:0000454 ! epinephrine secreting cell relationship: part_of UBERON:0001236 ! adrenal medulla [Term] id: CL:0002083 name: type I cell of adrenal medulla namespace: cell def: "A chromaffin cell of the adrenal medulla that produces norepinephrine." [GOC:tfm, ISBN:068340007X] synonym: "noradrenergic chromaffin cell" EXACT [] xref: FMA:69321 is_a: CL:0000336 ! adrenal medulla chromaffin cell is_a: CL:0000459 ! norepinephrin secreting cell relationship: part_of UBERON:0001236 ! adrenal medulla [Term] id: CL:0002084 name: Boettcher cell namespace: cell def: "A Boettcher cell is a polyhedral cells on the basilar membrane of the cochlea, and is located beneath Claudius cells. A Boettcher cell is considered a supporting cell for the organ of Corti, and is present only in the lower turn of the cochlea. These cells interweave with each other, and project microvilli into the intercellular space. Because of their structural specialization, a Boettcher cell is believed to play a significant role in the function of the cochlea. They demonstrate high levels of calmodulin, and may be involved in mediating Ca(2+) regulation and ion transport." [GOC:tfm, http://en.wikipedia.org/wiki/Boettcher_cell] synonym: "Boettcher's cell" EXACT [] synonym: "Bottcher cell" EXACT [] synonym: "Bottcher's cell" EXACT [] is_a: CL:0002315 ! supporting cell of cochlea [Term] id: CL:0002085 name: tanycyte namespace: cell alt_id: CL:0000643 def: "Specialized elongated ventricular ependymal cell that has processes that extend to the outer, or pial, surface of the CNS. Resemble spongioblasts seen in developing brain. Found in the adult brain in the third ventricle, cerebral aqueduct, spinal canal and floor of the fourth ventricle." [GOC:tfm, http://neurolex.org/wiki/Category:Tanycyte] synonym: "stretch cell" EXACT [] xref: BTO:0001953 xref: FMA:54560 is_a: CL:0000683 ! ependymoglial cell [Term] id: CL:0002086 name: specialized cardiac myocyte namespace: cell def: "A cardiac myocyte that is an excitable cells in the myocardium, specifically in the conducting system of heart." [FMA:67968, GOC:tfm] xref: FMA:67968 is_a: CL:0000746 ! cardiac muscle cell [Term] id: CL:0002087 name: nongranular leukocyte namespace: cell def: "A leukocyte that lacks granules." [GOC:tfm] synonym: "agranular leukocyte" EXACT [] xref: FMA:62855 is_a: CL:0000738 ! leukocyte [Term] id: CL:0002088 name: interstitial cell of Cajal namespace: cell def: "This is a cell found in the gastrointestinal tract of mammals and serves as a pacemaker that triggers gut contraction. ICCs mediate inputs from the enteric nervous system to smooth muscle cells and are thought to be the cells from which gastrointestinal stromal tumors (GISTs) arise." [GOC:tfm, PMID:16460275, PMID:19520112] comment: Some argue this cell type is of mesenchymal origin. synonym: "ICC" EXACT [] synonym: "intestinal pacemaker cell" EXACT [GOC:pr] xref: BTO:0003914 xref: FMA:86573 is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002089 name: nuocyte namespace: cell def: "A leukocyte cell capable of secreting IL-13 in response to a helminth infection. This cell is lineage-negative, ICOS-positive, IL1RL1-positive, IL7Ralpha-positive, and IL17Br-positive." [GOC:tfm, PMID:20200518] is_a: CL:0000738 ! leukocyte [Term] id: CL:0002090 name: polar body namespace: cell def: "One of two small cells formed by the first and second meiotic division of oocytes." [GOC:tfm, ISBN:068340007X, http://en.wikipedia.org/wiki/Polar_body] xref: EHDAA2:0004716 xref: FMA:85543 xref: WBbt:0008429 xref: XAO:0000262 is_a: CL:0000021 ! female germ cell [Term] id: CL:0002091 name: primary polar body namespace: cell def: "A small cell formed by the first meiotic division of oocytes." [GOC:tfm, ISBN:068340007X] synonym: "first polar body" EXACT [EHDAA2:0000541] synonym: "polocytus primarius" EXACT [FMA:18650] xref: EHDAA2:0000541 xref: EMAPA:16032 xref: FMA:18650 xref: VHOG:0000464 is_a: CL:0002090 ! polar body [Term] id: CL:0002092 name: bone marrow cell namespace: cell def: "A cell found in the bone marrow. This can include fibroblasts, macrophages, adipocytes, osteoblasts, osteoclasts, endothelial cells and hematopoietic cells." [GOC:tfm, ISBN:0618947256] comment: MH consider whether bone marrow cells are bone cells in the structural sense vs. being part of bone organ sense. xref: BTO:0004850 xref: FMA:83621 is_a: CL:0001035 ! bone cell relationship: part_of UBERON:0002371 ! bone marrow [Term] id: CL:0002093 name: secondary polar body namespace: cell def: "A small cell formed by the second meiotic division of oocytes. In mammals, the second polar body may fail to form unless the ovum has been penetrated by a sperm cell." [GOC:tfm, ISBN:068340007X] synonym: "polocytus secundarius" EXACT [FMA:18651] synonym: "second polar body" EXACT [EHDAA2:0001820] xref: EHDAA2:0001820 xref: EMAPA:16034 xref: EMAPA:16045 xref: FMA:18651 is_a: CL:0002090 ! polar body [Term] id: CL:0002094 name: interstitial cell of ovary namespace: cell def: "A cell that makes up the loose connective tissue of the ovary." [GOC:tfm] xref: FMA:18709 is_a: CL:0002132 ! stromal cell of ovary [Term] id: CL:0002095 name: hilus cell of ovary namespace: cell def: "A cell in the hilum of the ovary that produces androgens." [GOC:tfm, ISBN:068340007X] synonym: "hilar cell of ovary" EXACT [] xref: FMA:18710 is_a: CL:0000593 ! androgen secreting cell is_a: CL:0002132 ! stromal cell of ovary [Term] id: CL:0002096 name: internodal tract myocyte namespace: cell def: "A specialised myocyte that lies between the sinoatrial node and the atrioventricular node and is involved in the conduction of electrical signals." [GOC:tfm, ISBN:0781729300] xref: FMA:223275 is_a: CL:0002086 ! specialized cardiac myocyte relationship: part_of UBERON:0009966 ! internodal tract [Term] id: CL:0002097 name: cortical cell of adrenal gland namespace: cell def: "A cell of the adrenal cortex. Cell types include those that synthesize and secrete chemical derivatives (steroids) of cholesterol." [GOC:tfm] synonym: "adrenal cortex cell" EXACT [] synonym: "adrenocortical cell" EXACT [] xref: FMA:69545 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000174 ! steroid hormone secreting cell is_a: CL:0002078 ! meso-epithelial cell relationship: part_of UBERON:0001235 ! adrenal cortex [Term] id: CL:0002098 name: regular cardiac myocyte namespace: cell def: "A cardiac myocyte that is connected together by transverse intercalated discs at a regular interval." [GOC:tfm] synonym: "regular cardiac muscle cell" EXACT [] synonym: "regular cardiac muscle fiber" EXACT [] xref: FMA:67967 is_a: CL:0000746 ! cardiac muscle cell [Term] id: CL:0002099 name: type I cell of adrenal cortex namespace: cell alt_id: CL:1000423 def: "A small, polyhedral, cell found in rounded groups or curved columns with deeply staining nuclei, scanty basophilic cytoplasm and a few lipid droplets. This cell in the zona glomerulosa produces mineralocorticoids." [GOC:tfm, ISBN:0517223651] synonym: "epithelial cell of zona glomerulosa of adrenal gland" EXACT [] xref: FMA:69273 is_a: CL:0000456 ! mineralocorticoid secreting cell is_a: CL:0002097 ! cortical cell of adrenal gland relationship: part_of UBERON:0002053 ! zona glomerulosa of adrenal gland [Term] id: CL:0002100 name: regular interventricular cardiac myocyte namespace: cell def: "A regular cardiac myocyte of the interventricular region of the heart." [GOC:tfm] xref: FMA:228792 is_a: CL:0002098 ! regular cardiac myocyte [Term] id: CL:0002101 name: CD38-positive naive B cell namespace: cell def: "A CD38-positive naive B cell is a mature B cell that has the phenotype CD38-positive, surface IgD-positive, surface IgM-positive, and CD27-negative, and that has not yet been activated by antigen in the periphery." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "CD38+ naive B cell" EXACT [] synonym: "CD38+ naive B lymphocyte" EXACT [] synonym: "CD38+ naive B-cell" EXACT [] synonym: "CD38+ naive B-lymphocyte" EXACT [] synonym: "CD38-positive naive B lymphocyte" EXACT [] synonym: "CD38-positive naive B-cell" EXACT [] synonym: "CD38-positive naive B-lymphocyte" EXACT [] is_a: CL:0000788 ! naive B cell [Term] id: CL:0002102 name: CD38-negative naive B cell namespace: cell def: "A CD38-negative naive B cell is a mature B cell that has the phenotype CD38-negative, surface IgD-positive, surface IgM-positive, and CD27-negative, that has not yet been activated by antigen in the periphery." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "CD38- naive B cell" EXACT [] synonym: "CD38- naive B lymphocyte" EXACT [] synonym: "CD38- naive B-cell" EXACT [] synonym: "CD38- naive B-lymphocyte" EXACT [] synonym: "CD38-negative naive B lymphocyte" EXACT [] synonym: "CD38-negative naive B-cell" EXACT [] synonym: "CD38-negative naive B-lymphocyte" EXACT [] is_a: CL:0000788 ! naive B cell [Term] id: CL:0002103 name: IgG-positive double negative memory B cell namespace: cell def: "An IgG-positive double negative memory B cell is a double negative memory B cell with the phenotype IgG-positive, IgD-negative, and CD27-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "IgG+ dn memory B cell" EXACT [] synonym: "IgG+ dn memory B lymphocyte" EXACT [] synonym: "IgG+ dn memory B-cell" EXACT [] synonym: "IgG+ dn memory B-lymphocyte" EXACT [] synonym: "IgG+ double negative memory B cell" EXACT [] synonym: "IgG+ double negative memory B lymphocyte" EXACT [] synonym: "IgG+ double negative memory B-cell" EXACT [] synonym: "IgG+ double negative memory B-lymphocyte" EXACT [] synonym: "IgG-positive dn memory B cell" EXACT [] synonym: "IgG-positive dn memory B lymphocyte" EXACT [] synonym: "IgG-positive dn memory B-cell" EXACT [] synonym: "IgG-positive dn memory B-lymphocyte" EXACT [] synonym: "IgG-positive double negative memory B lymphocyte" EXACT [] synonym: "IgG-positive double negative memory B-cell" EXACT [] synonym: "IgG-positive double negative memory B-lymphocyte" EXACT [] is_a: CL:0000981 ! double negative memory B cell [Term] id: CL:0002104 name: IgG-negative double negative memory B cell namespace: cell def: "An IgG-negative double negative memory B cell is a double negative memory B cell with the phenotype IgG-negative, IgD-negative, and CD27-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "IgG- dn memory B cell" EXACT [] synonym: "IgG- dn memory B lymphocyte" EXACT [] synonym: "IgG- dn memory B-cell" EXACT [] synonym: "IgG- dn memory B-lymphocyte" EXACT [] synonym: "IgG- double negative memory B cell" EXACT [] synonym: "IgG- double negative memory B lymphocyte" EXACT [] synonym: "IgG- double negative memory B-cell" EXACT [] synonym: "IgG- double negative memory B-lymphocyte" EXACT [] synonym: "IgG-negative dn memory B cell" EXACT [] synonym: "IgG-negative dn memory B lymphocyte" EXACT [] synonym: "IgG-negative dn memory B-cell" EXACT [] synonym: "IgG-negative dn memory B-lymphocyte" EXACT [] synonym: "IgG-negative double negative memory B lymphocyte" EXACT [] synonym: "IgG-negative double negative memory B-cell" EXACT [] synonym: "IgG-negative double negative memory B-lymphocyte" EXACT [] is_a: CL:0000981 ! double negative memory B cell [Term] id: CL:0002105 name: CD38-positive IgG memory B cell namespace: cell def: "A CD38-positive IgG memory B cell is a class switched memory B cell that expresses IgG on the cell surface with the phenotype CD38-positive and IgG-positive." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "CD38+ IgG memory B cell" EXACT [] synonym: "CD38+ IgG memory B lymphocyte" EXACT [] synonym: "CD38+ IgG memory B-cell" EXACT [] synonym: "CD38+ IgG memory B-lymphocyte" EXACT [] synonym: "CD38-positive IgG memory B lymphocyte" EXACT [] synonym: "CD38-positive IgG memory B-cell" EXACT [] synonym: "CD38-positive IgG memory B-lymphocyte" EXACT [] is_a: CL:0000979 ! IgG memory B cell [Term] id: CL:0002106 name: IgD-positive CD38-positive IgG memory B cell namespace: cell def: "An IgD-positive CD38-positive IgG memory B cell is a CD38-positive IgG-positive class switched memory B cell that has class switched and expresses IgD on the cell surface with the phenotype IgD-positive, CD38-positive, and IgG-positive." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002105 ! CD38-positive IgG memory B cell [Term] id: CL:0002107 name: IgD-negative CD38-positive IgG memory B cell namespace: cell def: "An IgD-negative CD38-positive IgG memory B cell is a CD38-positive IgG-positive that has class switched and lacks expression of IgD on the cell surface with the phenotype IgD-negative, CD38-positive, and IgG-positive." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002105 ! CD38-positive IgG memory B cell [Term] id: CL:0002108 name: CD38-negative IgG memory B cell namespace: cell def: "A CD38-negative IgG memory B cell is a IgG-positive class switched memory B cell that has class switched and expresses IgG on the cell surface with the phenotype CD38-negative, IgD-negative, and IgG-positive." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0000979 ! IgG memory B cell [Term] id: CL:0002109 name: B220-positive CD38-positive naive B cell namespace: cell def: "A B220-positive CD38-positive naive B cell is a CD38-positive naive B cell that has the phenotype B220-positive, CD38-positive, surface IgD-positive, surface IgM-positive, and CD27-negative, and that has not yet been activated by antigen in the periphery." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "B220+CD38+ naive B cell" EXACT [] synonym: "B220+CD38+ naive B lymphocyte" EXACT [] synonym: "B220+CD38+ naive B-cell" EXACT [] synonym: "B220+CD38+ naive B-lymphocyte" EXACT [] synonym: "B220-positive CD38-positive naive B lymphocyte" EXACT [] synonym: "B220-positive CD38-positive naive B-cell" EXACT [] synonym: "B220-positive CD38-positive naive B-lymphocyte" EXACT [] synonym: "CD38+B220+ naive B cell" EXACT [] synonym: "CD38+B220+ naive B lymphocyte" EXACT [] synonym: "CD38+B220+ naive B-cell" EXACT [] synonym: "CD38+B220+ naive B-lymphocyte" EXACT [] is_a: CL:0002101 ! CD38-positive naive B cell [Term] id: CL:0002110 name: B220-low CD38-positive naive B cell namespace: cell def: "A B220-low CD38-positive naive B cell is a CD38-positive naive B cell that has the phenotype B220-low, CD38-positive, surface IgD-positive, surface IgM-positive, and CD27-negative, that has not yet been activated by antigen in the periphery." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002101 ! CD38-positive naive B cell [Term] id: CL:0002111 name: CD38-negative unswitched memory B cell namespace: cell def: "An CD38-negative unswitched memory B cell is an unswitched memory B cell that has the phenotype CD38-negative, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "CD38- unswitched memory B cell" EXACT [] synonym: "CD38- unswitched memory B lymphocyte" EXACT [] synonym: "CD38- unswitched memory B-cell" EXACT [] synonym: "CD38- unswitched memory B-lymphocyte" EXACT [] synonym: "CD38-negative unswitched memory B lymphocyte" EXACT [] synonym: "CD38-negative unswitched memory B-cell" EXACT [] synonym: "CD38-negative unswitched memory B-lymphocyte" EXACT [] is_a: CL:0000970 ! unswitched memory B cell [Term] id: CL:0002112 name: B220-positive CD38-negative unswitched memory B cell namespace: cell def: "A B220-positive CD38-negative unswitched memory B cell is a CD38-negative unswitched memory B cell that has the phenotype B220-positive, CD38-negative, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002111 ! CD38-negative unswitched memory B cell [Term] id: CL:0002113 name: B220-low CD38-negative unswitched memory B cell namespace: cell def: "A B220-low CD38-negative unswitched memory B cell is a CD38-negative unswitched memory B cell that has the phenotype B220-low, CD38-negative, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002111 ! CD38-negative unswitched memory B cell [Term] id: CL:0002114 name: CD38-positive unswitched memory B cell namespace: cell def: "A CD38-positive unswitched memory B cell is an unswitched memory B cell that has the phenotype CD38-positive, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "CD38+ unswitched memory B cell" EXACT [] synonym: "CD38+ unswitched memory B lymphocyte" EXACT [] synonym: "CD38+ unswitched memory B-cell" EXACT [] synonym: "CD38+ unswitched memory B-lymphocyte" EXACT [] synonym: "CD38-positive unswitched memory B lymphocyte" EXACT [] synonym: "CD38-positive unswitched memory B-cell" EXACT [] synonym: "CD38-positive unswitched memory B-lymphocyte" EXACT [] is_a: CL:0000970 ! unswitched memory B cell [Term] id: CL:0002115 name: B220-positive CD38-positive unswitched memory B cell namespace: cell def: "A B220-positive CD38-positive unswitched memory B cell is a CD38-positive unswitched memory B cell that has the phenotype B220-positive, CD38-positive, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002114 ! CD38-positive unswitched memory B cell [Term] id: CL:0002116 name: B220-low CD38-positive unswitched memory B cell namespace: cell def: "A B220-low CD38-positive unswitched memory B cell is a CD38-positive unswitched memory B cell that has the phenotype B220-low, CD38-positive, IgD-positive, CD138-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002114 ! CD38-positive unswitched memory B cell [Term] id: CL:0002117 name: IgG-negative class switched memory B cell namespace: cell def: "A class switched memory B cell that lacks IgG on the cell surface." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] synonym: "IgG- class switched memory B cell" EXACT [] synonym: "IgG- class switched memory B lymphocyte" EXACT [] synonym: "IgG- class switched memory B-cell" EXACT [] synonym: "IgG- class switched memory B-lymphocyte" EXACT [] synonym: "IgG-negative class switched memory B lymphocyte" EXACT [] synonym: "IgG-negative class switched memory B-cell" EXACT [] synonym: "IgG-negative class switched memory B-lymphocyte" EXACT [] is_a: CL:0000972 ! class switched memory B cell [Term] id: CL:0002118 name: CD38-negative IgG-negative class switched memory B cell namespace: cell def: "A CD38-negative IgG-negative memory B cell is a IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype CD38-negative and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002117 ! IgG-negative class switched memory B cell [Term] id: CL:0002119 name: CD38-positive IgG-negative class switched memory B cell namespace: cell def: "A CD38-positive IgG-negative memory B cell is an IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype CD38-positive and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002117 ! IgG-negative class switched memory B cell [Term] id: CL:0002120 name: CD24-positive CD38-negative IgG-negative class switched memory B cell namespace: cell def: "An CD24-positive CD38-negative IgG-negative memory B cell is a CD38-negative IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype CD24-positive, CD38-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002118 ! CD38-negative IgG-negative class switched memory B cell [Term] id: CL:0002121 name: CD24-negative CD38-negative IgG-negative class switched memory B cell namespace: cell def: "A CD24-negative CD38-negative IgG-negative memory B cell is a CD38-negative IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype CD24-negative, CD38-negative, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002118 ! CD38-negative IgG-negative class switched memory B cell [Term] id: CL:0002122 name: B220-positive CD38-positive IgG-negative class switched memory B cell namespace: cell def: "A B220-positive CD38-positive IgG-negative memory B cell is a CD38-positive IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype B220-positive, CD38-positive, and IgG-negative." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002119 ! CD38-positive IgG-negative class switched memory B cell [Term] id: CL:0002123 name: B220-low CD38-positive IgG-negative class switched memory B cell namespace: cell def: "A B220-low CD38-positive IgG-negative memory B cell is a CD38-positive IgG-negative class switched memory B cell that lacks IgG on the cell surface with the phenotype B220-low, CD38-positive, and IgG-positive." [GOC:dsd, GOC:rhs, GOC:tfm, PMID:20123131] is_a: CL:0002119 ! CD38-positive IgG-negative class switched memory B cell [Term] id: CL:0002124 name: CD27-positive gamma-delta T cell namespace: cell def: "A circulating gamma-delta T cell that is CD27-positive and capable of producing IFN-gamma." [GOC:dsd, GOC:tfm, PMID:19270712] synonym: "gammadelta27-positive" EXACT [] synonym: "gd27-positive" EXACT [] is_a: CL:0000800 ! mature gamma-delta T cell is_a: CL:0000912 ! helper T cell relationship: develops_from CL:0002126 ! CD25-positive, CD27-positive immature gamma-delta T cell [Term] id: CL:0002125 name: CD27-negative gamma-delta T cell namespace: cell def: "A circulating gamma-delta T cell that expresses RORgamma(t), is CD27-negative and is capable of IL-17 secretion." [GOC:dsd, GOC:tfm, PMID:19270712] synonym: "gammadelta-17 cells" EXACT [PMID:21976777] is_a: CL:0000800 ! mature gamma-delta T cell is_a: CL:0000912 ! helper T cell relationship: develops_from CL:0002126 ! CD25-positive, CD27-positive immature gamma-delta T cell [Term] id: CL:0002126 name: CD25-positive, CD27-positive immature gamma-delta T cell namespace: cell def: "A CD25-positive, CD27-positive immature gamma-delta T cell found in the thymus that has an immature phenotype (i.e. CD24-high, CD25-high, CD62L-high, CD44-high, CD2-low, CD5-low)." [GOC:tfm, PMID:19270712] is_a: CL:0000799 ! immature gamma-delta T cell is_a: CL:0000893 ! thymocyte relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0002127 name: innate effector T cell namespace: cell def: "A T cell with a receptor of limited diversity that is capable of immediate effector functions upon stimulation." [GOC:tfm, PMID:20581831] is_a: CL:0000911 ! effector T cell [Term] id: CL:0002128 name: Tc17 cell namespace: cell def: "A CD8-positive, alpha-beta positive T cell with the phenotype CCR6-positive, CCR5-high, CD45RA-negative, and secreting IL-17 and some IFNg." [GOC:dsd, GOC:tfm, PMID:19201830] comment: Found in the CD27-positive CD28-positive or CD27-negative CD28-positive fractions with the phenotype CCR4-negative and CCR7-negative. synonym: "Tc17 T cell" EXACT [] synonym: "Tc17 T lymphocyte" EXACT [] synonym: "Tc17 T-cell" EXACT [] synonym: "Tc17 T-lymphocyte" EXACT [] is_a: CL:0000908 ! CD8-positive, alpha-beta cytokine secreting effector T cell [Term] id: CL:0002129 name: regular atrial cardiac myocyte namespace: cell def: "Regular cardiac myocyte of a cardiac atrium." [GOC:tfm] synonym: "atrial cardiac muscle cell" EXACT [GOC:pr] synonym: "atrial myocyte" EXACT [] synonym: "regular atrial cardiac muscle fiber" EXACT [] synonym: "regular cardiac muscle cell of atrium" EXACT [] xref: FMA:83108 is_a: CL:0002098 ! regular cardiac myocyte [Term] id: CL:0002130 name: regular interatrial cardiac myocyte namespace: cell def: "A cardiac myocyte of the interatrial region of the heart." [GOC:tfm] xref: FMA:228790 is_a: CL:0002098 ! regular cardiac myocyte [Term] id: CL:0002131 name: regular ventricular cardiac myocyte namespace: cell def: "Regular cardiac myocyte of a cardiac ventricle." [GOC:tfm] synonym: "regular cardiac muscle cell of ventricle" EXACT [] synonym: "regular ventricular cardiac muscle fiber" EXACT [] synonym: "ventricular cardiac muscle cell" BROAD [GOC:pr] synonym: "ventricular myocyte" EXACT [] xref: FMA:83109 is_a: CL:0002098 ! regular cardiac myocyte [Term] id: CL:0002132 name: stromal cell of ovary namespace: cell def: "A stomal cell of the ovary" [GOC:tfm] synonym: "ovarian stromal cell" EXACT [GOC:cjm] xref: FMA:72299 is_a: CL:0000499 ! stromal cell relationship: part_of UBERON:0000992 ! female gonad [Term] id: CL:0002133 name: stromal cell of ovorain cortex namespace: cell def: "A stromal cell of the ovarian cortex." [GOC:tfm] xref: FMA:256169 is_a: CL:0002132 ! stromal cell of ovary [Term] id: CL:0002134 name: stromal cell of ovarian medulla namespace: cell def: "A stromal cell of the ovarian medulla." [GOC:tfm] xref: FMA:256171 is_a: CL:0002132 ! stromal cell of ovary relationship: part_of UBERON:0013192 ! ovarian medulla [Term] id: CL:0002135 name: nonkeratinized cell of epidermis namespace: cell def: "Epidermal cells that do not contain keratin. Cell type is usually associated with moist epidermal tissues." [GO:tfm, PMID:1987287] xref: FMA:62880 is_a: CL:0000362 ! epidermal cell [Term] id: CL:0002136 name: type II cell of adrenal cortex namespace: cell def: "A cell in the zona fasciculata that produce glucocorticoids, e.g cortisol." [GOC:tfm, ISBN:0517223651] synonym: "type II cortical cell of adrenal gland" EXACT [] xref: FMA:69547 is_a: CL:0000460 ! glucocorticoid secreting cell is_a: CL:0002097 ! cortical cell of adrenal gland [Term] id: CL:0002137 name: type III cell of adrenal cortex namespace: cell def: "A cell in the zona reticularis that produce sex hormones." [GOC:tfm, ISBN:0517223651] xref: FMA:69564 is_a: CL:0000593 ! androgen secreting cell is_a: CL:0002097 ! cortical cell of adrenal gland [Term] id: CL:0002138 name: endothelial cell of lymphatic vessel namespace: cell alt_id: CL:1000421 def: "A endothelial cell of a lymphatic vessel. The border of the oak leaf-shaped endothelial cell of initial lymphatics are joined by specialized buttons. The discontinuous feature of buttons distinguishes them from zippers in collecting lymphatics, but both types of junctions are composed of proteins typical of adherens junctions and tight junctions found in the endothelium of blood vessels. Buttons seal the sides of flaps of the oak leaf-shaped endothelial cell, leaving open the tips of flaps as routes for fluid entry without disassembly and reformation of intercellular junctions." [GOC:tfm, PMID:17846148] synonym: "LEC" EXACT [] synonym: "lymphatic endothelial cell" EXACT [] xref: BTO:0004167 xref: FMA:68458 is_a: CL:0002139 ! endothelial cell of vascular tree relationship: develops_from CL:0005022 ! vascular lymphangioblast relationship: part_of UBERON:0001473 ! lymphatic vessel [Term] id: CL:0002139 name: endothelial cell of vascular tree namespace: cell def: "An endothelial cell of the vascular tree, which includes blood vessels and lymphatic vessels." [GOC:dsd, GOC:tfm, PMID:12768659] comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, TAL1-positive. synonym: "cubodial endothelial cell of vascular tree" NARROW [] synonym: "vascular endothelial cell" EXACT [] xref: BTO:0001854 xref: FMA:67755 is_a: CL:0000115 ! endothelial cell [Term] id: CL:0002140 name: acinar cell of sebaceous gland namespace: cell alt_id: CL:0002587 def: "A sebum secreting cell of the skin that secretes sebum into the hair follicles." [GOC:tfm] synonym: "sebocyte" EXACT [] xref: BTO:0004613 xref: FMA:70953 is_a: CL:0000317 ! sebum secreting cell is_a: CL:0000622 ! acinar cell is_a: CL:1000448 ! epithelial cell of sweat gland relationship: part_of UBERON:0003487 ! skin sebaceous gland [Term] id: CL:0002141 name: active chief cell of parathyroid gland namespace: cell def: "A parathyroid chief cell that is actively secreting hormone. Have large Golgi complexes with numerous vesicles and small membrane-bound granules; secretory granules are rare, cytoplasmic glycogen sparse, much of the cytoplasm being occupied by flat sacs of granular endoplasmic reticulum in parallel arrays; in normal humans, inactive chief cells outnumber active chief cells in a ratio of 3-5:1" [FMA:0517223651, GOC:tfm] xref: FMA:69082 is_a: CL:0000446 ! chief cell of parathyroid gland [Term] id: CL:0002142 name: dark cell of eccrine sweat gland namespace: cell def: "A cell pyramidal in shape, with their broad ends facing and forming the greater extent of the lining of the main lumen. Secretes glycoproteins associated with mucus." [ISBN:0517223651] xref: FMA:70659 is_a: CL:0000318 ! sweat secreting cell is_a: CL:0000434 ! eccrine cell [Term] id: CL:0002143 name: dark chief cell of parathyroid cell namespace: cell def: "A chief cell that is smaller than light chief cells and has a smaller and darker nucleus and a finely granular cytoplasm with many granules." [GOC:tfm, ISBN:0721662544] xref: FMA:69080 is_a: CL:0000446 ! chief cell of parathyroid gland [Term] id: CL:0002144 name: capillary endothelial cell namespace: cell def: "An endothelial cell found in capillaries." [GOC:tfm] xref: BTO:0004956 xref: FMA:67756 is_a: CL:0000071 ! blood vessel endothelial cell relationship: part_of UBERON:0001915 ! endothelium of capillary [Term] id: CL:0002145 name: ciliated columnar cell of tracheobronchial tree namespace: cell def: "A ciliated columnar cell found in the trachea and bronchus. Vary from low to tall columnar; possesses up to 300 cilia at its surface, interspersed with long irregular microvilli with the cilia varying in length from about 6um in the trachea to about 4um in the terminal bronchioles; driving force of the ciliary current in the bronchial tree." [GOC:tfm, ISBN:0517223651] xref: FMA:70542 is_a: CL:0002202 ! epithelial cell of tracheobronchial tree is_a: CL:0005012 ! multi-ciliated epithelial cell relationship: develops_from CL:0002209 ! intermediate epitheliocyte [Term] id: CL:0002146 name: clear cell of eccrine sweat gland namespace: cell def: "A sweat producing cell of eccrine sweat glands. Pyramidal in shape, with its base resting on the basal lamina or myoepitheliocytes, and its microvillus-covered apical plasma membrane line up the intercellular canaliculi. Cell is not stained by hematoxylin or eosin." [GOC:tfm, ISBN:0517223651] xref: FMA:70658 is_a: CL:0000318 ! sweat secreting cell is_a: CL:0000434 ! eccrine cell [Term] id: CL:0002147 name: clear chief cell of parathyroid cell namespace: cell def: "A chief cell of parathyroid glands that does not stain with hematoxylin or eosin. This cell is larger, has a larger nucleus and fewer secretory granules than dark chief cells." [GOC:tfm, ISBN:0618947256] xref: FMA:69081 is_a: CL:0000446 ! chief cell of parathyroid gland [Term] id: CL:0002148 name: dental pulp cell namespace: cell def: "A cell found within the dental pulp." [GOC:tfm, PMID:11087820] xref: BTO:0000339 xref: FMA:87170 is_a: CL:0002159 ! general ecto-epithelial cell is_a: CL:0002320 ! connective tissue cell relationship: part_of UBERON:0001754 ! dental pulp [Term] id: CL:0002149 name: epithelial cell of uterus namespace: cell alt_id: CL:1000294 def: "An epithelial cell of the uterus." [GOC:tfm] xref: FMA:256161 is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0000995 ! uterus [Term] id: CL:0002150 name: epithelioid macrophage namespace: cell def: "Epithelioid macrophage is an activated macrophage that resembles an epithelial cell with finely granular, pale eosinophilic cytoplasm and central, ovoid nucleus (oval or elongate). This cell type is able to merge into one another to form aggregates. The presence of such aggregates may characterize some pathologic conditions, mainly granulomatous inflammation." [MESH:A11.329.372.300, PMID:12673090] synonym: "epithelioid cell" BROAD [] synonym: "epithelioid histocyte" EXACT [MESH:A11.329.372.300, PMID:12673090] synonym: "epitheloid macrophage" EXACT [] xref: FMA:83514 is_a: CL:0000235 ! macrophage relationship: develops_from CL:0000861 ! elicited macrophage [Term] id: CL:0002151 name: late promyelocyte namespace: cell def: "A promyelocyte that is considerably smaller, with more condensed chromatin, and nucleoli are no longer conspicuous." [ISBN:0412046911] xref: FMA:83534 is_a: CL:0000836 ! promyelocyte [Term] id: CL:0002152 name: columnar cell of endocervix namespace: cell def: "A columnar cell of the cervix uteri." [GOC:tfm, ISBN:0721662544] xref: FMA:86486 is_a: CL:0002149 ! epithelial cell of uterus relationship: part_of UBERON:0000458 ! endocervix [Term] id: CL:0002153 name: corneocyte namespace: cell def: "The dead keratin-filled squamous cell of the stratum corneum. This cell type lacks a nucleus." [GOC:tfm, ISBN:068340007X] xref: BTO:0001943 xref: FMA:68650 is_a: CL:0000225 ! anucleate cell is_a: CL:0000311 ! keratin accumulating cell relationship: develops_from CL:0000312 ! keratinocyte relationship: part_of UBERON:0002027 ! stratum corneum of epidermis [Term] id: CL:0002154 name: early promyelocyte namespace: cell def: "A promyelocyte with a nucleus that is indented and contains more marginated heterochromatin compared to its precursor cell (myeloblast); cytoplasm is deeply basophilic and contains numerous mitochondria and meandering cysternae of endoplasmic reticulum; largest of the granulocyte lineages." [FMA:0412046911, GOC:tfm] xref: FMA:83533 is_a: CL:0000836 ! promyelocyte [Term] id: CL:0002155 name: echinocyte namespace: cell def: "A crenated erythrocyte with 30+ crenations, bumps or spurs that are the result of damage due to age or disease." [GOC:tfm] synonym: "burr cell" EXACT [] xref: FMA:81099 is_a: CL:0000595 ! enucleate erythrocyte [Term] id: CL:0002157 name: endosteal cell namespace: cell def: "A cell type that makes up the highly vascular membrane lining the marrow cavity of long bones." [FMA:0618947256, GOC:tfm] xref: FMA:86495 is_a: CL:0001035 ! bone cell is_a: CL:0002078 ! meso-epithelial cell relationship: part_of UBERON:0009859 ! endosteum [Term] id: CL:0002158 name: external epithelial cell of tympanic membrane namespace: cell def: "Epithelial cell found on the external side of the tympanic membrane" [GOC:tfm, PMID:5686391] xref: FMA:70558 is_a: CL:0002159 ! general ecto-epithelial cell [Term] id: CL:0002159 name: general ecto-epithelial cell namespace: cell def: "Epithelial cells derived from general body ectoderm and ectoderm placodes." [GOC:tfm] xref: FMA:70556 is_a: CL:0002077 ! ecto-epithelial cell [Term] id: CL:0002160 name: basal external epithelial cell of tympanic membrane namespace: cell def: "A cell type found in the basal epithelial layer on the external side of the tympanic membrane. Cell type is flattened with intracellular spaces of variable dimensions." [PMID:5686391] is_a: CL:0002158 ! external epithelial cell of tympanic membrane [Term] id: CL:0002161 name: superficial external epithelial cell of tympanic membrane namespace: cell def: "A cell type found on the superficial layer of the external side of the tympanic membrane. This cell-type lacks a nucleus." [PMID:5686391] is_a: CL:0002158 ! external epithelial cell of tympanic membrane [Term] id: CL:0002162 name: internal epithelial cell of tympanic membrane namespace: cell def: "An extremely flattened cell type found on the inner side of the tympanic membrane. The surface of this cell type carries sparse pleomorphic microvilli that are more common near the junctional zones." [FMA:5686391, GOC:tfm] xref: FMA:70626 is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0002364 ! tympanic membrane [Term] id: CL:0002163 name: internal pillar cell of cochlea namespace: cell def: "A rod-shpaed cell that forms a single row adjacent to and supporting the inner hair cells." [GOC:tfm, http://www.theodora.com/anatomy/the_internal_ear_or_labyrinth.html] xref: FMA:75722 xref: FMA:75726 is_a: CL:1000191 ! pillar cell [Term] id: CL:0002164 name: external pillar cell of cochlea namespace: cell def: "A rod-shaped cell found in 3 or 4 rows that lie adjacent to and support the outer hair cells." [GOC:tfm, http://www.theodora.com/anatomy/the_internal_ear_or_labyrinth.html] xref: FMA:75727 is_a: CL:1000191 ! pillar cell [Term] id: CL:0002165 name: phalangeal cell namespace: cell def: "A supporting cell that is attached to the basement membrane and forms rows that support the hair cells." [GOC:tfm, ISBN:0618947256] xref: FMA:79800 is_a: CL:0002490 ! organ of Corti supporting cell [Term] id: CL:0002166 name: epithelial cell of Malassez namespace: cell def: "An epithelial cell that remains from the disintegration of the epithelial root sheath involved in the development of teeth." [GOC:tfm, ISBN:0517223651, ISBN:0815129521] synonym: "epithelial cell rests of Malassez " EXACT [] synonym: "epithelial debris of Malassez" EXACT [] xref: FMA:62987 is_a: CL:0002159 ! general ecto-epithelial cell is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0001708 ! jaw skeleton [Term] id: CL:0002167 name: olfactory epithelial cell namespace: cell def: "A specialized cell involved in sensory perception of smell." [GOC:tfm, PMID:7143026] xref: FMA:67870 is_a: CL:0000098 ! sensory epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002168 name: border cell of cochlea namespace: cell def: "A border cell is a slender columnar cell on the medial portion of the basilar membrane." [FMA:0412046911, GOC:tfm] xref: FMA:79798 is_a: CL:0002315 ! supporting cell of cochlea [Term] id: CL:0002169 name: basal cell of olfactory epithelium namespace: cell alt_id: CL:1000395 def: "An epithelial cell located on the basal lamina of the olfactory epithelium." [GOC:tfm, PMID:7143026] xref: FMA:62303 is_a: CL:0002167 ! olfactory epithelial cell relationship: part_of UBERON:0001997 ! olfactory epithelium [Term] id: CL:0002170 name: keratinized cell of the oral mucosa namespace: cell def: "A keratinized cell located in the hard palate or gingiva." [GOC:tfm, PMID:12014572] is_a: CL:0000237 ! keratinizing barrier epithelial cell is_a: CL:0002251 ! epithelial cell of alimentary canal is_a: CL:0002336 ! buccal mucosa cell relationship: part_of UBERON:0003729 ! mouth mucosa [Term] id: CL:0002171 name: globose cell of olfactory epithelium namespace: cell def: "A rounded or elliptical epithelial cell, with pale-staining open face nucleus and pale cytoplasm rich in free ribosomes and clusters of centrioles; form a distinct basal zone spaced slightly from the basal surface of the epithelium." [GOC:tfm, PMID:17468753] synonym: "blastema cell of olfactory epithelium" EXACT [] xref: FMA:67874 is_a: CL:0002169 ! basal cell of olfactory epithelium [Term] id: CL:0002172 name: interdental cell of cochlea namespace: cell def: "A long, spindle-shaped supporting cells arranged in parallel rows that secretes components of the tectorial membrane and potassium ions into the endolymph." [GOC:tfm, MP:0004482, PMID:2111803] synonym: "interdental cell" EXACT [] xref: FMA:79797 is_a: CL:0001035 ! bone cell is_a: CL:0002315 ! supporting cell of cochlea relationship: part_of UBERON:0002276 ! lamina of spiral limbus [Term] id: CL:0002173 name: extraglomerular mesangial cell namespace: cell def: "A cell that is a specialized type of pericyte providing structural support for the capillary loops of kidney. A flat, elongated cell with extensive fine cytoplasmic processes found outside the kidney glomerulus near the macula densa and bound laterally by afferent and efferent arterioles. Being phagocytic, this cell participates in the continuous turnover of the basal lamina by removing its outer portion containing residues of filtration, while the lamina is renewed on its inner surface by the endothelial cells." [GOC:tfm, ISBN:0412046911, http:/www.copewithcytokines.de/cope.cgi?key=Lacis%20cells] synonym: "Goormaghtigh cell" EXACT [] synonym: "lacis cell" RELATED [] synonym: "polar cushion cells" EXACT [] xref: FMA:84143 xref: KUPO:0001033 is_a: CL:0000650 ! mesangial cell is_a: CL:1000500 ! kidney interstitial cell is_a: CL:1000618 ! juxtaglomerular complex cell is_a: CL:1001318 ! renal interstitial pericyte relationship: part_of UBERON:0002321 ! extraglomerular mesangium [Term] id: CL:0002174 name: follicular cell of ovary namespace: cell def: "A cell within the follicle of an ovary." [GOC:tfm] xref: EMAPA:31247 xref: FMA:70589 is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0002175 name: primary follicular cell of ovary namespace: cell def: "A cell within the primary follicle of the ovary." [GOC:tfm] xref: FMA:70590 is_a: CL:0002174 ! follicular cell of ovary [Term] id: CL:0002176 name: secondary follicular cell of ovary namespace: cell def: "A cell of a secondary follicile within the ovary." [GOC:tfm] xref: FMA:70591 is_a: CL:0002174 ! follicular cell of ovary [Term] id: CL:0002177 name: folliculostellate cell of pars distalis of adenohypophysis namespace: cell def: "A supporting cell of the anterior pituitary gland involved in trophic and catabolic processes; expresses a broad spectrum of cytokeratins indicative of their epithelial nature." [GOC:tfm] synonym: "folliculostellate cell of pars anterior of adenohypophysis" EXACT [] xref: FMA:83102 is_a: CL:0000642 ! folliculostellate cell is_a: CL:0000710 ! neurecto-epithelial cell relationship: part_of UBERON:0006964 ! pars distalis of adenohypophysis [Term] id: CL:0002178 name: epithelial cell of stomach namespace: cell alt_id: CL:1000399 def: "An epithelial cell found in the lining of the stomach." [GOC:tfm] xref: FMA:62948 is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0000945 ! stomach [Term] id: CL:0002179 name: foveolar cell of stomach namespace: cell def: "An epithelial cell within one of the pits in the embryonic gastric mucosa from which the gastric glands develop ." [GOC:tfm, http://www.merriam-webster.com/medical/foveolar] xref: FMA:86552 is_a: CL:0002178 ! epithelial cell of stomach [Term] id: CL:0002180 name: mucous cell of stomach namespace: cell alt_id: CL:1000404 def: "A mucous cell in the epithelium of the stomach." [GOC:tfm] xref: FMA:63464 is_a: CL:0002659 ! glandular cell of stomach relationship: part_of UBERON:0001199 ! mucosa of stomach [Term] id: CL:0002181 name: mucus neck cell of gastric gland namespace: cell alt_id: CL:1000401 def: "A neck cell that secretes mucus within the stomach. Its products are distinct histochemically from those of the surface mucous cells of stomach." [GOC:tfm, ISBN:0517223651] xref: FMA:62954 is_a: CL:0000651 ! neck cell is_a: CL:0002180 ! mucous cell of stomach relationship: part_of UBERON:0000325 ! gastric gland [Term] id: CL:0002182 name: surface mucosal cell of stomach namespace: cell def: "A simple columnar cell that populates the entire luminal surface including the gastric pits. This cell types secrete mucus to form a thick protective, lubricant layer over the gastric wall." [GOC:tfm, ISBN:0517223651] xref: FMA:62949 is_a: CL:0000319 ! mucus secreting cell is_a: CL:0002180 ! mucous cell of stomach [Term] id: CL:0002183 name: stem cell of gastric gland namespace: cell alt_id: CL:1000400 def: "A stomach epithelial cell that is olumnar in form with a few short apical microvilli; relatively undifferentiated mitotic cell from which other types of gland are derived; few in number, situated in the isthmus region of the gland and base of the gastric pit." [GOC:tfm, ISBN:0517223651] xref: FMA:62953 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002180 ! mucous cell of stomach relationship: part_of UBERON:0000325 ! gastric gland [Term] id: CL:0002184 name: basal proper cell of olfactory epithelium namespace: cell def: "A flat or angular epithelial cell with condensed nuclei and darkly staining cytoplasm containing numerous intermediate filaments inserted into desmosomes contacting surrounding supporting cells; lie in contact with the basal lamina of olfactory epithelium." [GOC:tfm, PMID:0517223651, PMID:11891623] synonym: "horizontal basal cells" EXACT [] xref: FMA:62304 is_a: CL:0002169 ! basal cell of olfactory epithelium [Term] id: CL:0002187 name: basal cell of epidermis namespace: cell alt_id: CL:1000439 def: "A basally situated, mitotically active, columnar-shaped keratinocyte attached to the basement membrane." [GOC:tfm, ISBN:0517223651] xref: FMA:70571 is_a: CL:0000312 ! keratinocyte is_a: CL:0000646 ! basal cell is_a: CL:1000428 ! stem cell of epidermis relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:0002188 name: glomerular endothelial cell namespace: cell def: "An endothelial cell found in the glomerulus of the kidney. This cell is flattened, highly fenestrated, and plays a vital role in the formation of glomerular ultrafiltrate." [GOC:tfm, PMID:15840009] xref: BTO:0004632 xref: FMA:70970 is_a: CL:0000115 ! endothelial cell is_a: CL:0000666 ! fenestrated cell is_a: CL:1000746 ! glomerular cell relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: CL:0002189 name: granular cell of epidermis namespace: cell def: "A keratinocyte of the epidermis that is characterized by containing granules of keratohyalin and lamellar granules." [ISBN:1416031855] xref: FMA:70543 is_a: CL:0000312 ! keratinocyte [Term] id: CL:0002190 name: squamous cell of epidermis namespace: cell def: "A flat keratinocyte immediately below the cornified layer." [GOC:tfm, ISBN:0517223651] xref: FMA:86925 is_a: CL:0000312 ! keratinocyte [Term] id: CL:0002191 name: granulocytopoietic cell namespace: cell def: "A cell involved in the formation of a granulocyte." [GOC:tfm] xref: FMA:83519 is_a: CL:0000839 ! myeloid lineage restricted progenitor cell [Term] id: CL:0002192 name: metamyelocyte namespace: cell def: "A eosinophil precursor in the granulocytic series, being a cell intermediate in development between a myelocyte and a band form cell. The nucleus becomes indented where the indentation is smaller than half the distance to the farthest nuclear margin; chromatin becomes coarse and clumped; specific granules predominate while primary granules are rare." [GOC:tfm, ISBN:0721601464, http://en.wikipedia.org/wiki/Metamyelocyte] xref: FMA:83541 is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0002193 ! myelocyte [Term] id: CL:0002193 name: myelocyte namespace: cell def: "A cell type that is the first of the maturation stages of the granulocytic leukocytes normally found in the bone marrow. Granules are seen in the cytoplasm. The nuclear material of the myelocyte is denser than that of the myeloblast but lacks a definable membrane. The cell is flat and contains increasing numbers of granules as maturation progresses." [GOC:tfm, ISBN:0323052908, http://en.wikipedia.org/wiki/Myelocyte] xref: BTO:0000734 xref: FMA:83525 is_a: CL:0002191 ! granulocytopoietic cell relationship: develops_from CL:0000836 ! promyelocyte [Term] id: CL:0002194 name: monopoietic cell namespace: cell def: "A cell involved in the formation of a monocyte (monopoiesis)." [GOC:tfm] xref: FMA:83552 is_a: CL:0000839 ! myeloid lineage restricted progenitor cell [Term] id: CL:0002195 name: hepatic stem cell namespace: cell def: "A stem cell that can give rise to the cells of the liver." [GOC:tfm] xref: FMA:86577 is_a: CL:0000048 ! multi fate stem cell relationship: part_of UBERON:0002107 ! liver [Term] id: CL:0002196 name: hepatic oval stem cell namespace: cell alt_id: CL:1000036 def: "A transient hepatic stem cell observed after liver injury with a high nuclear to cytoplasm ratio that can differentiate into mature hepatocytes and bile duct cells. Arises from more than one tissue." [PMID:17901986] synonym: "hepatic oval cell" EXACT [] xref: BTO:0004270 xref: FMA:86576 is_a: CL:0002195 ! hepatic stem cell [Term] id: CL:0002197 name: inactive chief cell of parathyoid gland namespace: cell def: "A parathyroid chief cell that is not actively secreting hormone. Contains small Golgi complexes with only a few grouped vesicles and membrane-bound secretory granules; glycogen and many lipofuscin granules abound but sacs of granular endoplasmic reticulum are rare and dispersed. In normal humans, inactive chief cells out number active chief cells in a ratio of 3-5:1." [GOC:tfm, ISBN:0517223651] is_a: CL:0000446 ! chief cell of parathyroid gland [Term] id: CL:0002198 name: oncocyte namespace: cell def: "A large epithelial cell with an extremely acidophilic and granular cytoplasm, containing vast numbers of mitochondria; such cells may undergo neoplastic transformation. From the Greek word onkos meaning swelling, this cell type is found in parathyroid, salivary and thyroid glands." [GOC:tfm, ISBN:0721662544, PMID:20013317] synonym: "oxyphil" EXACT [] xref: FMA:67606 is_a: CL:0002076 ! endo-epithelial cell [Term] id: CL:0002199 name: oxyphil cell of parathyroid gland namespace: cell def: "An oncocyte located in the parathyroid gland." [PMID:20013317] xref: FMA:69084 is_a: CL:0002198 ! oncocyte is_a: CL:0002260 ! epithelial cell of parathyroid gland [Term] id: CL:0002200 name: oxyphil cell of thyroid namespace: cell def: "An oncocyte located in the thyroid." [GOC:tfm, PMID:20013317] synonym: "Askanazy cells" EXACT [] synonym: "Hurthle cells" EXACT [] xref: FMA:87169 is_a: CL:0002198 ! oncocyte is_a: CL:0002257 ! epithelial cell of thyroid gland [Term] id: CL:0002201 name: renal beta-intercalated cell namespace: cell def: "A renal intercalated cell that secretes base and reabsorbs acid in the coritcal collecting duct to mantain acid/base balance." [GOC:tfm, PMID:11781354] is_a: CL:0005010 ! renal intercalated cell [Term] id: CL:0002202 name: epithelial cell of tracheobronchial tree namespace: cell alt_id: CL:1000407 def: "An epithelial cell of the tracheobronchial tree." [GOC:tfm] xref: FMA:66816 is_a: CL:0002632 ! epithelial cell of lower respiratory tract relationship: part_of UBERON:0007196 ! tracheobronchial tree [Term] id: CL:0002203 name: Brush cell of epithelium proper of large intestine namespace: cell alt_id: CL:1000387 def: "Brush cell found in the epithelial layer of the colon." [GOC:tfm] comment: Brush cells are a distinct cell type from brush border cell-types. xref: FMA:263222 is_a: CL:0002204 ! brush cell is_a: CL:0002253 ! epithelial cell of large intestine [Term] id: CL:0002204 name: brush cell namespace: cell def: "A cell type found in the gastrointestinal and respiratory tracts that is characterized by the presence of a tuft of blunt, squat microvilli (120-140 per cell). Function of this cell type is not known." [GOC:tfm, ISBN:0517223651, PMID:15817800] synonym: "caveolated cell" EXACT [] synonym: "fibrillovesicular cell" EXACT [] synonym: "multivesicular cell" EXACT [] synonym: "tuft cell" EXACT [] xref: FMA:67978 is_a: CL:0002076 ! endo-epithelial cell [Term] id: CL:0002205 name: brush cell of lobular bronchiole namespace: cell alt_id: CL:1000386 def: "A brush cell found in the epithelium of lobular bronchiole." [GOC:tfm] xref: FMA:263220 is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0002208 ! brush cell of bronchus relationship: part_of UBERON:0002051 ! epithelium of bronchiole [Term] id: CL:0002206 name: brush cell of terminal bronchiole namespace: cell alt_id: CL:1000390 def: "A brush cell of the epithelium in the terminal bronchiole." [GOC:tfm] xref: FMA:263228 is_a: CL:0002205 ! brush cell of lobular bronchiole relationship: part_of UBERON:0001958 ! epithelium of terminal bronchiole [Term] id: CL:0002207 name: brush cell of trachea namespace: cell alt_id: CL:1000388 def: "Brush cell of the epithelium in the trachea." [GOC:tfm] xref: FMA:263224 is_a: CL:0000307 ! tracheal epithelial cell is_a: CL:0002075 ! brush cell of trachebronchial tree relationship: part_of UBERON:0001901 ! epithelium of trachea [Term] id: CL:0002208 name: brush cell of bronchus namespace: cell alt_id: CL:1000389 def: "A brush cell found in the epithelium of bronchus." [GOC:tfm] xref: FMA:263226 is_a: CL:0002075 ! brush cell of trachebronchial tree is_a: CL:0002328 ! bronchial epithelial cell relationship: part_of UBERON:0002031 ! epithelium of bronchus [Term] id: CL:0002209 name: intermediate epitheliocyte namespace: cell def: "An epithelial cell present in the trachea and bronchi; columnar in shape; generally lack cilia; immature forms of ciliated or secretory cells which have been formed from stem cells." [GOC:tfm, ISBN:0517223651] synonym: "undifferentiated columnar cell of tracheobronchial tree" EXACT [] xref: FMA:69060 is_a: CL:0002202 ! epithelial cell of tracheobronchial tree [Term] id: CL:0002210 name: red muscle cell namespace: cell def: "A slow muscle cell that contains high levels of myoglobin and oxygen storing proteins giving the cell a red appearance." [GOC:tfm, ISBN:0517223651] synonym: "oxidative muscle fiber" EXACT [] synonym: "red muscle fiber" EXACT [] xref: FMA:84448 is_a: CL:0002372 ! myotube [Term] id: CL:0002211 name: type I muscle cell namespace: cell def: "A slow muscle cell that has large amounts of myoglobin, stores energy as triglycerides, generates ATP by the oxidative method and is resistant to fatigue." [GOC:tfm, ISBN:0517223651] synonym: "intermediate muscle fiber" RELATED [MESH:A02.633.565.700] synonym: "slow twitch fiber" EXACT [] synonym: "slow twitch muscle cell" EXACT [] synonym: "slow twitch muscle fiber" RELATED [MESH:A02.633.565.700] synonym: "slow-twitch muscle fiber" RELATED [MESH:A02.633.565.700] synonym: "type 1 muscle cell" EXACT [] synonym: "type 1 muscle fiber" EXACT [] synonym: "type I muscle fiber" EXACT [] xref: BTO:0001812 xref: FMA:84413 xref: MESH:A02.633.565.700 is_a: CL:0000189 ! slow muscle cell is_a: CL:0002210 ! red muscle cell [Term] id: CL:0002212 name: type II muscle cell namespace: cell def: "A fast muscle fiber cell that stores energy in the form of glycogen and creatine phosphate." [GOC:tfm] synonym: "type 2 muscle cell" EXACT [] synonym: "type 2 muscle fiber" EXACT [] synonym: "type II muscle fiber" EXACT [] xref: BTO:0001813 xref: FMA:84414 is_a: CL:0000190 ! fast muscle cell [Term] id: CL:0002213 name: white muscle cell namespace: cell def: "A muscle cell with low content of myoglobin and other oxygen storing proteins. This muscle cell has a white appearance." [GOC:tfm, ISBN:0517223651] xref: FMA:84449 is_a: CL:0000190 ! fast muscle cell [Term] id: CL:0002214 name: type IIa muscle cell namespace: cell def: "A type II muscle cell that contains large amounts of myoglobin, has many mitochondria and very many blood capillaries. Type II A cells are red, have a very high capacity for generating ATP by oxidative metabolic processes, split ATP at a very rapid rate, have a fast contraction velocity and are resistant to fatigue." [GOC:tfm] synonym: "fast twitch A" EXACT [] synonym: "fatigue resistant fast twitch muscle cell" EXACT [] synonym: "type 2a muscle cell" EXACT [] synonym: "type 2a muscle fiber" EXACT [] synonym: "type IIa muscle fiber" EXACT [] xref: BTO:0001813 xref: FMA:84415 is_a: CL:0002210 ! red muscle cell is_a: CL:0002212 ! type II muscle cell [Term] id: CL:0002215 name: type IIb muscle cell namespace: cell def: "A type II muscle cell that contains a low content of myoglobin, relatively few mitochondria, relatively few blood capillaries and large amounts of glycogen. Type II B fibres are white, geared to generate ATP by anaerobic metabolic processes, not able to supply skeletal muscle fibres continuously with sufficient ATP, fatigue easily, split ATP at a fast rate and have a fast contraction velocity." [GOC:tfm, ISBN:0517223651, http://en.wikipedia.org/wiki/Skeletal_muscle] synonym: "type 2b muscle cell" EXACT [] synonym: "type 2b muscle fiber" EXACT [] synonym: "type IIb muscle fiber" EXACT [] xref: FMA:84416 is_a: CL:0002212 ! type II muscle cell is_a: CL:0002213 ! white muscle cell [Term] id: CL:0002216 name: intermediate muscle cell namespace: cell def: "An intermediate muscle cell that has characteristics of both fast and slow muscle cells." [GOC:tfm] xref: FMA:84450 is_a: CL:0002372 ! myotube [Term] id: CL:0002217 name: intermediate trophoblast cell namespace: cell def: "A trophoblast that leaves the placenta and invades the endometrium and myometrium. This cell type is crucial in increasing blood flow to the fetus." [GOC:tfm, http://www.med.yale.edu/obgyn/kliman/placenta/articles/EOR_Placenta/Trophtoplacenta.html] xref: BTO:0002366 xref: FMA:86564 is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0002218 name: immature dendritic epithelial T cell precursor namespace: cell def: "A double negative thymocyte that has a T cell receptor consisting of a gamma chain that has as part a Vgamma3 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-positive. This cell-type is found in the fetal thymus with highest numbers occurring at E17-E18." [GOC:tfm, http://www.immgen.org] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "immature DEC precursor" EXACT [] synonym: "immature DETC precursor" EXACT [] is_a: CL:0002404 ! fetal thymocyte [Term] id: CL:0002219 name: anchoring trophoblasts namespace: cell def: "A trophoblast found at the junction of the placenta. This cell type makes a unique fibronectin-trophouteronectin junction that helps mediate attachment of the placenta to the uterus. This cell type is also found junction of the chorion layer of the external membranes and the decidua." [GOC:tfm, http://www.med.yale.edu/obgyn/kliman/placenta/articles/EOR_Placenta/Trophtoplacenta.html] is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0002220 name: interstitial cell of pineal gland namespace: cell def: "A cell located between the pinealocytes." [GOC:tfm, ISBN:0517223651] xref: FMA:86575 is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002221 name: keratinized squamous cell of esophagus namespace: cell def: "A squamous cell that has keratin in the esophagus." [GOC:tfm, PMID:11694559] xref: FMA:86549 is_a: CL:0000237 ! keratinizing barrier epithelial cell is_a: CL:0002252 ! epithelial cell of esophagus [Term] id: CL:0002222 name: vertebrate lens cell namespace: cell def: "A cell comprising the transparent, biconvex body separating the posterior chamber and vitreous body, and constituting part of the refracting mechanism of the mammalian eye." [GOC:tfm, ISBN:0721662544] xref: FMA:70950 is_a: CL:0000066 ! epithelial cell is_a: CL:0000306 ! crystallin accumulating cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000965 ! lens of camera-type eye [Term] id: CL:0002223 name: anterior lens cell namespace: cell def: "A cell of the transparent layer of simple cuboidal epithelium over the anterior surface of the lens; transform into lens fiber(s)." [GOC:tfm, ISBN:0517223651] xref: FMA:63181 is_a: CL:0002224 ! lens epithelial cell [Term] id: CL:0002224 name: lens epithelial cell namespace: cell def: "A cell of the cuboidal epithelium that covers the lens. The cells of the lens epithelium regulate most of the homeostatic functions of the lens. As ions, nutrients, and liquid enter the lens from the aqueous humor, Na+/K+ ATPase pumps in the lens epithelial cells pump ions out of the lens to maintain appropriate lens osmolarity and volume, with equatorially positioned lens epithelium cells contributing most to this current. The activity of the Na+/K+ ATPases keeps water and current flowing through the lens from the poles and exiting through the equatorial regions. The cells of the lens epithelium also serve as the progenitors for new lens fibers. It constantly lays down fibers in the embryo, fetus, infant, and adult, and continues to lay down fibers for lifelong growth." [GOC:tfm, ISBN:0721662544, http://en.wikipedia.org/wiki/Lens_%28anatomy%29#Lens_epithelium] xref: FMA:67559 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002222 ! vertebrate lens cell relationship: part_of UBERON:0001803 ! epithelium of lens [Term] id: CL:0002225 name: secondary lens fiber namespace: cell def: "A lens fiber cell that develops from primary lens fiber; located towards the center of lens; cell organelles are normally degraded or in the process of being degraded." [GOC:tfm, ISBN:0517223651] synonym: "secondary lens fibre" EXACT [] is_a: CL:0011004 ! lens fiber cell relationship: develops_from CL:0002228 ! primary lens fiber [Term] id: CL:0002226 name: non-nucleated secondary lens fiber namespace: cell def: "A secondary lens fiber cell that lacks a nucleus." [GOC:tfm] synonym: "non-nucleated secondary lens fibre" EXACT [] xref: FMA:67561 is_a: CL:0002225 ! secondary lens fiber relationship: develops_from CL:0002227 ! nucleated secondary lens fiber [Term] id: CL:0002227 name: nucleated secondary lens fiber namespace: cell def: "A secondary fiber cell that contains a nucleus." [GOC:tfm] synonym: "nucleated secondary lens fibre" EXACT [] xref: FMA:70949 is_a: CL:0002225 ! secondary lens fiber [Term] id: CL:0002228 name: primary lens fiber namespace: cell def: "An elongating cell that rapidly obliterates the lumen of the lens vesicle. Subsequently, differentiation of this cell type at the lens equator leads to the formation of secondary fiber cells that come to overlie the primary fibers." [GOC:tfm, PMID:10711704] synonym: "primary lens fibre" EXACT [] xref: FMA:70613 is_a: CL:0011004 ! lens fiber cell relationship: develops_from CL:0002223 ! anterior lens cell [Term] id: CL:0002229 name: light chief cell of parathyroid gland namespace: cell def: "A chief cell that is bigger than dark chief cells and has a larger and lighter nucleus and a cytoplasm with few granules." [GOC:tfm, ISBN:0721662544] xref: FMA:69079 is_a: CL:0000446 ! chief cell of parathyroid gland [Term] id: CL:0002231 name: epithelial cell of prostate namespace: cell alt_id: CL:1000295 alt_id: CL:1000408 def: "An epithelial cell of the prostate." [GOC:tfm] synonym: "prostate epithelial cell" EXACT [] xref: FMA:256163 xref: FMA:66817 is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:0002232 name: epithelial cell of prostatic duct namespace: cell alt_id: CL:1000462 def: "An epithelial cell of prostatic duct." [GOC:tfm] synonym: "ductal epithelial cell of prostate" EXACT [FMA:74224] xref: FMA:74224 is_a: CL:0000072 ! non-branched duct epithelial cell is_a: CL:0002231 ! epithelial cell of prostate relationship: part_of UBERON:0002485 ! prostate duct [Term] id: CL:0002233 name: epithelial cell of prostatic acinus namespace: cell alt_id: CL:1000461 def: "An epithelial cell of the prostatic acinus." [GOC:tfm, PMCID:PMC2673349] synonym: "acinar epithelial cell of prostate" EXACT [FMA:74223] xref: FMA:74223 is_a: CL:0002231 ! epithelial cell of prostate relationship: part_of UBERON:0004179 ! prostate glandular acinus [Term] id: CL:0002234 name: basal cell of prostatic acinus namespace: cell alt_id: CL:1000464 def: "A cell of the basal layer of the epithelium in the prostatic acinus." [GOC:tfm] synonym: "basal epithelial cell of prostatic acinus" EXACT [FMA:74265] xref: FMA:74265 is_a: CL:0002233 ! epithelial cell of prostatic acinus is_a: CL:0002341 ! basal cell of prostate epithelium [Term] id: CL:0002235 name: luminal cell of prostatic acinus namespace: cell def: "A cell of the luminal layer of the epithelium in the prostatic acinus." [GOC:tfm] xref: FMA:74266 is_a: CL:0002233 ! epithelial cell of prostatic acinus is_a: CL:0002340 ! luminal cell of prostate epithelium [Term] id: CL:0002236 name: basal epithelial cell of prostatic duct namespace: cell alt_id: CL:1000463 def: "A cell that constitutes the basal layer of epithelium in the prostatic duct." [GOC:tfm, PMID:15226377] xref: FMA:74226 is_a: CL:0002232 ! epithelial cell of prostatic duct is_a: CL:0002341 ! basal cell of prostate epithelium relationship: part_of UBERON:0002485 ! prostate duct [Term] id: CL:0002237 name: luminal epithelial cell of prostatic duct namespace: cell def: "A cell that constitutes the luminal layer of epithelium of prostatic duct." [GOC:tfm] xref: FMA:74225 is_a: CL:0002232 ! epithelial cell of prostatic duct is_a: CL:0002340 ! luminal cell of prostate epithelium [Term] id: CL:0002238 name: male gonocyte namespace: cell def: "A primordial germ cell that is destined to become a male germ cell." [GOC:tfm] synonym: "male primordial germ cell" EXACT [] synonym: "testis primordial germ cell" EXACT [VHOG:0000662] xref: EHDAA2:0001053 xref: EMAPA:18686 xref: FMA:84771 xref: VHOG:0000662 is_a: CL:0000670 ! primordial germ cell relationship: part_of UBERON:0000473 ! testis [Term] id: CL:0002239 name: ooblast namespace: cell def: "A primordial cell from which an oocyte (ovum) ultimately is developed." [GOC:tfm] synonym: "ovary primordial germ cell" EXACT [VHOG:0000661] synonym: "ovigerm" EXACT [FMA:84772] xref: EHDAA2:0000505 xref: EMAPA:17965 xref: FMA:84772 xref: ISBN:0721662544 xref: VHOG:0000661 is_a: CL:0000670 ! primordial germ cell relationship: part_of UBERON:0000992 ! female gonad [Term] id: CL:0002240 name: marrow fibroblast namespace: cell def: "A fibroblast in the bone marrow." [GOC:tfm] xref: FMA:84377 is_a: CL:0000057 ! fibroblast [Term] id: CL:0002241 name: pulmonary interstitial fibroblast namespace: cell def: "A fibroblasts found in interstitial spaces in the pulmonary tract. Greater numbers of these cells are found in idiopathic pulmonary fibrosis." [GOC:tfm] synonym: "pulmonary myofibroblast" EXACT [] synonym: "pulmonary septal cell" EXACT [] xref: FMA:84467 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0005169 ! interstitial tissue [Term] id: CL:0002242 name: nucleate cell namespace: cell def: "A cell containing at least one nucleus." [GOC:tfm] xref: FMA:67513 is_a: CL:0000003 ! cell in vivo is_a: CL:0000224 ! cell by nuclear number ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0002243 name: smooth muscle cell of sphincter of pupil namespace: cell def: "A circular smooth muscle cell of the iris, innervated by the ciliary nerves (parasympathetic), and acting to contract the pupil. This muscle cell derives from neuroectoderm. This smooth muscle cell results from transformation of epithelial cells to smooth muscle cells." [GOC:tfm, ISBN:0721662544, ISBN:0721694128] synonym: "smooth muscle fiber of sphincter of pupil" EXACT [] synonym: "smooth muscle fibre of sphincter of pupil" RELATED [] xref: FMA:70611 is_a: CL:0000358 ! sphincter associated smooth muscle cell is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: develops_from CL:0000133 ! neurectodermal cell relationship: part_of UBERON:0001607 ! sphincter pupillae [Term] id: CL:0002244 name: squamous cell of ectocervix namespace: cell def: "A nonstratified squamous cell located in the ectocervix." [GOC:tfm, http://www.bu.edu/histology/p/19404loa.htm] synonym: "ectocervical squamous cell" EXACT [] xref: FMA:86483 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002149 ! epithelial cell of uterus [Term] id: CL:0002245 name: null lymphocyte namespace: cell def: "A lymphocyte that lacks T or B cell surface markers." [GOC:tfm, ISBN:068340007X] is_obsolete: true xref: FMA:83601 [Term] id: CL:0002246 name: peripheral blood stem cell namespace: cell def: "A hematopoeitic stem cell found in the blood. Normally found in very limited numbers in the peripheral circulation (less than 0.1% of all nucleated cells)." [GOC:tfm] synonym: "PBSC" EXACT [] xref: BTO:0002669 xref: FMA:86711 is_a: CL:0000037 ! hematopoietic stem cell is_a: CL:0000080 ! circulating cell relationship: part_of UBERON:0000178 ! blood [Term] id: CL:0002247 name: pleural macrophage namespace: cell def: "A tissue macrophage that is in the pleural space." [GOC:tfm] xref: FMA:83024 is_a: CL:0000864 ! tissue-resident macrophage [Term] id: CL:0002248 name: pluripotent stem cell namespace: cell def: "A pluripotent stem cell has the ability to form cells from all three germ layers (ectoderm, mesoderm, and endoderm). However, unlike totipotent stem cells, they cell can not generate all the cells of the whole organism such as placenta." [GOC:tfm, PMID:19343304] xref: FMA:70570 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0002249 name: primitive cardiac myocyte namespace: cell def: "A stem cell that can differentiate into a cardiac myocyte." [GOC:tfm, PMID:16938308] xref: FMA:75620 is_a: CL:0000035 ! single fate stem cell is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0002250 name: intestinal crypt stem cell namespace: cell def: "A cell that is found in a zone occupying the bottom region of the crypt; provide the source of most of the cell types of the intestinal epithelium; proliferate by mitotic division; differentiates into columnar or goblet cells." [GOC:tfm, ISBN:0517223651] synonym: "stem cell of intestinal crypt of lieberkuhn" EXACT [] xref: FMA:63379 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002563 ! intestinal epithelial cell relationship: part_of UBERON:0001983 ! crypt of Lieberkuhn [Term] id: CL:0002251 name: epithelial cell of alimentary canal namespace: cell def: "An epithelial cell of the musculomembranous digestive tube extending from the mouth to the anus." [GOC:tfm, ISBN:0721662544] is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0001555 ! digestive tract [Term] id: CL:0002252 name: epithelial cell of esophagus namespace: cell alt_id: CL:1000402 def: "An epithelial cell of the esophagus." [GOC:tfm] xref: FMA:63071 is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0001043 ! esophagus [Term] id: CL:0002253 name: epithelial cell of large intestine namespace: cell alt_id: CL:1000292 def: "An epithelial cell of the large intestine." [GOC:tfm] synonym: "epithelial cell of colon" RELATED [] xref: BTO:0004297 xref: FMA:256157 is_a: CL:0002563 ! intestinal epithelial cell relationship: part_of UBERON:0000059 ! large intestine [Term] id: CL:0002254 name: epithelial cell of small intestine namespace: cell alt_id: CL:1000293 def: "An epithelial cell of the small intestine." [GOC:tfm] xref: FMA:256159 is_a: CL:0002563 ! intestinal epithelial cell relationship: part_of UBERON:0002108 ! small intestine [Term] id: CL:0002255 name: stromal cell of endometrium namespace: cell def: "An epithelial cell that regulates growth and differentiation of the overlying epithelium." [GOC:tfm, PMID:11331626] xref: FMA:86490 is_a: CL:0000499 ! stromal cell is_a: CL:0002149 ! epithelial cell of uterus relationship: part_of UBERON:0001295 ! endometrium [Term] id: CL:0002256 name: supporting cell of carotid body namespace: cell def: "A supportive cell that has characteristics of glial cell. Processes of this cell envelope the junctions between glomus cells and nerve endings." [GOC:tfm, PMID:8985136, http://www.copewithcytokines.de/cope.cgi?key=glomus%20cells] synonym: "carotid body sustentacular cell" EXACT [] xref: FMA:84188 is_a: CL:0000630 ! supportive cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002257 name: epithelial cell of thyroid gland namespace: cell alt_id: CL:1000297 def: "An epithelial cell of thyroid gland." [GOC:tfm] xref: FMA:256167 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0002046 ! thyroid gland [Term] id: CL:0002258 name: thyroid follicular cell namespace: cell def: "A cell type that varies from squamous to columnar, depending on their activity with microvillus directed luminally. This cell produces and secretes thyroid hormones." [GOC:tfm, ISBN:0517223651] synonym: "follicular cell of thyroid gland" EXACT [] synonym: "principal cell of thyroid gland" EXACT [] synonym: "thyroid gland follicular cell" EXACT [] xref: BTO:0003736 xref: FMA:68782 is_a: CL:0002257 ! epithelial cell of thyroid gland [Term] id: CL:0002259 name: neuroepithelial stem cell namespace: cell def: "The stem cell from which glial precursor cell arises from." [GOC:tfm, PMID:11687496] synonym: "totipotent neuroepithelial stem cell" NARROW [] xref: FMA:87171 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0002260 name: epithelial cell of parathyroid gland namespace: cell alt_id: CL:1000429 def: "An epithelial cell of the parathyroid gland." [GOC:tfm] xref: FMA:70547 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0001132 ! parathyroid gland [Term] id: CL:0002261 name: endothelial cell of viscerocranial mucosa namespace: cell alt_id: CL:1000446 def: "An endothelial cell found in the mucosa associated with the facial skeleton." [GOC:tfm, ISBN:0618947256] xref: FMA:70627 is_a: CL:0002076 ! endo-epithelial cell [Term] id: CL:0002262 name: endothelial cell of sinusoid namespace: cell alt_id: CL:1000403 def: "An endothelial cell that lines any of the venous cavities through which blood passes in various glands and organs such as the spleen and liver." [GOC:tfm, ISBN:0618947256] xref: FMA:63134 is_a: CL:0000115 ! endothelial cell relationship: part_of UBERON:0003909 ! sinusoid [Term] id: CL:0002263 name: transitional cell of parathyroid gland namespace: cell def: "One of three types of epithelial cells that populate the parathyroid gland; cytological characteristics intermediate between those of the chief cell and of the oxyphil cell. Because only one hormone is produced, the three cell forms are widely believed to be different phases in the life cycle of a single cell type, with the chief cell being its physiologically active stage." [GOC:tfm, ISBN:0412046911] xref: FMA:69324 is_a: CL:0002260 ! epithelial cell of parathyroid gland [Term] id: CL:0002264 name: type A cell of stomach namespace: cell def: "A type of enteroendocrine cell found in the stomach that secretes glucagon." [GOC:tfm] xref: FMA:83411 is_a: CL:0002067 ! type A enterocrine cell is_a: CL:0002659 ! glandular cell of stomach [Term] id: CL:0002265 name: type D cell of colon namespace: cell def: "A D cell located in the colon." [GOC:tfm] xref: FMA:268744 is_a: CL:0000502 ! type D enteroendocrine cell is_a: CL:0002658 ! glandular cell of the large intestine is_a: CL:1001516 ! intestinal enteroendocrine cell [Term] id: CL:0002266 name: type D cell of small intestine namespace: cell def: "A type D cell of the small intestine." [GOC:tfm] xref: FMA:268736 is_a: CL:0000502 ! type D enteroendocrine cell is_a: CL:0002254 ! epithelial cell of small intestine is_a: CL:1001516 ! intestinal enteroendocrine cell [Term] id: CL:0002267 name: type D cell of stomach namespace: cell def: "A type D cell found in the stomach." [GOC:tfm] xref: FMA:83410 is_a: CL:0000502 ! type D enteroendocrine cell is_a: CL:0002659 ! glandular cell of stomach [Term] id: CL:0002268 name: P/D1 enteroendocrine cell namespace: cell def: "An enteroendocrine cell that stores and secretes Ghrelin." [GOC:tfm, ISBN:0517223651, PMID:15153415] xref: FMA:63207 xref: FMA:63418 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0002269 ! vasoactive intestinal peptide secreting cell [Term] id: CL:0002269 name: vasoactive intestinal peptide secreting cell namespace: cell def: "An endocrine cell that secretes vasoactive intestinal peptide." [GOC:tfm] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002270 name: type EC2 enteroendocrine cell namespace: cell def: "A type EC enteroendocrine cell in the duodenum and jejunum that stores and secretes motilin and 5-hydroxytryptamine." [GOC:tfm, ISBN:0517223651, PMID:15153415] synonym: "Mo enteroendocrine cell" BROAD [] xref: FMA:62941 is_a: CL:0000577 ! type EC enteroendocrine cell is_a: CL:0002272 ! motilin secreting cell [Term] id: CL:0002271 name: type EC1 enteroendocrine cell namespace: cell def: "A type EC enteredocrine cell in the intestines that stores and secretes substance P and 5-hydroxytryptamine." [GOC:tfm, ISBN:0517223651] xref: FMA:62940 is_a: CL:0000505 ! substance P secreting cell is_a: CL:0000577 ! type EC enteroendocrine cell [Term] id: CL:0002272 name: motilin secreting cell namespace: cell def: "A cell that secretes motilin, a gastric hormone that at low pH inhibits gastric motor activity, whereas at high pH has a stimulating effect." [GOC:tfm, MESH:D06.472.317.525] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002273 name: type ECL enteroendocrine cell namespace: cell def: "A type EC enteroendocrine cell type that is numerous in the fundus of the stomach; stores 5-hydroxytryptamine and histamine." [GOC:tfm, ISBN:0517223651, PMID:15153415] xref: FMA:63208 is_a: CL:0000577 ! type EC enteroendocrine cell is_a: CL:0002274 ! histamine secreting cell [Term] id: CL:0002274 name: histamine secreting cell namespace: cell def: "A cell type that secretes histamine." [GOC:tfm] is_a: CL:0000457 ! biogenic amine secreting cell [Term] id: CL:0002275 name: pancreatic PP cell namespace: cell def: "A PP cell located in the islets of the pancreas." [GOC:tfm] comment: The term PP cell of pancreatic acinus was obsoleted due to a lack of evidence, making PP cell of pancreatic islets synonymous with pancreatic PP cell. synonym: "PP cell of pancreatic islet" EXACT [] synonym: "PP-cell of pancreatic islet" EXACT [] synonym: "pancreatic polypeptide-secreting cell" EXACT [] xref: BTO:0000805 xref: FMA:70588 is_a: CL:0000083 ! epithelial cell of pancreas is_a: CL:0000696 ! PP cell relationship: part_of UBERON:0000006 ! islet of Langerhans relationship: part_of UBERON:0001264 ! pancreas [Term] id: CL:0002276 name: PP cell of pancreatic acinus namespace: cell def: "A PP cell located in the pancreatic acinus. Obsoleted due to a lack of published evidence that this cell type is actually found in the pancreatic acinus." [GOC:tfm] is_obsolete: true synonym: "type F cell of pancreatic acinus" EXACT [] xref: FMA:85400 [Term] id: CL:0002277 name: type I enteroendocrine cell namespace: cell def: "An enteroendocrine cell commonest in the duodenum and jejunum, rare in ileum, that secretes cholecystokinin. This cell type is involved in the regulation of digestive enzymes and bile." [GOC:tfm] synonym: "CCK cell" EXACT [] xref: FMA:62937 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002278 name: GIP cell namespace: cell def: "An enteroendocrine cell of duodenum and jejunum that produces gastric inhibitory peptide." [GOC:tfm] synonym: "type K enteroendocrine cell" EXACT [] xref: FMA:62942 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002279 name: type L enteroendocrine cell namespace: cell def: "A enteroendocrine cell type that is numerous in ileum, present in jejunum and large intestine, few in duodenum. This cell type produces glucagon-like immunoreactants (glicentin, glucagon-37, glucagon-29, GLP-1 and -2) and PYY." [ISBN:0517223651, PMID:15153415] xref: FMA:62944 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002280 name: type N enteroendocrine cell namespace: cell def: "An enteroendorcine cell found in the ileum and jejunum that produces neurotensin." [GOC:tfm] synonym: "N cell" EXACT [] xref: FMA:62943 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002281 name: type S enteroendocrine cell namespace: cell def: "Scattered in duodenojejunal mucosa, this enteroendocrine cell secretes secretin and serotonin." [GOC:tfm, PMID:15153415] xref: FMA:62936 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell is_a: CL:0000458 ! serotonin secreting cell [Term] id: CL:0002282 name: type TG enteroendocrine cell namespace: cell def: "An enteroendocrine cell which produces a gastrin- and cholecystokinin-like peptide. The apical microvilli-rich plasma membrane is in open contact with the small intestine mucosa. This cell type is devoid of gastrin-17 but contains other fragments of the gastrin polypeptide." [DOI:10.1007/978-3-211-99390-3, GOC:tfm, PMID:7013499] xref: FMA:63421 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000509 ! gastrin secreting cell [Term] id: CL:0002283 name: ecto-epithelial cell of viscerocranial mucosa namespace: cell alt_id: CL:1000440 def: "An epithelial cell of the mucosa associated with facial skeleton." [GOC:tfm, ISBN:0323052908] xref: FMA:70581 is_a: CL:0002159 ! general ecto-epithelial cell [Term] id: CL:0002284 name: type X enteroendocrine cell namespace: cell def: "An enteroendorcine cell found in the fundus and pylorus, this cell type has dense round secretory granules that contain ghrelin." [GOC:tfm, PMID:20616512] synonym: "A-like" EXACT [] synonym: "X/A-like" EXACT [] xref: FMA:63209 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0005018 ! ghrelin secreting cell [Term] id: CL:0002285 name: type III taste bud cell namespace: cell def: "A taste receptor cell that is characterized by morphologically identifiable synaptic contacts with the gustatory nerve fibers and expression of the synaptic membrane protein-25 (SNAP-25) and NCAM." [GOC:tfm, ISBN:0517223651, PMID:15738192] synonym: "taste bud basal cell" BROAD [] synonym: "type 3 taste cell" EXACT [] xref: FMA:67940 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0000209 ! taste receptor cell [Term] id: CL:0002286 name: type II taste cell namespace: cell def: "A taste receptor cell that has a short microvilli, a projecting apical region, a large rounded nucleus, and expresses taste chemoreceptors thus making them the transducing cell for taste qualities." [GOC:tfm, PMID:15738192] synonym: "type 2 taste cell" EXACT [] xref: FMA:62381 is_a: CL:0000209 ! taste receptor cell [Term] id: CL:0002287 name: type IV taste receptor cell namespace: cell def: "A rounded, mitotically active stem cell which is the source of new cells of the taste bud; located basally." [GOC:tfm, ISBN:0517223651, PMID:15738192] comment: There is debate about the exact lineage of these cell types from this progenitor. See PMID:15738192. synonym: "taste bud basal cell" BROAD [] synonym: "type 4 taste cell" EXACT [] xref: FMA:62380 is_a: CL:0000209 ! taste receptor cell [Term] id: CL:0002288 name: type V taste receptor cell namespace: cell def: "A cell type that forms the boundary with the surrounding epithelium." [GOC:tfm, ISBN:0517223651] xref: FMA:67941 is_a: CL:0000209 ! taste receptor cell [Term] id: CL:0002289 name: type I taste bud cell namespace: cell def: "A densely staining taste receptor cell that contains many dense vacuoles in their apical regions which project into the apical space and bear microvilli. This cell type serves as a supporting cell by surrounding and isolating the other cell types from each other; secrete a dense amorphous material that surrounds the microvilli in the taste pore. This cell type expresses a glial glutumate transporter, GLAST." [GOC:tfm, ISBN:0412046911, ISBN:0517223651, PMID:15738192] synonym: "dark tongue cell" EXACT [] synonym: "type I taste cell" EXACT [] synonym: "type taste 1 cell" EXACT [] xref: FMA:62356 is_a: CL:0000209 ! taste receptor cell is_a: CL:0000703 ! sustentacular cell [Term] id: CL:0002290 name: Y chromosome-bearing sperm cell namespace: cell def: "A sperm bearing a Y chromosome. Chromosomal and genetic sex is established at fertilization in mammals and depends upon whether an X-bearing sperm or a Y-bearing sperm fertilizes the X-bearing ovum." [GOC:tfm, ISBN:0721669743] synonym: "Y bearing sperm" EXACT [] synonym: "Y-bearing sperm" EXACT [] xref: FMA:84058 is_a: CL:0000019 ! sperm [Term] id: CL:0002291 name: X chromosome-bearing sperm cell namespace: cell def: "A sperm bearing an X chromosome. Chromosomal and genetic sex is established at fertilization in mammals and depends upon whether an X-bearing sperm or a Y-bearing sperm fertilizes the X-bearing ovum." [GOC:tfm, ISBN:0721669743] synonym: "X bearing sperm" EXACT [] synonym: "X-bearing sperm" EXACT [] xref: FMA:84057 is_a: CL:0000019 ! sperm [Term] id: CL:0002292 name: type I cell of carotid body namespace: cell def: "A round or oval neuroepithelial cell that contacts other type I cells or capillaries. They occur in clusters that are surrounded by sheath cells (type-II cells) in the carotid body. This cell type is capable of secreting a number of neurotransmitters." [GOC:tfm, ISBN:0517223651] synonym: "glomus cell" EXACT [] xref: FMA:84186 is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002293 name: epithelial cell of thymus namespace: cell alt_id: CL:1000459 def: "An epithelial cell of the thymus. Epithelial reticular cells are pleomorphic, stellate, non-phagocytic cells which seem to be supportive in function and are held together by desmosomes. They replace the fibroblastoid reticular cells found in other lymphoid organs. Other epithelial cells in the medulla have the ultrastructure of secretory cells. Although different epithelial cells throughout the thymus appear alike by light microscopy their ultrastructure and function varies." [FMA:72208, GOC:tfm] synonym: "epithelial cell of thymus gland" EXACT [] synonym: "epithelial reticular cell" EXACT [] synonym: "epithelial reticular cell of thymus" EXACT [] synonym: "thymic epithelial cell" EXACT [] xref: FMA:72208 is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0002370 ! thymus [Term] id: CL:0002294 name: type-1 epithelial cell of thymus namespace: cell def: "An epithelial cell with a well defined Golgi apparatus that makes up the continuous layer of cells bordering the thymic tissue beneath the capsule." [GOC:tfm, PMID:9264335] synonym: "subcapsular thymic epithelial cell" EXACT [] xref: FMA:72209 is_a: CL:0002364 ! cortical thymic epithelial cell [Term] id: CL:0002295 name: type-6 epithelial cell of thymus namespace: cell def: "A thymic epithelial cell that has an eccentric, round, or irregularly shaped hetero or euchromatic nucleus. The hallmark of this cell type is the presence of vacuoles, which are clustered in one area of the cytoplasm in the vicinity of the nucleus. The vacuoles are small and acquire a grape-like form, occasionally showing delicate internal microvillous projections." [GOC:tfm, PMID:19721455, PMID:9264335] synonym: "cystic thymic epithelial cells" EXACT [] synonym: "large mTEC" EXACT [] synonym: "large medullary thymic epithelial cells" EXACT [] xref: FMA:72214 is_a: CL:0002365 ! medullary thymic epithelial cell [Term] id: CL:0002296 name: type-4 epithelial cell of thymus namespace: cell def: "An epithelial cell with high nuclear and cytoplasmic electron-density. This cell type is found in the deeper portions of the cortex but is more abundant in the medulla of the thymus." [FMA:0412046911, GOC:tfm, PMID:9264335] synonym: "dark thymic epithelial cell" EXACT [] xref: FMA:72212 is_a: CL:0002364 ! cortical thymic epithelial cell is_a: CL:0002365 ! medullary thymic epithelial cell [Term] id: CL:0002297 name: type-3 epithelial cell of thymus namespace: cell def: "A thymic epithelial cell with moderate nuclear and cytoplasmic electron-density. Scattered in the cortex, this cell type is predominant in the mid and deep cortex." [PMID:9264335] synonym: "intermediate thymic epithelial cell" EXACT [] xref: FMA:72211 is_a: CL:0002364 ! cortical thymic epithelial cell [Term] id: CL:0002298 name: type-5 epithelial cell of thymus namespace: cell def: "A thymic epithelial cell type with low nuclear and cytoplasmic electrondensity; has a round, euchromatic nucleus and occurs in small groups at the corticomedullary junction or scattered singly in the medulla." [GOC:tfm, ISBN:0412046911, PMID:19721455, PMID:9264335] synonym: "undifferentiated mTEC" EXACT [] synonym: "undifferentiated medullary thymic epithelial cell" EXACT [] synonym: "undifferentiated thymic epithelial cell" EXACT [] xref: FMA:72213 is_a: CL:0002365 ! medullary thymic epithelial cell [Term] id: CL:0002299 name: type-2 epithelial cell of thymus namespace: cell def: "An epithelial cell scattered in the cortex, predominant in the outer cortex with a large pale nucleus and a prominent nucleolus." [GOC:tfm, ISBN:0412046911, PMID:9264335] synonym: "pale thymic epithelial cell" EXACT [] xref: FMA:72210 is_a: CL:0002364 ! cortical thymic epithelial cell [Term] id: CL:0002300 name: type-7 epithelial cell of thymus namespace: cell def: "A small medullary thymic epithelial cell with a spindle shape, often arranged in groups and connected to each other by large desmosomes and interdigitations. The cytoplasm is sparse, with scanty organelles and thick bundles of cytokeratin." [GOC:tfm, PMID:19721455] synonym: "spindle shaped mTEC" EXACT [] synonym: "spindle shaped medullary thymic epithelial cell" EXACT [] is_a: CL:0002365 ! medullary thymic epithelial cell [Term] id: CL:0002301 name: type B synovial cell namespace: cell def: "A synovial cell type that resembles fibroblasts, has abundant granular endoplasmic reticulum but contains fewer vacuoles and vesicles. This cell type secretes glycoproteins and hyaluronic acid." [GOC:tfm, ISBN:0517223651] xref: FMA:66788 is_a: CL:0000214 ! synovial cell [Term] id: CL:0002302 name: type A synovial cell namespace: cell def: "A synovial cell that is macrophage-like, characterized by surface ruffles or lamellipodia, plasma membrane invaginations and associated micropinocytotic vesicles, Golgi apparatus and little granular endoplasmic reticulum." [GOC:tfm, ISBN:0517223651] synonym: "type A synoviocyte" EXACT [] xref: FMA:66787 is_a: CL:0000214 ! synovial cell [Term] id: CL:0002303 name: pigmented ciliary epithelial cell namespace: cell def: "A ciliated epithelial cell of the retina, this cell type uptakes sodium chloride and passes it to non-pigmented ciliary epithelial cells." [PMID:15106942] synonym: "PE" EXACT [] xref: FMA:70606 is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0005012 ! multi-ciliated epithelial cell [Term] id: CL:0002304 name: non-pigmented ciliary epithelial cell namespace: cell def: "A multi-ciliated cell of the retina that lacks visual pigment and contributes to aqueous humor by secreting chloride ions. This cell type maintains gap junctions with pigmented epithelial cells." [GOC:tfm, PMID:15106942] synonym: "NPE" EXACT [] xref: FMA:70607 is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0005012 ! multi-ciliated epithelial cell relationship: part_of UBERON:0001778 ! ciliary epithelium [Term] id: CL:0002305 name: epithelial cell of distal tubule namespace: cell def: "An epithelial cell of the distal convoluted tubule of the kidney that helps regulate systemic levels of potassium, sodium, calcium, and pH." [GOC:tfm, ISBN:0517223651] synonym: "kidney distal tubule epithelial cell" EXACT [] xref: FMA:62125 xref: FMA:70981 xref: KUPO:0001055 is_a: CL:0002078 ! meso-epithelial cell is_a: CL:1000615 ! kidney cortex tubule cell relationship: part_of UBERON:0004135 ! distal tubule [Term] id: CL:0002306 name: epithelial cell of proximal tubule namespace: cell def: "An epithelial cell of the proximal tubule of the kidney." [GOC:tfm, ISBN:1-4160-2328-3] synonym: "kidney proximal tubule epithelial cell" EXACT [] xref: FMA:62125 xref: FMA:70973 xref: KUPO:0001044 is_a: CL:0000239 ! brush border epithelial cell is_a: CL:0002078 ! meso-epithelial cell is_a: CL:1000615 ! kidney cortex tubule cell relationship: part_of UBERON:0004134 ! proximal tubule [Term] id: CL:0002307 name: brush border cell of the proximal tubule namespace: cell def: "A brush border epithelial cell located in the proximal tubule of the kidney that detects fluid flow." [GOC:tfm, ISBN:1-4160-2328-3] is_a: CL:0002306 ! epithelial cell of proximal tubule [Term] id: CL:0002308 name: epithelial cell of skin gland namespace: cell def: "An epithelial cell of a skin gland." [GOC:tfm] synonym: "epithelial cell of gland of skin" EXACT [] xref: FMA:70657 is_a: CL:0002159 ! general ecto-epithelial cell relationship: part_of UBERON:0002419 ! skin gland [Term] id: CL:0002309 name: corticotroph namespace: cell def: "A basophil chromphil cell of the anterior pitiutary gland that produce adrenocorticotropic hormone, melanocyte-stimulating hormone and lipotropin. This cell type is irregular in shape and has short dendritic processes which are inserted among other neighboring cells;" [GOC:tfm, ISBN:0517223651] xref: BTO:0002509 xref: FMA:83098 is_a: CL:0000467 ! adrenocorticotropic hormone secreting cell is_a: CL:0000639 ! basophil cell of pars distalis of adenohypophysis [Term] id: CL:0002310 name: mammosomatotroph namespace: cell def: "An acidophil cell of the anterior pitiuatry gland that produces both prolactin and growth hormone." [GOC:tfm] xref: FMA:83097 is_a: CL:0000295 ! somatotropin secreting cell is_a: CL:0000439 ! prolactin secreting cell is_a: CL:0000638 ! acidophil cell of pars distalis of adenohypophysis [Term] id: CL:0002311 name: mammotroph namespace: cell def: "An acidophilic cell of the anterior pituitary that produces prolactin." [SANBI:mhl] synonym: "epsilon-acidophil" EXACT [] synonym: "lactotrope" EXACT [] synonym: "lactotroph" EXACT [] synonym: "lactotropic cell" EXACT [] synonym: "mammotrope" EXACT [] synonym: "mammotrophic cell" EXACT [] synonym: "mammotropic cell" EXACT [] xref: FMA:83096 is_a: CL:0000439 ! prolactin secreting cell is_a: CL:0000638 ! acidophil cell of pars distalis of adenohypophysis [Term] id: CL:0002312 name: somatotroph namespace: cell def: "An acidophilic cell of the anterior pituitary that produces growth hormone, somatotropin." [SANBI:mhl] synonym: "somatotrope" EXACT [] synonym: "somatotropic cell" EXACT [] synonym: "somatrophic cell" EXACT [] xref: FMA:83095 is_a: CL:0000295 ! somatotropin secreting cell is_a: CL:0000638 ! acidophil cell of pars distalis of adenohypophysis [Term] id: CL:0002313 name: endocrine-paracrine cell of prostate gland namespace: cell def: "An ecto-epithelial cell of the prostate gland that secretes hormones." [GOC:tfm] synonym: "glandular cell of prostate" EXACT [] synonym: "neuro-epithelial cell of prostate gland" EXACT [] xref: FMA:74390 xref: FMA:86774 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell [Term] id: CL:0002314 name: external supporting cell of vestibular epithelium namespace: cell def: "An auditory epithelial support cell located in the vestibular epithelium that has many hallmarks of glial cells. This cell type express glial markers such as vimentin, S100, glutamate-aspartate transporter, low affinity neurotrophin receptor p75, glial fibrillary acidic protein, and proteolipid protein." [GOC:tfm, PMID:20837532] xref: FMA:75809 is_a: CL:0002316 ! supporting cell of vestibular epithelium [Term] id: CL:0002315 name: supporting cell of cochlea namespace: cell def: "An epithelial supporting cell located in the cochlea." [GOC:tfm] xref: FMA:79796 is_a: CL:0005014 ! auditory epithelial support cell [Term] id: CL:0002316 name: supporting cell of vestibular epithelium namespace: cell def: "A supporting cell of the vestibular epithelium." [GOC:tfm, PMID:20837532] xref: FMA:75607 is_a: CL:0005014 ! auditory epithelial support cell [Term] id: CL:0002317 name: external limiting cell of vestibular epithelium namespace: cell def: "An external limiting cell found in the vestibular epithelium." [GOC:tfm] xref: FMA:75808 is_a: CL:0002316 ! supporting cell of vestibular epithelium [Term] id: CL:0002318 name: periperhal blood mesothelial cell namespace: cell def: "A mesothelial cell capable of circulating in the blood by first losing its squamous character. This cell can incorporate into the regenerating mesothelium." [GOC:tfm, PMID:14592528] xref: FMA:86712 is_a: CL:0000081 ! blood cell relationship: develops_from CL:0000077 ! mesothelial cell [Term] id: CL:0002319 name: neural cell namespace: cell def: "A cell that is part of the nervous system." [GOC:tfm, ISBN:0618947256] xref: FMA:70333 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0002320 name: connective tissue cell namespace: cell alt_id: CL:1000406 def: "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." [GOC:tfm, ISBN:0618947256] xref: FMA:63875 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002384 ! connective tissue [Term] id: CL:0002321 name: embryonic cell namespace: cell def: "A cell of the embryo." [FMA:0618947256] xref: FMA:82840 xref: FMA:82841 xref: WBbt:0007028 is_a: CL:0000548 ! animal cell [Term] id: CL:0002322 name: embryonic stem cell namespace: cell def: "A stem cell of embryonic origin." [GOC:dsd, GOC:tfm, ISBN:068340007X, PMID:18179856] comment: This is an in vitro cell type and may be removed in future releases. These cells are reportedly SSEA-4-positive, CD73-negative, and CD324-positive. synonym: "ESC" EXACT [] xref: BTO:0001086 xref: FMA:82841 is_a: CL:0000034 ! stem cell is_a: CL:0002321 ! embryonic cell [Term] id: CL:0002323 name: amniocyte namespace: cell def: "A cell of aB fetusB which is suspended in the amniotic fluid. Amniocytes are considered to arise from several tissues including fetal skin, the fetal urinary tract, umbilical cord, and the inner amniotic surface." [BFO:0000066, GOC:tfm, PMID:3211847] xref: BTO:0000066 is_a: CL:0000349 ! extraembryonic cell [Term] id: CL:0002324 name: myoepithelial cell of mammary gland namespace: cell def: "A myoepithelial cell that surrounds milk-secreting luminal epithelial cells. This cell type contracts under the stimulation of oxytocin and is attached to the basement membrane by hemidesmosomes and to the adjacent luminal cells by desmosomes. This cell type expresses high level of keratin-14 and is estrogen receptor alpha negative." [GOC:tfm, PMID:11250738, PMID:19022771] is_a: CL:1000416 ! myoepithelial cell of lactiferous gland [Term] id: CL:0002325 name: mammary alveolar cell namespace: cell alt_id: CL:0002230 alt_id: CL:1000476 def: "The milk-producing cell of the alveolar unit that emerges during pregnancy." [GOC:tfm, PMID:19022771] synonym: "epithelial cell of lactiferous gland" EXACT [] synonym: "luminal cell of alveolus of lactiferous gland" EXACT [] xref: FMA:74506 xref: FMA:79866 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000314 ! milk secreting cell is_a: CL:0002159 ! general ecto-epithelial cell is_a: CL:0002327 ! mammary epithelial cell relationship: part_of UBERON:0001911 ! mammary gland [Term] id: CL:0002326 name: luminal epithelial cell of mammary gland namespace: cell def: "A mammary epithelial cell that occurs in the lumen of the ductal and alveoli structure in the breast." [GOC:tfm, PMID:19022771] xref: FMA:73280 is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:0002327 ! mammary epithelial cell [Term] id: CL:0002327 name: mammary epithelial cell namespace: cell def: "An epithelial cell of the mammary gland." [GOC:tfm, PMID:19022771] synonym: "breast epithelial cell" EXACT [] xref: BTO:0004300 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001911 ! mammary gland [Term] id: CL:0002328 name: bronchial epithelial cell namespace: cell def: "An epithelial cell of the bronchus." [GOC:tfm] xref: BTO:0002922 is_a: CL:0002202 ! epithelial cell of tracheobronchial tree relationship: part_of UBERON:0002031 ! epithelium of bronchus relationship: part_of UBERON:0002185 ! bronchus [Term] id: CL:0002329 name: basal epithelial cell of tracheobronchial tree namespace: cell def: "An epithelial cell type that lacks the columnar shape typical for other respiratory epithelial cells. This cell type is able to differentiate into other respiratory epithelial cells in response to injury." [GOC:tfm] is_a: CL:0002202 ! epithelial cell of tracheobronchial tree [Term] id: CL:0002330 name: undifferentiated cell of bronchus epithelium namespace: cell def: "An undifferentiated columnar cell of the bronchus epithelium" [GOC:tfm, PMID:18757316] is_a: CL:0002328 ! bronchial epithelial cell [Term] id: CL:0002332 name: ciliated cell of the bronchus namespace: cell def: "A ciliated cell of the bronchus." [GOC:tfm, PMID:18757316] is_a: CL:0002145 ! ciliated columnar cell of tracheobronchial tree is_a: CL:0002328 ! bronchial epithelial cell relationship: part_of UBERON:0002185 ! bronchus [Term] id: CL:0002333 name: neural crest derived fat cell namespace: cell def: "A fat cell derived from a neural crest cell." [GOC:tfm, PMID:17507398] is_a: CL:0000136 ! fat cell relationship: develops_from CL:0000005 ! fibroblast neural crest derived [Term] id: CL:0002334 name: preadipocyte namespace: cell def: "An undifferentiatedB fibroblastB that can be stimulated to form a fat cell." [GOC:tfm, PMID:18793119] xref: BTO:0001107 is_a: CL:0000057 ! fibroblast [Term] id: CL:0002335 name: brown preadipocyte namespace: cell def: "A preadipocyte that is capable of differentiating into a brown adipocyte. This cell type expresses uncoupling protein-1, PPAR-gamma, PR-domain-containing 16; and PGC-1alpha (peroxisome proliferator-activated receptor-gamma (PPARgamma) coactivator-1alpha)." [GOC:tfm, PMID:18719589] is_a: CL:0002334 ! preadipocyte [Term] id: CL:0002336 name: buccal mucosa cell namespace: cell def: "An endothelial cell that lines the oral cavitiy including the mucosa of the gums, the palate, the lip, and the cheek." [GOC:tfm, MESH:A10.615.550.599] is_a: CL:0002261 ! endothelial cell of viscerocranial mucosa [Term] id: CL:0002337 name: keratinocyte stem cell namespace: cell def: "A stem cell located in the bulge of the hair follicle that can give rise to regenerate the new follicle with each hair cycle and to reepithelialize the epidermis during wound repair." [PMID:15339667] synonym: "bulge keratinocyte" EXACT [] is_a: CL:0000048 ! multi fate stem cell is_a: CL:0000312 ! keratinocyte is_a: CL:1000428 ! stem cell of epidermis [Term] id: CL:0002338 name: CD56-positive, CD161-positive immature natural killer cell namespace: cell def: "A natural killer cell that is developmentally immature, has the phenotype CD34-negative, CD56-negative, CD117-positive, CD122-positive,and CD161-positive." [GOC:add, GO_REF:0000031, ISBN:0781735149, PMID:12457618] comment: Human markers; killer cell immunoglobulin-like receptor 2DL1 is used as a representative example (PRO at this time lacks a KIR superfamily). synonym: "p-NK" RELATED [PMID:12457618] is_a: CL:0000823 ! immature natural killer cell relationship: develops_from CL:0002344 ! CD56-negative, CD161-positive immature natural killer cell [Term] id: CL:0002339 name: prostate stem cell namespace: cell def: "A prostate epithelial cell that is CD133-positive, CD44-positive, integrin A2beta3-high. This cell is a stem cell for the prostate epithelium." [GOC:tfm, PMID:15226377] synonym: "CD133-positive prostate epithelial cell" EXACT [] is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002341 ! basal cell of prostate epithelium relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:0002340 name: luminal cell of prostate epithelium namespace: cell def: "The exocrine cell of the prostate, this epithelial cell secretes prostatic acid phosphotase and PSA, and is dependent on androgen hormones for survival." [GOC:tfm] is_a: CL:0002231 ! epithelial cell of prostate [Term] id: CL:0002341 name: basal cell of prostate epithelium namespace: cell def: "An undifferentiated cell of the prostate epithelium that lacks secretory activity." [GOC:tfm, PMCID:PMC2673349] is_a: CL:0002231 ! epithelial cell of prostate [Term] id: CL:0002342 name: circulating endothelial cell namespace: cell def: "A circulating endothelial cell of the phenotype CD146-positive, CD105-positive, CD45-negative. This cell type is indicative of recent vascular damage." [GOC:tfm, PMID:19652886] is_a: CL:0000115 ! endothelial cell [Term] id: CL:0002343 name: decidual natural killer cell namespace: cell def: "A natural killer cell subset that is found in the decidual of the uterus and is CD56-high, Galectin-1-positive and CD16-negative. This cell type represents the most abundant immune cell type in the decidual during the first trimester of pregnancy." [PMID:14568979, PMID:19800965] synonym: "dNK cell" EXACT [] synonym: "decidual NK cell" EXACT [] is_a: CL:0000824 ! mature natural killer cell [Term] id: CL:0002344 name: CD56-negative, CD161-positive immature natural killer cell namespace: cell def: "A natural killer cell that is developmentally immature, has the phenotype CD34-negative, CD56-negative, CD117-positive, CD122-positive,and CD161-positive." [GOC:add, GO_REF:0000031, ISBN:0781735149, PMID:12457618] comment: Human markers; killer cell immunoglobulin-like receptor 2DL1 is used as a representative example (PRO at this time lacks a KIR superfamily). synonym: "p-NK" RELATED [PMID:12457618] is_a: CL:0000823 ! immature natural killer cell [Term] id: CL:0002345 name: CD27-low, CD11b-low immature natural killer cell namespace: cell def: "An immature natural killer cell that is NK1.1-positive, DX5-positive, Ly49-positive, CD27-low and CD11b-low. This cell type is found in high numbers in the liver." [GOC:tfm, PMID:19949422, http:www.immgen.org/index_content.html] comment: Markers are associated with mouse cells. synonym: "preNK.BM" BROAD [] is_a: CL:0000823 ! immature natural killer cell relationship: develops_from CL:0002346 ! Dx5-negative, NK1.1-positive immature natural killer cell [Term] id: CL:0002346 name: Dx5-negative, NK1.1-positive immature natural killer cell namespace: cell def: "An immature natural killer cell that is NK1.1-positive and DX-5 negative." [GOC:tfm, PMID:12766763] is_a: CL:0000823 ! immature natural killer cell [Term] id: CL:0002347 name: CD27-high, CD11b-high natural killer cell namespace: cell def: "A mature natural killer cell that is CD27-high and CD11b-high. This cell type is capable of interferon-gamma secretion." [GOC:tfm, PMID:19949422] is_a: CL:0002426 ! CD11b-positive, CD27-positive natural killer cell relationship: develops_from CL:0002349 ! CD27-high, CD11b-low natural killer cell [Term] id: CL:0002348 name: CD27-low, CD11b-high natural killer cell namespace: cell def: "A CD27-low, CD11b-high natural killer cell that has a higher threshold of activation due to higher expression of inhibitory receptors." [GOC:tfm, PMID:1994922] is_a: CL:0002426 ! CD11b-positive, CD27-positive natural killer cell relationship: develops_from CL:0002347 ! CD27-high, CD11b-high natural killer cell [Term] id: CL:0002349 name: CD27-high, CD11b-low natural killer cell namespace: cell def: "A natural killer cell that is CD27-high and CD11b-low." [GOC:tfm, PMID:1994922] is_a: CL:0002426 ! CD11b-positive, CD27-positive natural killer cell relationship: develops_from CL:0002345 ! CD27-low, CD11b-low immature natural killer cell [Term] id: CL:0002350 name: endocardial cell namespace: cell alt_id: CL:1000475 def: "An endothelial cell that lines the intracavitary lumen of the heart, separating the circulating blood from the underlying myocardium. This cell type releases a number of vasoactive substances including prostacyclin, nitrous oxide and endothelin." [GOC:tfm, ISSN:0452-3458] synonym: "endocardial endothelial cell" EXACT [] synonym: "endothelial cell of endocardium" EXACT [FMA:75621] xref: FMA:75621 is_a: CL:0000115 ! endothelial cell is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0002165 ! endocardium [Term] id: CL:0002351 name: progenitor cell of endocrine pancreas namespace: cell def: "A multi-fate stem cell that is able to differentiate into the pancreas alpha, beta and delta endocrine cells. This cell type expresses neurogenin-3 andB Isl-1." [GOC:tfm, PMID:20025937, PMID:20217494] synonym: "pancreatic endocrine progenitor" EXACT [] synonym: "pancreatic islet progenitor cell" EXACT [] is_a: CL:0000048 ! multi fate stem cell [Term] id: CL:0002352 name: gestational hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell that exists during embryogenesis." [GOC:tfm, ISBN:978-60327-246-6] is_a: CL:0000037 ! hematopoietic stem cell [Term] id: CL:0002353 name: fetal liver hematopoietic progenitor cell namespace: cell def: "A hematopoietic stem cell that resides in the fetal liver. In mice, this cell type is first observed at E10.5. This cell type is MHC-positive, HSA-positive, AA4.1-positive, CD45-positive, Sca-1 positive, CD150-positive, CD48-negative and CD244-negative." [GOC:tfm, ISBN:978-1-60327-346-6, PMID:16569764] is_a: CL:0002352 ! gestational hematopoietic stem cell [Term] id: CL:0002354 name: yolk sac hematopoietic stem cell namespace: cell def: "A hematopoietic stem found in the yolk sac. In mice, this cell type is Sca-1-negative, CD45-negative, MHC-negative, HSA-positive, AA4.1-positive, CD44-positive." [GOC:tfm, doi:10.1097/MOH.0b013e3282f97ae1] synonym: "hemangioblast precursor" EXACT [] is_a: CL:0002352 ! gestational hematopoietic stem cell [Term] id: CL:0002355 name: primitive red blood cell namespace: cell def: "A large nucleated basophilic erythrocyte found in mammalian embryos. This cell type arises from the blood islands of yolk sacs and expresses different types of hemoglobins (beta-H1, gamma-1 and zeta) than adult erythrocytes. Considered a type of erythroblast as this cell type can enucleate in circulation." [DOI:10.1097/MOH.0b013e3282f97ae1, GOC:tfm, PMID:11495698] synonym: "primitive erythroblast" EXACT [] synonym: "primitive erythrocyte" EXACT [] synonym: "primitive erythroid cell" EXACT [] is_a: CL:0002417 ! primitive erythroid lineage cell relationship: develops_from CL:0002361 ! primitive erythroid progenitor relationship: part_of UBERON:0000922 ! embryo [Term] id: CL:0002356 name: primitive reticulocyte namespace: cell def: "A primitive erythrocyte that has undergone enucleation. This cell type is 3-6 fold bigger than the fetal derived erythrocytes that they co-circulate with during fetal development. Expresses epsilon-gamma hemoglobin chains." [GOC:tfm, PMID:11495698, doi:10.1097/MOH.0b013e3282f97ae1] synonym: "megalocyte" EXACT [] is_a: CL:0002417 ! primitive erythroid lineage cell relationship: develops_from CL:0002355 ! primitive red blood cell [Term] id: CL:0002357 name: fetal derived definitive erythrocyte namespace: cell def: "A fetal liver derived enucleated erythrocyte. This erythrocyte resembles adult erythrocytes in that they are small (3- to 6- times smaller than primitive erythrocytes) and produce adult hemaglobins." [GOC:tfm, PMID:11495698] synonym: "macrocyte" EXACT [] is_a: CL:0000595 ! enucleate erythrocyte relationship: develops_from CL:0002353 ! fetal liver hematopoietic progenitor cell relationship: part_of UBERON:0000922 ! embryo [Term] id: CL:0002358 name: pyrenocyte namespace: cell def: "Derived from the Greek word pyren (the pit of a stone fruit), this is a transient nucleated cell type that results from exclusion of the nucleus from the primitive erythrocyte." [GOC:tfm] is_a: CL:0002417 ! primitive erythroid lineage cell relationship: develops_from CL:0002355 ! primitive red blood cell [Term] id: CL:0002359 name: placental hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell of the placenta. This cell type is first observed E10.5 This cell type may give rise to fetal liver hematopoietic stem cells." [GOC:tfm, ISBN:978-1-60327-346-6] is_a: CL:0002352 ! gestational hematopoietic stem cell [Term] id: CL:0002360 name: AGM hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell from the aorta-gonad-mesonephros region of the developing embryo. First seen at E10.5 in mouse embryos. May give rise to fetal liver HSC." [GOC:tfm, ISBN:978-1-60327-346-6] is_a: CL:0002352 ! gestational hematopoietic stem cell [Term] id: CL:0002361 name: primitive erythroid progenitor namespace: cell def: "A progenitor cell that is capable of forming colonies of primitive erythrocytes in the blood island of the yolk sac. First arrive at E7.5 in mouse and expresses CD41." [GOC:tfm, ISBN:0813817986, PMID:20711979] synonym: "EryP-CFC" EXACT [] synonym: "inner blood island hemangioblast" EXACT [] is_a: CL:0002417 ! primitive erythroid lineage cell relationship: develops_from CL:0002418 ! hemangioblast [Term] id: CL:0002362 name: granule cell precursor namespace: cell def: "A cell located in the outermost proliferative zone of the external germinal layer that can differentiate into astroglial cells and granule cells. This cell type is glial fibrillary acidic protein-positive and NK1-positive." [GOC:tfm, PMID:14745007] is_a: CL:0000337 ! neuroblast (sensu Vertebrata) [Term] id: CL:0002363 name: keratocyte namespace: cell def: "A keratocyte is a specialized fibroblastB residing in the cornea stroma that has a flattened, dendritic cell located between the lamellae with a large flattened nucleus and lengthy processes which communicate with neighboring cells. ThisB cornealB layer, representing about 85-90% of corneal thickness, is built up from highly regular collagenous lamellae and extracellular matrix components. Keratocytes play the major role in keeping it transparent, healing its wounds, and synthesizing its components. This cell type secretes collagen I, V, VI, and keratin sulfate." [GOC:tfm, ISBN:978-0-7020-2958-5] synonym: "corneal fibroblast" EXACT [] synonym: "corneal keratocyte" EXACT [] is_a: CL:0000057 ! fibroblast relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001777 ! substantia propria of cornea [Term] id: CL:0002364 name: cortical thymic epithelial cell namespace: cell def: "An epithelial cell of the cortical portion of the thymus. Epithelial cells in this region are required for positive selection of CD8-positive T cells." [GOC:tfm, PMID:18403190] synonym: "cTEC" EXACT [] xref: BTO:0004562 is_a: CL:0002293 ! epithelial cell of thymus [Term] id: CL:0002365 name: medullary thymic epithelial cell namespace: cell def: "An epithelial cell of the medullary thymus. This cell type expresses a diverse range of tissue-specific antigens. This promiscuous gene expression is a cell-autonomous property of medullary epithelial cells and is maintained during the entire period of thymic T cell output." [GOC:tfm, PMID:18180458] synonym: "mTEC" EXACT [] xref: BTO:0004563 is_a: CL:0002293 ! epithelial cell of thymus [Term] id: CL:0002366 name: myometrial cell namespace: cell def: "A smooth muscle cell of the myometrium that enlarges and stretches during pregnancy, and contracts in response to oxytocin." [GOC:tfm, PMID:11429640] synonym: "myometrium smooth muscle cell" EXACT [] xref: BTO:0004519 is_a: CL:0002601 ! uterine smooth muscle cell relationship: part_of UBERON:0001296 ! myometrium [Term] id: CL:0002367 name: trabecular meshwork cell namespace: cell def: "A cell that lines the trabecular meshwork, which is an area of tissue in theB eyeB located around the base of theB cornea, near theB ciliary body, and is responsible for draining theB aqueous humorB from the eye via theB anterior chamberB (the chamber on the front of the eye covered by the cornea). This cell may play a role in regulating intraocular pressure." [GOC:tfm, PMID:14500801] synonym: "trabeculocyte" EXACT [] is_a: CL:0000115 ! endothelial cell relationship: part_of UBERON:0005969 ! reticulum trabeculare [Term] id: CL:0002368 name: respiratory epithelial cell namespace: cell def: "An endo-epithelial cell of the respiratory tract." [GOC:tfm] synonym: "airway epithelial cell" EXACT [] xref: BTO:0004533 is_a: CL:0002076 ! endo-epithelial cell relationship: part_of UBERON:0000065 ! respiratory tract [Term] id: CL:0002369 name: fungal spore namespace: cell def: "A differentiated form of a fungus produced during or as a result of an asexual or sexual reproductive process; usually a cell with a thick cell wall that stores and protects one or more nuclei. Spores may be produced in response to, and are characteristically resistant to, adverse environmental conditions." [FAO:0000019, GOC:tfm] is_a: CL:0000521 ! fungal cell [Term] id: CL:0002370 name: respiratory goblet cell namespace: cell def: "A simple columnar epithelial cell that secretes mucin. Rough endoplasmic reticulum, mitochondria, the nucleus, and other organelles are concentrated in the basal portion. The apical plasma membrane projects microvilli to increase surface area for secretion." [GOC:tfm, ISBN:0721662544] synonym: "respiratory mucosa goblet cells" EXACT [MP:0010863] is_a: CL:0000160 ! goblet cell is_a: CL:0002202 ! epithelial cell of tracheobronchial tree [Term] id: CL:0002371 name: somatic cell namespace: cell def: "A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell)." [GOC:tfm, ISBN:0721662544] subset: ubprop:upper_level ! abstract upper-level terms not directly useful for analysis xref: BTO:0001268 xref: FMA:72300 xref: WBbt:0008378 is_a: CL:0000003 ! cell in vivo is_a: CL:0000144 ! cell by function ! obsolete consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" consider: CL:0000000 "cell" consider: CL:0000003 "cell in vivo" consider: CL:0001034 "cell in vitro" [Term] id: CL:0002372 name: myotube namespace: cell alt_id: CL:0000369 def: "A myotube is a multinucleated cells that is formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:tfm, ISBN:0323052908] synonym: "myotubule" RELATED [] synonym: "single cell sarcomere" RELATED [] synonym: "skeletal muscle fiber" RELATED [] is_a: CL:0000188 ! skeletal muscle cell is_a: CL:0000228 ! multinucleate cell is_a: CL:0000737 ! striated muscle cell relationship: develops_from CL:0000515 ! skeletal muscle myoblast [Term] id: CL:0002373 name: growth hormone releasing hormone secreting cell namespace: cell def: "A peptide hormone secreting cell that secretes growth hormone releasing hormone." [GOC:dph, GOC:tfm] synonym: "GHRH secreting cell" EXACT [] synonym: "somatocrinin secreting cell" EXACT [] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0002374 name: ear hair cell namespace: cell def: "A hair cell of the ear that contains the organs of balance and hearing." [GOC:dph, GOC:tfm, ISBN:0192801023] synonym: "ear receptor cell" EXACT [] is_a: CL:0000855 ! sensory hair cell [Term] id: CL:0002375 name: Schwann cell precursor namespace: cell def: "A giioblast cell that develops from a migratory neural crest cell. The SCP is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has no basal lamina. In rodents SCPs are the only cells in the Schwann cell linage that expresses Cdh19." [GOC:tfm] synonym: "Schwann cell precursor cell" EXACT [] is_a: CL:0000030 ! glioblast relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0002376 name: non-myelinating Schwann cell namespace: cell def: "A glial cell that ensheaths multiple small diameter axons in the peripheral nervous system. The non-myelinating Schwann cell is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has a basal lamina. Cells can survive without an axon present. These cells can de-differentiate into immature Schwann cells." [GOC:cvs, GOC:tfm, ISBN:0721662544] synonym: "Schwann cell" BROAD [] is_a: CL:0002573 ! Schwann cell relationship: develops_from CL:0002377 ! immature Schwann cell [Term] id: CL:0002377 name: immature Schwann cell namespace: cell def: "A glial cell that develops from a Schwann cell precursor. The immature Schwann cell is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has a basal lamina. Cells can survive without an axon present. Immature Schwann cell can be found communally ensheathing large groups of axons." [GOC:cvs, GOC:tfm, ISBN:0721662544] synonym: "Schwann cell" BROAD [] xref: ZFA:0001725 is_a: CL:0002573 ! Schwann cell relationship: develops_from CL:0002375 ! Schwann cell precursor [Term] id: CL:0002378 name: immature Vgamma2-positive fetal thymocyte namespace: cell def: "A double negative thymocyte that has a T cell receptor consisting of a gamma chain containing a Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-positive and is found in the fetal thymus." [GOC:tfm, http://www.immgen.org] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "fetal Vgamma2+ thymocyte" BROAD [] is_a: CL:0002404 ! fetal thymocyte [Term] id: CL:0002379 name: meningothelial cell namespace: cell def: "A neurecto-epithelial cell found in the arachnoid villi of dura mater. This cell type facilitates flow of cerebrospinal fluid into the blood." [GOC:tfm, http://www.aippg.net/forum/viewtopic.php?t=62590] synonym: "arachnoid cap cell" EXACT [] xref: FMA:86588 is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0002380 name: oospore namespace: cell def: "An asexual spore formed by Oomycetes; formed upon fertilization of an oosphere." [GOC:tfm, ISBN:0851988857, SGD:clt] xref: FAO:0000039 is_a: CL:0000605 ! fungal asexual spore [Term] id: CL:0002381 name: uninucleate conidium namespace: cell def: "A conidium that has only one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000025 is_a: CL:0000599 ! conidium [Term] id: CL:0002382 name: multinucleate conidium namespace: cell def: "A conidium that has more than one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000033 is_a: CL:0000599 ! conidium [Term] id: CL:0002383 name: conidium of conidiophore head namespace: cell def: "A uninucleate spore formed on specialized cells or projections, sterigma, of a conidiophore head." [GOC:tfm, PMID:9529886, SGD:clt] xref: FAO:0000033 is_a: CL:0002381 ! uninucleate conidium [Term] id: CL:0002384 name: uninucleate macroconidium namespace: cell def: "A macroconidium that has only one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000029 is_a: CL:0000606 ! macroconidium is_a: CL:0002381 ! uninucleate conidium [Term] id: CL:0002385 name: blastoconidium namespace: cell def: "An oblong or round asexual spore formed from conidial chains." [GOC:tfm, PMID:2524423, SGD:clt] synonym: "blastospore" RELATED [] xref: BTO:0000127 xref: FAO:0000042 is_a: CL:0000606 ! macroconidium [Term] id: CL:0002386 name: multinucleate macroconidium namespace: cell def: "A macroconidium that has more than one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000035 is_a: CL:0000606 ! macroconidium is_a: CL:0002382 ! multinucleate conidium [Term] id: CL:0002387 name: arthroconidium namespace: cell def: "Cylindrical spore formed by development and compartmentation of hyphae; the hyphae are often supporting blastoconidiophores." [GOC:tfm, PMID:2524423, SGD:clt] synonym: "arthrospore" RELATED [] xref: FAO:0000041 is_a: CL:0000606 ! macroconidium [Term] id: CL:0002388 name: multinucleate arthroconidium namespace: cell def: "An arthroconidium that has more than one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000037 is_a: CL:0002386 ! multinucleate macroconidium is_a: CL:0002387 ! arthroconidium [Term] id: CL:0002389 name: uninucleate arthroconidium namespace: cell def: "An arthroconidium that has only one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000031 is_a: CL:0002384 ! uninucleate macroconidium is_a: CL:0002387 ! arthroconidium [Term] id: CL:0002390 name: uninucleate blastconidium namespace: cell def: "A blastoconidium that has only one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000030 is_a: CL:0002384 ! uninucleate macroconidium is_a: CL:0002385 ! blastoconidium [Term] id: CL:0002391 name: multinucleate blastoconidium namespace: cell def: "A blastoconidium that has more than one nucleus." [GOC:tfm, SGD:clt] xref: FAO:0000036 is_a: CL:0002385 ! blastoconidium is_a: CL:0002386 ! multinucleate macroconidium [Term] id: CL:0002392 name: plant spore namespace: cell def: "Obsolete. Use PO:0025017 from Plant Ontology instead. A plant cell that arises through meiosis and develops into a gametophyte." [GOC:tfm, PO:0025017] is_obsolete: true comment: replaced_by: PO:0025017 [Term] id: CL:0002393 name: intermediate monocyte namespace: cell def: "A monocyte that has characteristics of both patrolling and inflammatory monocytes." [GOC:tfm, PMID:20628149, PMID:20870168] is_a: CL:0000576 ! monocyte [Term] id: CL:0002394 name: CD141-positive myeloid dendritic cell namespace: cell def: "A myeloid dendritic cell found in the blood, lymph nodes, tonsil, bone marrow, and spleen that is CD141-positive (BDCA-3), XCR1-positive, and Clec9A-positive. This cell-type can cross-present antigen to CD8-positive T cells and can produce inteferon-beta." [GOC:dsd, GOC:tfm, PMCID:PMC2882828, PMCID:PMC2882837, PMID:17332250, PMID:20628149] comment: Markers are found in human cells. Normally they represent 3-5% of peripheral blood mDCs (human). These cells express high levels of CD283 (TLR3), are capable of producing IL-12p70 and IFN-beta upon stimulation, and inducing a TH1 response [PMCID:PMC2882828]. They are also Necl2-positive. May be human equivalent of murine CD8alpha-positive DCs. is_a: CL:0000782 ! myeloid dendritic cell is_a: CL:0000784 ! plasmacytoid dendritic cell [Term] id: CL:0002395 name: Gr1-high classical monocyte namespace: cell def: "A resident monocyte that is Gr-1 high, CD43-negative, CX3CR1-negative, CD115-positive, and B220-negative." [GOC:tfm, PMID:20628149, PMID:8890901, http://www.immgen.org/index_content.html] comment: Markers are associated with mice. The Gr epitope is used to describe this cell type is found on both Ly6c and Ly6g. However, its the Ly6c that is considered the specific marker, and thus used in the cross-product. is_a: CL:0000860 ! classical monocyte is_a: CL:0001022 ! CD115-positive monocyte [Term] id: CL:0002396 name: CD14-low, CD16-positive monocyte namespace: cell def: "A patrolling monocyte that is CD14-low and CD16-positive." [GOC:tfm, PMID:20870168] comment: Markers are associated with human monocytes. is_a: CL:0000875 ! non-classical monocyte relationship: develops_from CL:0002397 ! CD14-positive, CD16-positive monocyte [Term] id: CL:0002397 name: CD14-positive, CD16-positive monocyte namespace: cell def: "An intermediate monocyte that is CD14-positive, CD16-positive." [GOC:tfm, PMID:20628149] comment: Markers are associated with human cells. is_a: CL:0002393 ! intermediate monocyte relationship: develops_from CL:0002057 ! CD14-positive, CD16-negative classical monocyte [Term] id: CL:0002398 name: Gr1-positive, CD43-positive monocyte namespace: cell def: "An intermediate monocyte that is Gr1-positive, CD43-positive." [GOC:tfm, PMID:20628149] is_a: CL:0001022 ! CD115-positive monocyte is_a: CL:0002393 ! intermediate monocyte relationship: develops_from CL:0002395 ! Gr1-high classical monocyte [Term] id: CL:0002399 name: CD1c-positive myeloid dendritic cell namespace: cell def: "A myeloid dendritic cell found in the blood that is CD1c-positive." [GOC:dsd, GOC:tfm, PMID:20204387, PMID:20628149] comment: Normally represent 10-20% of peripheral blood mDCs (human). They are also CD281-positive (TLR1), CD282-positive (TLR2), CD283-positive (TLR3), CD284-positive (TLR4), CD285-positive (TLR5), CD286-positive (TLR6), CD288-positive (TLR8), and CD290-positive (TLR10) [PMID:20204387]. Upon TLR stimulation, these cells were potent producers of CXCL8 (IL-8), while producing little TNF-alpha. is_a: CL:0000782 ! myeloid dendritic cell [Term] id: CL:0002400 name: Fraction B/C precursor B cell namespace: cell def: "A precursor B cell that is AA4-positive, IgM-negative, CD19-positive, CD43-positive and HSA-positive." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000817 ! precursor B cell [Term] id: CL:0002401 name: mature dendritic epithelial T cell precursor namespace: cell def: "A thymocyte that has a T cell receptor consisting of a gamma chain that has as part a Vgamma3 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-negative. This cell-type is found in the fetal thymus with highest numbers occurring at E17-E18." [GOC:tfm, http://www.immgen.org/index_content.html] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "mature DEC precursor" EXACT [] synonym: "mature DETC precursor" EXACT [] is_a: CL:0002404 ! fetal thymocyte relationship: develops_from CL:0002218 ! immature dendritic epithelial T cell precursor [Term] id: CL:0002402 name: Peyer's patch B cell namespace: cell def: "A resting mature B cell within the Peyer's patch that is CD19-positive, B220-positive, IgM-positive, AA4-negative, CD23-positive, CD43-negative, and CD5-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Peyers patch B cell" EXACT [] is_a: CL:0000822 ! B-2 B cell relationship: part_of UBERON:0001211 ! Peyer's patch [Term] id: CL:0002403 name: mature Vgamma2-positive fetal thymocyte namespace: cell def: "A thymocyte that has a T cell receptor consisting of a gamma chain containing Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-negative. This cell-type is found in the fetal thymus." [GOC:tfm, http://www.immgen.org/index_content.html] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "fetal Vgamma2-positive" EXACT [] is_a: CL:0002404 ! fetal thymocyte relationship: develops_from CL:0002378 ! immature Vgamma2-positive fetal thymocyte [Term] id: CL:0002404 name: fetal thymocyte namespace: cell def: "A thymocyte found in the fetal thymus." [GOC:tfm] is_a: CL:0000893 ! thymocyte [Term] id: CL:0002405 name: gamma-delta thymocyte namespace: cell def: "A post-natal thymocyte expressing components of the gamma-delta T cell receptor. This cell type is always double-negative (i.e. CD4-negative, CD8-negative)." [GOC:tfm, PMID:20725107] synonym: "gammadelta thymocyte" EXACT [] synonym: "gd thymocyte" EXACT [] is_a: CL:0000798 ! gamma-delta T cell is_a: CL:0002489 ! double negative thymocyte [Term] id: CL:0002406 name: immature Vgamma2-positive thymocyte namespace: cell def: "A double negative post-natal thymocyte that has a T cell receptor consisting of a gamma chain containing a Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-positive." [GOC:tfm, http://www.immgen.org] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "Vgamma2-positive thymocyte" BROAD [] is_a: CL:0002405 ! gamma-delta thymocyte [Term] id: CL:0002407 name: mature Vgamma2-positive thymocyte namespace: cell def: "A thymocyte that has a T cell receptor consisting of a gamma chain containing Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-negative. This cell-type is found in the fetal thymus." [GOC:tfm, http://www.immgen.org/index_content.html] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "Vgamma2-positive" EXACT [] is_a: CL:0002405 ! gamma-delta thymocyte relationship: develops_from CL:0002406 ! immature Vgamma2-positive thymocyte [Term] id: CL:0002408 name: immature Vgamma2-negative thymocyte namespace: cell def: "A double negative post-natal thymocyte that has a T cell receptor consisting of a gamma chain containing a Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-positive." [GOC:tfm, http://www.immgen.org] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "Vgamma2-negative thymocyte" BROAD [] is_a: CL:0002405 ! gamma-delta thymocyte [Term] id: CL:0002409 name: mature Vgamma2-negative thymocyte namespace: cell def: "A thymocyte that has a T cell receptor consisting of a gamma chain containing Vgamma2 segment, and a delta chain. This cell type is CD4- negative, CD8-negative and CD24-negative. This cell-type is found in the fetal thymus." [GOC:tfm, http://www.immgen.org/index_content.html] comment: NOTE: currently variable immune gene segments are not represented in the OBO Foundry. Cross-product definitions were not made as a result. Also, there are three different nomenclatures for the variable gamma segments. synonym: "Vgamma2-negative" EXACT [] is_a: CL:0002405 ! gamma-delta thymocyte relationship: develops_from CL:0002408 ! immature Vgamma2-negative thymocyte [Term] id: CL:0002410 name: pancreatic stellate cell namespace: cell def: "A cell that is found in the periacinar space of the exocrine pancreas and in perivascular and periductal regions of the pancreas, and has long cytoplasmic processes that encircle the base of the acinus. Expresses several intermediate filament proteins including vimentin and nestin. Shares many of the characteristics of hepatatic stellate cells, but not stellate cells of the central nervous system. Upon activation, this cell type undergoes morphological and gene expression changes that make the cell suggestive of being a type of myofibroblast." [GOC:mah, GOC:tfm, PMID:17200706] synonym: "PaSC" EXACT [] is_a: CL:0000057 ! fibroblast [Term] id: CL:0002411 name: Vgamma1.1-positive, Vdelta6.3-negative thymocyte namespace: cell def: "A gamma-delta receptor that expresses Vgamma1.1 but does not express Vdelta6.3 chains in the T-cell receptor." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Vg1.1-positive, Vd6.3-negative T cell" EXACT [] is_a: CL:0002405 ! gamma-delta thymocyte [Term] id: CL:0002412 name: Vgamma1.1-positive, Vdelta6.3-positive thymocyte namespace: cell def: "A gamma-delta receptor that expresses Vgamma1.1-Vdelta6.3 chains in the T-cell receptor." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Vg1.1+Vd6.3+ T cell" EXACT [] is_a: CL:0002405 ! gamma-delta thymocyte [Term] id: CL:0002413 name: mature Vgamma1.1-positive, Vdelta6.3-negative thymocyte namespace: cell def: "A Vgamma1.1-positive, Vdelta6.3-negative thymocyte that is CD24-negative." [GOC:tfm, http://www.immgen.org] synonym: "mature Vg1.1-positive, Vd6.3-negative T cell" RELATED [] is_a: CL:0002411 ! Vgamma1.1-positive, Vdelta6.3-negative thymocyte [Term] id: CL:0002414 name: immature Vgamma1.1-positive, Vdelta6.3-negative thymocyte namespace: cell def: "A Vgamma1.1-positive, Vdelta6.3-negative thymocyte that is CD24-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "immature Vg1.1-positive, Vd6.3-negative T cell" RELATED [] is_a: CL:0002411 ! Vgamma1.1-positive, Vdelta6.3-negative thymocyte [Term] id: CL:0002415 name: immature Vgamma1.1-positive, Vdelta6.3-positive thymocyte namespace: cell def: "A Vgamma1.1-positive, Vdelta6.3-positive thymocyte that is CD24-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "immature Vg1.1+Vd6.3+ T cell" EXACT [] is_a: CL:0002412 ! Vgamma1.1-positive, Vdelta6.3-positive thymocyte [Term] id: CL:0002416 name: mature Vgamma1.1-positive, Vdelta6.3-positive thymocyte namespace: cell def: "A Vgamma1.1-positive, Vdelta6.3-positive thymocyte that is CD24-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "mature Vg1.1+Vd6.3+ T cell" EXACT [] is_a: CL:0002412 ! Vgamma1.1-positive, Vdelta6.3-positive thymocyte [Term] id: CL:0002417 name: primitive erythroid lineage cell namespace: cell def: "An immature or mature cell of the first erythroid lineage to arise during embryonic development." [GOC:tfm] is_a: CL:0000764 ! erythroid lineage cell [Term] id: CL:0002418 name: hemangioblast namespace: cell def: "A pluripotent cell in the yolk sac that can give rise to mesenchymal cells including erythrocytes and endothelial cells." [GOC:tfm, ISBN:0813817986, PMID:11495698] is_a: CL:0000222 ! mesodermal cell relationship: develops_from CL:0002354 ! yolk sac hematopoietic stem cell [Term] id: CL:0002419 name: mature T cell namespace: cell def: "A T cell that expresses a T cell receptor complex and has completed T cell selection." [GOC:tfm] synonym: "CD3e-positive T cell" EXACT [] synonym: "CD3epsilon T cell" RELATED [] synonym: "mature T-cell" EXACT [] is_a: CL:0000084 ! T cell [Term] id: CL:0002420 name: immature T cell namespace: cell def: "A T cell that has not completed T cell selection." [GOC:tfm] synonym: "immature T-cell" EXACT [] xref: BTO:0001372 is_a: CL:0000084 ! T cell [Term] id: CL:0002421 name: nucleated reticulocyte namespace: cell def: "A reticulocyte that retains the nucleus and other organelles. Found in birds, fish, amphibians and reptiles." [GOC:tfm, PMID:18182572, PMID:9011180, PMID:9046052] is_a: CL:0000558 ! reticulocyte is_a: CL:0002242 ! nucleate cell [Term] id: CL:0002422 name: enucleated reticulocyte namespace: cell def: "A reticulocyte lacking a nucleus and showing a basophilic reticulum under vital staining due to the presence of ribosomes." [GOC:tfm, ISBN:0-12203-052-4, ISBN:0721601464] xref: FMA:66785 is_a: CL:0000558 ! reticulocyte [Term] id: CL:0002423 name: DN2a thymocyte namespace: cell def: "A DN2 thymocyte that is Kit-hi." [GOC:tfm, PMID:20595614] comment: Observed in mice. is_a: CL:0000806 ! DN2 thymocyte [Term] id: CL:0002424 name: DN2b thymocyte namespace: cell def: "A DN2 thymocyte that is Kit-low." [GOC:tfm, PMID:20595614] comment: Observed in mice. is_a: CL:0000806 ! DN2 thymocyte relationship: develops_from CL:0002423 ! DN2a thymocyte [Term] id: CL:0002425 name: early T lineage precursor namespace: cell def: "A pro-T cell that is lin-negative, CD25-negative, CD127-negative, CD44-positive and kit-positive." [GOC:dsd, GOC:tfm, PMID:16551251, http://www.immgen.org/index_content.html] comment: ETPs are reportedly CD1a-negative, CD4-negative, CD7-positive, CD8a-negative, CD8b-negative, CD33-low, CD34-high, CD38-low, CD45RA-positive, and CD45RO-negative. synonym: "ETP" EXACT [] synonym: "preT.ETP.Th" EXACT [] is_a: CL:0000827 ! pro-T cell [Term] id: CL:0002426 name: CD11b-positive, CD27-positive natural killer cell namespace: cell def: "A mature natural killer cell that is CD11b-positive and CD27-positive." [GOC:tfm, http://www.immgen.org/index_content.html] comment: A natural killer cell that is NK1.1-positive, CD11b-positive, and CD27-positive. is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002427 name: resting double-positive thymocyte namespace: cell def: "A double-positive, alpha-beta thymocyte that is small and not proliferating." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.DP.sm.Th" EXACT [] is_a: CL:0000809 ! double-positive, alpha-beta thymocyte [Term] id: CL:0002428 name: double-positive blast namespace: cell def: "A double-positive thymocyte that is large (i.e. has a high forward scatter signal in flow cytometry) and is actively proliferating." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.DPb.Th" EXACT [] synonym: "activated double-positive thymocyte" EXACT [] is_a: CL:0000809 ! double-positive, alpha-beta thymocyte relationship: develops_from CL:0002427 ! resting double-positive thymocyte [Term] id: CL:0002429 name: CD69-positive double-positive thymocyte namespace: cell def: "A double-positive thymocyte that is CD69-positive and has begun positive selection." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.DP69+.Th" EXACT [] is_a: CL:0000809 ! double-positive, alpha-beta thymocyte relationship: develops_from CL:0002428 ! double-positive blast [Term] id: CL:0002430 name: CD4-intermediate, CD8-positive double-positive thymocyte namespace: cell def: "A double-positive thymocyte that is undergoing positive selection, has high expression of the alpha-beta T cell receptor, is CD69-positive, and is in the process of down regulating the CD4 co-receptor." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.4int8+.Th" EXACT [] is_a: CL:0000809 ! double-positive, alpha-beta thymocyte relationship: develops_from CL:0002429 ! CD69-positive double-positive thymocyte [Term] id: CL:0002431 name: CD4-positive, CD8-intermediate double-positive thymocyte namespace: cell def: "A double-positive thymocyte that is undergoing positive selection, has high expression of the alpha-beta T cell receptor, is CD69-positive, and is in the process of down regulating the CD4 co-receptor." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.4int8+.th" EXACT [] is_a: CL:0000809 ! double-positive, alpha-beta thymocyte relationship: develops_from CL:0002429 ! CD69-positive double-positive thymocyte [Term] id: CL:0002432 name: CD24-positive, CD4 single-positive thymocyte namespace: cell def: "A CD4-positive, CD8-negative thymocyte that is CD24-positive and expresses high levels of the alpha-beta T cell receptor." [GOC:tfm, http://www.immgen.org/index_content.html] comment: Described in the immgene database as being CD24-intermediate. synonym: "CD24-positive, CD4 single-positive semimature thymocyte" EXACT [] synonym: "T.4SP24int.Th" EXACT [] is_a: CL:0000810 ! CD4-positive, alpha-beta thymocyte relationship: develops_from CL:0002433 ! CD69-positive, CD4-positive single-positive thymocyte [Term] id: CL:0002433 name: CD69-positive, CD4-positive single-positive thymocyte namespace: cell def: "A CD4-positive, CD8-negative thymocyte that expresses high levels of the alpha-beta T cell receptor and is CD69-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.4SP69+.Th" EXACT [] synonym: "intermediate CD4-single-positive" EXACT [] is_a: CL:0000810 ! CD4-positive, alpha-beta thymocyte relationship: develops_from CL:0002431 ! CD4-positive, CD8-intermediate double-positive thymocyte [Term] id: CL:0002434 name: CD24-positive, CD8 single-positive thymocyte namespace: cell def: "A CD8-positive, CD4-negative thymocyte that is CD24-positive and expresses high levels of the alpha-beta T cell receptor." [GOC:tfm, http://www.immgen.org/index_content.html] comment: Described in the immgene database as being CD24-intermediate. synonym: "CD24-positive, CD8 single-positive semimature thymocyte" EXACT [] synonym: "T.8SP24int.Th" EXACT [] is_a: CL:0000811 ! CD8-positive, alpha-beta thymocyte relationship: develops_from CL:0002435 ! CD69-positive, CD8-positive single-positive thymocyte [Term] id: CL:0002435 name: CD69-positive, CD8-positive single-positive thymocyte namespace: cell def: "A CD4-positive, CD8-negative thymocyte that expresses high levels of the alpha-beta T cell receptor and is CD69-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.8SP69+.Th" EXACT [] synonym: "intermediate CD8-single-positive" EXACT [] is_a: CL:0000811 ! CD8-positive, alpha-beta thymocyte relationship: develops_from CL:0002430 ! CD4-intermediate, CD8-positive double-positive thymocyte [Term] id: CL:0002436 name: mature CD4 single-positive thymocyte namespace: cell def: "A mature CD4-positive, CD8-negative alpha-beta T cell found in the thymus that is CD24-low and has high expression of the T cell receptor." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "T.4SP24-.Th" RELATED [] is_a: CL:0000624 ! CD4-positive, alpha-beta T cell relationship: develops_from CL:0002432 ! CD24-positive, CD4 single-positive thymocyte [Term] id: CL:0002437 name: mature CD8 single-positive thymocyte namespace: cell def: "A mature CD8-positive, CD4-negative alpha-beta T cell found in the thymus that is CD24-low and has high expression of the T cell receptor." [GOC:tfm, http:www.immgen.org/index_content.html] synonym: "T.8SP24-.Th" EXACT [] is_a: CL:0000625 ! CD8-positive, alpha-beta T cell relationship: develops_from CL:0002434 ! CD24-positive, CD8 single-positive thymocyte [Term] id: CL:0002438 name: NK1.1-positive natural killer cell namespace: cell def: "A mature NK cell that is NK1.1-positive." [GOC:tfm] comment: Note: Nk1.1 expression is restricted to C57BL strains of laboratory mice. synonym: "NK.sp" EXACT [] synonym: "NK1.1-positive NK cell" EXACT [] is_a: CL:0000824 ! mature natural killer cell [Term] id: CL:0002439 name: NKGA2-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is NKGA2-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.G2A+.SP" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002440 name: Ly49D-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49D-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.49D+.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002441 name: CD94-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is CD94-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.94+.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002442 name: CD94-negative, Ly49CI-negative natural killer cell namespace: cell def: "A NK1.1-positive T cell that is CD94-negative and Ly49Cl-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "CD94- Ly49I-negative NK cell" EXACT [] synonym: "NK.49Cl-94-.Sp" EXACT [] is_a: CL:0002446 ! Ly49CI-negative natural killer cell is_a: CL:0002447 ! CD94-negative natural killer cell [Term] id: CL:0002443 name: Ly49CI-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49Cl-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Ly49I-positive NK cell" EXACT [] synonym: "NK.49Cl+.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002444 name: Ly49H-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49H-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "LyH49H-positive" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002445 name: Ly49D-negative natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49D-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.49D-.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002446 name: Ly49CI-negative natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49Cl-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Ly49I-negative NK cell" EXACT [] synonym: "NK.49Cl-.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002447 name: CD94-negative natural killer cell namespace: cell def: "A NK1.1-positive T cell that is CD94-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.94-.Sp" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002448 name: Ly49H-negative natural killer cell namespace: cell def: "A NK1.1-positive T cell that is Ly49H-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "LyH49H-negative" EXACT [] is_a: CL:0002438 ! NK1.1-positive natural killer cell [Term] id: CL:0002449 name: CD94-positive Ly49CI-positive natural killer cell namespace: cell def: "A NK1.1-positive T cell that is CD94-positive and Ly49Cl-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "NK.49Cl+94+.Sp" EXACT [] is_a: CL:0002441 ! CD94-positive natural killer cell is_a: CL:0002443 ! Ly49CI-positive natural killer cell [Term] id: CL:0002450 name: tether cell namespace: cell def: "A specialized hair cell that has an elongated kinocilium upon which an otolith accretes. The tether cell then anchors the otolith in place." [GOC:cvs, GOC:tfm, PMID:9398434] is_a: CL:0002374 ! ear hair cell [Term] id: CL:0002451 name: mammary stem cell namespace: cell def: "A multi-fate stem cell that is the source of cells for growth of the mammary gland during puberty and gestation. This cell type gives rise to both the luminal and myoepithelial cell types of the gland, and have been shown to have the ability to regenerate the entire organ in mice. This cell type also plays an important role in carcinogenesis of the breast. This cell type is Lin-, CD24-positive, CD29-hi." [GOC:hjd, GOC:tfm, PMID:15987436, PMID:16397499, PMID:17851544] is_a: CL:0000048 ! multi fate stem cell [Term] id: CL:0002453 name: oligodendrocyte precursor cell namespace: cell def: "The cell type from which oligodendrocytes develop. This cell originates from multiple structures within the developing brain including the medial ganglion eminence and the lateral ganglionic eminence. These cells migrate throughout the central nervous system and persist into adulthood where they play an important role in remyelination of injured neurons." [GOC:tfm, PMID:20142420] is_a: CL:0000123 ! neuron associated cell (sensu Vertebrata) relationship: develops_from CL:0000339 ! glioblast (sensu Vertebrata) relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0002454 name: Cd4-negative, CD8_alpha-negative, CD11b-positive dendritic cell namespace: cell def: "Cd4-negative, CD8_alpha-negative, CD11b-positive dendritic cell is a conventional dendritic cell that is CD11b-positive, CD4-negative, CD8_alpha-negative and is CD205-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.8-4-11b+" EXACT [] synonym: "spleen double-negative dendritic cell" EXACT [] is_a: CL:0002465 ! CD11b-positive dendritic cell [Term] id: CL:0002455 name: CD8_alpha-negative plasmactyoid dendritic cell namespace: cell def: "A CD11c-low plasmacytoid dendritic cell that is CD8alpha-negative and CD4-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.pDC.8-" EXACT [] is_a: CL:0000989 ! CD11c-low plasmacytoid dendritic cell [Term] id: CL:0002456 name: CD8_alpha-positive plasmactyoid dendritic cell namespace: cell def: "A CD11c-low plasmacytoid dendritic cell that is CD8alpha-positive and CD4-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.pDC.8+" EXACT [] is_a: CL:0000989 ! CD11c-low plasmacytoid dendritic cell [Term] id: CL:0002457 name: epidermal Langerhans cell namespace: cell def: "A Langerhans cell that is in the epidermis and is CD45-positive, MHCII-positive, and CD11b-positive." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000453 ! Langerhans cell is_a: CL:0002465 ! CD11b-positive dendritic cell relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:0002458 name: langerin-positive dermal dendritic cell namespace: cell def: "A dermal dendritic cell that is langerin-positive, CD103-positive, and CD11b-negative." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0001006 ! dermal dendritic cell is_a: CL:0002461 ! CD103-positive dendritic cell [Term] id: CL:0002459 name: langerin-negative dermal dendritic cell namespace: cell def: "A dermal dendritic cell that is langerin-negative, CD103-negative, and CD11b-positive." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0001006 ! dermal dendritic cell [Term] id: CL:0002460 name: CD8alpha-negative thymic conventional dendritic cell namespace: cell def: "A conventional thymic dendritic cell that is CD8alpha-negative." [GOC:tfm, PMID:19273629, http://www.immgen.org/index_content.html] synonym: "DC.8-.Th" EXACT [] is_a: CL:0000941 ! thymic conventional dendritic cell [Term] id: CL:0002461 name: CD103-positive dendritic cell namespace: cell def: "A conventional dendritic cell that is CD103-positive. This cell type is usually found in non-lymphoid tissue." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000990 ! conventional dendritic cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell [Term] id: CL:0002462 name: adipose dendritic cell namespace: cell def: "A F4/80-negative dendritic cell located in adipose tissue." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000990 ! conventional dendritic cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0002010 ! pre-conventional dendritic cell relationship: part_of UBERON:0001013 ! adipose tissue [Term] id: CL:0002463 name: SIRPa-positive adipose dendritic cell namespace: cell def: "An adipose dendritic cell that is SIRPa-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.SIRPa+.Ad" EXACT [] is_a: CL:0002462 ! adipose dendritic cell [Term] id: CL:0002464 name: SIRPa-negative adipose dendritic cell namespace: cell def: "An adipose dendritic cell that is SIRPa-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.SIRPa-.Ad" EXACT [] is_a: CL:0002462 ! adipose dendritic cell [Term] id: CL:0002465 name: CD11b-positive dendritic cell namespace: cell def: "A conventional dendritic cell that expresses CD11b (ITGAM)." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000990 ! conventional dendritic cell [Term] id: CL:0002466 name: small intestine serosal dendritic cell namespace: cell def: "A CD11b-positive dendritic cell located in the serosal portion of the small intestine epithelium. This cell type is CD45-positive, MHC-II-positive, CD11c-low, CD103-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "DC.11cloSer.SI" EXACT [] is_a: CL:0002465 ! CD11b-positive dendritic cell [Term] id: CL:0002467 name: Gr1-high myeloid suppressor cell namespace: cell def: "A myeloid suppressor cell that is Gr1-high and CD11c-negative." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "MDS.Gr1hi" EXACT [] is_a: CL:0000889 ! myeloid suppressor cell [Term] id: CL:0002468 name: Gr1-low myeloid suppressor cell namespace: cell def: "A myeloid suppressor cell that is Gr1-low and CD11c-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "MDS.Gr1lo" EXACT [] is_a: CL:0000889 ! myeloid suppressor cell [Term] id: CL:0002469 name: MHC-II-negative classical monocyte namespace: cell def: "Gr1-high monocyte that lacks MHC-II receptor complex." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Mo.6C+II-" EXACT [] is_a: CL:0002395 ! Gr1-high classical monocyte [Term] id: CL:0002470 name: MHC-II-positive classical monocyte namespace: cell def: "Gr1-high monocyte that has a MHC-II receptor complex." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Mo.6c+II" EXACT [] is_a: CL:0002395 ! Gr1-high classical monocyte [Term] id: CL:0002471 name: MHC-II-negative non-classical monocyte namespace: cell def: "Gr1-low non-classical monocyte that lacks expression of a MHC-II complex." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Mo.6C-II-" EXACT [] is_a: CL:0002058 ! Gr1-low non-classical monocyte [Term] id: CL:0002472 name: MHC-II-low non-classical monocyte namespace: cell def: "Gr1-low non-classical monocyte that has low to intermediate expression of the MHC-II complex." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Mo.6C-IIint" EXACT [] is_a: CL:0002058 ! Gr1-low non-classical monocyte [Term] id: CL:0002473 name: MHC-II-high non-classical monocyte namespace: cell def: "Gr1-low non-classical monocyte that has high surface expression of a MHC-II complex." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "Mo.6C-II+" EXACT [] is_a: CL:0002058 ! Gr1-low non-classical monocyte [Term] id: CL:0002474 name: lymphoid MHC-II-negative classical monocyte namespace: cell def: "A MHC-II-negative classical monocyte located in lymphoid tissue that is F4/80-positive, CD11c-negative, and CD11b-high." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002469 ! MHC-II-negative classical monocyte [Term] id: CL:0002475 name: lymphoid MHC-II-negative non-classical monocyte namespace: cell def: "A MHC-II-negative classical monocyte located in lymphoid tissue that is F4/80-positive, CD11c-intermediate, and CD11b-high." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002469 ! MHC-II-negative classical monocyte is_a: CL:0002471 ! MHC-II-negative non-classical monocyte [Term] id: CL:0002476 name: bone marrow macrophage namespace: cell def: "A tissue-resident macrophage located in the bone marrow. This cell type is B220-negative, CD3e-negative, Ly-6C-negative, CD115-positive, F4/80-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "MF.BM" RELATED [] xref: BTO:0004732 is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:0002092 ! bone marrow cell relationship: part_of UBERON:0002371 ! bone marrow [Term] id: CL:0002477 name: adipose macrophage namespace: cell def: "A macrophage located in adipose tissue that is CD45-positive, CD11c-positive, and SIRPa-positive." [GOC:tfm] is_a: CL:0000864 ! tissue-resident macrophage [Term] id: CL:0002478 name: F4/80-negative adipose macrophage namespace: cell def: "An adipose macrophage that does not express F4/80but is MHC-II-positive. This cell type exhibits autofluorescence under typical flow cyometry conditions." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "MF.Autofl.Ad" EXACT [] is_a: CL:0002477 ! adipose macrophage [Term] id: CL:0002479 name: F4/80-positive adipose macrophage namespace: cell def: "An adipose macrophage that does not express MHC-II but is F4/80-positive." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "MF.F480+.Ad" EXACT [] is_a: CL:0002477 ! adipose macrophage [Term] id: CL:0002480 name: nasal mucosa goblet cell namespace: cell def: "A goblet cell located in the nasal epithelium." [GOC:cjm, GOC:tfm] xref: MP:0002262 is_a: CL:0000160 ! goblet cell relationship: part_of UBERON:0005384 ! nasal cavity epithelium [Term] id: CL:0002481 name: peritubular myoid cell namespace: cell def: "The flattened smooth myoepithelial cells of mesodermal origin that lie just outside the basal lamina of the seminiferous tubule." [GOC:cjm, GOC:tfm, MP:0006420] is_a: CL:0000185 ! myoepithelial cell relationship: part_of UBERON:0001343 ! seminiferous tubule of testis [Term] id: CL:0002482 name: dermal melanocyte namespace: cell def: "A melanocyte that produces pigment in the dermis." [GOC:cjm, GOC:tfm, MP:0009386] is_a: CL:1000458 ! melanocyte of skin relationship: part_of UBERON:0002067 ! dermis [Term] id: CL:0002483 name: hair follicle melanocyte namespace: cell def: "A melanocyte that produces pigment within the hair follicle." [GOC:tfm, MP:0004381] is_a: CL:0000362 ! epidermal cell is_a: CL:0002484 ! epithelial melanocyte is_a: CL:0002559 ! hair follicle cell is_a: CL:1000458 ! melanocyte of skin relationship: part_of UBERON:0002073 ! hair follicle [Term] id: CL:0002484 name: epithelial melanocyte namespace: cell def: "A melanocyte that produces pigment in the epithelium." [GOC:tfm, MP:0009388] is_a: CL:0000148 ! melanocyte relationship: part_of UBERON:0000483 ! epithelium [Term] id: CL:0002485 name: retinal melanocyte namespace: cell def: "A melanocyte of the retina. This cell type is distinct from pigmented retinal epithelium." [GOC:tfm, MP:0010190] is_a: CL:0000148 ! melanocyte relationship: part_of UBERON:0000966 ! retina [Term] id: CL:0002486 name: strial intermediate cell namespace: cell def: "A melanocyte located between the epithelial marginal cell layer and the mesodermal basal cell layer within the intrastrial space; the predominant cellular component of the electrogenic machinery that generates an endocochlear potential (80-100 mV) ." [GOC:tfm, MP:0000048] is_a: CL:0000148 ! melanocyte is_a: CL:0001035 ! bone cell is_a: CL:0002491 ! auditory epithelial cell relationship: part_of UBERON:0002282 ! stria vascularis of cochlear duct [Term] id: CL:0002487 name: cutaneous/subcutaneous mechanoreceptor cell namespace: cell def: "A neuronal receptor that respond to mechanical pressure or distortion in the skin." [GOC:tfm, MP:0000973] is_a: CL:0000199 ! mechanoreceptor cell [Term] id: CL:0002488 name: trophoblast giant cell namespace: cell def: "A trophoblast cell that has a large volume of cytoplasm, is polyploidy and is usually mononuclear but is also occasionally multi-nucleate. This cell type is important in establishing maternal physiology and remodeling of the vasculature of the placenta." [GOC:tfm, MP:0001714, MP:19876834] synonym: "giant trophoblast cell" EXACT [] is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0002489 name: double negative thymocyte namespace: cell def: "A thymocyte that lacks expression of CD4 and CD8." [GOC:tfm, MP:0002407] synonym: "double negative T cell" BROAD [] is_a: CL:0000893 ! thymocyte [Term] id: CL:0002490 name: organ of Corti supporting cell namespace: cell def: "A supporting cell of the organ of Corti." [GOC:tfm, MP:0004300] is_a: CL:0001035 ! bone cell is_a: CL:0002315 ! supporting cell of cochlea relationship: part_of UBERON:0002227 ! spiral organ of cochlea [Term] id: CL:0002491 name: auditory epithelial cell namespace: cell def: "A specialized cell involved in auditory sensory perception." [GOC:tfm] is_a: CL:0000098 ! sensory epithelial cell [Term] id: CL:0002492 name: strial marginal cell namespace: cell def: "A polarized columnar cell that covesr the lateral surface of the cochlear duct, secretes potassium ions and forms a continuous sheet in contact with the endolymph; marginal cells form extensive interdigitations with the basal and intermediate cells in the normal adult stria." [GOC:tfm, MP:0004366] is_a: CL:0002491 ! auditory epithelial cell [Term] id: CL:0002493 name: strial basal cell namespace: cell def: "A polarized cell that is juxtaposed to fibrocytes in the underlying spiral ligament. This cell type secretes potassium ions derived from fibrocytes through gap junctions." [GOC:tfm, MP:0004365] comment: Basal cells form a multi-layered epithelial barrier that separates the extracellular spaces of the stria vascularis and the spiral ligament[PMID:18353863] is_a: CL:0001035 ! bone cell is_a: CL:0002491 ! auditory epithelial cell relationship: part_of UBERON:0002282 ! stria vascularis of cochlear duct [Term] id: CL:0002494 name: cardiocyte namespace: cell def: "A cell located in the heart, including both muscle and non muscle cells." [GOC:tfm] comment: From Onard of the FMA: Cardiac muscle cell or cardiac myocyte is a striated muscle cell. Cardiocyte on the other hand is any cell in the heart which includes cells other than muscle cells (e.g. endothelial cell of endocardium). Unless there is a consensus among anatomists that cardiocytes refer only to muscle cells, we will treat them as a general class of cells in the heart. synonym: "heart cell" EXACT [] xref: BTO:0001539 xref: FMA:83808 xref: FMA:84791 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0002495 name: fetal cardiomyocyte namespace: cell def: "A fetal and neonatal heart cell that undergoes proliferation and is not yet terminally differentiated into a binucleate or a multinucleate cardiac myocyte." [GOC:tfm, MP:0008788] synonym: "embryonic cardiomyocyte" EXACT [] synonym: "neonatal cardiomyocyte" EXACT [] is_a: CL:0000746 ! cardiac muscle cell [Term] id: CL:0002496 name: intraepithelial lymphocyte namespace: cell def: "A T cell that is located in the intestinal epithelium and is capable of a mucosal immune response." [GOC:tfm, MP:0008894] synonym: "IEL" EXACT [] synonym: "intraepithelial T cell" EXACT [] synonym: "intraepithelial T-cell" EXACT [] is_a: CL:0002419 ! mature T cell relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0002497 name: primary trophoblast giant cell namespace: cell def: "A trophoblast giant cell derived from the mural trophectoderm." [GOC:tfm, PMCID:PMC85124] xref: EMAPA:16066 is_a: CL:0002488 ! trophoblast giant cell [Term] id: CL:0002498 name: secondary trophoblast giant cell namespace: cell def: "A trophoblast giant cell that is derived from ectoplacental cone and, later in gestation, the spongiotrophoblast." [GOC:tfm, PMCID:PMC85124] is_a: CL:0002488 ! trophoblast giant cell [Term] id: CL:0002499 name: spongiotrophoblast cell namespace: cell def: "A trophoblast cell that arises in the junctional zone (basal plate) of the placenta." [GOC:tfm, MP:0008959] is_a: CL:0000351 ! trophoblast cell [Term] id: CL:0002500 name: P enteroendocrine cell namespace: cell def: "A P/D1 enteroendocrine cell that is Grimelius positive and stores bombesin-like polypeptide." [FMA:63418, GOC:tfm] is_a: CL:0002268 ! P/D1 enteroendocrine cell [Term] id: CL:0002501 name: type D1 enteroendocrine cell namespace: cell def: "A P/D1 enteroendocrine cell that is argyrophilic and stores vasoactive intestinal polypeptide." [FMA:63207, GOC:tfm] xref: FMA:63207 is_a: CL:0002268 ! P/D1 enteroendocrine cell [Term] id: CL:0002502 name: type M enteroendocrine cell namespace: cell def: "An enteroendocrine cell of the small intestine that secretes motilin." [GOC:tfm, PMID:15153415] synonym: "Mo enteroendocrine cell" BROAD [] xref: FMA:63420 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0002272 ! motilin secreting cell [Term] id: CL:0002503 name: adventitial cell namespace: cell def: "A cell of the adventitial layer of ductal structures such as the uterer, defent duct, biliary duct, etc" [GOC:tfm] xref: BTO:0002441 xref: FMA:84639 is_a: CL:0000630 ! supportive cell is_a: CL:0002320 ! connective tissue cell [Term] id: CL:0002504 name: enteric smooth muscle cell namespace: cell def: "A smooth muscle cell of the intestine." [GOC:tfm] synonym: "intestinal smooth muscle cell" EXACT [] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0000160 ! intestine [Term] id: CL:0002505 name: liver CD103-negative dendritic cell namespace: cell def: "A CD11b-positive dendritic cell that is CD11b-high, CD45-positive, MHC-II-positive and CD103-negative." [GOC:tfm, http:http://www.immgen.org/index_content.html] synonym: "DC.103-11b+.Lv" EXACT [] is_a: CL:0002454 ! Cd4-negative, CD8_alpha-negative, CD11b-positive dendritic cell relationship: part_of UBERON:0001281 ! hepatic sinusoid [Term] id: CL:0002506 name: liver CD103-positive dendritic cell namespace: cell def: "A CD11b-positive dendritic cell that is CD11b-low, CD45-positive, MHC-II-high and CD103-positive that is located in the liver." [GOC:tfm, http:http://www.immgen.org/index_content.html] synonym: "DC.103+11b-.Lv" EXACT [] is_a: CL:0002454 ! Cd4-negative, CD8_alpha-negative, CD11b-positive dendritic cell is_a: CL:0002461 ! CD103-positive dendritic cell relationship: part_of UBERON:0001281 ! hepatic sinusoid [Term] id: CL:0002507 name: langerin-positive lymph node dendritic cell namespace: cell def: "A dermal dendritic cell isolated from skin draining lymph nodes that is langerin-positive, MHC-II-positive, and CD4-negative and CD8a-negative." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000990 ! conventional dendritic cell [Term] id: CL:0002508 name: langerin-negative, CD103-negative lymph node dendritic cell namespace: cell def: "A dermal dendritic cell isolated from skin draining lymph nodes that is langerin-negative, MHC-II-positive, and CD4-negative and CD8a-negative." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0000990 ! conventional dendritic cell [Term] id: CL:0002509 name: CD103-positive, langerin-positive lymph node dendritic cell namespace: cell def: "A langerin-positive lymph node dendritic cell that is CD103-positive and CD11b-low." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002461 ! CD103-positive dendritic cell is_a: CL:0002507 ! langerin-positive lymph node dendritic cell [Term] id: CL:0002510 name: CD103-negative, langerin-positive lymph node dendritic cell namespace: cell def: "A langerin-positive lymph node dendritic cell that is CD103-negative and CD11b-high." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002507 ! langerin-positive lymph node dendritic cell [Term] id: CL:0002511 name: CD11b-low, CD103-negative, langerin-negative lymph node dendritic cell namespace: cell def: "A langerin-negative lymph node dendritic cell that is CD103-negative and CD11b-low." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002508 ! langerin-negative, CD103-negative lymph node dendritic cell [Term] id: CL:0002512 name: CD11b-high, CD103-negative, langerin-negative lymph node dendritic cell namespace: cell def: "A langerin-negative lymph node dendritic cell that is CD103-negative and CD11b-high." [GOC:tfm, http://www.immgen.org/index_content.html] is_a: CL:0002508 ! langerin-negative, CD103-negative lymph node dendritic cell [Term] id: CL:0002513 name: Vgamma5-positive CD8alpha alpha positive gamma-delta intraepithelial T cell namespace: cell def: "A CD8alpha alpha positive gamma-delta intraepithelial T cell that expresses a TCR encoded in part by the Vgamma5 gene segment." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "tgd.vg5+.IEL" EXACT [] is_a: CL:0000802 ! CD8-alpha alpha positive, gamma-delta intraepithelial T cell [Term] id: CL:0002514 name: Vgamma5-negative CD8alpha alpha positive gamma-delta intraepithelial T cell namespace: cell def: "A CD8alpha alpha positive gamma-delta intraepithelial T cell that does not express a TCR partially encoded by the Vgamma5 gene segment." [GOC:tfm, http://www.immgen.org/index_content.html] synonym: "tgd.vg5-.IEL" EXACT [] is_a: CL:0000802 ! CD8-alpha alpha positive, gamma-delta intraepithelial T cell [Term] id: CL:0002515 name: interrenal norepinephrine type cell namespace: cell def: "An interrenal chromaffin cell found in teleosts that contain heterogeneous vesicles with electron-dense granules located asymmetrically within the vesicular membrane." [GOC:MH, GOC:tfm, PMID:12668625] synonym: "interrenal noradrenaline type cell" EXACT [] synonym: "type n interrenal cell" EXACT [] is_a: CL:0000459 ! norepinephrin secreting cell is_a: CL:0002516 ! interrenal chromaffin cell [Term] id: CL:0002516 name: interrenal chromaffin cell namespace: cell def: "A chromaffin cell interspersed among the interrenal epithelial layer of the anterior kidney of teloest fish." [GOC:MH, GOC:tfm, PMID:12668625] is_a: CL:0000166 ! chromaffin cell [Term] id: CL:0002517 name: interrenal epinephrin secreting cell namespace: cell def: "An interrenal chromaffin cell found in teleosts that contain small, homogeneous electron-lucent granules that are separated from the vesicular membrane by a visible halo." [GOC:MH, GOC:tfm, PMID:12668625] synonym: "interrenal adrenaline secreting cell" RELATED [] synonym: "type a interrenal cell" EXACT [] is_a: CL:0000454 ! epinephrine secreting cell is_a: CL:0002516 ! interrenal chromaffin cell [Term] id: CL:0002518 name: kidney epithelial cell namespace: cell def: "An epithelial cell of the kidney." [GOC:tfm, KUPO:SJ] xref: KUPO:0001019 is_a: CL:0000066 ! epithelial cell is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0002113 ! kidney [Term] id: CL:0002519 name: interrenal epithelial cell namespace: cell def: "An interrenal epithelial kidney cell is an epithelial cell found in the anterior kidney of teleosts fish. This cell type is arranged in layers around the posterior cardinal vein and contains many mitochondria with tubulovesicular cristae. Interrenal chromaffin cells are interspersed among the tissue layer created by this cell type." [GOC:mh, GOC:tfm, PMID:12668625] is_a: CL:0002518 ! kidney epithelial cell [Term] id: CL:0002520 name: nephrocyte namespace: cell def: "An insect excretory cell that regulates haemolymph composition by filtration and filtrate endocytosis." [GOC:tfm, PMID:19783135] xref: BTO:0004597 xref: FMA:83807 is_a: CL:0002522 ! renal filtration cell [Term] id: CL:0002521 name: subcutaneous fat cell namespace: cell def: "A fat cell that is part of subcutaneous adipose tissue." [GOC:tfm] synonym: "subcutaneous adipocyte" EXACT [] is_a: CL:0000136 ! fat cell relationship: part_of UBERON:0002190 ! subcutaneous adipose tissue [Term] id: CL:0002522 name: renal filtration cell namespace: cell def: "A renal filtration cell is a specialized cell of the renal system that filter fluids by charge, size or both." [GOC:tfm] is_a: CL:0000424 ! excretory cell [Term] id: CL:0002523 name: mesonephric glomerular visceral epithelial cell namespace: cell def: "A mesonephric glomerular visceral epithelial cell is a specialized epithelial cell that contains \"feet\" that interdigitate with the \"feet\" of other glomerular epithelial cells in the mesonephros" [GOC:tfm] is_a: CL:0000653 ! glomerular visceral epithelial cell [Term] id: CL:0002524 name: disseminated nephrocyte namespace: cell def: "A disseminated nephrocyte is a nephrocyte that filters hemolymph and is found at scattered locations in the fat body or other tissues." [GOC:tfm, PMID:19783135] is_a: CL:0002520 ! nephrocyte [Term] id: CL:0002525 name: metanephric glomerular visceral epithelial cell namespace: cell def: "A metanephric glomerular visceral epithelial cell is a specialized epithelial cell that contains \"feet\" that interdigitate with the \"feet\" of other glomerular epithelial cells in the metanephros." [GOC:tfm] is_a: CL:0000653 ! glomerular visceral epithelial cell [Term] id: CL:0002526 name: CD14-positive dermal dendritic cell namespace: cell def: "A dermal dendritic cell that is CD1a-negative and CD14-positive." [GOC:dsd, PMID:19236899, PMID:20309010] comment: They are also CD11c-positive, CD40-positive, CD85j-positive (ILT-2), CD163-positive, CD205-positive (DEC205), CD207-negative (langerin), CD209-positive (DC-SIGN), CD274-positive (PD-L1), CD324-negative (E-cadherin), Factor XIIIa-positive, LOX-I-positive, CLEC6-positive, Dectin-1-positive, and DCIR-positive. Upon stimulation, these cells are capable of producing IL1-beta, IL6, IL8, IL10, IL12p40, IL19, IL20, IL24, TGF-beta, TNF-alpha, GM-CSF, and MCP1. They reside in the dermis. synonym: "CD14+ dermal DC" EXACT [] is_a: CL:0001006 ! dermal dendritic cell [Term] id: CL:0002527 name: immature CD14-positive dermal dendritic cell namespace: cell def: "An immature CD14-positive dermal dendritic cell is CD80-low, CD86-low, and MHCII-low." [GOC:dsd] is_a: CL:0001009 ! immature dermal dendritic cell is_a: CL:0002526 ! CD14-positive dermal dendritic cell [Term] id: CL:0002528 name: mature CD14-positive dermal dendritic cell namespace: cell def: "A mature CD14-positive dermal dendritic cell is CD80-high, CD86-high, MHCII-high and is CD83-positive." [GOC:dsd] is_a: CL:0001010 ! mature dermal dendritic cell is_a: CL:0002526 ! CD14-positive dermal dendritic cell relationship: develops_from CL:0002527 ! immature CD14-positive dermal dendritic cell [Term] id: CL:0002529 name: CD1a-positive dermal dendritic cell namespace: cell def: "A dermal dendritic cell that is CD1a-positive and CD14-negative." [GOC:dsd, PMID:20309010] comment: Reside in the dermis. They are also CD11c-positive, CD40-positive, CD207-negative (langerin), CD209-negative (DC-SIGN), and CD324-negative (E-cadherin). When activated, they are capable of producing CXCL8 (IL-8) and IL-15. Possibly a precursor of Langerhans cells or equivalent of langerin-positive dermal DCs in the mouse. synonym: "CD1a+ dermal DC" EXACT [] is_a: CL:0001006 ! dermal dendritic cell [Term] id: CL:0002530 name: immature CD1a-positive dermal dendritic cell namespace: cell def: "An immature CD1a-positive dermal dendritic cell is CD80-low, CD86-low, and MHCII-low." [GOC:dsd] is_a: CL:0001009 ! immature dermal dendritic cell is_a: CL:0002529 ! CD1a-positive dermal dendritic cell [Term] id: CL:0002531 name: mature CD1a-positive dermal dendritic cell namespace: cell def: "A mature CD1a-positive dermal dendritic cell is CD80-high, CD83-positive, CD86-high, and MHCII-high." [GOC:dsd] is_a: CL:0001010 ! mature dermal dendritic cell is_a: CL:0002529 ! CD1a-positive dermal dendritic cell relationship: develops_from CL:0002530 ! immature CD1a-positive dermal dendritic cell [Term] id: CL:0002532 name: CD16-positive myeloid dendritic cell namespace: cell def: "A myeloid dendritic cell found in the blood that is CD16-positive." [GOC:dsd, PMID:17332250] comment: Normally represent 65-75% of peripheral blood mDCs (human). They are also CD281-positive (TLR1), CD282-positive (TLR2), CD284-positive (TLR4), CD285-positive (TLR5), CD286-positive (TLR6), CD288-positive (TLR8), CD289-positive (TLR9), and CD290-positive (TLR10) by RT-PCR [PMID:17332250]. Upon TLR stimulation, these cells are potent producers of TNF-alpha, while producing little CXCL8 (IL8). synonym: "CD16+ mDC" EXACT [] synonym: "CD16-mDC" EXACT [] is_a: CL:0000782 ! myeloid dendritic cell [Term] id: CL:0002533 name: immature CD16-positive myeloid dendritic cell namespace: cell def: "An immature CD16-positive myeloid dendritic cell is CD80-low, CD86-low, and MHCII-low." [GOC:dsd] is_a: CL:0000840 ! immature conventional dendritic cell is_a: CL:0002532 ! CD16-positive myeloid dendritic cell [Term] id: CL:0002534 name: mature CD16-positive myeloid dendritic cell namespace: cell def: "A mature CD16-positive myeloid dendritic cell is CD80-high, CD83-positive, CD86-high, and MHCII-high." [GOC:dsd] is_a: CL:0000841 ! mature conventional dendritic cell is_a: CL:0002532 ! CD16-positive myeloid dendritic cell relationship: develops_from CL:0002533 ! immature CD16-positive myeloid dendritic cell [Term] id: CL:0002535 name: epithelial cell of cervix namespace: cell def: "An epithelial cell of the cervix." [GOC:tfm] synonym: "cervical canal epithelial cell" EXACT [GOC:tfm] synonym: "cervical canal of uterus epithelial cell" EXACT [GOC:tfm] synonym: "cervix epithelial cell" EXACT [GOC:tfm] synonym: "cervix of uterus epithelial cell" EXACT [GOC:tfm] synonym: "epithelial cell of cervical canal" EXACT [GOC:tfm] synonym: "epithelial cell of cervical canal of uterus" EXACT [GOC:tfm] synonym: "epithelial cell of cervix of uterus" EXACT [GOC:tfm] synonym: "epithelial cell of neck of uterus" EXACT [GOC:tfm] synonym: "epithelial cell of uterine cervix" EXACT [GOC:tfm] synonym: "neck of uterus epithelial cell" EXACT [GOC:tfm] synonym: "uterine cervix epithelial cell" EXACT [GOC:tfm] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000002 ! uterine cervix relationship: part_of UBERON:0004801 ! cervix epithelium [Term] id: CL:0002536 name: amniotic epithelial cell namespace: cell def: "An epithelial cell that is part of the amnion." [GOC:tfm] is_a: CL:0000066 ! epithelial cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0000305 ! amnion [Term] id: CL:0002537 name: amnion mesenchymal stem cell namespace: cell def: "A mesenchymal stem cell of the amnion membrane." [GOC:tfm, PMID:20446274, PMID:21339039] synonym: "amniotic membrane stem cell" EXACT [] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0000305 ! amnion [Term] id: CL:0002538 name: intrahepatic bile duct epithelial cell namespace: cell def: "An epithelial cell of the intrahepatic portion of the bile duct." [GOC:tfm] is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:0000182 ! hepatocyte relationship: part_of UBERON:0004823 ! intrahepatic bile duct epithelium [Term] id: CL:0002539 name: aortic smooth muscle cell namespace: cell def: "A smooth muscle cell of the aorta." [GOC:tfm] xref: BTO:0004577 is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0004178 ! aorta smooth muscle tissue [Term] id: CL:0002540 name: mesenchymal stem cell of the bone marrow namespace: cell def: "A mesenchymal stem cell that is part of the bone marrow." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0002092 ! bone marrow cell relationship: part_of UBERON:0002371 ! bone marrow [Term] id: CL:0002541 name: chorionic membrane mesenchymal stem cell namespace: cell def: "A mesenchymal stem cell of the chorionic membrane." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0003124 ! chorion [Term] id: CL:0002543 name: vein endothelial cell namespace: cell alt_id: CL:1000393 def: "An endothelial cell that is part of the vein." [GOC:tfm] synonym: "endothelial cell of vein" EXACT [] xref: FMA:62104 xref: KUPO:0001099 is_a: CL:0000071 ! blood vessel endothelial cell relationship: part_of UBERON:0001638 ! vein [Term] id: CL:0002544 name: aortic endothelial cell namespace: cell def: "An arterial endothelial cell that is part of the aorta endothelium." [GOC:tfm] xref: BTO:0003245 is_a: CL:1000413 ! endothelial cell of artery [Term] id: CL:0002545 name: thoracic aorta endothelial cell namespace: cell def: "An endothelial cell that is part of the thoracic endothelium." [GOC:tfm] is_a: CL:0002544 ! aortic endothelial cell relationship: part_of UBERON:0001515 ! thoracic aorta [Term] id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell namespace: cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. is_a: CL:0000222 ! mesodermal cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0002547 name: fibroblast of the aortic adventitia namespace: cell def: "A fibroblast of the aortic adventitia." [GOC:tfm] is_a: CL:1000306 ! fibroblast of tunica adventitia of artery relationship: part_of UBERON:0004664 ! aorta tunica adventitia [Term] id: CL:0002548 name: cardiac fibroblast namespace: cell def: "A fibroblast that is part of the heart." [GOC:tfm] is_a: CL:0000057 ! fibroblast is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0002549 name: fibroblast of choroid plexus namespace: cell def: "A fibroblast that is part of the choroid plexus." [GOC:tfm] is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0001886 ! choroid plexus [Term] id: CL:0002550 name: fibroblast of the conjuctiva namespace: cell def: "A fibroblast that is part of the conjuctiva of the eye." [GOC:tfm] is_a: CL:0000057 ! fibroblast [Term] id: CL:0002551 name: fibroblast of dermis namespace: cell is_a: CL:0002620 ! skin fibroblast relationship: part_of UBERON:0002067 ! dermis [Term] id: CL:0002552 name: fibroblast of gingiva namespace: cell is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0001828 ! gingiva [Term] id: CL:0002553 name: fibroblast of lung namespace: cell def: "A fibroblast that is part of lung." [GOC:tfm] xref: BTO:0000764 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002048 ! lung [Term] id: CL:0002554 name: fibroblast of lymphatic vessel namespace: cell def: "A fibroblast of the lymphatic system." [GOC:tfm] is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0001473 ! lymphatic vessel [Term] id: CL:0002555 name: fibroblast of mammary gland namespace: cell def: "A fibroblast that is part of the mammary gland." [GOC:tfm] is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0001911 ! mammary gland [Term] id: CL:0002556 name: fibroblast of periodontium namespace: cell def: "A fibroblast of the periodontium." [GOC:tfm] is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0001758 ! periodontium [Term] id: CL:0002557 name: fibroblast of pulmonary artery namespace: cell def: "A fibroblast of pulmonary artery." [GOC:tfm] is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002012 ! pulmonary artery [Term] id: CL:0002558 name: fibroblast of villous mesenchymal namespace: cell def: "A fibroblast that is part of villous mesenchymal." [GOC:tfm] is_a: CL:0000057 ! fibroblast [Term] id: CL:0002559 name: hair follicle cell namespace: cell def: "An animal cell that is part of a hair follicle." [GOC:tfm] is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002073 ! hair follicle [Term] id: CL:0002560 name: inner root sheath cell namespace: cell def: "An epithelial cell that resides in the inner root sheath of the hair follicle." [GOC:tfm] is_a: CL:0000362 ! epidermal cell is_a: CL:0002559 ! hair follicle cell relationship: part_of UBERON:0005941 ! hair inner root sheath [Term] id: CL:0002561 name: outer root sheath cell namespace: cell def: "An epithelial cell that is part of the outer root sheath." [GOC:tfm] is_a: CL:0000362 ! epidermal cell is_a: CL:0002559 ! hair follicle cell relationship: part_of UBERON:0005942 ! hair outer root sheath [Term] id: CL:0002562 name: hair germinal matrix cell namespace: cell def: "An epidermal cell that is part of the germinal matrix." [GOC:tfm] synonym: "trichocyte" EXACT [] is_a: CL:0000362 ! epidermal cell is_a: CL:0002559 ! hair follicle cell relationship: part_of UBERON:0006004 ! hair follicle matrix region [Term] id: CL:0002563 name: intestinal epithelial cell namespace: cell def: "An epithelial cell of the intestine." [GOC:tfm] is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0000160 ! intestine relationship: part_of UBERON:0001277 ! intestinal epithelium [Term] id: CL:0002564 name: nucleus pulposus cell of intervertebral disc namespace: cell def: "A connective tissue cell of the nucleus pulposus cell of intervertebral disc." [GOC:tfm] is_a: CL:0002320 ! connective tissue cell is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002242 ! nucleus pulposus [Term] id: CL:0002565 name: iris pigment epithelial cell namespace: cell def: "A pigment cell located in the epithelium of the iris." [GOC:tfm] is_a: CL:0000066 ! epithelial cell is_a: CL:0000342 ! pigment cell (sensu Vertebrata) relationship: part_of UBERON:0002506 ! iris epithelium [Term] id: CL:0002566 name: dark melanocyte namespace: cell def: "A melanocyte that appears darker due to content or amount of melanin granules." [GOC:tfm] is_a: CL:0000148 ! melanocyte [Term] id: CL:0002567 name: light melanocyte namespace: cell def: "A melanocyte that appears lighter in color." [GOC:tfm] is_a: CL:0000148 ! melanocyte [Term] id: CL:0002568 name: mesenchymal stem cell of Wharton's jelly namespace: cell def: "A mesenchymal stem cell that is part of Wharton's jelly." [GOC:tfm] is_a: CL:0002569 ! mesenchymal stem cell of umbilical cord [Term] id: CL:0002569 name: mesenchymal stem cell of umbilical cord namespace: cell def: "A mesenchymal stem cell of the umbilical cord." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0003422 ! mesenchyme of umbilical cord [Term] id: CL:0002570 name: mesenchymal stem cell of adipose namespace: cell def: "A mesenchymal stem cell of adipose tissue." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell relationship: part_of UBERON:0001013 ! adipose tissue [Term] id: CL:0002571 name: hepatic mesenchymal stem cell namespace: cell def: "A mesenchymal stem cell of liver." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0002195 ! hepatic stem cell relationship: part_of UBERON:0002107 ! liver [Term] id: CL:0002572 name: vertebral mesenchymal stem cell namespace: cell def: "A mesenchymal stem cell of the vertebrae." [GOC:tfm] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0001035 ! bone cell relationship: part_of UBERON:0002412 ! vertebra [Term] id: CL:0002573 name: Schwann cell namespace: cell def: "A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function." [GOC:tfm] xref: BTO:0001220 is_a: CL:0000243 ! glial cell (sensu Vertebrata) relationship: part_of UBERON:0000010 ! peripheral nervous system [Term] id: CL:0002574 name: stromal cell of pancreas namespace: cell def: "A stromal cell of the pancreas." [GOC:tfm] is_a: CL:0000499 ! stromal cell relationship: part_of UBERON:0001264 ! pancreas [Term] id: CL:0002575 name: central nervous system pericyte namespace: cell def: "A pericyte of the central nervous system." [GOC:tfm] is_a: CL:0000669 ! pericyte cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0002576 name: perineural cell namespace: cell def: "A myofibroblast that lies in the connective tissue of the spinal cord that has a distinctly lamellar arrangement." [GO:tfm, http://en.wikipedia.org/wiki/Perineurium] is_a: CL:0000186 ! myofibroblast cell is_a: CL:0002320 ! connective tissue cell relationship: part_of UBERON:0000121 ! perineurium [Term] id: CL:0002577 name: placental epithelial cell namespace: cell def: "An epithelial cell of the placenta." [GOC:tfm] is_a: CL:0000066 ! epithelial cell is_a: CL:0000349 ! extraembryonic cell relationship: part_of UBERON:0001987 ! placenta [Term] id: CL:0002578 name: mesenteric preadipocyte namespace: cell def: "A preadipocyte found in mesenteric tissue." [GOC:tfm] is_a: CL:0002334 ! preadipocyte relationship: part_of UBERON:0002095 ! mesentery [Term] id: CL:0002579 name: omentum preadipocyte namespace: cell is_a: CL:0002334 ! preadipocyte relationship: part_of UBERON:0003688 ! omentum [Term] id: CL:0002580 name: preadipocyte of the breast namespace: cell def: "A preadipocyte that is part of the breast." [GOC:tfm] is_a: CL:0002334 ! preadipocyte relationship: part_of UBERON:0000310 ! breast [Term] id: CL:0002581 name: perirenal preadipocyte namespace: cell is_a: CL:0002334 ! preadipocyte relationship: part_of UBERON:0005406 ! perirenal fat [Term] id: CL:0002582 name: visceral preadipocyte namespace: cell def: "A preadipocyte that is part of visceral tissue." [GOC:tfm] is_a: CL:0002334 ! preadipocyte [Term] id: CL:0002583 name: subcutaneous preadipocyte namespace: cell def: "A preadipocyte that is part of subcutaneous tissue." [GOC:tfm] is_a: CL:0002334 ! preadipocyte relationship: part_of UBERON:0002072 ! hypodermis [Term] id: CL:0002584 name: renal cortical epithelial cell namespace: cell def: "An epithelial cell of the kidney cortex." [GOC:tfm] xref: KUPO:0001016 is_a: CL:0002518 ! kidney epithelial cell is_a: CL:0002681 ! kidney cortical cell relationship: part_of UBERON:0001225 ! cortex of kidney [Term] id: CL:0002585 name: retinal blood vessel endothelial cell namespace: cell def: "A blood vessel endothelial cell that is part of the retina." [GOC:tfm] is_a: CL:0000071 ! blood vessel endothelial cell relationship: part_of UBERON:0000966 ! retina [Term] id: CL:0002586 name: retinal pigment epithelial cell namespace: cell def: "An epithelial cell of the retinal pigmented epithelium." [GOC:tfm] xref: BTO:0004910 xref: FMA:75802 is_a: CL:0000066 ! epithelial cell is_a: CL:0000149 ! visual pigment cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001782 ! pigmented layer of retina [Term] id: CL:0002588 name: smooth muscle cell of the umbilical vein namespace: cell def: "A smooth muscle cell of the umbilical vein." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0002066 ! umbilical vein [Term] id: CL:0002589 name: smooth muscle cell of the brachiocephalic vasculature namespace: cell def: "A smooth muscle cell of the bachiocephalic vasculature." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0001529 ! brachiocephalic artery [Term] id: CL:0002590 name: smooth muscle cell of the brain vasculature namespace: cell def: "A vascular associated smooth muscle cell of the brain vasculature." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0005284 ! brain vasculature [Term] id: CL:0002591 name: smooth muscle cell of the pulmonary artery namespace: cell def: "A smooth muscle of the pulmonary artery." [GOC:tfm] xref: BTO:0003336 is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0002012 ! pulmonary artery [Term] id: CL:0002592 name: smooth muscle cell of the coronary artery namespace: cell def: "A smooth muscle cell of the coronary artery." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0001621 ! coronary artery [Term] id: CL:0002593 name: smooth muscle cell of the internal thoracic artery namespace: cell def: "A smooth muscle of the internal thoracic artery." [GOC:tfm] is_a: CL:0002595 ! smooth muscle cell of the subclavian artery relationship: part_of UBERON:0002456 ! internal thoracic artery [Term] id: CL:0002594 name: smooth muscle cell of the umbilical artery namespace: cell def: "A smooth muscle cell of the umbilical artery." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0001310 ! umbilical artery [Term] id: CL:0002595 name: smooth muscle cell of the subclavian artery namespace: cell def: "A smooth muscle cell of the subclavian artery." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0001533 ! subclavian artery [Term] id: CL:0002596 name: smooth muscle cell of the carotid artery namespace: cell def: "Smooth muscle cell of the carotid artery." [GOC:tfm] is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0005396 ! carotid artery segment [Term] id: CL:0002597 name: smooth muscle cell of bladder namespace: cell def: "A smooth muscle cell of the bladder." [GC:tfm] xref: KUPO:0001122 is_a: CL:0000192 ! smooth muscle cell is_a: CL:1001319 ! bladder cell relationship: part_of UBERON:0001255 ! urinary bladder [Term] id: CL:0002598 name: bronchial smooth muscle cell namespace: cell xref: BTO:0004402 is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0002185 ! bronchus [Term] id: CL:0002599 name: smooth muscle cell of the esophagus namespace: cell def: "A smooth muscle cell of the esophagus." [GOC:tfm] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0001043 ! esophagus [Term] id: CL:0002600 name: smooth muscle cell of trachea namespace: cell def: "A smooth muscle cell of the trachea." [GOC:tfm] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0003126 ! trachea [Term] id: CL:0002601 name: uterine smooth muscle cell namespace: cell def: "A smooth muscle cell of the uterus." [GOC:tfm] is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0000995 ! uterus [Term] id: CL:0002602 name: annulus pulposus cell namespace: cell synonym: "anulus pulposus cell" EXACT [] is_a: CL:0002320 ! connective tissue cell relationship: part_of UBERON:0004715 ! annulus fibrosus disci intervertebralis [Term] id: CL:0002603 name: astrocyte of the cerebellum namespace: cell def: "An astrocyte of the cerebellum." [GOC:tfm] is_a: CL:0000127 ! astrocyte relationship: part_of UBERON:0002037 ! cerebellum [Term] id: CL:0002604 name: astrocyte of the hippocampus namespace: cell is_a: CL:0002605 ! astrocyte of the cerebral cortex relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: CL:0002605 name: astrocyte of the cerebral cortex namespace: cell def: "An astrocyte of the cerebral cortex." [GOC:tfm] is_a: CL:0012000 ! astrocyte of the forebrain relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: CL:0002606 name: astrocyte of the spinal cord namespace: cell def: "An astrocyte of the spinal cord." [GOC:tfm] is_a: CL:0000127 ! astrocyte relationship: part_of UBERON:0002240 ! spinal cord [Term] id: CL:0002607 name: migratory enteric neural crest cell namespace: cell def: "A neural crest cell that gives rise to cells of the enteric nervous system." [GOC:tfm] is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0002608 name: hippocampal neuron namespace: cell def: "A neuron of the hippocampus." [GOC:tfm] is_a: CL:0002609 ! neuron of cerebral cortex relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: CL:0002609 name: neuron of cerebral cortex namespace: cell def: "A CNS neuron of the cerebral cortex." [GOC:tfm] synonym: "cortical neuron" EXACT [] xref: BTO:0004102 xref: FMA:84104 is_a: CL:0012001 ! neuron of the forebrain relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: CL:0002610 name: raphe nuclei neuron namespace: cell def: "A neuron of the raphe nuclei." [GOC:tfm] is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: part_of UBERON:0004684 ! raphe nuclei [Term] id: CL:0002611 name: neuron of the dorsal spinal cord namespace: cell def: "A CNS neuron of the dorsal spinal cord." [GOC:tfm] is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: CL:0002612 name: neuron of the ventral spinal cord namespace: cell def: "A neuron of the ventral spinal cord." [GOC:tfm] is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: part_of UBERON:0002257 ! ventral horn of spinal cord [Term] id: CL:0002613 name: striatum neuron namespace: cell def: "A neuron of the striatum." [GOC:tfm] is_a: CL:0012001 ! neuron of the forebrain relationship: part_of UBERON:0002435 ! striatum [Term] id: CL:0002614 name: neuron of the substantia nigra namespace: cell def: "A neuron of the substantia nigra." [GOC:tfm] is_a: CL:0012001 ! neuron of the forebrain relationship: part_of UBERON:0002038 ! substantia nigra [Term] id: CL:0002615 name: adipocyte of omentum tissue namespace: cell def: "A fat cell that is part of omentum tissue." [GOC:tfm] synonym: "omental adipocyte" EXACT [] synonym: "omental fat cell" EXACT [] is_a: CL:0000136 ! fat cell relationship: part_of UBERON:0003688 ! omentum [Term] id: CL:0002616 name: perirenal adipocyte cell namespace: cell def: "A fat cell of perirenal fat tissue." [GOC:tfm] synonym: "perirenal fat cell" EXACT [] is_a: CL:0000136 ! fat cell relationship: part_of UBERON:0005406 ! perirenal fat [Term] id: CL:0002617 name: adipocyte of breast namespace: cell def: "A fat cell that is part of the breast." [GOC:tfm] synonym: "fat cell of breast" EXACT [] is_a: CL:0000136 ! fat cell relationship: part_of UBERON:0000310 ! breast [Term] id: CL:0002618 name: endothelial cell of umbilical vein namespace: cell def: "An endothelial cell of the umbilical vein." [GOC:tfm] xref: BTO:0004296 is_a: CL:0002543 ! vein endothelial cell relationship: part_of UBERON:0002066 ! umbilical vein [Term] id: CL:0002619 name: adult endothelial progenitor cell namespace: cell def: "An adult angioblastic cell released from the bone marrow, capable of blood circulation and participation in angiogenesis by differentiating into blood vessel endothelial cells. Their existence is controversial." [GOC:tfm, PMID:20807818, PMID:9020076] synonym: "EPC" EXACT [] is_a: CL:0000566 ! angioblastic mesenchymal cell [Term] id: CL:0002620 name: skin fibroblast namespace: cell def: "A fibroblast of skin." [GOC:tfm] xref: BTO:0001255 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002097 ! skin of body [Term] id: CL:0002621 name: gingival epithelial cell namespace: cell is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0001949 ! gingival epithelium [Term] id: CL:0002622 name: prostate stromal cell namespace: cell def: "A stromal cell of the prostate." [GOC:tfm] xref: BTO:0003972 is_a: CL:0000499 ! stromal cell relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:0002623 name: acinar cell of salivary gland namespace: cell def: "An acinar cell of salivary gland." [GOC:tfm] is_a: CL:0000622 ! acinar cell is_a: CL:0002251 ! epithelial cell of alimentary canal relationship: part_of UBERON:0001044 ! salivary gland [Term] id: CL:0002624 name: paneth cell of the appendix namespace: cell def: "A paneth cell of the appendix." [GOC:tfm] is_a: CL:0002658 ! glandular cell of the large intestine is_a: CL:1000405 ! epithelial cell of appendix relationship: part_of UBERON:0001154 ! vermiform appendix [Term] id: CL:0002625 name: seminiferous tubule epithelial cell namespace: cell def: "A cell of the seminiferous tubule epithelium." [GOC:tfm] is_a: CL:0000077 ! mesothelial cell relationship: part_of UBERON:0004813 ! seminiferous tubule epithelium [Term] id: CL:0002626 name: immature astrocyte namespace: cell def: "An immature astrocyte." [GOC:dsd] synonym: "immature astrocytic glia" EXACT [] is_a: CL:0000127 ! astrocyte [Term] id: CL:0002627 name: mature astrocyte namespace: cell def: "A mature astrocyte that is capable of producing cytokines." [GOC:dsd, PMID:12898703, PMID:8734446] comment: Mature astrocytes are reportedly able to produce aspartate, ATP, BDNF, BMP-2a, BMP-3, CCL2, CCL3, CCL4, CCL5, CCL19, CCL20,CD40L, CNTF, CTGF, CXCL1, CXCL2, CXCL8, edn-1, aFGF, bFGF, G-CSF, glutamate, GM-CSF, IFN-alpha, IFN-beta, IFN-gamma, IGF-1, IL-1alpha, IL-1beta, IL-2, Il-4, IL-6, IL-10, IL-12, LIF, MIP-2, NGF, nitric oxide, NT3, taurine, TGF-beta, TNF-alpha, TNF-beta. synonym: "activated astrocyte" EXACT [] synonym: "mature astrocytic glia" EXACT [] is_a: CL:0000127 ! astrocyte [Term] id: CL:0002628 name: immature microglial cell namespace: cell def: "An immature microglial cell with a ramified morphology." [GOC:dsd, PMID:18396103, PMID:19461673] comment: Immature microglia are reportedly CD34-positive, CD163-negative, MHCI-negative, MHCII-negative. synonym: "immature microglia" EXACT [] synonym: "quiescent microglia" EXACT [PMID:18396103] synonym: "resting microglia" EXACT [PMID:18396103] is_a: CL:0000129 ! microglial cell [Term] id: CL:0002629 name: mature microglial cell namespace: cell def: "A mature microglial cell that has changed shape to an amoeboid morphology and is capable of cytokine production and antigen presentation." [GOC:dsd, PMID:11517395, PMID:14612429, PMID:15246020, PMID:16177057, PMID:18396103, PMID:20021364] comment: Mature microglia are reportedly CCR2-positive, CD4-positive, CD9-positive, CD11a-positive, CD11b-positive, CD11c-positive, CD13-positive, CD16-positive, CDw17-positive, CD18-positive, CD21-positive, CD26-negative, CD32-positive, CD35-positive, CD36-positive, CD40-positive, CD44-positive, CD45-positive, CD53-positive, CD54-positive, CD56-negative, CD58-positive, CD63-positive, CD64-positive, CD66-positive, CD80-positive, CD86-positive, CD87-positive, CD92-positive, CD106-positive, CD107a-positive, CD147-positive, CD155-positive, CD162-positive, CD163-positive, CD171-negative, CD200R-positive, CXCR3-positive, CX3CR1-positive, fibronectin-positive, GD3-positive, GLUT1-positive, GLUT3-negative, GLUT5-positive, MHCI-positive, MHCII-positive, P2X4-positive, RFD7-negative, RGS5-negative, alpha-SMA-negative, vimentin-positive, and vwf-negative. Mature microglia are capable of producing BDNF, CCL3, CCL5, CCL7, CCL8, CCL9, CCL19, CCL20,CD40L, CSF, CXCL1, CXCL2, CXCL4, CXCL5, CXCL8, CXCL9, CXCL10, glutamate, IL-1beta, IL-1ra, IL-3, IL-6, IL-10, IL-12, LT, MMP-2, MMP-9, NGF, nitric oxide, ROS, TGF-beta, TNF-alpha. synonym: "activated microglia" EXACT [PMID:18396103] synonym: "mature microglia" EXACT [] synonym: "reactive microglia" EXACT [PMID:18396103] is_a: CL:0000129 ! microglial cell [Term] id: CL:0002630 name: actinomycete-type spore namespace: cell def: "A spore formed from bacteria in the order Actinomycetales." [GO:0034304, GOC:tfm] is_a: CL:0000520 ! prokaryotic cell [Term] id: CL:0002631 name: epithelial cell of upper respiratory tract namespace: cell is_a: CL:0002368 ! respiratory epithelial cell relationship: part_of UBERON:0001557 ! upper respiratory tract [Term] id: CL:0002632 name: epithelial cell of lower respiratory tract namespace: cell is_a: CL:0002368 ! respiratory epithelial cell relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: CL:0002633 name: respiratory basal cell namespace: cell def: "A basal cell in the respiratory tract." [GOC:tfm, PMID:20699479] synonym: "airway basal cell" EXACT [] synonym: "airway basal stem cell" EXACT [] is_a: CL:0000646 ! basal cell is_a: CL:0002368 ! respiratory epithelial cell [Term] id: CL:0002634 name: epithelial cell of anal column namespace: cell def: "An epithelial cell of the anal column." [GOC:tfm] is_a: CL:0002253 ! epithelial cell of large intestine relationship: part_of UBERON:0009882 ! anal column [Term] id: CL:0002635 name: nonkeratinized epithelial cell of anal column namespace: cell def: "A nonkeratinized epithelial cell of the anal canal." [GOC:tfm] xref: FMA:263146 is_a: CL:0002634 ! epithelial cell of anal column [Term] id: CL:0002636 name: nonkeratinized epithelial cell of inferior part of anal canal namespace: cell def: "A nonkeratinized cell epithleial cell of the inferior part of the anal canal." [GOC:tfm] xref: FMA:263144 is_a: CL:0002635 ! nonkeratinized epithelial cell of anal column is_a: CL:1000438 ! epithelial cell of wall of inferior part of anal canal [Term] id: CL:0002637 name: keratinized epithelial cell of the anal canal namespace: cell def: "An epithelial cell of the anal canal that is keratinized. This cell type is found towards the lower, rectal end of the anal canal." [GOC:tfm] is_a: CL:0000237 ! keratinizing barrier epithelial cell is_a: CL:0002634 ! epithelial cell of anal column [Term] id: CL:0002638 name: bronchioalveolar stem cell namespace: cell def: "A respiratory stem cell found at the junction of the terminal (conductive) bronchiole and the respiratory bronchiole. This cell types gives rise to alveolar cell types and Clara cells in response to lung injury. This cell type expresses markers Scgb1a1 and Sftpc." [GOC:tfm, PMID:15960971] synonym: "BASC" EXACT [] synonym: "basal epithelial cell of bronchioalveolar duct junction" EXACT [] is_a: CL:1000350 ! basal cell of epithelium of terminal bronchiole is_a: CL:1000351 ! basal cell of epithelium of respiratory bronchiole relationship: part_of UBERON:0001955 ! epithelium of respiratory bronchiole relationship: part_of UBERON:0001958 ! epithelium of terminal bronchiole [Term] id: CL:0002639 name: amniotic stem cell namespace: cell def: "An amniotic stem cell is a mesenchymalstem cell extracted from amniotic fluid. Amniotic stem cells are able to differentiate into various tissue type such as skin, cartilage, cardiac tissue, nerves, muscle, and bone" [GOC:tfm, PMID:20942606] comment: Not clear to me if amniotic stem cell is a different cell type from amnion mesenchymal stem cells. They are treated as distinct in the literature as isolations methods are different, so I will keep them as separate terms for now. is_a: CL:0000134 ! mesenchymal cell is_a: CL:0002323 ! amniocyte [Term] id: CL:0002640 name: amniotic epithelial stem cell namespace: cell def: "An epithelial fate stem cell derived form the amnion membrane." [GOC:tfm, PMID:20446274] is_a: CL:0000036 ! epithelial fate stem cell [Term] id: CL:0002641 name: epithelial cell of esophageal gland proper namespace: cell def: "An epithelial cell of the esophageal gland proper." [GOC:tfm] xref: FMA:256141 is_a: CL:0002657 ! glandular cell of esophagus [Term] id: CL:0002642 name: epithelial cell of esophageal cardiac gland namespace: cell def: "An epithelial cell of the esophageal cardiac gland that occurs both in the proximal and distal esophagusm, within the lamina propia." [GOC:tfm, http://web.mac.com/wjkrause/iWeb/Histology/Blog/E3FA5916-1AA9-4885-B579-5051838D98CB.html] xref: FMA:256143 is_a: CL:0002657 ! glandular cell of esophagus [Term] id: CL:0002643 name: nonkeratinized cell of stratum corneum of esophageal epithelium namespace: cell def: "An epithelial cell of stratum corneum of esophageal epithelium that lacks keratin." [GOC:tfm] xref: FMA:263148 is_a: CL:0002654 ! epithelial cell of stratum corneum of esophageal epithelium [Term] id: CL:0002644 name: endo-epithelial cell of tympanic part of viscerocranial mucosa namespace: cell def: "An endothelial cell of viscerocranial mucosa that is part of the tympanic region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70628 is_a: CL:0002261 ! endothelial cell of viscerocranial mucosa [Term] id: CL:0002645 name: endo-epithelial cell of pharyngotympanic part of viscerocranial mucosa namespace: cell def: "An endocranial viscerocranial mucosa cell that is part of viscerocranial mucosa." [GOC:tfm] xref: FMA:70629 is_a: CL:0002261 ! endothelial cell of viscerocranial mucosa [Term] id: CL:0002646 name: epithelial cell of buccal part of viscerocranial mucosa namespace: cell def: "An ecto-epithelial cell of the buccal region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70577 is_a: CL:0002283 ! ecto-epithelial cell of viscerocranial mucosa [Term] id: CL:0002647 name: epithelial cell of anterior palatal part of viscerocranial mucosa namespace: cell def: "An ecto-epithelial cell of the palatal region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70580 is_a: CL:0002283 ! ecto-epithelial cell of viscerocranial mucosa [Term] id: CL:0002648 name: epithelial cell of nasal part of viscerocranial mucosa namespace: cell def: "An ecto-epithelial cell of the nasal region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70554 is_a: CL:0002283 ! ecto-epithelial cell of viscerocranial mucosa [Term] id: CL:0002649 name: epithelial cell of gingival part of viscerocranial mucosa namespace: cell def: "An ecto-epithelial cell of the gingival region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70579 is_a: CL:0002283 ! ecto-epithelial cell of viscerocranial mucosa [Term] id: CL:0002650 name: epithelial cell of paranasal sinus part of viscerocranial mucosa namespace: cell def: "An ecto-epithelial cell of the paranasal region of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70578 is_a: CL:0002283 ! ecto-epithelial cell of viscerocranial mucosa [Term] id: CL:0002651 name: endothelial cell of venous sinus of spleen namespace: cell def: "An endothelial cell that is part of the venous sinus of spleen. This endothelial cell has an elongated, spindle-shaped, flattened morphology that is parallel to long axis of sinus. This cell type rests on a basement membrane interrupted by numerous narrow slits." [GOC:tfm] synonym: "stave cell" EXACT [FMA:62817] xref: FMA:72140 is_a: CL:0002262 ! endothelial cell of sinusoid [Term] id: CL:0002652 name: endothelial cell of high endothelial venule namespace: cell def: "A venule endothelial cell that is cubodial, expresses leukocyte-specific receptors, and allows for passage of lymphocytes into bloodstream." [GOC:tfm, PMID:20726857] comment: Markers expressed on HEV include: MAdCAM-1,PNAd (sulfated and glycosylated molecules, i.e. GlyCAM-1, CD34, endomucin, nepmucin), ICAM-1, ICAM-2,Fuc-TVII, beta 3GlcNAcT-3, GlcNAc6ST2,CCL21, CCL19, CXCL13, CXCL12, Autotaxin, DARC, angiomodulin, LRHG. synonym: "HEV cell" EXACT [] synonym: "endothelial cell of postcapillary venule of lymph node" EXACT [] xref: FMA:67759 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:1000414 ! endothelial cell of venule [Term] id: CL:0002653 name: squamous endothelial cell namespace: cell def: "A endothelial cell of the venule that is squamous shaped. This is in contrast to the cubodial shape of high endothelial venule cells." [GOC:tfm] is_a: CL:0000076 ! squamous epithelial cell is_a: CL:1000414 ! endothelial cell of venule [Term] id: CL:0002654 name: epithelial cell of stratum corneum of esophageal epithelium namespace: cell def: "An epithelial cell of stratum corneum of esophageal epithelium." [GOC:tfm] xref: FMA:70733 is_a: CL:0002252 ! epithelial cell of esophagus [Term] id: CL:0002655 name: epithelial cell of stratum spinosum of esophageal epithelium namespace: cell def: "An epithelial cell of stratum spinosum of esophageal epithelium." [GOC:tfm] xref: FMA:70732 is_a: CL:0002252 ! epithelial cell of esophagus [Term] id: CL:0002656 name: glandular cell of endometrium namespace: cell def: "A glandular epithelial cell of the endometrium." [GOC:tfm] xref: FMA:86489 is_a: CL:0000150 ! glandular epithelial cell [Term] id: CL:0002657 name: glandular cell of esophagus namespace: cell def: "A glandular epithelial cell of the endometrium." [GOC:tfm] xref: FMA:86489 xref: FMA:86548 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0002252 ! epithelial cell of esophagus relationship: part_of UBERON:0001043 ! esophagus [Term] id: CL:0002658 name: glandular cell of the large intestine namespace: cell def: "A glandular epithelial cell of the large intestine." [GOC:tfm] xref: FMA:87194 is_a: CL:0000510 ! paneth cell is_a: CL:0002253 ! epithelial cell of large intestine relationship: part_of UBERON:0000059 ! large intestine [Term] id: CL:0002659 name: glandular cell of stomach namespace: cell def: "A glandular epithelial cell that is part of the stomach." [GOC:tfm] xref: FMA:86554 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0002178 ! epithelial cell of stomach relationship: part_of UBERON:0000945 ! stomach [Term] id: CL:0002660 name: luminal cell of acinus of lactiferous gland namespace: cell def: "A luminal epithelial cell of mammary gland located in acinus of structure." [GOC:tfm] comment: Consider if synonymous with mammary alveolar cell CL:0002325. Some use this term to refer to the non-lactating cell type that gives rise to the lactating cell type. xref: FMA:74505 is_a: CL:0002326 ! luminal epithelial cell of mammary gland [Term] id: CL:0002661 name: luminal cell of lactiferous terminal ductal lobular unit namespace: cell def: "A luminal cell of terminal ducts, i.e.e the terminal branch of a lactiferous duct which alveolar cells drain into." [GOC:tfm] xref: FMA:87168 is_a: CL:0002662 ! luminal cell of lactiferous duct [Term] id: CL:0002662 name: luminal cell of lactiferous duct namespace: cell def: "A luminal epithelial cell of the lactiferous duct. This cuboidal epithelial cell expresses keratin-18 and is estrogen-receptor alpha positive." [GOC:tfm, PMID:19022771] xref: FMA:74504 xref: FMA:74505 is_a: CL:0002326 ! luminal epithelial cell of mammary gland [Term] id: CL:0002663 name: myocardial endocrine cell of atrium namespace: cell def: "A myocardial endocrine cell that is part of the atrium." [GOC:tfm] xref: FMA:83389 is_a: CL:0002074 ! myocardial endocrine cell relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: CL:0002664 name: cardioblast namespace: cell def: "A stem cell that can give rise to multiple cell types (i.e. smooth muscle, endothelial) in the developing heart." [GOC:tfm, PMID:19745164] comment: Discrepancy in develops from origins prevents me from making the assertion that cardioblasts give rise to all instances of cardiocytes as we state cardiac muscle cells develop from cardiac myoblast, which in turn develop from muscle stem cell. is_a: CL:0000048 ! multi fate stem cell [Term] id: CL:0002665 name: otic fibrocyte namespace: cell def: "A fibrocyte of the cochlea that has specialized structural and molecular adaptions." [GOC:tfm, PMID:18353863] is_a: CL:0000135 ! fibrocyte is_a: CL:0001035 ! bone cell relationship: part_of UBERON:0006725 ! spiral ligament [Term] id: CL:0002666 name: type 2 otic fibrocyte namespace: cell def: "An otic fibrocyte that underlies the spiral prominence and is part of a mesenchymal gap junction network that regulates ionic homeostasis of the endolymph." [GOC:tfm, PMID:18353863] synonym: "type II otic fibrocyte" EXACT [] synonym: "type II spiral ligament fibrocyte" EXACT [MP:0004488] is_a: CL:0002665 ! otic fibrocyte [Term] id: CL:0002667 name: type 5 otic fibrocyte namespace: cell def: "An otic fibrocyte that resides above the stria vasularis and is part of a mesenchymal gap junction network that regulates ionic homeostasis of the endolymph." [GOC:tfm, PMID:18353863] synonym: "type V otic fibrocyte" EXACT [] synonym: "type V spiral ligament fibrocyte" EXACT [] is_a: CL:0002665 ! otic fibrocyte [Term] id: CL:0002668 name: type 4 otic fibrocyte namespace: cell def: "An otic fibrocyte that is lateral to the basilar membrane and anchoris it to the lateral wall." [GOC:tfm, PMID:18353863] synonym: "type IV otic fibrocyte" EXACT [] synonym: "type IV spiral ligament fibrocyte" EXACT [MP:0004490] is_a: CL:0002665 ! otic fibrocyte [Term] id: CL:0002669 name: type 3 otic fibrocyte namespace: cell def: "An otic fibrocyte that lines the otic capsule." [GOC:tfm, PMID:18353863] synonym: "type III otic fibrocyte" EXACT [] synonym: "type III spiral ligament fibrocyte" EXACT [MP:0004489] is_a: CL:0002665 ! otic fibrocyte [Term] id: CL:0002670 name: type 1 otic fibrocyte namespace: cell def: "An otic fibrocyte that underlies the stria vascularis and is part of a mesenchymal gap junction network that regulates ionic homeostasis of the endolymph." [GOC:tfm, PMID:18353863] synonym: "type I otic fibrocyte" EXACT [] synonym: "type I spiral ligament fibrocyte" EXACT [MP:0004487] is_a: CL:0002665 ! otic fibrocyte [Term] id: CL:0002671 name: endothelial stalk cell namespace: cell def: "An endothelial stalk cell is a specialized endothelial cell that follows behind the tip cell of an angiogenic sprout." [GOC:tfm, PMID:21521739] is_a: CL:0000071 ! blood vessel endothelial cell [Term] id: CL:0002672 name: retinal progenitor cell namespace: cell def: "A multi-fate stem cell that can give rise to different retinal cell types including rod and cone cells." [GOC:tfm, PMID:20959166, PMID:21148186] is_a: CL:0000048 ! multi fate stem cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0002673 name: tongue muscle cell namespace: cell def: "A skeletal muscle cell that is part of the tongue." [GOC:tfm, PMID:18816858] is_a: CL:0000188 ! skeletal muscle cell relationship: part_of UBERON:0001723 ! tongue [Term] id: CL:0002674 name: H minus namespace: cell def: "A S. pombe mating type determined by the mat1-Mc and mat1-Mi on the mat1 locus." [GOC:tfm] synonym: "H- cell" EXACT [] is_a: CL:0000521 ! fungal cell [Term] id: CL:0002675 name: H plus namespace: cell def: "A S. pombe cell type determined by mat1-Pc and mat1-Pi on the mat1 locus." [GOC:tfm] is_a: CL:0000521 ! fungal cell [Term] id: CL:0002676 name: neural crest derived neuroblast namespace: cell def: "A neuroblast derived from a neural crest cell." [GOC:tfm, PMID:17407019] is_a: CL:0000337 ! neuroblast (sensu Vertebrata) relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0002677 name: naive regulatory T cell namespace: cell def: "A regulatory T cell that has not encountered antigen." [GOC:tfm] comment: This cell type has been described as CD45RA-negative, but this doesn't fit with our current definition of naive T cell. is_a: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell is_a: CL:0000898 ! naive T cell [Term] id: CL:0002678 name: memory regulatory T cell namespace: cell def: "A CD4-positive, CD25-positive alpha-beta regulatory T cell that has encountered antigen." [GOC:tfm, PMID:21739668] comment: Cell has been described as being CD45RA-positive in human, but this doesn't fit with our current definition memory T cell. is_a: CL:0000792 ! CD4-positive, CD25-positive, alpha-beta regulatory T cell is_a: CL:0000813 ! memory T cell [Term] id: CL:0002679 name: natural helper lymphocyte namespace: cell def: "A lymphocyte found in adipose tissue that lacks lineage markers of other lymphocytes but is capable of mediating TH2 cytokine responses. This cell type is found in fat associated lymphoid clusters, proliferates in response to IL2 and produce large amounts of TH2 cytokines such as IL5, IL6 and IL13" [GOC:tfm, PMID:20023630] is_a: CL:0000542 ! lymphocyte [Term] id: CL:0002680 name: PP cell of intestine namespace: cell def: "A PP cell found in intestine." [GOC:tfm, PMID:2420136, PMID:728970] is_a: CL:0000696 ! PP cell is_a: CL:1001516 ! intestinal enteroendocrine cell relationship: part_of UBERON:0000160 ! intestine [Term] id: CL:0002681 name: kidney cortical cell namespace: cell is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0001225 ! cortex of kidney [Term] id: CL:0005000 name: spinal cord interneuron namespace: cell def: "A CNS interneuron located in the spinal cord." [CL:CVS] comment: Is_a interneuron, part_of UBERON:0002240. is_a: CL:0000402 ! CNS interneuron relationship: part_of UBERON:0002240 ! spinal cord [Term] id: CL:0005001 name: iridoblast namespace: cell def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into an iridophore." [CL:CVS] comment: Derived from UBERON:0002342 neural crest. is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0005002 name: xanthoblast namespace: cell def: "A non-terminally differentiated cell that differentiates into a xanthophore." [CL:CVS] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0005003 name: leucoblast namespace: cell def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into a leucophore." [CL:CVS] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0005004 name: pigment erythroblast namespace: cell def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into an erythrophore." [CL:CVS] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0005005 name: cyanoblast namespace: cell def: "A non-terminally differentiated cell that originates from the neural crest and differentiates into a cyanophore." [CL:CVS] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000333 ! migratory neural crest cell [Term] id: CL:0005006 name: ionocyte namespace: cell def: "Specialized epithelial cells involved in the maintenance of osmotic homeostasis. They are characterized by abundant mitochondria and ion transporters. In amniotes, they are present in the renal system. In freshwater fish, ionocytes in the skin and gills help maintain osmotic homeostasis by absorbing salt from the external environment." [PMID:17555741, PMID:19268451] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0005007 name: Kolmer-Agduhr neuron namespace: cell def: "Kolmer-Agduhr neurons are ciliated GABAergic neurons that contact the central canal of the spinal cord and have ipsilateral ascending axons." [PMID:18680739] synonym: "KA cell" EXACT [] synonym: "KA interneuron" EXACT [PMID:15539490] synonym: "KA neuron" EXACT [PMID:9634146] synonym: "Kolmer-Agduhr cell" EXACT [] is_a: CL:0000617 ! GABAergic neuron is_a: CL:0005000 ! spinal cord interneuron [Term] id: CL:0005008 name: macular hair cell namespace: cell def: "An auditory hair cell located in the macula that is sensitive to auditory stimuli." [GO:cvs] is_a: CL:0000202 ! auditory hair cell [Term] id: CL:0005009 name: renal principal cell namespace: cell def: "A cuboidal epithelial cell of the kidney which regulates sodium and potassium balance. The activity of sodium and potassium channels on the cells apical membrane is regulated by aldosterone and vasopressin. In mammals these cells are located in the renal collecting ducts." [CL:CVS] is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002518 ! kidney epithelial cell [Term] id: CL:0005010 name: renal intercalated cell namespace: cell def: "A cuboidal epithelial cell of the kidney that regulates acid/base balance." [CL:CVS] synonym: "intercalated cell" EXACT [] xref: FMA:86560 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002078 ! meso-epithelial cell is_a: CL:0002518 ! kidney epithelial cell [Term] id: CL:0005011 name: renal alpha-intercalated cell namespace: cell def: "A cuboidal epithelial cell of the kidney which secretes acid and reabsorbs base to regulate acid/base balance." [CL:CVS] is_a: CL:0005010 ! renal intercalated cell [Term] id: CL:0005012 name: multi-ciliated epithelial cell namespace: cell def: "A ciliated epithelial cell with many cilium." [CL:CVS] is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell [Term] id: CL:0005013 name: single ciliated epithelial cell namespace: cell def: "A ciliated epithelial cell with a single cilium." [CL:CVS] is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell [Term] id: CL:0005014 name: auditory epithelial support cell namespace: cell def: "A non-sensory cell that extends from the basement membrane to the apical surface of the auditory epithelium and provides support for auditory hair cells." [CL:CVS, GOC:tfm] is_a: CL:0000630 ! supportive cell is_a: CL:0000710 ! neurecto-epithelial cell is_a: CL:0002491 ! auditory epithelial cell [Term] id: CL:0005015 name: inner phalangeal cell namespace: cell def: "An auditory epithelial support cell that surrounds the nerve fibers and synapses of the auditory inner hair cells." [CL:CVS] xref: FMA:79801 is_a: CL:0002165 ! phalangeal cell [Term] id: CL:0005016 name: apical cell namespace: cell def: "Obsolete. Use PO:0030007 from Plant Ontology instead. The apical cell is the upper cell formed after the first division of a plant zygote." [TAIR:TB] is_obsolete: true comment: replaced_by: PO:0030007 [Term] id: CL:0005017 name: plant basal cell namespace: cell def: "Obsolete. Use PO:0002002 from Plant Ontology instead. The lower cell formed after the first division of a plant zygote." [TAIR:TB] is_obsolete: true comment: replaced_by: PO:0002002 [Term] id: CL:0005018 name: ghrelin secreting cell namespace: cell def: "A cell that secretes ghrelin, the peptide hormone that stimulates hunger." [CL:curator] is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0005019 name: pancreatic epsilon cell namespace: cell def: "Ghrelin secreting cells found in the found in the exocrine pancreas." [PMID:14970313] comment: In mammals the endocrine pancreas is called the Islets of Langerhans. synonym: "pancreatic e cell" EXACT [] is_a: CL:0005018 ! ghrelin secreting cell [Term] id: CL:0005020 name: lymphangioblast namespace: cell def: "Lymphatic progenitor cells. " [CL:CVS] comment: Usually express Prox1, or prox1b. is_a: CL:0000048 ! multi fate stem cell [Term] id: CL:0005021 name: mesenchymal lymphangioblast namespace: cell def: "Mesenchymal derived lymphatic progenitor cells that give rise to the superficial lymphatics." [PMID:15624319, PMID:18430230] is_a: CL:0000134 ! mesenchymal cell is_a: CL:0005020 ! lymphangioblast [Term] id: CL:0005022 name: vascular lymphangioblast namespace: cell def: "Lymphatic progenitor cells, derived from the veins, that give rise to lymphatic endothelial cells." [CL:CVS] synonym: "parachordal lymphangioblast" NARROW [] is_a: CL:0005020 ! lymphangioblast [Term] id: CL:0007000 name: preameloblast namespace: cell def: "Skeletogenic cell that has the potential to develop into an ameloblast. Located in the inner enamel epithelium, these cells elongate, their nuclei shift distally (away from the dental papilla), and their cytoplasm becomes filled with organelles needed for synthesis and secretion of enamel proteins." [GO_REF:0000034, PMCID:PMC2737325] comment: unsure of neural crest contribution. In VSAO we have develops_from CL:0000008 is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0002077 ! ecto-epithelial cell relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0007001 name: skeletogenic cell namespace: cell def: "Cell that has the potential to form a skeletal cell type (e.g. cells in periosteum, cells in marrow) and produce extracellular matrix (often mineralized) and skeletal tissue (often mineralized)." [GO_REF:0000034] comment: Needs logical definition. Should be capable_of skeletal system morphogenesis? or skeletal tissue development? needs to be added to GO. NOTES:a cell type of the early embryo (see also: mesenchymal cells) that will give rise to mineralized connective tissue. Scleroblasts can differentiate into osteoblasts (bone-forming cells), chondroblasts (cartilage-forming cells), odontoblasts (dentin-forming cells), ameloblasts (enamel-forming cells). The mesenchymal cells developing into osteoblasts and chondroblasts are derived from the mesoderm. Those developing into odontoblasts are neural crest cells. Those developing into ameloblasts are derived from the ectoderm. (http://www.copewithcytokines.de/cope.cgi?key=scleroblasts) synonym: "scleroblast" EXACT [GO_REF:0000034] is_a: CL:0000003 ! cell in vivo [Term] id: CL:0007002 name: precementoblast namespace: cell def: "Skeletogenic cell that has the potential to develop into a cementoblast." [GO_REF:0000034] is_a: CL:0000055 ! non-terminally differentiated cell relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0007003 name: preodontoblast namespace: cell def: "Skeletogenic cell that has the potential to form an odontoblast, deposits predentine, and arises from a cranial neural crest cell." [GO_REF:0000034] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: CL:0007004 name: premigratory neural crest cell namespace: cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] is_a: CL:0000003 ! cell in vivo relationship: part_of UBERON:0002342 ! neural crest [Term] id: CL:0007005 name: notochordal cell namespace: cell def: "Cell that is part of the notochord." [GO_REF:0000034] comment: NOTE: TO DO, notochord development still needs work. is_a: CL:0000003 ! cell in vivo relationship: develops_from CL:0007006 ! chordamesodermal cell relationship: part_of UBERON:0002328 ! notochord [Term] id: CL:0007006 name: chordamesodermal cell namespace: cell def: "Mesodermal cell that is axially located and gives rise to the cells of the notochord." [GO_REF:0000034] is_a: CL:0000222 ! mesodermal cell relationship: part_of UBERON:0004880 ! chordamesoderm [Term] id: CL:0007007 name: notochordal sheath cell namespace: cell def: "Notochordal cell that is part of the outer epithelium of the notochord and surrounds the vacuolated notochord cells." [CL:MAH] is_a: CL:0007005 ! notochordal cell [Term] id: CL:0007008 name: notochordal vacuole cell namespace: cell def: "Notochordal cell that is inner portion of the notochord and becomes vacuolated as development proceeds." [CL:MAH] synonym: "chordablast" EXACT [GO_REF:0000034] synonym: "chordoblast" EXACT [PMID:14574572] is_a: CL:0007005 ! notochordal cell [Term] id: CL:0007009 name: prechondroblast namespace: cell def: "Skeletogenic cell that has the potential to develop into a chondroblast; and arises from neural crest, meseosdermal and notochordal and connective tissue cells." [GO_REF:0000034] is_a: CL:0000055 ! non-terminally differentiated cell [Term] id: CL:0007010 name: preosteoblast namespace: cell def: "Skeletogenic cell that has the potential to transform into an osteoblast, and develops from neural crest or mesodermal cells." [GO_REF:0000034] synonym: "osteoprogenitor cell" EXACT [] is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000222 ! mesodermal cell relationship: develops_from CL:0000333 ! migratory neural crest cell relationship: part_of UBERON:0008883 ! osteoid [Term] id: CL:0007011 name: enteric neuron namespace: cell def: "Neuron that is part of the enteric nervous system." [CL:MAH] is_a: CL:0000029 ! neuron neural crest derived relationship: develops_from CL:0002607 ! migratory enteric neural crest cell relationship: part_of UBERON:0002005 ! enteric nervous system [Term] id: CL:0007014 name: cell line cell namespace: cell def: "A cultured cell that has been passaged at least one time in culture." [ReO:mhb] comment: Covers cells actively being cultured or stored in a quiescent state for future use. synonym: "passaged cultured cell" EXACT [] is_a: CL:0000010 ! cultured cell [Term] id: CL:0007015 name: mortal cell line cell namespace: cell def: "A cell line cell that is expected to be capable of replicating a limited number of times in culture before undergoing senescence. Mortal cell line cells cannot be propagated indefinitely (as immortal cell line cells can)." [ReO:mhb] comment: Covers cells actively being cultured or stored in a quiescent state for future use. synonym: "finite cell line cell" EXACT [] synonym: "primary cell line cell" RELATED [] is_a: CL:0007014 ! cell line cell [Term] id: CL:0007016 name: adaxial cell namespace: cell def: "Muscle precursor cell that is adjacent to the notochord and part of the presomitic mesoderm." [PMID:8951054] comment: In teleosts, adaxial cells give rise to slow muscle myoblasts. is_a: CL:0000680 ! muscle precursor cell relationship: part_of UBERON:0003059 ! presomitic mesoderm [Term] id: CL:0012000 name: astrocyte of the forebrain namespace: cell def: "An astrocyte of the forebrain." [] synonym: "forebrain astrocyte" EXACT [] is_a: CL:0000127 ! astrocyte relationship: part_of UBERON:0001890 ! forebrain [Term] id: CL:0012001 name: neuron of the forebrain namespace: cell def: "A CNS neuron of the forebrain." [] synonym: "forebrain neuron" EXACT [] is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: part_of UBERON:0001890 ! forebrain [Term] id: CL:1000082 name: stretch receptor cell namespace: cell is_a: CL:0000006 ! neuronal receptor cell [Term] id: CL:1000083 name: stratified keratinized epithelial stem cell namespace: cell is_a: CL:0000357 ! stratified epithelial stem cell [Term] id: CL:1000085 name: stratified non keratinized epithelial stem cell namespace: cell is_a: CL:0000357 ! stratified epithelial stem cell [Term] id: CL:1000191 name: pillar cell namespace: cell def: "A rod-like cell in the inner ear, having their heads joined and their bases on the basilar membrane widely separated so as to form a spiral tunnel known as the tunnel of Corti." [GOC:tfm, PMID:12417662] synonym: "cochlear pillar cell" RELATED [] synonym: "pillar cell of cochlea" EXACT [] synonym: "pillar cell of corti" EXACT [] synonym: "rod cell of Corti" EXACT [] xref: FMA:75722 is_a: CL:0002490 ! organ of Corti supporting cell [Term] id: CL:1000274 name: trophectodermal cell namespace: cell synonym: "trophectoderm cell" EXACT [] is_a: CL:0000349 ! extraembryonic cell [Term] id: CL:1000275 name: smooth muscle cell of small intestine namespace: cell def: "A smooth muscle cell that is part of the small intestine." [GOC:tfm] synonym: "non-striated muscle fiber of small intestine" EXACT [FMA:15050] xref: FMA:15050 is_a: CL:0002504 ! enteric smooth muscle cell relationship: part_of UBERON:0002108 ! small intestine [Term] id: CL:1000276 name: smooth muscle fiber of duodenum namespace: cell def: "A smooth muscle cell that is part of the duodenum." [GOC:tfm] synonym: "non-striated muscle fiber of duodenum" EXACT [FMA:15058] xref: FMA:15058 is_a: CL:1000275 ! smooth muscle cell of small intestine relationship: part_of UBERON:0002114 ! duodenum [Term] id: CL:1000277 name: smooth muscle fiber of jejunum namespace: cell def: "A smooth muscle cell that is part of the jejunum." [GOC:tfm] synonym: "non-striated muscle fiber of jejunum" EXACT [FMA:15062] xref: FMA:15062 is_a: CL:1000275 ! smooth muscle cell of small intestine relationship: part_of UBERON:0002115 ! jejunum [Term] id: CL:1000278 name: smooth muscle fiber of ileum namespace: cell def: "A smooth muscle cell that is part of the ileum." [GOC:tfm] synonym: "non-striated muscle fiber of ileum" EXACT [FMA:15066] xref: FMA:15066 is_a: CL:1000275 ! smooth muscle cell of small intestine relationship: part_of UBERON:0002116 ! ileum [Term] id: CL:1000279 name: smooth muscle cell of large intestine namespace: cell def: "A smooth muscle cell that is part of the large intestine." [GOC:tfm] synonym: "non-striated muscle fiber of large intestine" EXACT [FMA:15653] xref: FMA:15653 is_a: CL:0002504 ! enteric smooth muscle cell relationship: part_of UBERON:0000059 ! large intestine [Term] id: CL:1000280 name: smooth muscle cell of colon namespace: cell def: "A smooth muscle cell that is part of the colon." [GOC:tfm] synonym: "non-striated muscle fiber of colon" EXACT [FMA:15663] xref: FMA:15663 is_a: CL:1000279 ! smooth muscle cell of large intestine relationship: part_of UBERON:0001155 ! colon [Term] id: CL:1000281 name: smooth muscle cell of cecum namespace: cell def: "A smooth muscle cell that is part of the cecum." [GOC:tfm] synonym: "non-striated muscle fiber of cecum" EXACT [FMA:15681] synonym: "smooth muscle fiber of cecum" EXACT [] xref: FMA:15681 is_a: CL:1000280 ! smooth muscle cell of colon relationship: part_of UBERON:0001153 ! caecum [Term] id: CL:1000282 name: smooth muscle fiber of ascending colon namespace: cell def: "A smooth muscle cell that is part of the ascending colon." [GOC:tfm] synonym: "non-striated muscle fiber of ascending colon" EXACT [FMA:17518] xref: FMA:17518 is_a: CL:1000280 ! smooth muscle cell of colon relationship: part_of UBERON:0001156 ! ascending colon [Term] id: CL:1000283 name: smooth muscle fiber of transverse colon namespace: cell def: "A smooth muscle cell that is part of the transverse colon." [GOC:tfm] synonym: "non-striated muscle fiber of transverse colon" EXACT [FMA:17519] xref: FMA:17519 is_a: CL:1000280 ! smooth muscle cell of colon relationship: part_of UBERON:0001157 ! transverse colon [Term] id: CL:1000284 name: smooth muscle fiber of descending colon namespace: cell def: "A smooth muscle cell that is part of the descending colon." [GOC:tfm] synonym: "non-striated muscle fiber of descending colon" EXACT [FMA:17520] xref: FMA:17520 is_a: CL:1000280 ! smooth muscle cell of colon relationship: part_of UBERON:0001158 ! descending colon [Term] id: CL:1000285 name: smooth muscle cell of sigmoid colon namespace: cell def: "A smooth muscle cell that is part of the sigmoid colon." [GOC:tfm] synonym: "non-striated muscle fiber of sigmoid colon" EXACT [FMA:17521] xref: FMA:17521 is_a: CL:1000280 ! smooth muscle cell of colon relationship: part_of UBERON:0001159 ! sigmoid colon [Term] id: CL:1000286 name: smooth muscle cell of rectum namespace: cell def: "A smooth muscle cell that is part of the rectum." [GOC:tfm] synonym: "non-striated muscle fiber of rectum" EXACT [FMA:17522] synonym: "smooth muscle fiber of rectum" EXACT [] xref: FMA:17522 is_a: CL:1000279 ! smooth muscle cell of large intestine relationship: part_of UBERON:0001052 ! rectum [Term] id: CL:1000287 name: myocyte of anterior internodal tract namespace: cell def: "A muscle cell that is part of the anterior internodal tract." [GOC:tfm] xref: FMA:223276 is_a: CL:0002096 ! internodal tract myocyte [Term] id: CL:1000288 name: myocyte of atrial branch of anterior internodal tract namespace: cell def: "A muscle cell that is part of the atrial branch of anterior internodal tract." [GOC:tfm] xref: FMA:223277 is_a: CL:0002096 ! internodal tract myocyte [Term] id: CL:1000289 name: myocyte of atrial septal branch of anterior internodal tract namespace: cell def: "A muscle cell that is part of the atrial septal branch of anterior internodal tract." [GOC:tfm] xref: FMA:223278 is_a: CL:0002096 ! internodal tract myocyte [Term] id: CL:1000290 name: myocyte of middle internodal tract namespace: cell def: "A muscle cell that is part of the middle internodal tract." [GOC:tfm] xref: FMA:223279 is_a: CL:0002096 ! internodal tract myocyte [Term] id: CL:1000291 name: myocyte of posterior internodal tract namespace: cell def: "A muscle cell that is part of the posterior internodal tract." [GOC:tfm] xref: FMA:223280 is_a: CL:0002096 ! internodal tract myocyte [Term] id: CL:1000296 name: epithelial cell of urethra namespace: cell def: "An epithelial cell that is part of the urethra." [GOC:tfm] xref: FMA:256165 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell is_a: CL:1001320 ! urethra cell relationship: part_of UBERON:0000057 ! urethra [Term] id: CL:1000298 name: mesothelial cell of dura mater namespace: cell def: "A mesothelial cell that is part of the dura mater." [GOC:tfm] synonym: "squamous mesothelial cell of dura mater" EXACT [FMA:256516] xref: FMA:256516 is_a: CL:0000077 ! mesothelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002363 ! dura mater [Term] id: CL:1000299 name: fibroblast of connective tissue of prostate namespace: cell def: "A fibroblast that is part of the connective tissue of prostate." [GOC:tfm] xref: FMA:261271 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000300 name: fibroblast of outer membrane of prostatic capsule namespace: cell def: "A fibroblast that is part of the outer membrane of prostatic capsule." [GOC:tfm] xref: FMA:261273 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000301 name: fibroblast of subepithelial connective tissue of prostatic gland namespace: cell def: "A fibroblast that is part of the subepithelial connective tissue of prostatic gland." [GOC:tfm] xref: FMA:261275 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000302 name: fibroblast of papillary layer of dermis namespace: cell def: "A fibroblast that is part of the papillary layer of dermis." [GOC:tfm] xref: FMA:261277 is_a: CL:0002551 ! fibroblast of dermis relationship: part_of UBERON:0001992 ! papillary layer of dermis [Term] id: CL:1000303 name: fibroblast of areolar connective tissue namespace: cell def: "A fibroblast that is part of the areolar connective tissue." [GOC:tfm] xref: FMA:261279 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0006815 ! areolar connective tissue [Term] id: CL:1000304 name: fibroblast of connective tissue of nonglandular part of prostate namespace: cell def: "A fibroblast that is part of the connective tissue of nonglandular part of prostate." [GOC:tfm] xref: FMA:261281 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000305 name: fibroblast of connective tissue of glandular part of prostate namespace: cell def: "A fibroblast that is part of the connective tissue of glandular part of prostate." [GOC:tfm] xref: FMA:261283 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000306 name: fibroblast of tunica adventitia of artery namespace: cell def: "A fibroblast that is part of the tunica adventitia of artery." [GOC:tfm] xref: FMA:261285 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0005734 ! tunica adventitia of blood vessel [Term] id: CL:1000307 name: fibroblast of dense regular elastic tissue namespace: cell def: "A fibroblast that is part of the dense regular elastic tissue." [GOC:tfm] xref: FMA:261287 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0002521 ! elastic tissue [Term] id: CL:1000308 name: fibrocyte of adventitia of ureter namespace: cell def: "A fibrocyte that is part of the adventitia of ureter." [GOC:tfm] xref: FMA:261289 is_a: CL:0000135 ! fibrocyte is_a: CL:1000708 ! ureter adventitial cell relationship: part_of UBERON:0001252 ! adventitia of ureter [Term] id: CL:1000309 name: epicardial adipocyte namespace: cell def: "A fat cell that is part of the epicardial fat." [GOC:tfm] synonym: "adipocyte of epicardial fat" EXACT [FMA:261293] synonym: "epicardial fat cell" EXACT [FMA:261293] xref: FMA:261293 is_a: CL:0000136 ! fat cell is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0002348 ! epicardium [Term] id: CL:1000310 name: adipocyte of epicardial fat of right ventricle namespace: cell def: "A fat cell that is part of the epicardial fat of right ventricle." [GOC:tfm] synonym: "epicardial adipocyte of right ventricle" EXACT [FMA:261297] synonym: "epicardial fat cell of right ventricle" EXACT [FMA:261297] xref: FMA:261297 is_a: CL:1000309 ! epicardial adipocyte relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: CL:1000311 name: adipocyte of epicardial fat of left ventricle namespace: cell def: "A fat cell that is part of the epicardial fat of left ventricle." [GOC:tfm] synonym: "epicardial adipocyte of left ventricle" EXACT [FMA:261300] synonym: "epicardial fat cell of left ventricle" EXACT [FMA:261300] xref: FMA:261300 is_a: CL:1000309 ! epicardial adipocyte relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: CL:1000312 name: bronchial goblet cell namespace: cell def: "A goblet cell that is part of the epithelium of bronchus." [GOC:tfm] synonym: "goblet cell of epithelium of bronchus" EXACT [FMA:263032] xref: FMA:263032 is_a: CL:0000160 ! goblet cell is_a: CL:0002328 ! bronchial epithelial cell relationship: part_of UBERON:0002031 ! epithelium of bronchus [Term] id: CL:1000313 name: gastric goblet cell namespace: cell def: "A goblet cell that is part of the epithelium of stomach." [GOC:tfm] synonym: "goblet cell of epithelium of stomach" EXACT [FMA:263035] xref: FMA:263035 is_a: CL:0000160 ! goblet cell is_a: CL:0002180 ! mucous cell of stomach relationship: part_of UBERON:0001276 ! epithelium of stomach [Term] id: CL:1000314 name: goblet cell of epithelium of gastric cardiac gland namespace: cell def: "A goblet cell that is part of the epithelium of gastric cardiac gland." [GOC:tfm] xref: FMA:263038 is_a: CL:1000313 ! gastric goblet cell relationship: part_of UBERON:0008859 ! cardiac gastric gland [Term] id: CL:1000315 name: goblet cell of epithelium of principal gastric gland namespace: cell def: "A goblet cell that is part of the epithelium of principal gastric gland." [GOC:tfm] xref: FMA:263040 is_a: CL:1000313 ! gastric goblet cell [Term] id: CL:1000316 name: goblet cell of epithelium of small intestine namespace: cell def: "A goblet cell that is part of the epithelium of small intestine." [GOC:tfm] xref: FMA:263042 is_a: CL:1000343 ! paneth cell of epithelium of small intestine is_a: CL:1000495 ! goblet cell of small intestine relationship: part_of UBERON:0001902 ! epithelium of small intestine [Term] id: CL:1000317 name: goblet cell of epithelium of intestinal villus namespace: cell def: "A goblet cell that is part of the epithelium of intestinal villus." [GOC:tfm] xref: FMA:263046 is_a: CL:1000316 ! goblet cell of epithelium of small intestine relationship: part_of UBERON:0001213 ! intestinal villus relationship: part_of UBERON:0013636 ! epithelium of intestinal villus [Term] id: CL:1000318 name: goblet cell of epithelium of crypt of lieberkuhn of small intestine namespace: cell def: "A goblet cell that is part of the epithelium of crypt of lieberkuhn of small intestine." [GOC:tfm] xref: FMA:263050 is_a: CL:1000316 ! goblet cell of epithelium of small intestine relationship: part_of UBERON:0001983 ! crypt of Lieberkuhn [Term] id: CL:1000319 name: goblet cell of epithelium proper of small intestine namespace: cell def: "A goblet cell that is part of the epithelium proper of small intestine." [GOC:tfm] xref: FMA:263052 is_a: CL:1000316 ! goblet cell of epithelium of small intestine [Term] id: CL:1000320 name: goblet cell of epithelium of large intestine namespace: cell def: "A goblet cell that is part of the epithelium of large intestine." [GOC:tfm] xref: FMA:263054 is_a: CL:0000160 ! goblet cell is_a: CL:0002658 ! glandular cell of the large intestine relationship: part_of UBERON:0001278 ! epithelium of large intestine [Term] id: CL:1000321 name: goblet cell of epithelium of crypt of lieberkuhn of large intestine namespace: cell def: "A goblet cell that is part of the epithelium of crypt of lieberkuhn of large intestine." [GOC:tfm] xref: FMA:263056 is_a: CL:1000320 ! goblet cell of epithelium of large intestine relationship: part_of UBERON:0001983 ! crypt of Lieberkuhn [Term] id: CL:1000322 name: pancreatic goblet cell namespace: cell def: "A goblet cell that is part of the epithelium of pancreatic duct." [GOC:tfm] synonym: "goblet cell of epithelium of pancreatic duct" EXACT [FMA:263058] xref: FMA:263058 is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:0000160 ! goblet cell is_a: CL:1001433 ! epithelial cell of exocrine pancreas relationship: part_of UBERON:0009970 ! epithelium of pancreatic duct [Term] id: CL:1000323 name: goblet cell of epithelium of pyloric gland namespace: cell def: "A goblet cell that is part of the epithelium of pyloric gland." [GOC:tfm] xref: FMA:263061 is_a: CL:1000313 ! gastric goblet cell relationship: part_of UBERON:0008861 ! pyloric gastric gland [Term] id: CL:1000324 name: goblet cell of epithelium proper of duodenum namespace: cell def: "A goblet cell that is part of the epithelium proper of duodenum." [GOC:tfm] xref: FMA:263063 is_a: CL:1000495 ! goblet cell of small intestine relationship: part_of UBERON:0002114 ! duodenum [Term] id: CL:1000325 name: goblet cell of epithelium proper of jejunum namespace: cell def: "A goblet cell that is part of the epithelium proper of jejunum." [GOC:tfm] xref: FMA:263065 is_a: CL:1000495 ! goblet cell of small intestine relationship: part_of UBERON:0002115 ! jejunum [Term] id: CL:1000326 name: goblet cell of epithelium proper of ileum namespace: cell def: "A goblet cell that is part of the epithelium proper of ileum." [GOC:tfm] xref: FMA:263067 is_a: CL:1000495 ! goblet cell of small intestine relationship: part_of UBERON:0002116 ! ileum [Term] id: CL:1000327 name: goblet cell of epithelium proper of appendix namespace: cell def: "A goblet cell that is part of the epithelium proper of appendix." [GOC:tfm] xref: FMA:263069 is_a: CL:0000160 ! goblet cell is_a: CL:0002624 ! paneth cell of the appendix relationship: part_of UBERON:0001154 ! vermiform appendix [Term] id: CL:1000328 name: goblet cell of epithelium proper of large intestine namespace: cell def: "A goblet cell that is part of the epithelium proper of large intestine." [GOC:tfm] xref: FMA:263071 is_a: CL:1000320 ! goblet cell of epithelium of large intestine [Term] id: CL:1000329 name: tracheal goblet cell namespace: cell def: "A goblet cell that is part of the epithelium of trachea." [GOC:tfm] synonym: "goblet cell of epithelium of trachea" EXACT [FMA:263075] xref: FMA:263075 is_a: CL:0000160 ! goblet cell is_a: CL:0000307 ! tracheal epithelial cell relationship: part_of UBERON:0001901 ! epithelium of trachea [Term] id: CL:1000330 name: serous cell of epithelium of trachea namespace: cell def: "A serous secreting cell that is part of the epithelium of trachea." [GOC:tfm] xref: FMA:263078 is_a: CL:0000313 ! serous secreting cell relationship: part_of UBERON:0001901 ! epithelium of trachea [Term] id: CL:1000331 name: serous cell of epithelium of bronchus namespace: cell def: "A serous secreting cell that is part of the epithelium of bronchus." [GOC:tfm] xref: FMA:263080 is_a: CL:0000313 ! serous secreting cell relationship: part_of UBERON:0002031 ! epithelium of bronchus [Term] id: CL:1000332 name: serous cell of epithelium of terminal bronchiole namespace: cell def: "A serous secreting cell that is part of the epithelium of terminal bronchiole." [GOC:tfm] xref: FMA:263082 is_a: CL:1000333 ! serous cell of epithelium of lobular bronchiole relationship: part_of UBERON:0001958 ! epithelium of terminal bronchiole [Term] id: CL:1000333 name: serous cell of epithelium of lobular bronchiole namespace: cell def: "A serous secreting cell that is part of the epithelium of bronchiole." [GOC:tfm] xref: FMA:263084 is_a: CL:1000331 ! serous cell of epithelium of bronchus relationship: part_of UBERON:0002051 ! epithelium of bronchiole [Term] id: CL:1000334 name: enterocyte of epithelium of small intestine namespace: cell def: "An enterocyte that is part of the epithelium of small intestine." [GOC:tfm] xref: FMA:263086 is_a: CL:0000584 ! enterocyte is_a: CL:0002254 ! epithelial cell of small intestine relationship: part_of UBERON:0001902 ! epithelium of small intestine [Term] id: CL:1000335 name: enterocyte of epithelium of intestinal villus namespace: cell def: "An enterocyte that is part of the epithelium of intestinal villus." [GOC:tfm] xref: FMA:263088 is_a: CL:1000334 ! enterocyte of epithelium of small intestine relationship: part_of UBERON:0001213 ! intestinal villus relationship: part_of UBERON:0013636 ! epithelium of intestinal villus [Term] id: CL:1000337 name: enterocyte of epithelium of duodenal gland namespace: cell def: "An enterocyte that is part of the epithelium of duodenal gland." [GOC:tfm] xref: FMA:263092 is_a: CL:1000334 ! enterocyte of epithelium of small intestine relationship: part_of UBERON:0001212 ! duodenal gland [Term] id: CL:1000338 name: enterocyte of epithelium of crypt of lieberkuhn of small intestine namespace: cell def: "An enterocyte that is part of the epithelium of crypt of lieberkuhn of small intestine." [GOC:tfm] xref: FMA:263094 is_a: CL:1000334 ! enterocyte of epithelium of small intestine relationship: part_of UBERON:0001983 ! crypt of Lieberkuhn [Term] id: CL:1000339 name: enterocyte of epithelium proper of small intestine namespace: cell def: "An enterocyte that is part of the epithelium proper of small intestine." [GOC:tfm] xref: FMA:263096 is_a: CL:1000334 ! enterocyte of epithelium of small intestine [Term] id: CL:1000340 name: enterocyte of epithelium proper of duodenum namespace: cell def: "An enterocyte that is part of the epithelium proper of duodenum." [GOC:tfm] xref: FMA:263098 is_a: CL:1000337 ! enterocyte of epithelium of duodenal gland is_a: CL:1000339 ! enterocyte of epithelium proper of small intestine [Term] id: CL:1000341 name: enterocyte of epithelium proper of jejunum namespace: cell def: "An enterocyte that is part of the epithelium proper of jejunum." [GOC:tfm] xref: FMA:263100 is_a: CL:1000339 ! enterocyte of epithelium proper of small intestine [Term] id: CL:1000342 name: enterocyte of epithelium proper of ileum namespace: cell def: "An enterocyte that is part of the epithelium proper of ileum." [GOC:tfm] xref: FMA:263102 is_a: CL:1000339 ! enterocyte of epithelium proper of small intestine [Term] id: CL:1000343 name: paneth cell of epithelium of small intestine namespace: cell def: "A paneth cell that is part of the epithelium of small intestine." [GOC:tfm] xref: FMA:263104 is_a: CL:0000510 ! paneth cell is_a: CL:0002254 ! epithelial cell of small intestine relationship: part_of UBERON:0001902 ! epithelium of small intestine [Term] id: CL:1000344 name: paneth cell of epithelium proper of small intestine namespace: cell def: "A Paneth cell that is part of the epithelium proper of small intestine." [GOC:tfm] xref: FMA:263106 is_a: CL:1000343 ! paneth cell of epithelium of small intestine [Term] id: CL:1000345 name: paneth cell of epithelium of crypt of lieberkuhn of small intestine namespace: cell def: "A Paneth cell that is part of the epithelium of crypt of lieberkuhn of small intestine." [GOC:tfm] xref: FMA:263108 is_a: CL:1000343 ! paneth cell of epithelium of small intestine relationship: part_of UBERON:0001983 ! crypt of Lieberkuhn [Term] id: CL:1000346 name: vacuolar absorptive cell of epithelium proper of large intestine namespace: cell alt_id: CL:1000336 def: "MERGED DEFINITION: TARGET DEFINITION: A columnar cell of the colon that is part of the epithelium proper of large intestine. SOURCE DEFINITION: An enterocyte that is part of the epithelium proper of large intestine." [GOC:tfm] synonym: "enterocyte of epithelium proper of large intestine" EXACT [] xref: FMA:263090 xref: FMA:263112 is_a: CL:0002071 ! enterocyte of epithelium of large intestine [Term] id: CL:1000347 name: vacuolar absorptive cell of epithelium of colon namespace: cell def: "A columnar cell of the colon that is part of the colonic epithelium." [GOC:tfm] xref: FMA:263114 is_a: CL:0002071 ! enterocyte of epithelium of large intestine relationship: part_of UBERON:0000397 ! colonic epithelium [Term] id: CL:1000348 name: basal cell of epithelium of trachea namespace: cell def: "A basal cell that is part of the epithelium of trachea." [GOC:tfm] xref: FMA:263118 is_a: CL:0000307 ! tracheal epithelial cell is_a: CL:0002633 ! respiratory basal cell relationship: part_of UBERON:0001901 ! epithelium of trachea [Term] id: CL:1000349 name: basal cell of epithelium of bronchus namespace: cell alt_id: CL:0002331 def: "A basal cell found in the bronchus epithelium." [GOC:tfm] synonym: "basal cell of bronchus" EXACT [] xref: FMA:263120 is_a: CL:0002328 ! bronchial epithelial cell is_a: CL:0002329 ! basal epithelial cell of tracheobronchial tree is_a: CL:0002633 ! respiratory basal cell relationship: part_of UBERON:0002031 ! epithelium of bronchus [Term] id: CL:1000350 name: basal cell of epithelium of terminal bronchiole namespace: cell def: "A basal cell that is part of the epithelium of terminal bronchiole." [GOC:tfm] xref: FMA:263122 is_a: CL:1000352 ! basal cell of epithelium of lobular bronchiole relationship: part_of UBERON:0001958 ! epithelium of terminal bronchiole [Term] id: CL:1000351 name: basal cell of epithelium of respiratory bronchiole namespace: cell def: "A basal cell that is part of the epithelium of respiratory bronchiole." [GOC:tfm] xref: FMA:263124 is_a: CL:1000352 ! basal cell of epithelium of lobular bronchiole relationship: part_of UBERON:0001955 ! epithelium of respiratory bronchiole [Term] id: CL:1000352 name: basal cell of epithelium of lobular bronchiole namespace: cell def: "A basal cell that is part of the epithelium of bronchiole." [GOC:tfm] xref: FMA:263126 is_a: CL:0000082 ! epithelial cell of lung is_a: CL:1000349 ! basal cell of epithelium of bronchus relationship: part_of UBERON:0002051 ! epithelium of bronchiole [Term] id: CL:1000353 name: microfold cell of epithelium of small intestine namespace: cell def: "A M cell that is part of the epithelium of small intestine." [GOC:tfm] xref: FMA:263128 is_a: CL:0000682 ! M cell is_a: CL:0002254 ! epithelial cell of small intestine relationship: part_of UBERON:0001902 ! epithelium of small intestine [Term] id: CL:1000354 name: microfold cell of epithelium of intestinal villus namespace: cell def: "A M cell that is part of the epithelium of intestinal villus." [GOC:tfm] xref: FMA:263130 is_a: CL:0000682 ! M cell is_a: CL:0002563 ! intestinal epithelial cell relationship: part_of UBERON:0001213 ! intestinal villus [Term] id: CL:1000355 name: microfold cell of epithelium proper of small intestine namespace: cell def: "A M cell that is part of the epithelium proper of small intestine." [GOC:tfm] xref: FMA:263132 is_a: CL:1000353 ! microfold cell of epithelium of small intestine [Term] id: CL:1000356 name: microfold cell of epithelium proper of duodenum namespace: cell def: "A M cell that is part of the epithelium proper of duodenum." [GOC:tfm] xref: FMA:263134 is_a: CL:0000682 ! M cell [Term] id: CL:1000357 name: microfold cell of epithelium proper of jejunum namespace: cell def: "A M cell that is part of the epithelium proper of jejunum." [GOC:tfm] xref: FMA:263136 is_a: CL:0000682 ! M cell [Term] id: CL:1000358 name: microfold cell of epithelium proper of ileum namespace: cell def: "A M cell that is part of the epithelium proper of ileum." [GOC:tfm] xref: FMA:263138 is_a: CL:0000682 ! M cell [Term] id: CL:1000359 name: microfold cell of epithelium proper of appendix namespace: cell def: "A M cell that is part of the epithelium proper of appendix." [GOC:tfm] xref: FMA:263140 is_a: CL:0000682 ! M cell [Term] id: CL:1000360 name: microfold cell of epithelium proper of large intestine namespace: cell def: "A M cell that is part of the epithelium proper of large intestine." [GOC:tfm] xref: FMA:263142 is_a: CL:0000682 ! M cell is_a: CL:0002253 ! epithelial cell of large intestine [Term] id: CL:1000361 name: transitional myocyte of interatrial septum namespace: cell def: "A transitional myocyte that is part of the interatrial septum." [GOC:tfm] xref: FMA:263152 is_a: CL:0002073 ! transitional myocyte relationship: part_of UBERON:0002085 ! interatrial septum [Term] id: CL:1000362 name: transitional myocyte of interventricular septum namespace: cell def: "A transitional myocyte that is part of the interventricular septum." [GOC:tfm] xref: FMA:263154 is_a: CL:0002073 ! transitional myocyte relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000363 name: transitional myocyte of atrial branch of anterior internodal tract namespace: cell def: "A transitional myocyte that is part of the atrial branch of anterior internodal tract." [GOC:tfm] xref: FMA:263156 is_a: CL:1000480 ! transitional myocyte of internodal tract [Term] id: CL:1000364 name: transitional myocyte of anterior internodal tract namespace: cell def: "A transitional myocyte that is part of the anterior internodal tract." [GOC:tfm] xref: FMA:263158 is_a: CL:1000480 ! transitional myocyte of internodal tract [Term] id: CL:1000365 name: transitional myocyte of atrial septal branch of anterior internodal tract namespace: cell def: "A transitional myocyte that is part of the atrial septal branch of anterior internodal tract." [GOC:tfm] xref: FMA:263160 is_a: CL:1000480 ! transitional myocyte of internodal tract [Term] id: CL:1000366 name: transitional myocyte of middle internodal tract namespace: cell def: "A transitional myocyte that is part of the middle internodal tract." [GOC:tfm] xref: FMA:263162 is_a: CL:1000480 ! transitional myocyte of internodal tract [Term] id: CL:1000367 name: transitional myocyte of posterior internodal tract namespace: cell def: "A transitional myocyte that is part of the posterior internodal tract." [GOC:tfm] xref: FMA:263164 is_a: CL:1000480 ! transitional myocyte of internodal tract [Term] id: CL:1000368 name: transitional myocyte of anterior division of left branch of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the anterior division of left branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263166 is_a: CL:1000370 ! transitional myocyte of left branch of atrioventricular bundle relationship: part_of UBERON:0005986 ! left branch of atrioventricular bundle [Term] id: CL:1000369 name: transitional myocyte of septal division of left branch of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the septal division of left branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263168 is_a: CL:1000370 ! transitional myocyte of left branch of atrioventricular bundle relationship: part_of UBERON:0005986 ! left branch of atrioventricular bundle [Term] id: CL:1000370 name: transitional myocyte of left branch of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the left branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263170 is_a: CL:1000481 ! transitional myocyte of atrioventricular bundle relationship: part_of UBERON:0005986 ! left branch of atrioventricular bundle [Term] id: CL:1000371 name: transitional myocyte of right branch of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the right branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263172 is_a: CL:1000481 ! transitional myocyte of atrioventricular bundle relationship: part_of UBERON:0005987 ! right branch of atrioventricular bundle [Term] id: CL:1000372 name: transitional myocyte of atrial part of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the atrial part of atrioventricular bundle." [GOC:tfm] xref: FMA:263174 is_a: CL:1000481 ! transitional myocyte of atrioventricular bundle [Term] id: CL:1000373 name: transitional myocyte of ventricular part of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the ventricular part of atrioventricular bundle." [GOC:tfm] xref: FMA:263176 is_a: CL:1000481 ! transitional myocyte of atrioventricular bundle [Term] id: CL:1000374 name: transitional myocyte of posterior division of left branch of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the posterior division of left branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263178 is_a: CL:1000370 ! transitional myocyte of left branch of atrioventricular bundle relationship: part_of UBERON:0005986 ! left branch of atrioventricular bundle [Term] id: CL:1000375 name: myocardial endocrine cell of septal division of left branch of atrioventricular bundle namespace: cell def: "A myocardial endocrine cell that is part of the septal division of left branch of atrioventricular bundle." [GOC:tfm] xref: FMA:263180 is_a: CL:0002074 ! myocardial endocrine cell relationship: part_of UBERON:0005986 ! left branch of atrioventricular bundle [Term] id: CL:1000376 name: purkinje myocyte of interventricular septum namespace: cell def: "A Purkinje myocyte that is part of the interventricular septum." [GOC:tfm] xref: FMA:263182 is_a: CL:0002068 ! Purkinje myocyte relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000377 name: dense-core granulated cell of epithelium of trachea namespace: cell def: "A Feyrter cell that is part of the epithelium of trachea." [GOC:tfm] xref: FMA:263184 is_a: CL:0000307 ! tracheal epithelial cell is_a: CL:0002066 ! Feyrter cell relationship: part_of UBERON:0001901 ! epithelium of trachea [Term] id: CL:1000378 name: type 1 vestibular sensory cell of stato-acoustic epithelium namespace: cell def: "A type I vestibular sensory cell that is part of the stato-acoustic epithelium." [GOC:tfm] xref: FMA:263186 is_a: CL:0002070 ! type I vestibular sensory cell relationship: part_of UBERON:0009969 ! stato-acoustic epithelium [Term] id: CL:1000379 name: type 1 vestibular sensory cell of epithelium of macula of utricle of membranous labyrinth namespace: cell def: "A type I vestibular sensory cell that is part of the epithelium of macula of utricle of membranous labyrinth." [GOC:tfm] xref: FMA:263188 is_a: CL:0002070 ! type I vestibular sensory cell relationship: part_of UBERON:0003241 ! epithelium of utricle [Term] id: CL:1000380 name: type 1 vestibular sensory cell of epithelium of macula of saccule of membranous labyrinth namespace: cell def: "A type I vestibular sensory cell that is part of the epithelium of macula of saccule of membranous labyrinth." [GOC:tfm] xref: FMA:263190 is_a: CL:0002070 ! type I vestibular sensory cell relationship: part_of UBERON:0003242 ! epithelium of saccule [Term] id: CL:1000381 name: type 1 vestibular sensory cell of epithelium of crista of ampulla of semicircular duct of membranous labyrinth namespace: cell def: "A type I vestibular sensory cell that is part of the epithelium of crista of ampulla of semicircular duct of membranous labyrinth." [GOC:tfm] xref: FMA:263192 is_a: CL:0002070 ! type I vestibular sensory cell relationship: part_of UBERON:0006935 ! crista ampullaris neuroepithelium [Term] id: CL:1000382 name: type 2 vestibular sensory cell of stato-acoustic epithelium namespace: cell def: "A type II vestibular sensory cell that is part of the stato-acoustic epithelium." [GOC:tfm] xref: FMA:263194 is_a: CL:0002069 ! type II vestibular sensory cell relationship: part_of UBERON:0009969 ! stato-acoustic epithelium [Term] id: CL:1000383 name: type 2 vestibular sensory cell of epithelium of macula of utricle of membranous labyrinth namespace: cell def: "A type II vestibular sensory cell that is part of the epithelium of macula of utricle of membranous labyrinth." [GOC:tfm] xref: FMA:263196 is_a: CL:0002069 ! type II vestibular sensory cell relationship: part_of UBERON:0003241 ! epithelium of utricle [Term] id: CL:1000384 name: type 2 vestibular sensory cell of epithelium of macula of saccule of membranous labyrinth namespace: cell def: "A type II vestibular sensory cell that is part of the epithelium of macula of saccule of membranous labyrinth." [GOC:tfm] xref: FMA:263198 is_a: CL:0002069 ! type II vestibular sensory cell relationship: part_of UBERON:0003242 ! epithelium of saccule [Term] id: CL:1000385 name: type 2 vestibular sensory cell of epithelium of crista of ampulla of semicircular duct of membranous labyrinth namespace: cell def: "A type II vestibular sensory cell that is part of the epithelium of crista of ampulla of semicircular duct of membranous labyrinth." [GOC:tfm] xref: FMA:263200 is_a: CL:0002069 ! type II vestibular sensory cell relationship: part_of UBERON:0006935 ! crista ampullaris neuroepithelium [Term] id: CL:1000391 name: melanocyte of eyelid namespace: cell def: "A melanocyte that is part of the eyelid." [GOC:tfm] synonym: "eyelid melanocyte" EXACT [FMA:59175] synonym: "sebaceous gland of wolff" EXACT [FMA:59175] xref: FMA:59175 is_a: CL:0000148 ! melanocyte relationship: part_of UBERON:0001711 ! eyelid [Term] id: CL:1000394 name: myoepithelial cell of intralobular lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the intralobular part of terminal lactiferous duct." [GOC:tfm] xref: FMA:62158 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000397 name: endothelial cell of venous sinus of red pulp of spleen namespace: cell def: "An endothelial cell that is part of the venous sinus of red pulp of spleen." [GOC:tfm] comment: todo - add logical definition to UBERON:0009967 xref: FMA:62817 is_a: CL:0002651 ! endothelial cell of venous sinus of spleen relationship: part_of UBERON:0009967 ! spleen venous sinus [Term] id: CL:1000398 name: endothelial cell of hepatic sinusoid namespace: cell def: "An endothelial cell that is part of the hepatic sinusoid." [GOC:tfm] synonym: "endotheliocyte of hepatic sinusoid" EXACT [FMA:62911] xref: FMA:62911 is_a: CL:0000182 ! hepatocyte is_a: CL:0002262 ! endothelial cell of sinusoid relationship: part_of UBERON:0001281 ! hepatic sinusoid [Term] id: CL:1000405 name: epithelial cell of appendix namespace: cell def: "An epithelial cell that is part of the appendix." [GOC:tfm] synonym: "columnar epitheliocyte of appendix" EXACT [FMA:63602] synonym: "epithelial cell of vermiform appendix" EXACT [FMA:63602] xref: FMA:63602 is_a: CL:0002253 ! epithelial cell of large intestine relationship: part_of UBERON:0001154 ! vermiform appendix [Term] id: CL:1000409 name: myocyte of sinoatrial node namespace: cell def: "A muscle cell that is part of the sinoatrial node." [FMA:67102, GOC:tfm] synonym: "SA nodal myocyte" EXACT [FMA:67102] synonym: "SA node cardiac muscle cell" EXACT [GOC:pr] synonym: "myocyte of sinoatrial node" EXACT [FMA:67102] synonym: "sinoatrial node cell" EXACT [GOC:pr] synonym: "sinoatrial node myocyte" EXACT [] synonym: "sinuatrial node myocyte" EXACT [FMA:67102] xref: FMA:67102 is_a: CL:0002072 ! nodal myocyte relationship: part_of UBERON:0002351 ! sinoatrial node [Term] id: CL:1000410 name: myocyte of atrioventricular node namespace: cell def: "A muscle cell that is part of the atrioventricular node." [FMA:67106, GOC:tfm] synonym: "AV nodal myocyte" EXACT [FMA:67106] synonym: "AV node cardiac muscle cell" EXACT [GOC:pr] synonym: "AV node cell" EXACT [GOC:pr] synonym: "atrioventricular node cell" EXACT [GOC:pr] synonym: "atrioventricular node myocyte" EXACT [FMA:67106] xref: FMA:67106 is_a: CL:0002072 ! nodal myocyte relationship: part_of UBERON:0002352 ! atrioventricular node [Term] id: CL:1000411 name: endothelial cell of peyer's patch namespace: cell def: "An endothelial cell that is part of the small intestine Peyer's patch." [GOC:tfm] xref: FMA:67757 is_a: CL:0000115 ! endothelial cell is_a: CL:0002254 ! epithelial cell of small intestine relationship: part_of UBERON:0003454 ! small intestine Peyer's patch [Term] id: CL:1000412 name: endothelial cell of arteriole namespace: cell def: "An endothelial cell that is part of the arteriole." [GOC:tfm] xref: FMA:67760 xref: KUPO:0001097 is_a: CL:1000413 ! endothelial cell of artery relationship: part_of UBERON:0001980 ! arteriole [Term] id: CL:1000413 name: endothelial cell of artery namespace: cell alt_id: CL:0002542 def: "A blood vessel endothelial cell that is part of an arterial endothelium." [GOC:tfm] synonym: "arterial endothelial cell" EXACT [] xref: BTO:0004758 xref: FMA:67761 xref: KUPO:0001095 is_a: CL:0000071 ! blood vessel endothelial cell relationship: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001917 ! endothelium of artery [Term] id: CL:1000414 name: endothelial cell of venule namespace: cell def: "An endothelial cell that is part of the venule." [GOC:tfm] xref: FMA:67762 is_a: CL:0002139 ! endothelial cell of vascular tree relationship: part_of UBERON:0001979 ! venule [Term] id: CL:1000415 name: epithelial cell of gall bladder namespace: cell def: "An epithelial cell that is part of the gallbladder." [GOC:tfm] xref: FMA:67780 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002110 ! gallbladder [Term] id: CL:1000416 name: myoepithelial cell of lactiferous gland namespace: cell def: "A myoepithelial cell that is part of the mammary gland." [GOC:tfm] synonym: "basal cell of lactiferous duct" EXACT [FMA:67800] xref: FMA:67800 is_a: CL:0000185 ! myoepithelial cell is_a: CL:0002327 ! mammary epithelial cell relationship: part_of UBERON:0001911 ! mammary gland [Term] id: CL:1000417 name: myoepithelial cell of sweat gland namespace: cell def: "A myoepithelial cell that is part of the sweat gland." [GOC:tfm] xref: FMA:67801 is_a: CL:0000185 ! myoepithelial cell is_a: CL:1000448 ! epithelial cell of sweat gland relationship: part_of UBERON:0001820 ! sweat gland [Term] id: CL:1000418 name: myoepithelial cell of lactiferous alveolus namespace: cell def: "A myoepithelial cell that is part of the mammary gland alveolus." [GOC:tfm] synonym: "basal cell of alveolus of lactiferous gland" EXACT [FMA:67802] synonym: "myoepithelial cell of mammary alveolus" EXACT [FMA:67802] xref: FMA:67802 is_a: CL:1000416 ! myoepithelial cell of lactiferous gland relationship: part_of UBERON:0003214 ! mammary gland alveolus [Term] id: CL:1000419 name: myoepithelial cell of lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the lactiferous duct." [GOC:tfm] xref: FMA:67803 is_a: CL:1000416 ! myoepithelial cell of lactiferous gland relationship: part_of UBERON:0001765 ! mammary duct [Term] id: CL:1000420 name: myoepithelial cell of terminal lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the terminal lactiferous duct." [GOC:tfm] xref: FMA:67804 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000424 name: chromaffin cell of paraaortic body namespace: cell def: "A chromaffin cell that is part of the paraaortic body." [GOC:tfm] synonym: "chromaffin cell of para-aortic body" EXACT [FMA:69328] xref: FMA:69328 is_a: CL:0000166 ! chromaffin cell relationship: part_of UBERON:0001237 ! paraaortic body [Term] id: CL:1000425 name: chromaffin cell of paraganglion namespace: cell def: "A chromaffin cell that is part of the paraganglion." [GOC:tfm] xref: FMA:69335 is_a: CL:0000166 ! chromaffin cell relationship: part_of UBERON:0012279 ! paraganglion [Term] id: CL:1000426 name: chromaffin cell of adrenal gland namespace: cell def: "A chromaffin cell that is part of the adrenal gland." [GOC:tfm] xref: FMA:69794 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000166 ! chromaffin cell relationship: part_of UBERON:0002369 ! adrenal gland [Term] id: CL:1000427 name: adrenal cortex chromaffin cell namespace: cell def: "A chromaffin cell that is part of the adrenal cortex." [GOC:tfm] comment: Not clear this cell type exists. Can't call it a cortical adrenal cell because of different germ layer origin. synonym: "chromaffin cell of adrenal cortex" EXACT [] xref: FMA:69795 is_a: CL:1000426 ! chromaffin cell of adrenal gland relationship: part_of UBERON:0001235 ! adrenal cortex [Term] id: CL:1000428 name: stem cell of epidermis namespace: cell def: "A somatic stem cell that is part of the epidermis." [GOC:tfm] synonym: "epidermal stem cell" EXACT [FMA:70541] xref: FMA:70541 is_a: CL:0000723 ! somatic stem cell relationship: part_of UBERON:0001003 ! epidermis [Term] id: CL:1000432 name: conjunctival epithelial cell namespace: cell def: "An epithelial cell that is part of the conjunctiva." [GOC:tfm] synonym: "epithelial cell of conjunctiva" EXACT [FMA:70552] xref: FMA:70552 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001811 ! conjunctiva [Term] id: CL:1000433 name: epithelial cell of lacrimal canaliculus namespace: cell def: "An epithelial cell that is part of the lacrimal canaliculus." [GOC:tfm] xref: FMA:70553 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001770 ! lacrimal canaliculus [Term] id: CL:1000434 name: epithelial cell of external acoustic meatus namespace: cell def: "An epithelial cell that is part of the external acoustic meatus." [GOC:tfm] xref: FMA:70555 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001352 ! external acoustic meatus [Term] id: CL:1000435 name: epithelial cell of lacrimal duct namespace: cell def: "An epithelial cell that is part of the lacrimal duct." [GOC:tfm] xref: FMA:70559 is_a: CL:0000072 ! non-branched duct epithelial cell relationship: part_of UBERON:0001850 ! lacrimal duct [Term] id: CL:1000436 name: epithelial cell of lacrimal sac namespace: cell def: "An epithelial cell that is part of the lacrimal sac." [GOC:tfm] xref: FMA:70560 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001351 ! lacrimal sac [Term] id: CL:1000437 name: epithelial cell of nasolacrimal duct namespace: cell def: "An epithelial cell that is part of the nasolacrimal duct." [GOC:tfm] xref: FMA:70561 is_a: CL:1000435 ! epithelial cell of lacrimal duct relationship: part_of UBERON:0002392 ! nasolacrimal duct [Term] id: CL:1000438 name: epithelial cell of wall of inferior part of anal canal namespace: cell def: "An epithelial cell that is part of the wall of inferior part of anal canal." [GOC:tfm] xref: FMA:70562 is_a: CL:0002634 ! epithelial cell of anal column [Term] id: CL:1000441 name: epithelial cell of viscerocranial mucosa namespace: cell def: "An epithelial cell that is part of the viscerocranial mucosa." [GOC:tfm] xref: FMA:70583 is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:1000442 name: urothelial cell of trigone of urinary bladder namespace: cell def: "An urothelial cell that is part of the trigone of urinary bladder." [GOC:tfm] synonym: "epithelial cell of vesical trigone" EXACT [FMA:70598] xref: FMA:70598 is_a: CL:0000731 ! urothelial cell is_a: CL:1001319 ! bladder cell relationship: part_of UBERON:0001257 ! trigone of urinary bladder [Term] id: CL:1000443 name: ciliary muscle cell namespace: cell def: "A smooth muscle cell that is part of the ciliary body." [GOC:tfm] synonym: "smooth muscle cell of ciliary body" EXACT [FMA:70610] xref: FMA:70610 is_a: CL:0000359 ! vascular associated smooth muscle cell relationship: part_of UBERON:0001775 ! ciliary body [Term] id: CL:1000444 name: mesothelial cell of anterior chamber of eye namespace: cell def: "A mesothelial cell that is part of the anterior chamber of eyeball." [GOC:tfm] xref: FMA:70615 is_a: CL:0000077 ! mesothelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0001766 ! anterior chamber of eyeball [Term] id: CL:1000445 name: myoepithelial cell of dilator pupillae namespace: cell def: "A myoepithelial cell that is part of the dilatator pupillae." [GOC:tfm] xref: FMA:70619 is_a: CL:0000185 ! myoepithelial cell relationship: part_of UBERON:0001608 ! dilatator pupillae [Term] id: CL:1000447 name: epithelial cell of stratum germinativum of esophagus namespace: cell def: "A basal cell that is part of the epithelium of esophagus." [GOC:tfm] synonym: "basal cell of esophageal epithelium" EXACT [FMA:70731] xref: FMA:70731 is_a: CL:0000646 ! basal cell relationship: part_of UBERON:0001976 ! epithelium of esophagus [Term] id: CL:1000448 name: epithelial cell of sweat gland namespace: cell def: "An epithelial cell that is part of the sweat gland." [GOC:tfm] xref: FMA:70952 is_a: CL:0000362 ! epidermal cell is_a: CL:0002308 ! epithelial cell of skin gland relationship: part_of UBERON:0001820 ! sweat gland [Term] id: CL:1000449 name: epithelial cell of nephron namespace: cell def: "An epithelial cell that is part of the nephron." [GOC:tfm] xref: FMA:70965 is_a: CL:0002518 ! kidney epithelial cell relationship: part_of UBERON:0001285 ! nephron [Term] id: CL:1000450 name: epithelial cell of glomerular capsule namespace: cell def: "An epithelial cell that is part of the glomerular capsule." [GOC:tfm] synonym: "Bowmans capsule epithelial cell" EXACT [] synonym: "epithelial cell of Bowman's capsule" EXACT [FMA:70966] xref: FMA:70966 xref: KUPO:0001034 is_a: CL:1000510 ! kidney glomerular epithelial cell relationship: part_of UBERON:0001230 ! glomerular capsule [Term] id: CL:1000451 name: epithelial cell of visceral layer of glomerular capsule namespace: cell def: "An epithelial cell that is part of the visceral layer of glomerular capsule." [GOC:tfm] comment: consider merging into CL:0000653 synonym: "glomerular podocyte" NARROW [FMA:70967] xref: FMA:70967 is_a: CL:1000450 ! epithelial cell of glomerular capsule relationship: part_of UBERON:0005751 ! visceral layer of glomerular capsule [Term] id: CL:1000452 name: parietal epithelial cell namespace: cell alt_id: CL:1000897 def: "An epithelial cell that is part of the glomerular parietal epithelium." [GOC:tfm] synonym: "epithelial cell of parietal layer of glomerular capsule" EXACT [FMA:70968] xref: FMA:70968 xref: KUPO:0001035 is_a: CL:1000450 ! epithelial cell of glomerular capsule relationship: part_of UBERON:0005750 ! glomerular parietal epithelium [Term] id: CL:1000453 name: epithelial cell of intermediate tubule namespace: cell def: "An epithelial cell that is part of the intermediate tubule." [GOC:tfm] xref: FMA:70980 is_a: CL:1000909 ! kidney loop of henle epithelial cell relationship: part_of UBERON:0004136 ! intermediate tubule [Term] id: CL:1000454 name: kidney collecting duct epithelial cell namespace: cell def: "An epithelial cell that is part of the collecting duct of renal tubule." [GOC:tfm] synonym: "epithelial cell of renal collecting tubule" EXACT [FMA:70982] xref: FMA:70982 xref: KUPO:0001059 is_a: CL:0000072 ! non-branched duct epithelial cell is_a: CL:1000449 ! epithelial cell of nephron is_a: CL:1001225 ! kidney collecting duct cell relationship: part_of UBERON:0001232 ! collecting duct of renal tubule [Term] id: CL:1000456 name: mesothelial cell of parietal peritoneum namespace: cell def: "A mesothelial cell that is part of the parietal peritoneum." [GOC:tfm] xref: FMA:72142 is_a: CL:1000490 ! mesothelial cell of peritoneum relationship: part_of UBERON:0001366 ! parietal peritoneum [Term] id: CL:1000457 name: mesothelial cell of visceral peritoneum namespace: cell def: "A mesothelial cell that is part of the visceral peritoneum." [GOC:tfm] xref: FMA:72143 is_a: CL:1000490 ! mesothelial cell of peritoneum relationship: part_of UBERON:0001178 ! visceral peritoneum [Term] id: CL:1000458 name: melanocyte of skin namespace: cell def: "A melanocyte that is part of the skin of body." [GOC:tfm] synonym: "skin melanocyte" EXACT [FMA:72144] xref: FMA:72144 is_a: CL:0000148 ! melanocyte relationship: part_of UBERON:0002097 ! skin of body [Term] id: CL:1000465 name: chromaffin cell of ovary namespace: cell def: "A chromaffin cell that is part of the ovary." [GOC:tfm] xref: FMA:74319 is_a: CL:0000166 ! chromaffin cell relationship: part_of UBERON:0000992 ! female gonad [Term] id: CL:1000466 name: chromaffin cell of right ovary namespace: cell def: "A chromaffin cell that is part of the right ovary." [GOC:tfm] xref: FMA:74320 is_a: CL:1000465 ! chromaffin cell of ovary relationship: part_of UBERON:0002118 ! right ovary [Term] id: CL:1000467 name: chromaffin cell of left ovary namespace: cell def: "A chromaffin cell that is part of the left ovary." [GOC:tfm] xref: FMA:74321 is_a: CL:1000465 ! chromaffin cell of ovary relationship: part_of UBERON:0002119 ! left ovary [Term] id: CL:1000468 name: myoepithelial cell of acinus of lactiferous gland namespace: cell def: "A myoepithelial cell that is part of the acinus of lactiferous gland." [GOC:tfm] synonym: "basal cell of acinus of lactiferous gland" EXACT [FMA:74469] xref: FMA:74469 is_a: CL:1000416 ! myoepithelial cell of lactiferous gland relationship: part_of UBERON:0001912 ! lobule of lactiferous gland [Term] id: CL:1000469 name: myoepithelial cell of main lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the main lactiferous duct." [GOC:tfm] xref: FMA:74499 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000470 name: myoepithelial cell of primary lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the primary lactiferous duct." [GOC:tfm] xref: FMA:74500 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000471 name: myoepithelial cell of secondary lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the secondary lactiferous duct." [GOC:tfm] xref: FMA:74501 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000472 name: myoepithelial cell of tertiary lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the tertiary lactiferous duct." [GOC:tfm] xref: FMA:74502 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000473 name: myoepithelial cell of quarternary lactiferous duct namespace: cell def: "A myoepithelial cell that is part of the quarternary lactiferous duct." [GOC:tfm] xref: FMA:74503 is_a: CL:0000185 ! myoepithelial cell [Term] id: CL:1000477 name: cardiac pacemaker cell of sinoatrial node namespace: cell def: "A nodal myocyte that is part of the sinoatrial node." [GOC:tfm] synonym: "cardiac pacemaker cell of sinuatrial node" EXACT [] synonym: "pacemaker cell of sinoatrial node" EXACT [] synonym: "pacemaker cell of sinuatrial node" EXACT [] xref: FMA:83383 is_a: CL:1000409 ! myocyte of sinoatrial node relationship: part_of UBERON:0002351 ! sinoatrial node [Term] id: CL:1000478 name: transitional myocyte of sinoatrial node namespace: cell def: "A transitional myocyte that is part of the sinoatrial node." [GOC:tfm] synonym: "transitinal myocyte of sinuatrial node" EXACT [] xref: FMA:83384 is_a: CL:0002073 ! transitional myocyte is_a: CL:1000409 ! myocyte of sinoatrial node relationship: part_of UBERON:0002351 ! sinoatrial node [Term] id: CL:1000479 name: purkinje myocyte of atrioventricular node namespace: cell def: "A Purkinje myocyte that is part of the atrioventricular node." [GOC:tfm] xref: FMA:83386 is_a: CL:0002068 ! Purkinje myocyte is_a: CL:1000410 ! myocyte of atrioventricular node relationship: part_of UBERON:0002352 ! atrioventricular node [Term] id: CL:1000480 name: transitional myocyte of internodal tract namespace: cell def: "A transitional myocyte that is part of the internodal tract." [GOC:tfm] xref: FMA:83387 is_a: CL:0002073 ! transitional myocyte is_a: CL:0002096 ! internodal tract myocyte relationship: part_of UBERON:0009966 ! internodal tract [Term] id: CL:1000481 name: transitional myocyte of atrioventricular bundle namespace: cell def: "A transitional myocyte that is part of the atrioventricular bundle." [GOC:tfm] xref: FMA:83388 xref: FMA:83885 is_a: CL:0002073 ! transitional myocyte relationship: part_of UBERON:0002353 ! atrioventricular bundle [Term] id: CL:1000482 name: myocardial endocrine cell of interventricular septum namespace: cell def: "A myocardial endocrine cell that is part of the interventricular septum." [GOC:tfm] xref: FMA:83390 is_a: CL:0002074 ! myocardial endocrine cell relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000483 name: purkinje myocyte of internodal tract namespace: cell def: "A Purkinje myocyte that is part of the internodal tract." [GOC:tfm] xref: FMA:83392 is_a: CL:0002068 ! Purkinje myocyte is_a: CL:0002096 ! internodal tract myocyte relationship: part_of UBERON:0009966 ! internodal tract [Term] id: CL:1000484 name: purkinje myocyte of atrioventricular bundle namespace: cell def: "A Purkinje myocyte that is part of the atrioventricular bundle." [GOC:tfm] xref: FMA:83393 is_a: CL:0002068 ! Purkinje myocyte relationship: part_of UBERON:0002353 ! atrioventricular bundle [Term] id: CL:1000486 name: basal cell of urothelium namespace: cell def: "A basal cell that is part of the urothelium." [GOC:tfm] xref: FMA:84150 is_a: CL:0000646 ! basal cell relationship: part_of UBERON:0000365 ! urothelium [Term] id: CL:1000487 name: smooth muscle cell of prostate namespace: cell def: "A smooth muscle cell that is part of the prostate gland." [GOC:tfm] synonym: "smooth muscle fiber of prostate" EXACT [FMA:84583] xref: FMA:84583 is_a: CL:0000192 ! smooth muscle cell relationship: part_of UBERON:0002367 ! prostate gland [Term] id: CL:1000488 name: cholangiocyte namespace: cell def: "An epithelial cell that is part of the bile duct. Cholangiocytes contribute to bile secretion via net release of bicarbonate and water. They are cuboidal epithelium in the small interlobular bile ducts, but become columnar and mucus secreting in larger bile ducts approaching the porta hepatis and the extrahepatic ducts." [GOC:tfm, PMID:16550043, PMID:18356246] synonym: "epithelial cell of bile duct" EXACT [] synonym: "hepatoblast" EXACT [] xref: FMA:86481 is_a: CL:0000069 ! branched duct epithelial cell relationship: part_of UBERON:0002394 ! bile duct [Term] id: CL:1000489 name: reticular cell of splenic cord namespace: cell def: "A reticular cell that is part of the splenic cord." [GOC:tfm] xref: FMA:86497 is_a: CL:0000432 ! reticular cell relationship: part_of UBERON:0001266 ! splenic cord [Term] id: CL:1000490 name: mesothelial cell of peritoneum namespace: cell def: "A mesothelial cell that is part of the peritoneum." [GOC:tfm] synonym: "peritoneal mesothelial cell" EXACT [FMA:86736] xref: FMA:86736 is_a: CL:0000077 ! mesothelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002358 ! peritoneum [Term] id: CL:1000491 name: mesothelial cell of pleura namespace: cell def: "A mesothelial cell that is part of the pleura." [GOC:tfm] synonym: "pleural mesothelial cell" EXACT [FMA:86737] xref: FMA:86737 is_a: CL:0000077 ! mesothelial cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000977 ! pleura [Term] id: CL:1000492 name: mesothelial cell of parietal pleura namespace: cell def: "A mesothelial cell that is part of the parietal pleura." [GOC:tfm] xref: FMA:86738 is_a: CL:1000491 ! mesothelial cell of pleura relationship: part_of UBERON:0002400 ! parietal pleura [Term] id: CL:1000493 name: mesothelial cell of visceral pleura namespace: cell def: "A mesothelial cell that is part of the visceral pleura." [GOC:tfm] xref: FMA:86739 is_a: CL:0000082 ! epithelial cell of lung is_a: CL:1000491 ! mesothelial cell of pleura relationship: part_of UBERON:0002401 ! visceral pleura [Term] id: CL:1000494 name: epithelial cell of renal tubule namespace: cell def: "An epithelial cell that is part of the renal tubule." [GOC:tfm] synonym: "kidney tubule epithelial cell" EXACT [] xref: FMA:86785 xref: KUPO:0001022 is_a: CL:1000449 ! epithelial cell of nephron is_a: CL:1000507 ! kidney tubule cell relationship: part_of UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0004810 ! nephron tubule epithelium [Term] id: CL:1000495 name: goblet cell of small intestine namespace: cell def: "A goblet cell that is part of the small intestine." [GOC:tfm] synonym: "small intestinal goblet cell" EXACT [FMA:86929] xref: FMA:86929 is_a: CL:0000160 ! goblet cell is_a: CL:0000510 ! paneth cell is_a: CL:0002254 ! epithelial cell of small intestine relationship: part_of UBERON:0002108 ! small intestine [Term] id: CL:1000497 name: kidney cell namespace: cell xref: KUPO:0001010 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0002113 ! kidney [Term] id: CL:1000500 name: kidney interstitial cell namespace: cell xref: KUPO:0001013 is_a: CL:0002320 ! connective tissue cell is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0005215 ! kidney interstitium [Term] id: CL:1000504 name: kidney medulla cell namespace: cell xref: KUPO:0001017 is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0000362 ! renal medulla [Term] id: CL:1000505 name: kidney pelvis cell namespace: cell xref: KUPO:0001018 is_a: CL:1000497 ! kidney cell is_a: CL:1000601 ! ureteral cell relationship: part_of UBERON:0001224 ! renal pelvis [Term] id: CL:1000507 name: kidney tubule cell namespace: cell xref: KUPO:0001020 is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0001231 ! nephron tubule [Term] id: CL:1000510 name: kidney glomerular epithelial cell namespace: cell xref: KUPO:0001023 is_a: CL:1000746 ! glomerular cell relationship: part_of UBERON:0004188 ! glomerular epithelium [Term] id: CL:1000546 name: kidney medulla collecting duct epithelial cell namespace: cell xref: KUPO:0001060 is_a: CL:1000504 ! kidney medulla cell is_a: CL:1001225 ! kidney collecting duct cell relationship: part_of UBERON:0005185 ! renal medulla collecting duct [Term] id: CL:1000547 name: kidney inner medulla collecting duct epithelial cell namespace: cell xref: KUPO:0001061 is_a: CL:1000546 ! kidney medulla collecting duct epithelial cell is_a: CL:1000617 ! kidney inner medulla cell relationship: part_of UBERON:0005187 ! inner renal medulla collecting duct [Term] id: CL:1000548 name: kidney outer medulla collecting duct epithelial cell namespace: cell xref: KUPO:0001062 is_a: CL:1000546 ! kidney medulla collecting duct epithelial cell is_a: CL:1000616 ! kidney outer medulla cell relationship: part_of UBERON:0005186 ! outer renal medulla collecting duct [Term] id: CL:1000549 name: kidney cortex collecting duct epithelial cell namespace: cell xref: KUPO:0001063 is_a: CL:0002681 ! kidney cortical cell is_a: CL:1001225 ! kidney collecting duct cell relationship: part_of UBERON:0005267 ! renal cortex collecting duct [Term] id: CL:1000550 name: kidney papillary duct principal epithelial cell namespace: cell xref: KUPO:0001064 is_a: CL:1001225 ! kidney collecting duct cell relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000596 name: inner renal cortex cell namespace: cell xref: KUPO:0001111 is_a: CL:0002681 ! kidney cortical cell relationship: part_of UBERON:0005271 ! juxtamedullary cortex [Term] id: CL:1000597 name: papillary tips cell namespace: cell xref: KUPO:0001112 is_a: CL:1000505 ! kidney pelvis cell is_a: CL:1000617 ! kidney inner medulla cell relationship: part_of UBERON:0009095 ! tip of renal papilla [Term] id: CL:1000600 name: lower urinary tract cell namespace: cell xref: KUPO:0001115 is_a: CL:0000548 ! animal cell relationship: part_of UBERON:0001556 ! lower urinary tract [Term] id: CL:1000601 name: ureteral cell namespace: cell xref: KUPO:0001116 is_a: CL:0000548 ! animal cell relationship: part_of UBERON:0000056 ! ureter [Term] id: CL:1000606 name: kidney nerve cell namespace: cell xref: KUPO:0001015 is_a: CL:0000540 ! neuron is_a: CL:1000500 ! kidney interstitial cell relationship: part_of UBERON:0002113 ! kidney [Term] id: CL:1000612 name: kidney corpuscule cell namespace: cell xref: KUPO:0001021 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000449 ! epithelial cell of nephron relationship: part_of UBERON:0001229 ! renal corpuscle [Term] id: CL:1000615 name: kidney cortex tubule cell namespace: cell xref: KUPO:0001024 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000494 ! epithelial cell of renal tubule relationship: part_of UBERON:0006853 ! renal cortex tubule [Term] id: CL:1000616 name: kidney outer medulla cell namespace: cell xref: KUPO:0001025 is_a: CL:1000504 ! kidney medulla cell relationship: part_of UBERON:0001293 ! outer medulla of kidney [Term] id: CL:1000617 name: kidney inner medulla cell namespace: cell xref: KUPO:0001026 is_a: CL:1000504 ! kidney medulla cell relationship: part_of UBERON:0001294 ! inner medulla of kidney [Term] id: CL:1000618 name: juxtaglomerular complex cell namespace: cell xref: KUPO:0001028 is_a: CL:0002681 ! kidney cortical cell relationship: part_of UBERON:0002303 ! juxtaglomerular apparatus [Term] id: CL:1000681 name: kidney cortex interstitial cell namespace: cell xref: KUPO:0001091 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000500 ! kidney interstitial cell relationship: part_of UBERON:0005270 ! renal cortex interstitium [Term] id: CL:1000682 name: kidney medulla interstitial cell namespace: cell xref: KUPO:0001092 is_a: CL:1000500 ! kidney interstitial cell is_a: CL:1000504 ! kidney medulla cell relationship: part_of UBERON:0005211 ! renal medulla interstitium [Term] id: CL:1000691 name: kidney interstitial myofibroblast namespace: cell xref: KUPO:0001101 is_a: CL:0000186 ! myofibroblast cell is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000692 name: kidney interstitial fibroblast namespace: cell xref: KUPO:0001102 is_a: CL:0002241 ! pulmonary interstitial fibroblast is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000693 name: kidney interstitial fibrocyte namespace: cell xref: KUPO:0001103 is_a: CL:0000135 ! fibrocyte is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000695 name: kidney interstitial alternatively activated macrophage namespace: cell xref: KUPO:0001106 is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:0000890 ! alternatively activated macrophage is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000696 name: kidney interstitial inflammatory macrophage namespace: cell xref: KUPO:0001107 is_a: CL:0000863 ! inflammatory macrophage is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000697 name: kidney interstitial suppressor macrophage namespace: cell xref: KUPO:0001108 is_a: CL:0000862 ! suppressor macrophage is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000698 name: kidney resident macrophage namespace: cell xref: KUPO:0001109 is_a: CL:0000864 ! tissue-resident macrophage is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000699 name: kidney resident dendritic cell namespace: cell xref: KUPO:0001110 is_a: CL:0001007 ! interstitial dendritic cell is_a: CL:1000500 ! kidney interstitial cell [Term] id: CL:1000702 name: kidney pelvis smooth muscle cell namespace: cell xref: KUPO:0001113 is_a: CL:1000505 ! kidney pelvis cell is_a: CL:1000979 ! ureter smooth muscle cell relationship: part_of UBERON:0004227 ! kidney pelvis smooth muscle [Term] id: CL:1000703 name: kidney pelvis urothelial cell namespace: cell xref: KUPO:0001114 is_a: CL:0002518 ! kidney epithelial cell is_a: CL:1000505 ! kidney pelvis cell is_a: CL:1000706 ! ureter urothelial cell relationship: part_of UBERON:0004788 ! kidney pelvis urothelium [Term] id: CL:1000706 name: ureter urothelial cell namespace: cell xref: KUPO:0001117 is_a: CL:0000731 ! urothelial cell is_a: CL:1000601 ! ureteral cell relationship: part_of UBERON:0001254 ! urothelium of ureter [Term] id: CL:1000708 name: ureter adventitial cell namespace: cell xref: KUPO:0001119 is_a: CL:0000115 ! endothelial cell is_a: CL:0000134 ! mesenchymal cell is_a: CL:0002503 ! adventitial cell is_a: CL:1000601 ! ureteral cell relationship: part_of UBERON:0001252 ! adventitia of ureter [Term] id: CL:1000714 name: kidney cortex collecting duct principal cell namespace: cell xref: KUPO:0001130 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000549 ! kidney cortex collecting duct epithelial cell is_a: CL:1001431 ! kidney collecting duct principal cell relationship: part_of UBERON:0005267 ! renal cortex collecting duct [Term] id: CL:1000715 name: kidney cortex collecting duct intercalated cell namespace: cell xref: KUPO:0001131 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000549 ! kidney cortex collecting duct epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell relationship: part_of UBERON:0005267 ! renal cortex collecting duct [Term] id: CL:1000716 name: kidney outer medulla collecting duct principal cell namespace: cell xref: KUPO:0001132 is_a: CL:1000548 ! kidney outer medulla collecting duct epithelial cell is_a: CL:1001431 ! kidney collecting duct principal cell relationship: part_of UBERON:0005186 ! outer renal medulla collecting duct [Term] id: CL:1000717 name: kidney outer medulla collecting duct intercalated cell namespace: cell xref: KUPO:0001133 is_a: CL:1000548 ! kidney outer medulla collecting duct epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell relationship: part_of UBERON:0005186 ! outer renal medulla collecting duct [Term] id: CL:1000718 name: kidney inner medulla collecting duct principal cell namespace: cell xref: KUPO:0001134 is_a: CL:1000547 ! kidney inner medulla collecting duct epithelial cell is_a: CL:1001431 ! kidney collecting duct principal cell relationship: part_of UBERON:0005187 ! inner renal medulla collecting duct [Term] id: CL:1000719 name: kidney inner medulla collecting duct intercalated cell namespace: cell xref: KUPO:0001135 is_a: CL:1000547 ! kidney inner medulla collecting duct epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell relationship: part_of UBERON:0005187 ! inner renal medulla collecting duct [Term] id: CL:1000720 name: kidney papillary duct intercalated cell namespace: cell xref: KUPO:0001136 is_a: CL:1000550 ! kidney papillary duct principal epithelial cell is_a: CL:1001432 ! kidney collecting duct intercalated cell relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000721 name: kidney papillary duct principal cell namespace: cell xref: KUPO:0001137 is_a: CL:1000550 ! kidney papillary duct principal epithelial cell is_a: CL:1001431 ! kidney collecting duct principal cell relationship: part_of UBERON:0005167 ! papillary duct [Term] id: CL:1000742 name: glomerular mesangial cell namespace: cell def: "Intraglomerular mesangial cells are specialized pericytes located among the glomerular capillaries within a renal corpuscle of a kidney." [Wikipedia:Intraglomerular_mesangial_cell] synonym: "intraglomerular mesangial cell" EXACT [CL:cjm] xref: KUPO:0001032 is_a: CL:0000650 ! mesangial cell is_a: CL:1000500 ! kidney interstitial cell is_a: CL:1000746 ! glomerular cell is_a: CL:1001318 ! renal interstitial pericyte relationship: part_of UBERON:0002320 ! glomerular mesangium [Term] id: CL:1000746 name: glomerular cell namespace: cell xref: KUPO:0001036 is_a: CL:1000612 ! kidney corpuscule cell relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: CL:1000768 name: kidney connecting tubule epithelial cell namespace: cell xref: KUPO:0001058 is_a: CL:1000615 ! kidney cortex tubule cell relationship: part_of UBERON:0005097 ! renal connecting tubule [Term] id: CL:1000803 name: kidney inner medulla interstitial cell namespace: cell xref: KUPO:0001093 is_a: CL:1000617 ! kidney inner medulla cell is_a: CL:1000682 ! kidney medulla interstitial cell relationship: part_of UBERON:0005214 ! inner renal medulla interstitium [Term] id: CL:1000804 name: kidney outer medulla interstitial cell namespace: cell xref: KUPO:0001094 is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1000682 ! kidney medulla interstitial cell relationship: part_of UBERON:0005213 ! outer renal medulla interstitium [Term] id: CL:1000838 name: kidney proximal convoluted tubule epithelial cell namespace: cell xref: KUPO:0001045 is_a: CL:0002306 ! epithelial cell of proximal tubule relationship: part_of UBERON:0001287 ! proximal convoluted tubule [Term] id: CL:1000839 name: kidney proximal straight tubule epithelial cell namespace: cell xref: KUPO:0001046 is_a: CL:0002306 ! epithelial cell of proximal tubule is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1001021 ! kidney loop of henle descending limb epithelial cell relationship: part_of UBERON:0001290 ! proximal straight tubule [Term] id: CL:1000849 name: kidney distal convoluted tubule epithelial cell namespace: cell xref: KUPO:0001056 is_a: CL:0002305 ! epithelial cell of distal tubule relationship: part_of UBERON:0001292 ! distal convoluted tubule [Term] id: CL:1000850 name: macula densa epithelial cell namespace: cell xref: KUPO:0001057 is_a: CL:0002305 ! epithelial cell of distal tubule is_a: CL:1000618 ! juxtaglomerular complex cell relationship: part_of UBERON:0002335 ! macula densa [Term] id: CL:1000854 name: kidney blood vessel cell namespace: cell xref: KUPO:0001014 is_a: CL:0002584 ! renal cortical epithelial cell is_a: CL:1000504 ! kidney medulla cell relationship: part_of UBERON:0003517 ! kidney blood vessel [Term] id: CL:1000891 name: kidney arterial blood vessel cell namespace: cell xref: KUPO:0001029 is_a: CL:1000854 ! kidney blood vessel cell relationship: part_of UBERON:0003644 ! kidney arterial blood vessel [Term] id: CL:1000892 name: kidney capillary endothelial cell namespace: cell xref: KUPO:0001030 is_a: CL:0000071 ! blood vessel endothelial cell is_a: CL:1000854 ! kidney blood vessel cell [Term] id: CL:1000893 name: kidney venous blood vessel cell namespace: cell xref: KUPO:0001031 is_a: CL:1000854 ! kidney blood vessel cell relationship: part_of UBERON:0001140 ! renal vein [Term] id: CL:1000909 name: kidney loop of henle epithelial cell namespace: cell xref: KUPO:0001047 is_a: CL:1000494 ! epithelial cell of renal tubule relationship: part_of UBERON:0001288 ! loop of Henle [Term] id: CL:1000979 name: ureter smooth muscle cell namespace: cell xref: KUPO:0001118 is_a: CL:0000192 ! smooth muscle cell is_a: CL:1000601 ! ureteral cell relationship: part_of UBERON:0006855 ! ureter muscle layer [Term] id: CL:1001005 name: glomerular capillary endothelial cell namespace: cell xref: KUPO:0001037 is_a: CL:0002144 ! capillary endothelial cell is_a: CL:0002188 ! glomerular endothelial cell is_a: CL:1000494 ! epithelial cell of renal tubule is_a: CL:1000510 ! kidney glomerular epithelial cell is_a: CL:1000892 ! kidney capillary endothelial cell relationship: part_of UBERON:0004294 ! glomerular capillary endothelium [Term] id: CL:1001006 name: kidney afferent arteriole cell namespace: cell xref: KUPO:0001038 is_a: CL:1000494 ! epithelial cell of renal tubule is_a: CL:1000612 ! kidney corpuscule cell is_a: CL:1000891 ! kidney arterial blood vessel cell relationship: part_of UBERON:0004639 ! afferent arteriole [Term] id: CL:1001009 name: kidney efferent arteriole cell namespace: cell xref: KUPO:0001041 is_a: CL:1000494 ! epithelial cell of renal tubule is_a: CL:1000612 ! kidney corpuscule cell is_a: CL:1000891 ! kidney arterial blood vessel cell relationship: part_of UBERON:0004640 ! efferent arteriole [Term] id: CL:1001016 name: kidney loop of henle ascending limb epithelial cell namespace: cell xref: KUPO:0001048 is_a: CL:0002305 ! epithelial cell of distal tubule is_a: CL:1000909 ! kidney loop of henle epithelial cell relationship: part_of UBERON:0005164 ! ascending limb of loop of Henle [Term] id: CL:1001021 name: kidney loop of henle descending limb epithelial cell namespace: cell xref: KUPO:0001053 is_a: CL:1000909 ! kidney loop of henle epithelial cell relationship: part_of UBERON:0001289 ! descending limb of loop of Henle [Term] id: CL:1001033 name: peritubular capillary endothelial cell namespace: cell xref: KUPO:0001065 is_a: CL:1000892 ! kidney capillary endothelial cell relationship: part_of UBERON:0005272 ! peritubular capillary [Term] id: CL:1001036 name: vasa recta cell namespace: cell xref: KUPO:0001068 is_a: CL:0002543 ! vein endothelial cell is_a: CL:1000892 ! kidney capillary endothelial cell is_a: CL:1000893 ! kidney venous blood vessel cell relationship: part_of UBERON:0004726 ! vasa recta [Term] id: CL:1001045 name: kidney cortex artery cell namespace: cell xref: KUPO:0001077 is_a: CL:1000891 ! kidney arterial blood vessel cell relationship: part_of UBERON:0005268 ! renal cortex artery [Term] id: CL:1001052 name: kidney cortex vein cell namespace: cell xref: KUPO:0001084 is_a: CL:1000893 ! kidney venous blood vessel cell relationship: part_of UBERON:0005269 ! renal cortex vein [Term] id: CL:1001064 name: kidney artery smooth muscle cell namespace: cell comment: Note that the source of this term is KUPO:0001096 (artery smooth muscle cell), which we believe actually denotes the kidney specific structure. xref: KUPO:0001096 is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:1000891 ! kidney arterial blood vessel cell [Term] id: CL:1001066 name: kidney arteriole smooth muscle cell namespace: cell comment: Note that the source of this term is KUPO:0001098 (arteriole smooth muscle cell), which we believe actually denotes the kidney specific structure. xref: KUPO:0001098 is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:1000891 ! kidney arterial blood vessel cell [Term] id: CL:1001068 name: kidney venous system smooth muscle cell namespace: cell comment: Note that the source of this term is KUPO:0001068 (venous system smooth muscle cell), which we believe actually denotes the kidney specific structure. xref: KUPO:0001100 is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:1000893 ! kidney venous blood vessel cell [Term] id: CL:1001096 name: kidney afferent arteriole endothelial cell namespace: cell xref: KUPO:0001039 is_a: CL:1000412 ! endothelial cell of arteriole is_a: CL:1001006 ! kidney afferent arteriole cell relationship: part_of UBERON:0004639 ! afferent arteriole [Term] id: CL:1001097 name: kidney afferent arteriole smooth muscle cell namespace: cell xref: KUPO:0001040 is_a: CL:1001006 ! kidney afferent arteriole cell is_a: CL:1001066 ! kidney arteriole smooth muscle cell relationship: part_of UBERON:0004639 ! afferent arteriole [Term] id: CL:1001099 name: kidney efferent arteriole endothelial cell namespace: cell xref: KUPO:0001042 is_a: CL:1000412 ! endothelial cell of arteriole is_a: CL:1001009 ! kidney efferent arteriole cell relationship: part_of UBERON:0004640 ! efferent arteriole [Term] id: CL:1001100 name: kidney efferent arteriole smooth muscle cell namespace: cell xref: KUPO:0001043 is_a: CL:1001009 ! kidney efferent arteriole cell is_a: CL:1001066 ! kidney arteriole smooth muscle cell relationship: part_of UBERON:0004640 ! efferent arteriole [Term] id: CL:1001106 name: kidney loop of henle thick ascending limb epithelial cell namespace: cell xref: KUPO:0001049 is_a: CL:1000504 ! kidney medulla cell is_a: CL:1001016 ! kidney loop of henle ascending limb epithelial cell relationship: part_of UBERON:0001291 ! thick ascending limb of loop of Henle [Term] id: CL:1001107 name: kidney loop of henle thin ascending limb epithelial cell namespace: cell xref: KUPO:0001050 is_a: CL:1000617 ! kidney inner medulla cell is_a: CL:1001016 ! kidney loop of henle ascending limb epithelial cell relationship: part_of UBERON:0004193 ! loop of Henle ascending limb thin segment [Term] id: CL:1001108 name: kidney loop of henle medullary thick ascending limb epithelial cell namespace: cell xref: KUPO:0001051 is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1001106 ! kidney loop of henle thick ascending limb epithelial cell relationship: part_of UBERON:0006376 ! premacula segment of distal straight tubule [Term] id: CL:1001109 name: kidney loop of henle cortical thick ascending limb epithelial cell namespace: cell xref: KUPO:0001052 is_a: CL:1001106 ! kidney loop of henle thick ascending limb epithelial cell relationship: part_of UBERON:0006854 ! distal straight tubule postmacula segment [Term] id: CL:1001111 name: kidney loop of henle thin descending limb epithelial cell namespace: cell xref: KUPO:0001054 is_a: CL:1000453 ! epithelial cell of intermediate tubule is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1001021 ! kidney loop of henle descending limb epithelial cell relationship: part_of UBERON:0005096 ! descending thin limb [Term] id: CL:1001123 name: kidney outer medulla peritubular capillary cell namespace: cell xref: KUPO:0001066 is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1001033 ! peritubular capillary endothelial cell relationship: part_of UBERON:0006341 ! outer renal medulla peritubular capillary [Term] id: CL:1001124 name: kidney cortex peritubular capillary cell namespace: cell xref: KUPO:0001067 is_a: CL:1001033 ! peritubular capillary endothelial cell relationship: part_of UBERON:0006851 ! renal cortex peritubular capillary [Term] id: CL:1001126 name: inner renal medulla vasa recta cell namespace: cell xref: KUPO:0001069 is_a: CL:1000617 ! kidney inner medulla cell is_a: CL:1001036 ! vasa recta cell relationship: part_of UBERON:0004776 ! inner renal medulla vasa recta [Term] id: CL:1001127 name: outer renal medulla vasa recta cell namespace: cell xref: KUPO:0001070 is_a: CL:1000616 ! kidney outer medulla cell is_a: CL:1001036 ! vasa recta cell relationship: part_of UBERON:0004775 ! outer renal medulla vasa recta [Term] id: CL:1001131 name: vasa recta ascending limb cell namespace: cell xref: KUPO:0001074 is_a: CL:1001036 ! vasa recta cell relationship: part_of UBERON:0009091 ! vasa recta ascending limb [Term] id: CL:1001135 name: arcuate artery cell namespace: cell xref: KUPO:0001078 is_a: CL:1001045 ! kidney cortex artery cell relationship: part_of UBERON:0001552 ! arcuate artery [Term] id: CL:1001138 name: interlobular artery cell namespace: cell xref: KUPO:0001081 is_a: CL:1001045 ! kidney cortex artery cell relationship: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001142 name: arcuate vein cell namespace: cell xref: KUPO:0001085 is_a: CL:1001052 ! kidney cortex vein cell relationship: part_of UBERON:0004719 ! arcuate vein [Term] id: CL:1001145 name: interlobular vein cell namespace: cell xref: KUPO:0001088 is_a: CL:1001052 ! kidney cortex vein cell relationship: part_of UBERON:0005168 ! interlobular vein [Term] id: CL:1001209 name: inner medulla vasa recta ascending limb cell namespace: cell xref: KUPO:0001075 is_a: CL:1001126 ! inner renal medulla vasa recta cell is_a: CL:1001131 ! vasa recta ascending limb cell relationship: part_of UBERON:0009092 ! inner medulla vasa recta ascending limb [Term] id: CL:1001210 name: outer medulla vasa recta ascending limb cell namespace: cell xref: KUPO:0001076 is_a: CL:1001127 ! outer renal medulla vasa recta cell is_a: CL:1001131 ! vasa recta ascending limb cell relationship: part_of UBERON:0009093 ! outer medulla vasa recta ascending limb [Term] id: CL:1001213 name: arcuate artery endothelial cell namespace: cell xref: KUPO:0001079 is_a: CL:1000413 ! endothelial cell of artery is_a: CL:1001135 ! arcuate artery cell relationship: part_of UBERON:0001552 ! arcuate artery [Term] id: CL:1001214 name: arcuate artery smooth muscle cell namespace: cell xref: KUPO:0001080 is_a: CL:1001064 ! kidney artery smooth muscle cell is_a: CL:1001135 ! arcuate artery cell relationship: part_of UBERON:0001552 ! arcuate artery [Term] id: CL:1001216 name: interlobulary artery endothelial cell namespace: cell xref: KUPO:0001082 is_a: CL:1000413 ! endothelial cell of artery is_a: CL:1001138 ! interlobular artery cell relationship: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001217 name: interlobulary artery smooth muscle cell namespace: cell xref: KUPO:0001083 is_a: CL:1001064 ! kidney artery smooth muscle cell is_a: CL:1001138 ! interlobular artery cell relationship: part_of UBERON:0004723 ! interlobular artery [Term] id: CL:1001220 name: arcuate vein endothelial cell namespace: cell xref: KUPO:0001086 is_a: CL:0002543 ! vein endothelial cell is_a: CL:1001142 ! arcuate vein cell relationship: part_of UBERON:0004719 ! arcuate vein [Term] id: CL:1001221 name: arcuate vein smooth muscle cell namespace: cell xref: KUPO:0001087 is_a: CL:1001068 ! kidney venous system smooth muscle cell is_a: CL:1001142 ! arcuate vein cell relationship: part_of UBERON:0004719 ! arcuate vein [Term] id: CL:1001223 name: interlobulary vein endothelial cell namespace: cell xref: KUPO:0001089 is_a: CL:0002543 ! vein endothelial cell is_a: CL:1001145 ! interlobular vein cell relationship: part_of UBERON:0005168 ! interlobular vein [Term] id: CL:1001224 name: interlobulary vein smooth muscle cell namespace: cell xref: KUPO:0001090 is_a: CL:1001068 ! kidney venous system smooth muscle cell is_a: CL:1001145 ! interlobular vein cell relationship: part_of UBERON:0005168 ! interlobular vein [Term] id: CL:1001225 name: kidney collecting duct cell namespace: cell xref: KUPO:0001012 xref: Wikipedia:Kidney_collecting_duct_cell is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0001232 ! collecting duct of renal tubule [Term] id: CL:1001285 name: vasa recta descending limb cell namespace: cell xref: KUPO:0001071 is_a: CL:1001036 ! vasa recta cell relationship: part_of UBERON:0009202 ! vasa recta descending limb [Term] id: CL:1001286 name: inner medulla vasa recta descending limb cell namespace: cell xref: KUPO:0001072 is_a: CL:1001126 ! inner renal medulla vasa recta cell is_a: CL:1001285 ! vasa recta descending limb cell relationship: part_of UBERON:0009089 ! inner medulla vasa recta descending limb [Term] id: CL:1001287 name: outer medulla vasa recta descending limb cell namespace: cell xref: KUPO:0001073 is_a: CL:1001127 ! outer renal medulla vasa recta cell is_a: CL:1001285 ! vasa recta descending limb cell relationship: part_of UBERON:0009090 ! outer medulla vasa recta descending limb [Term] id: CL:1001318 name: renal interstitial pericyte namespace: cell xref: KUPO:0001104 is_a: CL:0000669 ! pericyte cell is_a: CL:1000497 ! kidney cell relationship: part_of UBERON:0002113 ! kidney [Term] id: CL:1001319 name: bladder cell namespace: cell xref: KUPO:0001120 is_a: CL:1000600 ! lower urinary tract cell relationship: part_of UBERON:0001255 ! urinary bladder [Term] id: CL:1001320 name: urethra cell namespace: cell xref: KUPO:0001123 is_a: CL:1000600 ! lower urinary tract cell relationship: part_of UBERON:0000057 ! urethra [Term] id: CL:1001428 name: bladder urothelial cell namespace: cell xref: KUPO:0001121 is_a: CL:0000731 ! urothelial cell is_a: CL:1001319 ! bladder cell relationship: part_of UBERON:0004645 ! urinary bladder urothelium [Term] id: CL:1001430 name: urethra urothelial cell namespace: cell xref: KUPO:0001124 is_a: CL:0000731 ! urothelial cell is_a: CL:1000296 ! epithelial cell of urethra relationship: part_of UBERON:0004787 ! urethra urothelium [Term] id: CL:1001431 name: kidney collecting duct principal cell namespace: cell xref: KUPO:0001128 is_a: CL:0005009 ! renal principal cell is_a: CL:1000454 ! kidney collecting duct epithelial cell relationship: part_of UBERON:0001232 ! collecting duct of renal tubule [Term] id: CL:1001432 name: kidney collecting duct intercalated cell namespace: cell xref: KUPO:0001129 xref: http://en.wikipedia.org/wiki/Collecting_duct_system#Intercalated_cells is_a: CL:0005010 ! renal intercalated cell is_a: CL:1000454 ! kidney collecting duct epithelial cell relationship: part_of UBERON:0001232 ! collecting duct of renal tubule [Term] id: CL:1001433 name: epithelial cell of exocrine pancreas namespace: cell def: "An epithelial cell of the exocrine pancreas." [GOC:tfm] synonym: "exocrine pancreas cell" EXACT [] xref: FMA:70986 is_a: CL:0000083 ! epithelial cell of pancreas relationship: part_of UBERON:0000017 ! exocrine pancreas [Term] id: GO:0001750 name: photoreceptor outer segment namespace: cellular_component def: "The outer segment of a vertebrate photoreceptor that contains discs of photoreceptive membranes." [ISBN:0824072820] is_a: GO:0031513 ! nonmotile primary cilium property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0001917 name: photoreceptor inner segment namespace: cellular_component def: "The inner segment of a vertebrate photoreceptor containing mitochondria, ribosomes and membranes where opsin molecules are assembled and passed to be part of the outer segment discs." [GOC:add, PMID:12019563] subset: goslim_pir ! PIR GO slim is_a: UBERON:0000470 ! cell part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005575 name: cellular_component namespace: cellular_component alt_id: GO:0008372 def: "The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together." [GOC:go_curators] comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that when this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cellular component" EXACT [] synonym: "cellular component unknown" NARROW [] xref: NIF_Subcellular:sao1337158144 disjoint_from: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005576 name: extracellular region namespace: cellular_component def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators] comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005578 name: proteinaceous extracellular matrix namespace: cellular_component def: "A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus." [GOC:mtg_sensu, ISBN:0198547684] subset: goslim_generic ! Generic GO slim subset: goslim_plant ! Plant GO slim is_a: GO:0031012 ! extracellular matrix is_a: GO:0044421 ! extracellular region part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005581 name: collagen namespace: cellular_component def: "Any of the various assemblies in which collagen chains form a left-handed triple helix; may assemble into higher order structures." [GOC:mah, ISBN:0721639976] synonym: "other collagen" RELATED [] xref: Wikipedia:Collagen is_a: GO:0044420 ! extracellular matrix part is_a: GO:0044421 ! extracellular region part relationship: part_of GO:0005578 ! proteinaceous extracellular matrix property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005583 name: fibrillar collagen namespace: cellular_component def: "Any collagen polymer in which collagen triple helices associate to form fibrils." [GOC:mah, ISBN:0721639976] is_a: GO:0005581 ! collagen property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005584 name: collagen type I namespace: cellular_component def: "A collagen trimer containing alpha(I) chains. The most common form of type I collagen is a heterotrimer containing two alpha1(I) chains and one alpha2(I) chain; homotrimers containing three alpha1(I) chains are also found. Type I collagen triple helices associate to form banded fibrils." [GOC:mah, GOC:sl, ISBN:0721639976] xref: Wikipedia:Collagen_type_I is_a: GO:0005583 ! fibrillar collagen property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005585 name: collagen type II namespace: cellular_component def: "A collagen homotrimer of alpha1(II) chains; type II collagen triple helices associate to form fibrils." [ISBN:0721639976] xref: Wikipedia:Collagen_type_II is_a: GO:0005583 ! fibrillar collagen property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005586 name: collagen type III namespace: cellular_component def: "A collagen homotrimer of alpha1(III) chains; type III collagen triple helices associate to form fibrils." [ISBN:0721639976] is_a: GO:0005583 ! fibrillar collagen property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005622 name: intracellular namespace: cellular_component def: "The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "internal to cell" EXACT [] synonym: "nucleocytoplasm" RELATED [GOC:mah] synonym: "protoplasm" EXACT [] synonym: "protoplast" RELATED [GOC:mah] xref: Wikipedia:Intracellular is_a: UBERON:0000470 ! cell part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005737 name: cytoplasm namespace: cellular_component def: "All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684] subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Cytoplasm is_a: GO:0044424 ! intracellular part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005856 name: cytoskeleton namespace: cellular_component def: "Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [GOC:mah, ISBN:0198547684, PMID:16959967] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Cytoskeleton is_a: GO:0043232 ! intracellular non-membrane-bounded organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005902 name: microvillus namespace: cellular_component def: "Thin cylindrical membrane-covered projections on the surface of an animal cell containing a core bundle of actin filaments. Present in especially large numbers on the absorptive surface of intestinal cells." [ISBN:0813516194] comment: Note that this term refers to a projection from a single cell, and should not be confused with 'microvillus' as used to refer to a multicellular structure such as that found in the placenta. subset: goslim_pir ! PIR GO slim xref: Wikipedia:Microvillus is_a: GO:0042995 ! cell projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005911 name: cell-cell junction namespace: cellular_component def: "A cell junction that forms a connection between two cells; excludes direct cytoplasmic junctions such as ring canals." [GOC:dgh, GOC:hb, GOC:mah] synonym: "intercellular junction" EXACT [] xref: NIF_Subcellular:sao1922892319 is_a: GO:0030054 ! cell junction property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005929 name: cilium namespace: cellular_component def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:kmv, ISBN:0198547684] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0042995 ! cell projection is_a: GO:0043231 ! intracellular membrane-bounded organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016023 name: cytoplasmic membrane-bounded vesicle namespace: cellular_component def: "A membrane-bounded vesicle found in the cytoplasm of the cell." [GOC:ai, GOC:mah] subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cytoplasmic membrane bounded vesicle" EXACT [] synonym: "cytoplasmic membrane-enclosed vesicle" EXACT [] is_a: GO:0031410 ! cytoplasmic vesicle is_a: GO:0031988 ! membrane-bounded vesicle is_a: GO:0043231 ! intracellular membrane-bounded organelle relationship: part_of GO:0005737 ! cytoplasm property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030054 name: cell junction namespace: cellular_component def: "A cellular component that forms a specialized region of connection between two cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix." [GOC:mah, ISBN:0198506732, http://www.vivo.colostate.edu/hbooks/cmb/cells/pmemb/junctions_a.html] xref: Wikipedia:Cell_junction is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0030424 name: axon namespace: cellular_component def: "The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter." [GOC:nln, ISBN:0198506732] xref: NIF_Subcellular:sao1770195789 xref: Wikipedia:Axon is_a: GO:0043005 ! neuron projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031012 name: extracellular matrix namespace: cellular_component def: "A structure lying external to one or more cells, which provides structural support for cells or tissues; may be completely external to the cell (as in animals and bacteria) or be part of the cell (as in plants)." [GOC:mah] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: Wikipedia:Extracellular_matrix is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031410 name: cytoplasmic vesicle namespace: cellular_component def: "A vesicle formed of membrane or protein, found in the cytoplasm of a cell." [GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset xref: NIF_Subcellular:sao180601769 is_a: GO:0031982 ! vesicle is_a: GO:0043229 ! intracellular organelle is_a: GO:0044444 ! cytoplasmic part relationship: part_of GO:0005737 ! cytoplasm property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031513 name: nonmotile primary cilium namespace: cellular_component def: "A primary cilium which contains a variable array of axonemal microtubules but does not contain molecular motors. Nonmotile primary cilia are found on many different cell types and function as sensory organelles that concentrate and organize sensory signaling molecules." [GOC:dgh, GOC:kmv, PMID:17009929, PMID:20144998] synonym: "immotile primary cilium" EXACT [GOC:curators] synonym: "nonmotile primary cilia" EXACT [GOC:curators] synonym: "sensory cilium" EXACT [GOC:curators] is_a: GO:0072372 ! primary cilium property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031982 name: vesicle namespace: cellular_component def: "Any small, fluid-filled, spherical organelle enclosed by membrane or protein." [GOC:mah, GOC:pz] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: NIF_Subcellular:sao221389602 xref: Wikipedia:Vesicle_(biology) is_a: GO:0043226 ! organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0031988 name: membrane-bounded vesicle namespace: cellular_component def: "Any small, fluid-filled, spherical organelle enclosed by a lipid bilayer." [GOC:mah] subset: gosubset_prok ! Prokaryotic GO subset synonym: "membrane-enclosed vesicle" EXACT [] is_a: GO:0031982 ! vesicle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0032991 name: macromolecular complex namespace: cellular_component def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which the constituent parts function together." [GOC:mah] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "macromolecule complex" EXACT [] is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0042995 name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] is_a: UBERON:0000470 ! cell part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043005 name: neuron projection namespace: cellular_component def: "A prolongation or process extending from a nerve cell, e.g. an axon or dendrite." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_pir ! PIR GO slim synonym: "neurite" NARROW [] synonym: "neuron process" EXACT [] synonym: "neuron protrusion" EXACT [] synonym: "neuronal cell projection" EXACT [] xref: NIF_Subcellular:sao-867568886 is_a: GO:0042995 ! cell projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043226 name: organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0005575 ! cellular_component property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043227 name: membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao414196390 is_a: GO:0043226 ! organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043228 name: non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] subset: gosubset_prok ! Prokaryotic GO subset synonym: "non-membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao1456184038 is_a: GO:0043226 ! organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043229 name: intracellular organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0043226 ! organelle is_a: GO:0044424 ! intracellular part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043231 name: intracellular membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "intracellular membrane-enclosed organelle" EXACT [] is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043232 name: intracellular non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "intracellular non-membrane-enclosed organelle" EXACT [] is_a: GO:0043228 ! non-membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0043234 name: protein complex namespace: cellular_component def: "Any macromolecular complex composed of two or more polypeptide subunits, which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups, such as nucleotides, metal ions or other small molecules." [GOC:go_curators] subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "protein-protein complex" EXACT [] xref: Wikipedia:Protein_complex is_a: GO:0032991 ! macromolecular complex property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044297 name: cell body namespace: cellular_component def: "The portion of a cell bearing surface projections such as axons, dendrites, cilia, or flagella that includes the nucleus, but excludes all cell projections." [GOC:go_curators] comment: Note that 'cell body' and 'cell soma' are not used in the literature for cells that lack projections, nor for some cells (e.g. yeast with mating projections) that do have projections. subset: goslim_pir ! PIR GO slim synonym: "cell soma" EXACT [] is_a: UBERON:0000470 ! cell part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044420 name: extracellular matrix part namespace: cellular_component def: "Any constituent part of the extracellular matrix, the structure lying external to one or more cells, which provides structural support for cells or tissues; may be completely external to the cell (as in animals) or be part of the cell (as often seen in plants)." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: GO:0005575 ! cellular_component relationship: part_of GO:0031012 ! extracellular matrix property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044421 name: extracellular region part namespace: cellular_component def: "Any constituent part of the extracellular region, the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers constituent parts of the host cell environment outside an intracellular parasite." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005576 ! extracellular region property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044422 name: organelle part namespace: cellular_component def: "Any constituent part of an organelle, an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, but excludes the plasma membrane." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: GO:0005575 ! cellular_component relationship: part_of GO:0043226 ! organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044424 name: intracellular part namespace: cellular_component def: "Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: UBERON:0000470 ! cell part relationship: part_of GO:0005622 ! intracellular property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044430 name: cytoskeletal part namespace: cellular_component def: "Any constituent part of the cytoskeleton, a cellular scaffolding or skeleton that maintains cell shape, enables some cell motion (using structures such as flagella and cilia), and plays important roles in both intra-cellular transport (e.g. the movement of vesicles and organelles) and cellular division. Includes constituent parts of intermediate filaments, microfilaments, microtubules, and the microtrabecular lattice." [GOC:jl] subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "cytoskeleton component" EXACT [] is_a: GO:0044446 ! intracellular organelle part relationship: part_of GO:0005856 ! cytoskeleton property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044444 name: cytoplasmic part namespace: cellular_component def: "Any constituent part of the cytoplasm, all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation synonym: "cytoplasm component" EXACT [] is_a: GO:0044424 ! intracellular part relationship: part_of GO:0005737 ! cytoplasm property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0044446 name: intracellular organelle part namespace: cellular_component def: "A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane." [GOC:jl] subset: gosubset_prok ! Prokaryotic GO subset subset: high_level_annotation_qc ! High-level terms not to be used for direct annotation is_a: GO:0044422 ! organelle part is_a: GO:0044424 ! intracellular part relationship: part_of GO:0043229 ! intracellular organelle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045095 name: keratin filament namespace: cellular_component def: "A filament composed of acidic and basic keratins (types I and II), typically expressed in epithelial cells. The keratins are the most diverse classes of IF proteins, with a large number of keratin isoforms being expressed. Each type of epithelium always expresses a characteristic combination of type I and type II keratins." [ISBN:0716731363] synonym: "acidic keratin" RELATED [] synonym: "basic/neutral keratin" RELATED [] is_a: UBERON:0003000 ! intermediate filament property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0045111 name: intermediate filament cytoskeleton namespace: cellular_component def: "Cytoskeletal structure made from intermediate filaments, typically organized in the cytosol as an extended system that stretches from the nuclear envelope to the plasma membrane. Some intermediate filaments run parallel to the cell surface, while others traverse the cytosol; together they form an internal framework that helps support the shape and resilience of the cell." [ISBN:0716731363] is_a: GO:0005856 ! cytoskeleton property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0048770 name: pigment granule namespace: cellular_component def: "A small, subcellular membrane-bounded vesicle containing pigment and/or pigment precursor molecules. Pigment granule biogenesis is poorly understood, as pigment granules are derived from multiple sources including the endoplasmic reticulum, coated vesicles, lysosomes, and endosomes." [GOC:jid, GOC:mh] is_a: GO:0016023 ! cytoplasmic membrane-bounded vesicle property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0070451 name: cell hair namespace: cellular_component def: "A long, thin cell projection that contains F-actin and tubulin, with microtubules centrally located and F-actin peripherally located." [PMID:11526084] subset: goslim_pir ! PIR GO slim synonym: "imaginal disc-derived wing hair" NARROW [GOC:mah] synonym: "non-sensory hair" EXACT [GOC:bf] xref: Wikipedia:Membrane_nanotube is_a: GO:0042995 ! cell projection property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0071953 name: elastic fiber namespace: cellular_component def: "An extracellular matrix part that consists of an insoluble core of polymerized tropoelastin monomers and a surrounding mantle of microfibrils. Elastic fibers provide elasticity and recoiling to tissues and organs, and maintain structural integrity against mechanical strain." [GOC:BHF, GOC:mah, PMID:20236620] synonym: "elastic fibre" EXACT [GOC:mah] synonym: "elastin fiber" EXACT [GOC:BHF] is_a: GO:0044420 ! extracellular matrix part property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0072372 name: primary cilium namespace: cellular_component def: "A cilium found on many different cell types that is typically present in a single copy per cell. A primary cilium may have a variable array of axonemal microtubules and may or may not contain molecular motors." [GOC:curators, PMID:17009929, PMID:20144998] is_a: GO:0005929 ! cilium property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: CHEBI:15440 name: squalene namespace: chebi_ontology alt_id: CHEBI:10795 alt_id: CHEBI:10843 alt_id: CHEBI:15104 alt_id: CHEBI:26746 alt_id: CHEBI:9245 def: "A triterpene consisting of 2,6,10,15,19,23-hexamethyltetracosane having six double bonds at the 2-, 6-, 10-, 14-, 18- and 22-positions with (all-E)-configuration." [] synonym: "(6E,10E,14E,18E)-2,6,10,15,19,23-hexamethyltetracosa-2,6,10,14,18,22-hexaene" EXACT IUPAC_NAME [IUPAC] synonym: "(all-E)-2,6,10,15,19,23-hexamethyl-2,6,10,14,18,22-tetracosahexaene" RELATED [NIST_Chemistry_WebBook] synonym: "C30H50" RELATED FORMULA [ChEBI, KEGG_COMPOUND] synonym: "CC(C)=CCCC(C)=CCCC(C)=CCCC=C(/C)CCC=C(/C)CCC=C(C)C" RELATED SMILES [ChEBI] synonym: "InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+" RELATED InChI [ChEBI] synonym: "InChIKey=YYGNTYWPHWGJRM-AAJYLUCBSA-N" RELATED InChIKey [ChEBI] synonym: "Spinacene" RELATED [KEGG_COMPOUND] synonym: "Squalene" EXACT [KEGG_COMPOUND] synonym: "Supraene" RELATED [KEGG_COMPOUND] xref: Beilstein:1728920 xref: ChemIDplus:111-02-4 xref: CiteXplore:16341241 xref: KEGG_COMPOUND:111-02-4 xref: KEGG_COMPOUND:C00751 xref: LIPID_MAPS:LMPR0106010002 xref: NIST_Chemistry_WebBook:111-02-4 is_a: CHEBI:35191 ! triterpene property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:16646 name: carbohydrate namespace: chebi_ontology alt_id: CHEBI:15131 alt_id: CHEBI:23008 alt_id: CHEBI:9318 def: "The generic term 'carbohydrate' includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates." [] synonym: "Kohlenhydrat" RELATED [ChEBI] synonym: "Kohlenhydrate" RELATED [ChEBI] synonym: "carbohidrato" RELATED [IUPAC] synonym: "carbohidratos" RELATED [IUPAC] synonym: "carbohydrate" EXACT IUPAC_NAME [IUPAC] synonym: "carbohydrates" EXACT IUPAC_NAME [IUPAC] synonym: "glucide" RELATED [ChEBI] synonym: "glucides" RELATED [ChEBI] synonym: "glucido" RELATED [ChEBI] synonym: "glucidos" RELATED [ChEBI] synonym: "hydrates de carbone" RELATED [ChEBI] synonym: "saccharide" RELATED [IUPAC] synonym: "saccharides" RELATED [IUPAC] synonym: "saccharidum" RELATED [ChEBI] is_a: CHEBI:36963 ! organooxygen compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:17029 name: chitin namespace: chebi_ontology alt_id: CHEBI:13962 alt_id: CHEBI:23099 alt_id: CHEBI:3596 def: "An aminoglycan consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues." [] synonym: "(1->4)-2-acetamido-2-deoxy-beta-D-glucan" EXACT IUPAC_NAME [IUPAC] synonym: "C16H28N2O11.(C8H13NO5)n" RELATED FORMULA [ChEBI] synonym: "Chitin" EXACT [KEGG_COMPOUND] synonym: "InChI=1S/C24H41N3O16/c1-7(31)25-13-18(36)20(11(5-29)39-22(13)38)42-24-15(27-9(3)33)19(37)21(12(6-30)41-24)43-23-14(26-8(2)32)17(35)16(34)10(4-28)40-23/h10-24,28-30,34-38H,4-6H2,1-3H3,(H,25,31)(H,26,32)(H,27,33)/t10-,11-,12-,13-,14-,15-,16-,17-,18-,19-,20-,21-,22-,23+,24+/m1/s1" RELATED InChI [ChEBI] synonym: "InChIKey=WZZVUHWLNMNWLW-VFCSDQTKSA-N" RELATED InChIKey [ChEBI] synonym: "[1,4-(N-Acetyl-beta-D-glucosaminyl)]n" RELATED [KEGG_COMPOUND] synonym: "[4)-beta-D-GlcpNAc(1->]n" RELATED [IUPAC] synonym: "beta-1,4-Poly-N-acetyl-D-glucosamine" RELATED [KEGG_COMPOUND] synonym: "chitin" EXACT [IUPAC, UniProt] xref: KEGG_COMPOUND:1398-61-4 xref: KEGG_COMPOUND:C00461 is_a: CHEBI:21638 ! N-acylglucosamine is_a: CHEBI:22506 ! aminoglycan property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:17089 name: glycoprotein namespace: chebi_ontology alt_id: CHEBI:14349 alt_id: CHEBI:5481 alt_id: CHEBI:5493 def: "A compound in which a carbohydrate component is covalently bound to a protein component." [] synonym: "Glycoprotein" EXACT [KEGG_COMPOUND] synonym: "Glykoprotein" RELATED [ChEBI] synonym: "Glykoproteine" RELATED [ChEBI] synonym: "[glycoprotein]" RELATED [UniProt] synonym: "glicoproteina" RELATED [ChEBI] synonym: "glicoproteinas" RELATED [ChEBI] synonym: "glycoproteine" RELATED [ChEBI] synonym: "glycoproteines" RELATED [ChEBI] synonym: "glycoproteins" EXACT IUPAC_NAME [IUPAC] xref: KEGG_COMPOUND:C00326 is_a: CHEBI:33837 ! conjugated protein is_a: CHEBI:63299 ! carbohydrate derivative property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:18059 name: lipid namespace: chebi_ontology alt_id: CHEBI:14517 alt_id: CHEBI:25054 alt_id: CHEBI:6486 def: "'Lipids' is a loosely defined term for substances of biological origin that are soluble in nonpolar solvents. They consist of saponifiable lipids, such as glycerides (fats and oils) and phospholipids, as well as nonsaponifiable lipids, principally steroids." [] synonym: "Lipid" EXACT [KEGG_COMPOUND] synonym: "lipid" EXACT [UniProt] synonym: "lipids" EXACT IUPAC_NAME [IUPAC] xref: KEGG_COMPOUND:C01356 is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:18085 name: glycosaminoglycan namespace: chebi_ontology alt_id: CHEBI:14361 alt_id: CHEBI:24398 alt_id: CHEBI:5495 def: "Any polysaccharide containing a substantial proportion of aminomonosaccharide residues." [] synonym: "Glycosaminoglycan" EXACT [KEGG_COMPOUND] synonym: "Glykosaminoglykan" RELATED [ChEBI] synonym: "glicosaminoglicano" RELATED [IUPAC] synonym: "glycosaminoglycan" EXACT IUPAC_NAME [IUPAC, UniProt] synonym: "glycosaminoglycane" RELATED [IUPAC] synonym: "glycosaminoglycans" RELATED [ChEBI] xref: KEGG_COMPOUND:C02545 xref: Wikipedia:Glycosaminoglycan is_a: CHEBI:22506 ! aminoglycan property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:18154 name: polysaccharide namespace: chebi_ontology alt_id: CHEBI:14864 alt_id: CHEBI:26205 alt_id: CHEBI:8322 def: "A biomacromolecule consisting of large numbers of monosaccharide residues linked glycosidically. This term is commonly used only for those containing more than ten monosaccharide residues." [] synonym: "Glycan" RELATED [KEGG_COMPOUND] synonym: "Glycane" RELATED [ChEBI] synonym: "Glykan" RELATED [ChEBI] synonym: "Glykane" RELATED [ChEBI] synonym: "Polysaccharide" EXACT [KEGG_COMPOUND] synonym: "glycans" RELATED [IUPAC] synonym: "polisacarido" RELATED [ChEBI] synonym: "polisacaridos" RELATED [IUPAC] synonym: "polysaccharide" EXACT [UniProt] synonym: "polysaccharides" EXACT IUPAC_NAME [IUPAC] xref: KEGG_COMPOUND:C00420 is_a: CHEBI:16646 ! carbohydrate is_a: CHEBI:33694 ! biomacromolecule property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:18246 name: (1->4)-beta-D-glucan namespace: chebi_ontology alt_id: CHEBI:10812 alt_id: CHEBI:23063 alt_id: CHEBI:3529 def: "A beta-D-glucan that has formula C18H32O16." [] synonym: "(1,4-beta-D-Glucosyl)n" RELATED [KEGG_COMPOUND] synonym: "(1,4-beta-D-Glucosyl)n+1" RELATED [KEGG_COMPOUND] synonym: "(1,4-beta-D-Glucosyl)n-1" RELATED [KEGG_COMPOUND] synonym: "(1,4-beta-D-glucosyl)n" RELATED [IUBMB, UniProt] synonym: "(1->4)-beta-D-glucopyranan" EXACT IUPAC_NAME [IUPAC] synonym: "(C6H10O6)n" RELATED FORMULA [KEGG_COMPOUND] synonym: "1,4-beta-D-Glucan" RELATED [KEGG_COMPOUND] synonym: "C18H32O16" RELATED FORMULA [ChEBI] synonym: "Cellulose" RELATED [KEGG_COMPOUND] synonym: "InChI=1S/C18H32O16/c19-1-4-7(22)8(23)12(27)17(31-4)34-15-6(3-21)32-18(13(28)10(15)25)33-14-5(2-20)30-16(29)11(26)9(14)24/h4-29H,1-3H2/t4-,5-,6-,7-,8+,9-,10-,11-,12-,13-,14-,15-,16-,17+,18+/m1/s1" RELATED InChI [ChEBI] synonym: "InChIKey=FYGDTMLNYKFZSV-CSHPIKHBSA-N" RELATED InChIKey [ChEBI] synonym: "Microcrystalline cellulose" RELATED [KEGG_COMPOUND] xref: ChemIDplus:9004-34-6 xref: KEGG_COMPOUND:9004-34-6 xref: KEGG_COMPOUND:C00760 xref: KEGG_GLYCAN:G10481 is_a: CHEBI:28793 ! beta-D-glucan property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:21638 name: N-acylglucosamine namespace: chebi_ontology synonym: "N-acylglucosamine" EXACT [ChEBI] synonym: "N-acylglucosamines" RELATED [ChEBI] is_a: CHEBI:21656 ! N-acyl-hexosamine is_a: CHEBI:24271 ! glucosamines property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:21656 name: N-acyl-hexosamine namespace: chebi_ontology synonym: "N-acyl-hexosamine" EXACT [ChEBI] synonym: "N-acyl-hexosamines" RELATED [ChEBI] is_a: CHEBI:24586 ! hexosamine property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:22506 name: aminoglycan namespace: chebi_ontology synonym: "aminoglycans" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:65212 ! polysaccharide derivative property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:22985 name: calcium molecular entity namespace: chebi_ontology synonym: "calcium compounds" RELATED [ChEBI] synonym: "calcium molecular entities" RELATED [ChEBI] synonym: "calcium molecular entity" EXACT [ChEBI] is_a: CHEBI:33299 ! alkaline earth molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:23016 name: carbonates namespace: chebi_ontology is_a: CHEBI:36963 ! organooxygen compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:23367 name: molecular entity namespace: chebi_ontology def: "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." [] synonym: "entidad molecular" RELATED [IUPAC] synonym: "entidades moleculares" RELATED [IUPAC] synonym: "entite moleculaire" RELATED [IUPAC] synonym: "molecular entities" RELATED [IUPAC] synonym: "molecular entity" EXACT IUPAC_NAME [IUPAC] synonym: "molekulare Entitaet" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24271 name: glucosamines namespace: chebi_ontology is_a: CHEBI:24586 ! hexosamine property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24431 name: chemical entity namespace: chebi_ontology def: "A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances." [] property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24586 name: hexosamine namespace: chebi_ontology def: "Any 6-carbon amino monosaccharide with at least one alcoholic hydroxy group replaced by an amino group." [] synonym: "hexosamine" EXACT [ChEBI] synonym: "hexosamines" RELATED [ChEBI] is_a: CHEBI:60926 ! amino monosaccharide property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24632 name: hydrocarbon namespace: chebi_ontology def: "A compound consisting of carbon and hydrogen only." [] synonym: "Kohlenwasserstoff" RELATED [ChEBI] synonym: "Kohlenwasserstoffe" RELATED [ChEBI] synonym: "hidrocarburo" RELATED [IUPAC] synonym: "hidrocarburos" RELATED [IUPAC] synonym: "hydrocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbons" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbure" RELATED [IUPAC] is_a: CHEBI:33245 ! organic fundamental parent property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24866 name: salt namespace: chebi_ontology def: "A salt is an assembly of cations and anions." [] synonym: "Salz" RELATED [ChEBI] synonym: "Salze" RELATED [ChEBI] synonym: "ionic compound" RELATED [ChEBI] synonym: "ionic compounds" RELATED [ChEBI] synonym: "sal" RELATED [ChEBI] synonym: "sales" RELATED [ChEBI] synonym: "salt" EXACT IUPAC_NAME [IUPAC] synonym: "salts" RELATED [ChEBI] synonym: "sel" RELATED [ChEBI] synonym: "sels" RELATED [ChEBI] is_a: CHEBI:37577 ! heteroatomic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:24913 name: isoprenoid namespace: chebi_ontology def: "Any lipid formally derived from isoprene (2-methylbuta-1,3-diene), the skeleton of which can generally be discerned in repeated occurrence in the molecule. The skeleton of isoprenoids may differ from strict additivity of isoprene units by loss or shift of a fragment, commonly a methyl group. The class includes both hydrocarbons and oxygenated derivatives." [] synonym: "isoprenoid" EXACT [ChEBI] synonym: "isoprenoids" EXACT IUPAC_NAME [ChEBI, IUPAC] xref: CiteXplore:12769708 xref: CiteXplore:19219049 xref: LIPID_MAPS:LMPR01 is_a: CHEBI:18059 ! lipid is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:25806 name: oxygen molecular entity namespace: chebi_ontology synonym: "oxygen molecular entities" RELATED [ChEBI] synonym: "oxygen molecular entity" EXACT [ChEBI] is_a: CHEBI:33304 ! chalcogen molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:28793 name: beta-D-glucan namespace: chebi_ontology alt_id: CHEBI:10394 alt_id: CHEBI:22793 synonym: "C12H22O11(C6H10O5)n" RELATED FORMULA [KEGG_COMPOUND] synonym: "beta-D-Glucan" EXACT [KEGG_COMPOUND] synonym: "beta-D-glucans" RELATED [ChEBI] synonym: "beta-Glucan" RELATED [KEGG_COMPOUND] xref: ChemIDplus:9041-22-9 xref: KEGG_COMPOUND:9041-22-9 xref: KEGG_COMPOUND:C00551 is_a: CHEBI:37163 ! glucan property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:28963 name: amino sugar namespace: chebi_ontology alt_id: CHEBI:22481 alt_id: CHEBI:22530 alt_id: CHEBI:2662 def: "Any sugar having one or more alcoholic hydroxy groups replaced by substituted or unsubstituted amino groups." [] synonym: "Aminosugars" RELATED [KEGG_COMPOUND] synonym: "amino sugars" RELATED [ChEBI] synonym: "aminosugar" RELATED [ChEBI] xref: CiteXplore:18424273 xref: CiteXplore:9056391 xref: KEGG_COMPOUND:C05383 is_a: CHEBI:63299 ! carbohydrate derivative property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:3311 name: calcium carbonate namespace: chebi_ontology def: "A carbonate salt that has formula CO3.Ca." [] synonym: "CCaO3" RELATED FORMULA [ChEBI] synonym: "CO3.Ca" RELATED FORMULA [KEGG_COMPOUND] synonym: "CaCO3" RELATED [IUPAC] synonym: "Calcium carbonate" EXACT [KEGG_COMPOUND] synonym: "Calciumcarbonat" RELATED [ChEBI] synonym: "InChI=1S/CH2O3.Ca/c2-1(3)4;/h(H2,2,3,4);/q;+2/p-2" RELATED InChI [ChEBI] synonym: "InChIKey=VTYYLEPIZMXCLO-UHFFFAOYSA-L" RELATED InChIKey [ChEBI] synonym: "Kalziumkarbonat" RELATED [ChEBI] synonym: "[Ca++].[O-]C([O-])=O" RELATED SMILES [ChEBI] synonym: "calcium carbonate" EXACT IUPAC_NAME [IUPAC] synonym: "calcium carbonate (1:1)" RELATED [ChemIDplus] synonym: "calcium trioxidocarbonate" EXACT IUPAC_NAME [IUPAC] synonym: "carbonate de calcium" RELATED [ChEBI] synonym: "carbonato de calcio" RELATED [ChEBI] synonym: "carbonic acid calcium salt (1:1)" RELATED [ChemIDplus] synonym: "kohlensaurer Kalk" RELATED [ChEBI] xref: ChemIDplus:471-34-1 xref: KEGG_COMPOUND:471-34-1 xref: KEGG_COMPOUND:C08129 xref: NIST_Chemistry_WebBook:471-34-1 is_a: CHEBI:35156 ! calcium salt is_a: CHEBI:46721 ! carbonate salt is_a: CHEBI:64708 ! one-carbon compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33245 name: organic fundamental parent namespace: chebi_ontology def: "An organic fundamental parent is a structure used as a basis for substitutive names in organic nomenclature, containing, in addition to one or more hydrogen atoms, a single atom of an element, a number of atoms (alike or different) linked together to form an unbranched chain, a monocyclic or polycyclic ring system, or a ring assembly or ring/chain system." [] synonym: "organic fundamental parents" RELATED [ChEBI] synonym: "organic parent hydrides" RELATED [ChEBI] is_a: CHEBI:37175 ! organic hydride is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33285 name: heteroorganic entity namespace: chebi_ontology def: "A heteroorganic entity is an organic molecular entity in which carbon atoms or organic groups are bonded directly to one or more heteroatoms." [] synonym: "heteroorganic entities" RELATED [ChEBI] synonym: "organoelement compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33299 name: alkaline earth molecular entity namespace: chebi_ontology def: "An alkaline earth molecular entity is a molecular entity containing one or more atoms of an alkaline earth metal." [] synonym: "alkaline earth compounds" RELATED [ChEBI] synonym: "alkaline earth molecular entities" RELATED [ChEBI] synonym: "alkaline earth molecular entity" EXACT [ChEBI] synonym: "alkaline-earth compounds" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33302 name: pnictogen molecular entity namespace: chebi_ontology synonym: "pnictogen molecular entities" RELATED [ChEBI] synonym: "pnictogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33304 name: chalcogen molecular entity namespace: chebi_ontology def: "Any p-block molecular entity containing a chalcogen." [] synonym: "chalcogen compounds" RELATED [ChEBI] synonym: "chalcogen molecular entities" RELATED [ChEBI] synonym: "chalcogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33579 name: main group molecular entity namespace: chebi_ontology def: "A molecular entity containing one or more atoms from any of groups 1, 2, 13, 14, 15, 16, 17, and 18 of the periodic table." [] synonym: "main group compounds" RELATED [ChEBI] synonym: "main group molecular entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33582 name: carbon group molecular entity namespace: chebi_ontology synonym: "carbon group molecular entities" RELATED [ChEBI] synonym: "carbon group molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33608 name: hydrogen molecular entity namespace: chebi_ontology synonym: "hydrogen compounds" RELATED [ChEBI] synonym: "hydrogen molecular entities" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33674 name: s-block molecular entity namespace: chebi_ontology def: "An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element." [] synonym: "s-block compounds" RELATED [ChEBI] synonym: "s-block molecular entities" RELATED [ChEBI] synonym: "s-block molecular entity" EXACT [ChEBI] is_a: CHEBI:33579 ! main group molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33675 name: p-block molecular entity namespace: chebi_ontology def: "A p-block molecular entity is a molecular entity containing one or more atoms of a p-block element." [] synonym: "p-block compounds" RELATED [ChEBI] synonym: "p-block molecular entities" RELATED [ChEBI] synonym: "p-block molecular entitiy" RELATED [ChEBI] is_a: CHEBI:33579 ! main group molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33692 name: hydrides namespace: chebi_ontology def: "Hydrides are chemical compounds of hydrogen with other chemical elements." [] is_a: CHEBI:33608 ! hydrogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33694 name: biomacromolecule namespace: chebi_ontology def: "A macromolecule formed by a living organism." [] synonym: "Biopolymere" RELATED [ChEBI] synonym: "biomacromolecules" RELATED [ChEBI] synonym: "biopolymer" EXACT IUPAC_NAME [IUPAC] synonym: "biopolymers" RELATED [ChEBI] is_a: CHEBI:33839 ! macromolecule is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33695 name: information biomacromolecule namespace: chebi_ontology synonym: "genetically encoded biomacromolecules" RELATED [ChEBI] synonym: "genetically encoded biopolymers" RELATED [ChEBI] synonym: "information biomacromolecules" RELATED [ChEBI] synonym: "information biopolymers" RELATED [ChEBI] synonym: "information macromolecule" RELATED [ChEBI] synonym: "information macromolecules" RELATED [ChEBI] is_a: CHEBI:33694 ! biomacromolecule property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33837 name: conjugated protein namespace: chebi_ontology def: "Conjugated protein is a protein that contains a non-peptide component, usually in stoichiometric proportion." [] synonym: "complex protein" RELATED [COMe] synonym: "conjugated proteins" EXACT IUPAC_NAME [IUPAC] xref: COMe:PRX000001 is_a: CHEBI:36080 ! protein property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:33839 name: macromolecule namespace: chebi_ontology def: "A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [] synonym: "macromolecule" EXACT IUPAC_NAME [IUPAC] synonym: "macromolecules" RELATED [ChEBI] synonym: "polymer" RELATED [ChEBI] synonym: "polymer molecule" RELATED [IUPAC] synonym: "polymers" RELATED [ChEBI] is_a: CHEBI:36357 ! polyatomic entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:35156 name: calcium salt namespace: chebi_ontology synonym: "Kalziumsalz" RELATED [ChEBI] synonym: "Kalziumsalze" RELATED [ChEBI] synonym: "calcium salts" RELATED [ChEBI] is_a: CHEBI:22985 ! calcium molecular entity is_a: CHEBI:36364 ! alkaline earth salt property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:35186 name: terpene namespace: chebi_ontology def: "A hydrocarbon of biological origin having carbon skeleton formally derived from isoprene [CH2=C(CH3)CH=CH2]." [] synonym: "Terpen" RELATED [ChEBI] synonym: "terpene" EXACT [IUPAC] synonym: "terpenes" EXACT IUPAC_NAME [IUPAC] synonym: "terpeno" RELATED [IUPAC] synonym: "terpenos" RELATED [IUPAC] is_a: CHEBI:24632 ! hydrocarbon is_a: CHEBI:24913 ! isoprenoid property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:35191 name: triterpene namespace: chebi_ontology def: "A C30 terpene." [] synonym: "Triterpen" RELATED [ChEBI] synonym: "triterpenes" EXACT IUPAC_NAME [IUPAC] synonym: "triterpeno" RELATED [IUPAC] synonym: "triterpenos" RELATED [IUPAC] is_a: CHEBI:35186 ! terpene property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:35352 name: organonitrogen compound namespace: chebi_ontology def: "Any heteroorganic entity containing at least one carbon-nitrogen bond." [] synonym: "organonitrogen compounds" EXACT IUPAC_NAME [IUPAC] synonym: "organonitrogens" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:51143 ! nitrogen molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:36080 name: protein namespace: chebi_ontology alt_id: CHEBI:13677 alt_id: CHEBI:14911 def: "A biological macromolecule minimally consisting of one polypeptide chain synthesized at the ribosome." [] synonym: "[protein]" RELATED [UniProt] synonym: "proteins" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33695 ! information biomacromolecule property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:36357 name: polyatomic entity namespace: chebi_ontology def: "Any molecular entity consisting of more than one atom." [] synonym: "polyatomic entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:36364 name: alkaline earth salt namespace: chebi_ontology synonym: "alkaline earth salts" RELATED [ChEBI] is_a: CHEBI:24866 ! salt is_a: CHEBI:33299 ! alkaline earth molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:36962 name: organochalcogen compound namespace: chebi_ontology def: "An organochalcogen compound is a compound containing at least one carbon-chalcogen bond." [] synonym: "organochalcogen compound" EXACT [ChEBI] synonym: "organochalcogen compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:33304 ! chalcogen molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:36963 name: organooxygen compound namespace: chebi_ontology def: "An organochalcogen compound containing at least one carbon-oxygen bond." [] synonym: "organooxygen compound" EXACT [ChEBI] synonym: "organooxygen compounds" RELATED [ChEBI] xref: CiteXplore:17586126 is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:36962 ! organochalcogen compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:37163 name: glucan namespace: chebi_ontology alt_id: CHEBI:24255 alt_id: CHEBI:5392 def: "A polysaccharide composed of glucose residues." [] synonym: "C12H22O11(C6H10O5)n" RELATED FORMULA [KEGG_COMPOUND] synonym: "Glucan" EXACT [KEGG_COMPOUND] synonym: "glucan" EXACT IUPAC_NAME [IUPAC] synonym: "glucans" RELATED [ChEBI] xref: ChemIDplus:9037-91-6 xref: KEGG_COMPOUND:C01379 is_a: CHEBI:37164 ! homopolysaccharide property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:37164 name: homopolysaccharide namespace: chebi_ontology def: "Glycans composed of a single type of monosaccharide residue. They are named by replacing the ending '-ose' of the sugar by '-an'." [] synonym: "homoglycan" RELATED [IUPAC] synonym: "homopolysaccharide" EXACT IUPAC_NAME [IUPAC] synonym: "homopolysaccharides" RELATED [ChEBI] is_a: CHEBI:18154 ! polysaccharide property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:37175 name: organic hydride namespace: chebi_ontology synonym: "organic hydrides" RELATED [ChEBI] is_a: CHEBI:33692 ! hydrides property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:37395 name: mucopolysaccharide namespace: chebi_ontology alt_id: CHEBI:25425 alt_id: CHEBI:7011 def: "Any of the group of polysaccharides composed of alternating units from uronic acids and glycosamines, and commonly partially esterified with sulfuric acid." [] synonym: "Mucopolysaccharid" RELATED [ChEBI] synonym: "Mucopolysaccharide" EXACT [KEGG_COMPOUND] synonym: "Mukopolysaccharid" RELATED [ChEBI] synonym: "mucopolisacarido" RELATED [ChEBI] synonym: "mucopolisacaridos" RELATED [IUPAC] synonym: "mucopolysaccharides" EXACT IUPAC_NAME [IUPAC] xref: KEGG_COMPOUND:C05114 is_a: CHEBI:18085 ! glycosaminoglycan property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:37577 name: heteroatomic molecular entity namespace: chebi_ontology def: "A molecular entity consisting of two or more chemical elements." [] synonym: "chemical compound" RELATED [ChEBI] synonym: "heteroatomic molecular entities" RELATED [ChEBI] is_a: CHEBI:36357 ! polyatomic entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:46662 name: mineral namespace: chebi_ontology def: "A mineral is a naturally occurring substance formed through geological processes that has a characteristic chemical composition, a highly ordered atomic structure and specific physical properties." [] synonym: "Minerale" RELATED [ChEBI] synonym: "mineral" EXACT [ChEBI] synonym: "minerales" RELATED [ChEBI] synonym: "minerals" RELATED [ChEBI] synonym: "mineraux" RELATED [ChEBI] is_a: CHEBI:60004 ! mixture property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:46721 name: carbonate salt namespace: chebi_ontology synonym: "carbonate salts" RELATED [ChEBI] is_a: CHEBI:23016 ! carbonates property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:46723 name: phosphate mineral namespace: chebi_ontology synonym: "phosphate minerals" RELATED [ChEBI] is_a: CHEBI:46662 ! mineral property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:50860 name: organic molecular entity namespace: chebi_ontology alt_id: CHEBI:25700 alt_id: CHEBI:33244 def: "Any molecular entity that contains carbon." [] synonym: "organic compounds" RELATED [ChEBI] synonym: "organic entity" RELATED [ChEBI] synonym: "organic molecular entities" RELATED [ChEBI] is_a: CHEBI:33582 ! carbon group molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:51143 name: nitrogen molecular entity namespace: chebi_ontology alt_id: CHEBI:25556 alt_id: CHEBI:7594 synonym: "Nitrogenous compounds" RELATED [KEGG_COMPOUND] synonym: "nitrogen compounds" RELATED [ChEBI] synonym: "nitrogen molecular entities" RELATED [ChEBI] xref: KEGG_COMPOUND:C06061 is_a: CHEBI:33302 ! pnictogen molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:52254 name: apatite namespace: chebi_ontology def: "A phosphate mineral with the general formula Ca5(PO4)3X where X = OH, F or Cl." [] synonym: "hydroxyapatite" RELATED [ChEBI] is_a: CHEBI:46723 ! phosphate mineral property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:52255 name: hydroxylapatite namespace: chebi_ontology def: "A phosphate mineral with the formula Ca5(PO4)3(OH)." [] synonym: "Ca5HO13P3" RELATED FORMULA [ChEBI] is_a: CHEBI:52254 ! apatite property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:59999 name: chemical substance namespace: chebi_ontology def: "A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types." [] synonym: "Chemische Substanz" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:60004 name: mixture namespace: chebi_ontology def: "A mixture is a chemical substance composed of multiple molecules, at least two of which are of a different kind." [] synonym: "Mischung" RELATED [ChEBI] is_a: CHEBI:59999 ! chemical substance property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:60926 name: amino monosaccharide namespace: chebi_ontology is_a: CHEBI:28963 ! amino sugar property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:63299 name: carbohydrate derivative namespace: chebi_ontology def: "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds." [] synonym: "carbohydrate derivatives" RELATED [ChEBI] synonym: "derivatised carbohydrate" RELATED [ChEBI] synonym: "derivatised carbohydrates" RELATED [ChEBI] synonym: "derivatized carbohydrate" RELATED [ChEBI] synonym: "derivatized carbohydrates" RELATED [ChEBI] is_a: CHEBI:36963 ! organooxygen compound property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:64708 name: one-carbon compound namespace: chebi_ontology def: "An organic molecular entity containing a single carbon atom (C1)." [] synonym: "one-carbon compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CHEBI:65212 name: polysaccharide derivative namespace: chebi_ontology is_a: CHEBI:33694 ! biomacromolecule is_a: CHEBI:63299 ! carbohydrate derivative property_value: IAO:0000412 http://purl.obolibrary.org/obo/go/extensions/chebi-lite.owl [Term] id: CL:0001039 name: terminally differentiated osteoblast namespace: cl def: "Osteoblast that is terminally differentiated, located adjacent to acellular or cellular bone tissue within periosteum, and is capable of mineralizing the matrix." [VSAO:curator] xref: VSAO:0000116 is_a: CL:0000062 ! osteoblast [Term] id: CL:0001040 name: non-terminally differentiated osteoblast namespace: cl def: "Osteoblast that is non-terminally differentiated and located in cellular bone tissue or under the periosteum in acellular bone." [VSAO:curator] comment: VSAO relationship simplified OBO_REL:integral_part_of VSAO:0000118 xref: VSAO:0000117 is_a: CL:0000062 ! osteoblast is_a: CL:0001035 ! bone cell relationship: part_of UBERON:0002481 ! bone tissue [Term] id: CL:0007012 name: non-terminally differentiated odontoblast namespace: cl def: "Odontoblast that non-terminally differentiated, located in the odontogenic papilla and dentine tissue, and transforms from a odontoblast cell." [GO_REF:0000034, PSPUB:0000170] is_a: CL:0000060 ! odontoblast [Term] id: CL:0007013 name: terminally differentiated odontoblast namespace: cl def: "Odontoblast that is terminally differentiated and derived from an odontogenic papilla and associated with dentine." [GO_REF:0000034] is_a: CL:0000060 ! odontoblast [Term] id: CL:0009000 name: sensory neuron of spinal nerve namespace: cl def: "A sensory neuron of the spinal nerve that senses body position and sends information about how much the muscle is stretched to the spinal cord." [GOC:nv, GOC:pr] synonym: "spinal sensory neuron" EXACT [] is_a: CL:0000101 ! sensory neuron relationship: part_of UBERON:0001780 ! spinal nerve [Term] id: CL:0011000 name: dorsal horn interneuron namespace: cl def: "A CNS interneuron located in the dorsal horn of the spinal cord." [GOC:nv] synonym: "dorsal spinal cord interneuron" RELATED [] is_a: CL:0002611 ! neuron of the dorsal spinal cord is_a: CL:0005000 ! spinal cord interneuron relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: CL:0011001 name: spinal cord motor neuron namespace: cl def: "A motor neuron that passes from the spinal cord toward or to a muscle and conducts an impulse that causes movement." [GOC:nv] is_a: CL:0000100 ! motor neuron relationship: part_of UBERON:0002240 ! spinal cord [Term] id: CL:0011002 name: lateral motor column neuron namespace: cl def: "A motor neuron that is generated only on limb levels and send axons into the limb mesenchyme." [GOC:nv] comment: Need to MIREOT in 'spinal cord lateral column' from Uberon is_a: CL:0011001 ! spinal cord motor neuron [Term] id: CL:0011003 name: magnocellular neurosecretory cell namespace: cl def: "A neurosecretory neuron residing mainly in the hypothalamic supraoptic and paraventricular nuclei and in a number of smaller accessory cell groups between these two nuclei, that secretes the hormones oxytocin and vasopressin." [GOC:nv, MP:0009467] synonym: "magnocellular neuron" EXACT [] is_a: CL:0000381 ! neurosecretory neuron relationship: part_of UBERON:0001930 ! paraventricular nucleus of hypothalamus relationship: part_of UBERON:0006568 ! hypothalamic nucleus [Term] id: CL:0011004 name: lens fiber cell namespace: cl def: "A vetebrate lens cell that is any of the elongated, tightly packed cells that make up the bulk of the mature lens in a camera-type eye." [GO:0070307, GOC:nv] synonym: "lens fibre cell" EXACT [] is_a: CL:0002222 ! vertebrate lens cell [Term] id: CL:0011005 name: GABAergic interneuron namespace: cl def: "An interneuron that uses GABA as a vesicular neurotransmitter." [GOC:nv] is_a: CL:0000617 ! GABAergic neuron [Term] id: CL:0011006 name: lugaro cell namespace: cl def: "An inhibitory GABAergic interneuron found in the cerebellar cortex." [GOC:nv] is_a: CL:0011005 ! GABAergic interneuron [Term] id: CL:1001434 name: olfactory bulb interneuron namespace: cl def: "A neuron residing in the olfactory bulb that serve to process and refine signals arising from olfactory sensory neurons" [PMID:18603310] is_a: CL:0000101 ! sensory neuron is_a: CL:0000402 ! CNS interneuron is_a: CL:0012001 ! neuron of the forebrain relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: CL:1001435 name: periglomerular cell namespace: cl def: "the small neuron in the glomerular layer of the olfactory bulb whose dendrites arborize within a glomerulus, where it receives synaptic input from olfactory receptor cell axon terminals, and also engages in dendrodendritic interactions with mitral and tufted cell dendrites; uses both GABA and dopamine as a neurotransmitter" [MP:0009943] synonym: "glomerular layer cell" EXACT [NIF_Cell:nifext_122] synonym: "olfactory bulb (accessory) glomerular layer cell" EXACT [NIF_Cell:nifext_122] synonym: "olfactory bulb glomerular layer cell" EXACT [NIF_Cell:nifext_122] synonym: "olfactory bulb glomerularal cell" EXACT [MP:0009943] synonym: "periglomerular cell" EXACT [NIF_Cell:nifext_122] xref: BTO:0003796 xref: NIF_Cell:nifext_122 is_a: CL:1001434 ! olfactory bulb interneuron relationship: part_of UBERON:0005377 ! olfactory bulb glomerular layer [Term] id: CL:1001436 name: hair-tylotrich neuron namespace: cl def: "the subcutaneous mechanoreceptors that innervate tylotrich hair follicles" [MP:0000977] is_a: CL:0002487 ! cutaneous/subcutaneous mechanoreceptor cell [Term] id: CL:1001437 name: hair-down neuron namespace: cl def: "the subcutaneous mechanoreceptors that innervate vellus hairs" [MP:0000979] is_a: CL:0002487 ! cutaneous/subcutaneous mechanoreceptor cell [Term] id: CL:1001451 name: sensory neuron of dorsal root ganglion namespace: cl def: "A sensory neuron of the dorsal root ganglia that senses body position and sends information about how much the muscle is stretched to the spinal cord." [MP:0004297] synonym: "proprioceptive neuron" EXACT [MP:0004297] is_a: CL:0009000 ! sensory neuron of spinal nerve relationship: part_of UBERON:0000044 ! dorsal root ganglion [Term] id: CL:1001474 name: medium spiny neuron namespace: cl def: "the inhibitory projection neurons located in the striatum that integrate glutamatergic signals arising from the cerebral cortex and thalamus" [MP:0008462] synonym: "medium-sized densely spiny neuron" RELATED [BTO:0004778] xref: BTO:0004778 is_a: CL:0000540 ! neuron relationship: part_of UBERON:0000369 ! corpus striatum [Term] id: CL:1001502 name: mitral cell namespace: cl def: "the large glutaminergic nerve cells whose dendrites synapse with axons of the olfactory receptor neurons in the glomerular layer of the olfactory bulb, and whose axons pass centrally in the olfactory tract to the olfactory cortex" [MP:0009954] is_a: CL:1001434 ! olfactory bulb interneuron relationship: part_of UBERON:0004186 ! olfactory bulb mitral cell layer [Term] id: CL:1001503 name: olfactory bulb tufted cell namespace: cl def: "the principal glutaminergic neuron located in the outer third of the external plexiform layer of the olfactory bulb; a single short primary dendrite traverses the outer external plexiform layer and terminates within an olfactory glomerulus in a tuft of branches, where it receives the input from olfactory receptor neuron axon terminals; axons of the tufted cells transfer information to a number of areas in the brain, including the piriform cortex, entorhinal cortex, olfactory tubercle, and amygdala" [MP:0009955] is_a: CL:0000540 ! neuron relationship: part_of UBERON:0005376 ! olfactory bulb external plexiform layer [Term] id: CL:1001505 name: parvocellular neurosecretory cell namespace: cl def: "the secretory neurons of the paraventricular nucleus that synthesize and secrete vasopressin, corticotropin-releasing factor (CRF) and thyrotropin-releasing hormone (TRH) into blood vessels in the hypothalamo-pituitary portal system" [MP:0010125] is_a: CL:0000167 ! peptide hormone secreting cell is_a: CL:0000540 ! neuron relationship: part_of UBERON:0001930 ! paraventricular nucleus of hypothalamus [Term] id: CL:1001509 name: glycinergic neuron namespace: cl def: "the neurons that utilize glycine as a neurotransmitter" [MP:0010385] is_a: CL:0000540 ! neuron [Term] id: CL:1001516 name: intestinal enteroendocrine cell namespace: cl def: "the various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the intestinal tract" [MP:0010802] is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000510 ! paneth cell relationship: part_of UBERON:0001242 ! intestinal mucosa [Term] id: CL:1001517 name: stomach enteroendocrine cell namespace: cl def: "the various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the stomach" [MP:0010803] is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0002659 ! glandular cell of stomach relationship: part_of UBERON:0001160 ! fundus of stomach [Term] id: CL:1001561 name: vomeronasal sensory neuron namespace: cl def: "chemosensitive cells that innervate the vomernasal organ epithelium and are responsible for receiving and transmitting pheromone signals" [MP:0011679] is_a: CL:0000101 ! sensory neuron relationship: part_of UBERON:0002255 ! vomeronasal organ [Term] id: CL:1001566 name: bronchioalveolar stem cells namespace: cl def: "a respiratory stem cell found at the junction of the terminal (conductive) bronchiole and the respiratory bronchiole, which gives rise to alveolar cell types and Clara cells in response to lung injury." [MP:0011691] is_a: CL:0000034 ! stem cell relationship: part_of UBERON:0000115 ! lung epithelium [Term] id: CL:1001567 name: lung endothelial cell namespace: cl synonym: "endothelial cell of lung" RELATED [] synonym: "pulmonary vessel endothelial cell" RELATED [] is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0002139 ! endothelial cell of vascular tree relationship: part_of UBERON:0000102 ! lung vasculature relationship: part_of UBERON:0002048 ! lung [Term] id: CL:1001568 name: pulmonary artery endothelial cell namespace: cl synonym: "PAEC cell" RELATED [BTO:0001141] xref: BTO:0001141 is_a: CL:1000413 ! endothelial cell of artery relationship: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0005317 ! pulmonary artery endothelium [Term] id: CL:1001569 name: hippocampal interneuron namespace: cl def: "An interneuron of the hippocampus." [GOC:pr] xref: FMA:84777 is_a: CL:0000402 ! CNS interneuron is_a: CL:0002608 ! hippocampal neuron relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: CL:1001571 name: hippocampal pyramidal neuron namespace: cl def: "A pyramidal cell of the hippocampus." [GOC:pr, PMID:19342486] synonym: "hippocampus (CA) pyramidal cell" EXACT [NIF_Cell:sao131261273] synonym: "hippocampus (CA) pyramidal neuron" EXACT [NIF_Cell:sao131261273] xref: NIF_Cell:sao131261273 xref: SAO:sao131261273 is_a: CL:0000598 ! pyramidal cell is_a: CL:0002608 ! hippocampal neuron relationship: part_of UBERON:0001954 ! Ammon's horn relationship: part_of UBERON:0002313 ! hippocampus pyramidal layer [Typedef] id: capable_of name: capable_of namespace: cl xref: RO:0002215 [Typedef] id: has_part name: has_part namespace: anatomical_entity_ontology is_transitive: true inverse_of: part_of ! part of xref: BFO:0000051 [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: negatively_regulates name: negatively_regulates namespace: gene_ontology xref: RO:0002212 is_a: regulates ! regulates property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Typedef] id: occurs_in name: occurs in namespace: gene_ontology xref: BFO:0000066 property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Typedef] id: positively_regulates name: positively_regulates namespace: gene_ontology xref: RO:0002213 is_a: regulates ! regulates property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Typedef] id: regulates name: regulates namespace: gene_ontology xref: RO:0002211 property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: EHDAA2:0000003 name: human conceptus extraembryonic component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0004716 ! conceptus [Term] id: EHDAA2:0000048 name: future external epithelium of eardrum (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005872 ! 1st arch pharyngeal cleft relationship: part_of UBERON:0001691 ! external ear [Term] id: EHDAA2:0000105 name: dorsal pancreas head pancreatic duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005429 ! dorsal pancreatic duct relationship: part_of EHDAA2:0001375 ! dorsal pancreas head (embryonic human) [Term] id: EHDAA2:0000115 name: amnioblasts (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007573 ! migrating epithelium relationship: develops_from UBERON:0008780 ! inner cell mass derived epiblast relationship: part_of UBERON:0008780 ! inner cell mass derived epiblast [Term] id: EHDAA2:0000120 name: amniotic duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0000301 ! amniotic cavity relationship: part_of UBERON:0000301 ! amniotic cavity [Term] id: EHDAA2:0000135 name: aortic valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004186 ! aortico-pulmonary spiral septum mesenchyme (embryonic human) relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0002137 ! aortic valve [Term] id: EHDAA2:0000151 name: atlas cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004005 ! atlas pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0000156 name: auditory hillocks associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005689 ! 2nd arch mesenchyme relationship: develops_from UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0006208 ! auditory hillocks [Term] id: EHDAA2:0000157 name: auditory hillocks surface epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0006208 ! auditory hillocks [Term] id: EHDAA2:0000162 name: axis cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004002 ! vertebra C6 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0000169 name: mitral valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0002062 ! endocardial cushion relationship: part_of UBERON:0002135 ! mitral valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0000170 name: early biliary bud (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0009550 ! endoderm of foregut-midgut junction relationship: located_in UBERON:0009483 ! mesentery of foregut-midgut junction relationship: part_of UBERON:0002423 ! hepatobiliary system relationship: part_of UBERON:0006235 ! foregut-midgut junction [Term] id: EHDAA2:0000207 name: caecum associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009478 ! associated mesenchyme of midgut relationship: part_of UBERON:0001153 ! caecum [Term] id: EHDAA2:0000214 name: cardiogenic splanchnopleure (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0004873 ! splanchnopleure [Term] id: EHDAA2:0000226 name: CNS cranial ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0003339 ! ganglion of central nervous system [Term] id: EHDAA2:0000229 name: rhombomere 01 cerebellum primordium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000230 ! early rhombomere 01 cerebellum primordium (embryonic human) relationship: part_of EHDAA2:0004370 ! rhombomere 01 alar plate (embryonic human) relationship: part_of UBERON:0013163 ! future cerebellum [Term] id: EHDAA2:0000230 name: early rhombomere 01 cerebellum primordium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001048 ! primordium relationship: develops_from EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) relationship: part_of EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) [Term] id: EHDAA2:0000235 name: paleopallium mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001986 ! telencephalon mantle layer (embryonic human) relationship: part_of EHDAA2:0004663 ! paleopallium (embryonic human) [Term] id: EHDAA2:0000236 name: paleopallium cortex marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001988 ! telencephalon marginal layer (embryonic human) relationship: part_of EHDAA2:0004663 ! paleopallium (embryonic human) [Term] id: EHDAA2:0000237 name: paleopallium cortex ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001996 ! telencephalon ventricular layer (embryonic human) relationship: part_of EHDAA2:0004663 ! paleopallium (embryonic human) [Term] id: EHDAA2:0000241 name: cervical vertebral pre-cartilage condensation group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0006072 ! cervical region of vertebral column [Term] id: EHDAA2:0000244 name: left ventricle chordae tendinae (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007475 ! matrix-based tissue relationship: develops_from UBERON:0009713 ! endocardium of left ventricle relationship: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002135 ! mitral valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0000265 name: cocycgeal vertebral pre-cartilage condensation group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0001350 ! coccyx [Term] id: EHDAA2:0000270 name: primitive heart tube common atrial chamber endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from UBERON:0002063 ! sinus venosus relationship: part_of EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) [Term] id: EHDAA2:0000281 name: left atrium endocardiium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000270 ! primitive heart tube common atrial chamber endocardium (embryonic human) relationship: part_of UBERON:0002079 ! left atrium relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0000283 name: left atrium future auricular region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002079 ! left atrium [Term] id: EHDAA2:0000284 name: left atrium future auricular region endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000281 ! left atrium endocardiium (embryonic human) relationship: part_of EHDAA2:0000283 ! left atrium future auricular region (embryonic human) relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0000285 name: left atrium future auricular region heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from UBERON:0003380 ! cardiac muscle of left atrium relationship: part_of EHDAA2:0000283 ! left atrium future auricular region (embryonic human) relationship: part_of UBERON:0002349 ! myocardium [Term] id: EHDAA2:0000298 name: right atrium future auricular region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002078 ! right atrium [Term] id: EHDAA2:0000299 name: right atrium future auricular region endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009129 ! right atrium endocardium relationship: part_of EHDAA2:0000298 ! right atrium future auricular region (embryonic human) relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0000309 name: common hepatic artery cystic branch (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0005436 ! common hepatic artery relationship: part_of UBERON:0005436 ! common hepatic artery [Term] id: EHDAA2:0000317 name: cornea posterior epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000487 ! simple squamous epithelium relationship: develops_from EHDAA2:0000318 ! corneal stroma mesenchyme (embryonic human) relationship: part_of UBERON:0000964 ! cornea relationship: part_of UBERON:0005638 ! anterior chamber epithelium [Term] id: EHDAA2:0000318 name: corneal stroma mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0003314 ! eye mesenchyme relationship: part_of UBERON:0000964 ! cornea [Term] id: EHDAA2:0000321 name: costal pre-cartilage condensation group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0006073 ! thoracic region of vertebral column [Term] id: EHDAA2:0000335 name: polar trophectoderm cytotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000486 ! multilaminar epithelium relationship: develops_from UBERON:0006280 ! polar trophectoderm relationship: part_of UBERON:0004345 ! trophectoderm [Term] id: EHDAA2:0000336 name: mural trophectoderm cytotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000486 ! multilaminar epithelium relationship: develops_from UBERON:0006265 ! mural trophectoderm relationship: part_of UBERON:0004345 ! trophectoderm [Term] id: EHDAA2:0000338 name: degenerating mesonephros (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000127 ! apoptosing developing anatomical entity relationship: develops_from UBERON:0000080 ! mesonephros relationship: part_of UBERON:0001008 ! excretory system [Term] id: EHDAA2:0000341 name: dermomyotome 01 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001849 ! somite 01 (embryonic human) relationship: part_of EHDAA2:0003444 ! head dermomyotome group (embryonic human) [Term] id: EHDAA2:0000342 name: dermomyotome 02 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001850 ! somite 02 (embryonic human) relationship: part_of EHDAA2:0003444 ! head dermomyotome group (embryonic human) [Term] id: EHDAA2:0000343 name: dermomyotome 03 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001851 ! somite 03 (embryonic human) relationship: part_of EHDAA2:0003444 ! head dermomyotome group (embryonic human) [Term] id: EHDAA2:0000344 name: dermomyotome 04 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001852 ! somite 04 (embryonic human) relationship: part_of EHDAA2:0003444 ! head dermomyotome group (embryonic human) [Term] id: EHDAA2:0000345 name: dermomyotome 05 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001853 ! somite 05 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000346 name: dermomyotome 06 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001854 ! somite 06 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000347 name: dermomyotome 07 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001855 ! somite 07 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000348 name: dermomyotome 08 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001856 ! somite 08 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000349 name: dermomyotome 09 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001857 ! somite 09 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000350 name: dermomyotome 10 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001858 ! somite 10 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000351 name: dermomyotome 11 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001859 ! somite 11 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000352 name: dermomyotome 12 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001860 ! somite 12 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000353 name: dermomyotome 13 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001861 ! somite 13 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000354 name: dermomyotome 14 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001862 ! somite 14 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000355 name: dermomyotome 15 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001863 ! somite 15 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000356 name: dermomyotome 16 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001864 ! somite 16 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000357 name: dermomyotome 17 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001865 ! somite 17 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000358 name: dermomyotome 18 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001866 ! somite 18 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000359 name: dermomyotome 19 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001867 ! somite 19 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000360 name: dermomyotome 20 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001868 ! somite 20 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000361 name: dermomyotome 21 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001869 ! somite 21 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000362 name: dermomyotome 22 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001870 ! somite 22 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000363 name: dermomyotome 23 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001871 ! somite 23 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000364 name: dermomyotome 24 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001872 ! somite 24 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000365 name: dermomyotome 25 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001873 ! somite 25 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000366 name: dermomyotome 26 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001874 ! somite 26 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000367 name: dermomyotome 27 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001875 ! somite 27 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000368 name: dermomyotome 28 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001876 ! somite 28 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000369 name: dermomyotome 29 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001877 ! somite 29 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000370 name: dermomyotome 30 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001878 ! somite 30 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000371 name: dermomyotome 31 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001879 ! somite 31 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000372 name: dermomyotome 32 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001880 ! somite 32 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000373 name: dermomyotome 33 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001881 ! somite 33 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000374 name: dermomyotome 34 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001882 ! somite 34 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000375 name: dermomyotome 35 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001883 ! somite 35 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000376 name: dermomyotome 36 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001884 ! somite 36 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000377 name: dermomyotome 37 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001885 ! somite 37 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000378 name: dermomyotome 38 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001886 ! somite 38 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000379 name: dermomyotome 39 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0004290 ! dermomyotome relationship: develops_from EHDAA2:0001887 ! somite 39 (embryonic human) relationship: part_of EHDAA2:0003426 ! trunk and cervical dermomyotome group (embryonic human) [Term] id: EHDAA2:0000389 name: diencephalon future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000390 ! diencephalon primary meninx future arachnoid layer (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) relationship: part_of UBERON:0003290 ! meninx of diencephalon [Term] id: EHDAA2:0000390 name: diencephalon primary meninx future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000401 ! diencephalon primary meninx (embryonic human) relationship: part_of EHDAA2:0000401 ! diencephalon primary meninx (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) [Term] id: EHDAA2:0000391 name: diencephalon future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000392 ! diencephalon primary meninx future dura mater (embryonic human) relationship: part_of UBERON:0003290 ! meninx of diencephalon relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000392 name: diencephalon primary meninx future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of EHDAA2:0000401 ! diencephalon primary meninx (embryonic human) relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000393 name: diencephalon future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) relationship: part_of UBERON:0003290 ! meninx of diencephalon [Term] id: EHDAA2:0000394 name: diencephalon primary meninx future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: part_of EHDAA2:0000401 ! diencephalon primary meninx (embryonic human) relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) [Term] id: EHDAA2:0000398 name: diencephalon marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004465 ! diencephalon D1 mantle layer (embryonic human) relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of UBERON:0005591 ! diencephalon lateral wall [Term] id: EHDAA2:0000401 name: diencephalon primary meninx (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: part_of EHDAA2:0004453 ! primary meninx (embryonic human) relationship: part_of UBERON:0003290 ! meninx of diencephalon [Term] id: EHDAA2:0000403 name: diencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004464 ! diencephalon D1 ventricular layer (embryonic human) relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of UBERON:0005591 ! diencephalon lateral wall [Term] id: EHDAA2:0000405 name: digital region apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0006872 ! handplate apical ectodermal ridge relationship: part_of UBERON:0002389 ! manual digit [Term] id: EHDAA2:0000426 name: primitive heart tube endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0004067 ! endocardiogenic tissue (embryonic human) relationship: part_of UBERON:0005498 ! primitive heart tube [Term] id: EHDAA2:0000427 name: primitive heart tube myocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0004139 ! cardiogenic plate relationship: part_of UBERON:0005498 ! primitive heart tube [Term] id: EHDAA2:0000438 name: early endolymphatic appendage (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0003051 ! ear vesicle relationship: part_of UBERON:0003051 ! ear vesicle [Term] id: EHDAA2:0000458 name: extensor leg muscle group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0004466 ! musculature of leg [Term] id: EHDAA2:0000471 name: extraembryonic arterial system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0000478 ! extraembryonic structure relationship: part_of EHDAA2:0000478 ! extraembryonic vascular system (embryonic human) [Term] id: EHDAA2:0000478 name: extraembryonic vascular system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0002331 ! umbilical cord [Term] id: EHDAA2:0000479 name: extraembryonic venous system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0000478 ! extraembryonic structure relationship: part_of EHDAA2:0000478 ! extraembryonic vascular system (embryonic human) [Term] id: EHDAA2:0000502 name: female nephric duct (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0003074 ! mesonephric duct relationship: part_of UBERON:0000474 ! female reproductive system [Term] id: EHDAA2:0000503 name: female nephric duct lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005082 ! tube lumen relationship: located_in EHDAA2:0000502 ! female nephric duct (embryonic human) [Term] id: EHDAA2:0000542 name: flexor leg muscle group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0004466 ! musculature of leg [Term] id: EHDAA2:0000558 name: lower foregut region associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of EHDAA2:0004068 ! lower foregut region (embryonic human) [Term] id: EHDAA2:0000561 name: foregut duodenum associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000558 ! lower foregut region associated mesenchyme (embryonic human) relationship: part_of UBERON:0003286 ! foregut region of duodenum [Term] id: EHDAA2:0000592 name: brain neural ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0002346 ! neurectoderm relationship: part_of UBERON:0002346 ! neurectoderm [Term] id: EHDAA2:0000597 name: future crura (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0001286 ! oesophagus associated mesenchyme (embryonic human) relationship: part_of UBERON:0010084 ! future diaphragm [Term] id: EHDAA2:0000601 name: future diencephalon D2 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004427 ! future diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0000602 name: future diencephalon D2 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004427 ! future diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0000605 name: future diencephalon D2 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004427 ! future diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0000612 name: inferior vena cava post-hepatic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006300 ! supracardinal vein relationship: develops_from UBERON:0013125 ! left subcardinal vein relationship: part_of UBERON:0001072 ! inferior vena cava [Term] id: EHDAA2:0000613 name: inferior vena cava pre-hepatic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0001728 ! hepato-cardiac vein right (embryonic human) relationship: part_of UBERON:0001072 ! inferior vena cava [Term] id: EHDAA2:0000616 name: mesencephalon floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: EHDAA2:0000617 name: mesencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000620 ! mesencephalon neural fold (embryonic human) relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: EHDAA2:0000620 name: mesencephalon neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: EHDAA2:0000621 name: mesencephalon roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000620 ! mesencephalon neural fold (embryonic human) relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: EHDAA2:0000625 name: future metencephalon alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002020 ! gray matter of neuraxis relationship: part_of EHDAA2:0000626 ! future metencephalon mantle layer (embryonic human) [Term] id: EHDAA2:0000626 name: future metencephalon mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000635 ! future metencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0000635 ! future metencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000627 name: future metencephalon marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: part_of EHDAA2:0000635 ! future metencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000628 name: future metencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: part_of EHDAA2:0000635 ! future metencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000629 name: future metencephalon basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002020 ! gray matter of neuraxis relationship: part_of EHDAA2:0000626 ! future metencephalon mantle layer (embryonic human) [Term] id: EHDAA2:0000634 name: future metencephalon floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: part_of UBERON:0010092 ! future metencephalon [Term] id: EHDAA2:0000635 name: future metencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of UBERON:0010092 ! future metencephalon [Term] id: EHDAA2:0000637 name: future metencephalon roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: part_of UBERON:0010092 ! future metencephalon [Term] id: EHDAA2:0000638 name: future metencephalon sulcus limitans (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0006846 ! groove relationship: located_in EHDAA2:0000635 ! future metencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000642 name: future myelencephalon alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) [Term] id: EHDAA2:0000647 name: future myelencephalon mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of EHDAA2:0000651 ! future myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000648 name: future myelencephalon marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: part_of EHDAA2:0000651 ! future myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000649 name: future myelencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: part_of EHDAA2:0000651 ! future myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000650 name: future myelencephalon floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: part_of UBERON:0010096 ! future myelencephalon [Term] id: EHDAA2:0000651 name: future myelencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of UBERON:0010096 ! future myelencephalon [Term] id: EHDAA2:0000652 name: future myelencephalon roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: part_of UBERON:0010096 ! future myelencephalon [Term] id: EHDAA2:0000653 name: future myelencephalon sulcus limitans (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0006846 ! groove relationship: part_of EHDAA2:0000651 ! future myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000662 name: future telencephalon floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000663 ! future telencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0004424 ! future telencephalon (embryonic human) [Term] id: EHDAA2:0000663 name: future telencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004424 ! future telencephalon (embryonic human) [Term] id: EHDAA2:0000665 name: prosencephalon neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of UBERON:0006240 ! future forebrain [Term] id: EHDAA2:0000672 name: future sigmoid sinus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006282 ! primary head vein relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: EHDAA2:0000677 name: early spinal cord meningeal covering (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of UBERON:0003292 ! meninx of spinal cord relationship: part_of UBERON:0010743 ! meningeal cluster [Term] id: EHDAA2:0000690 name: hindbrain future tentorium cerebelli (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000753 ! hindbrain primary meninx future dura mater (embryonic human) relationship: part_of UBERON:0003291 ! meninx of hindbrain relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000691 name: hindbrain primary meninx future tentorium cerebelli (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000693 name: dorsal thalamus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: EHDAA2:0000694 name: dorsal thalamus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000693 ! dorsal thalamus mantle layer (embryonic human) relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: EHDAA2:0000695 name: dorsal thalamus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: EHDAA2:0000717 name: indifferent gonad associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005323 ! mesonephric mesenchyme relationship: part_of UBERON:0009117 ! indifferent gonad [Term] id: EHDAA2:0000718 name: indifferent gonad mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from EHDAA2:0004049 ! gonadal ridge mesothelium (embryonic human) relationship: part_of UBERON:0009117 ! indifferent gonad [Term] id: EHDAA2:0000737 name: head somite group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: develops_from UBERON:0009617 ! head paraxial mesoderm relationship: part_of UBERON:0009617 ! head paraxial mesoderm [Term] id: EHDAA2:0000750 name: hindbrain future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000751 ! hindbrain primary meninx future arachnoid layer (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) relationship: part_of UBERON:0003291 ! meninx of hindbrain [Term] id: EHDAA2:0000751 name: hindbrain primary meninx future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) [Term] id: EHDAA2:0000752 name: hindbrain future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000753 ! hindbrain primary meninx future dura mater (embryonic human) relationship: part_of UBERON:0003291 ! meninx of hindbrain relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000753 name: hindbrain primary meninx future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0000754 name: hindbrain future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) relationship: part_of UBERON:0003291 ! meninx of hindbrain [Term] id: EHDAA2:0000755 name: hindbrain primary meninx future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_from EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0000773 ! hindbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) [Term] id: EHDAA2:0000757 name: early isthmus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0010092 ! future metencephalon [Term] id: EHDAA2:0000758 name: early isthmus floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0004349 ! isthmus primordium floor plate (embryonic human) relationship: part_of EHDAA2:0000757 ! early isthmus (embryonic human) [Term] id: EHDAA2:0000759 name: early isthmus lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of EHDAA2:0000757 ! early isthmus (embryonic human) [Term] id: EHDAA2:0000760 name: early isthmus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004351 ! isthmus primordium lateral wall (embryonic human) relationship: part_of EHDAA2:0000759 ! early isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0000761 name: early isthmus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004386 ! isthmus primordium marginal layer (embryonic human) relationship: part_of EHDAA2:0000627 ! future metencephalon marginal layer (embryonic human) relationship: part_of EHDAA2:0000759 ! early isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0000765 name: early isthmus roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004350 ! isthmus primordium roof plate (embryonic human) relationship: part_of EHDAA2:0000757 ! early isthmus (embryonic human) [Term] id: EHDAA2:0000766 name: early isthmus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004351 ! isthmus primordium lateral wall (embryonic human) relationship: part_of EHDAA2:0000628 ! future metencephalon ventricular layer (embryonic human) relationship: part_of EHDAA2:0000759 ! early isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0000771 name: future hindbrain pia mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: part_of UBERON:0002361 ! pia mater relationship: part_of UBERON:0010091 ! future hindbrain meninges [Term] id: EHDAA2:0000773 name: hindbrain primary meninx (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: attached_to UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of EHDAA2:0004453 ! primary meninx (embryonic human) relationship: part_of UBERON:0003291 ! meninx of hindbrain [Term] id: EHDAA2:0000775 name: hindbrain venous sinus group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0005720 ! hindbrain venous system [Term] id: EHDAA2:0000800 name: hypopharyngeal eminence associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005690 ! 3rd arch mesenchyme relationship: develops_from UBERON:0005691 ! 4th arch mesenchyme relationship: part_of UBERON:0010057 ! hypopharyngeal eminence [Term] id: EHDAA2:0000801 name: hypopharyngeal eminence epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005665 ! 3rd arch endoderm relationship: develops_from UBERON:0007125 ! pharyngeal pouch 4 relationship: part_of UBERON:0010057 ! hypopharyngeal eminence [Term] id: EHDAA2:0000803 name: hypothalamus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: EHDAA2:0000804 name: hypothalamus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000803 ! hypothalamus mantle layer (embryonic human) relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: EHDAA2:0000805 name: hypothalamus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: EHDAA2:0000806 name: iliac anastomosis (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0009140 ! right subcardinal vein relationship: develops_from UBERON:0013125 ! left subcardinal vein relationship: part_of UBERON:0004344 ! cardinal vein [Term] id: EHDAA2:0000810 name: iliac sac (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0005610 ! iliac vein relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: EHDAA2:0000823 name: inferior parathyroid associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010255 ! 3rd arch mesenchyme from neural crest relationship: part_of UBERON:0006755 ! inferior parathyroid gland [Term] id: EHDAA2:0000839 name: interatrial septum foramen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004111 ! anatomical conduit relationship: located_in UBERON:0002085 ! interatrial septum [Term] id: EHDAA2:0000845 name: interdigital region between fingers 1 and 2 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0010332 ! epithelium of handplate relationship: part_of UBERON:0006026 ! interdigital region between manual digits 1 and 2 [Term] id: EHDAA2:0000848 name: interdigital region between fingers 2 and 3 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0010332 ! epithelium of handplate relationship: part_of UBERON:0006029 ! interdigital region between manual digits 2 and 3 [Term] id: EHDAA2:0000851 name: interdigital region between fingers 3 and 4 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0010332 ! epithelium of handplate relationship: part_of UBERON:0006032 ! interdigital region between manual digits 3 and 4 [Term] id: EHDAA2:0000854 name: interdigital region between fingers 4 and 5 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0010332 ! epithelium of handplate relationship: part_of UBERON:0006035 ! interdigital region between manual digits 4 and 5 [Term] id: EHDAA2:0000857 name: interdigital region between toes 1 and 2 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0006038 ! interdigital region between pedal digits 1 and 2 [Term] id: EHDAA2:0000860 name: interdigital region between toes 2 and 3 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0006041 ! interdigital region between pedal digits 2 and 3 [Term] id: EHDAA2:0000863 name: interdigital region between toes 3 and 4 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0006044 ! interdigital region between pedal digits 3 and 4 [Term] id: EHDAA2:0000866 name: interdigital region between toes 4 and 5 epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0003248 ! epithelium of footplate relationship: part_of UBERON:0006047 ! interdigital region between pedal digits 4 and 5 [Term] id: EHDAA2:0000869 name: intermaxillary process mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0009204 ! medial nasal process mesenchyme relationship: develops_from UBERON:0009205 ! lateral nasal process mesenchyme relationship: part_of UBERON:0009714 ! intermaxillary process [Term] id: EHDAA2:0000870 name: intermaxillary process surface ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005233 ! medial-nasal process ectoderm relationship: develops_from UBERON:0009206 ! lateral nasal process surface ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0009714 ! intermaxillary process [Term] id: EHDAA2:0000894 name: jugular sac (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0009771 ! left anterior cardinal vein relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: EHDAA2:0000912 name: lateral lingual swelling associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0006757 ! lateral lingual swelling [Term] id: EHDAA2:0000923 name: myelencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000651 ! future myelencephalon lateral wall (embryonic human) relationship: part_of UBERON:0005290 ! myelencephalon [Term] id: EHDAA2:0000924 name: myelencephalon alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0000930 ! myelencephalon mantle layer (embryonic human) [Term] id: EHDAA2:0000926 name: myelencephalon marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of EHDAA2:0000923 ! myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000927 name: myelencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of EHDAA2:0000923 ! myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000929 name: myelencephalon basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0009579 ! myelencephalon basal plate relationship: part_of EHDAA2:0000930 ! myelencephalon mantle layer (embryonic human) [Term] id: EHDAA2:0000930 name: myelencephalon mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of EHDAA2:0000923 ! myelencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0000938 name: extraembryonic umbilical vein left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0011921 ! connecting stalk blood islands relationship: part_of EHDAA2:0000479 ! extraembryonic venous system (embryonic human) relationship: part_of UBERON:0007807 ! connecting stalk blood vessel [Term] id: EHDAA2:0000939 name: extraembryonic vitelline artery left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001637 ! artery relationship: develops_from EHDAA2:0004510 ! angioblast clusters (embryonic human) relationship: part_of EHDAA2:0000471 ! extraembryonic arterial system (embryonic human) [Term] id: EHDAA2:0000940 name: extraembryonic vitelline vein left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004510 ! angioblast clusters (embryonic human) relationship: part_of EHDAA2:0000479 ! extraembryonic venous system (embryonic human) [Term] id: EHDAA2:0000942 name: hepato-cardiac vein left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0005460 ! left vitelline vein relationship: part_of EHDAA2:0004543 ! body veins (embryonic human) relationship: part_of UBERON:0002423 ! hepatobiliary system [Term] id: EHDAA2:0000946 name: left lung lower lobe associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009602 ! left lung associated mesenchyme relationship: part_of UBERON:0008953 ! lower lobe of left lung [Term] id: EHDAA2:0000949 name: left lung lower lobe epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0005673 ! left lung endothelium relationship: part_of EHDAA2:0004095 ! left lung lower lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000950 name: left lung lower lobe lobar bronchus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000949 ! left lung lower lobe epithelium (embryonic human) relationship: develops_from UBERON:0002340 ! epithelium of main bronchus relationship: part_of EHDAA2:0004095 ! left lung lower lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000951 name: left lung lower lobe segmental bronchi (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000949 ! left lung lower lobe epithelium (embryonic human) relationship: part_of EHDAA2:0004095 ! left lung lower lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000952 name: left lung lower lobe segmental bronchus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000949 ! left lung lower lobe epithelium (embryonic human) relationship: part_of EHDAA2:0004095 ! left lung lower lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000954 name: left lung upper lobe associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009602 ! left lung associated mesenchyme relationship: part_of UBERON:0008952 ! upper lobe of left lung [Term] id: EHDAA2:0000957 name: left lung upper lobe epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0005673 ! left lung endothelium relationship: part_of EHDAA2:0004096 ! left lung upper lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000958 name: left lung upper lobe lobar bronchus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000957 ! left lung upper lobe epithelium (embryonic human) relationship: part_of EHDAA2:0004096 ! left lung upper lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000959 name: left lung upper lobe segmental bronchi (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000957 ! left lung upper lobe epithelium (embryonic human) relationship: part_of EHDAA2:0004096 ! left lung upper lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000960 name: left lung upper lobe segmental bronchus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0000957 ! left lung upper lobe epithelium (embryonic human) relationship: part_of EHDAA2:0004096 ! left lung upper lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0000968 name: left venous valve (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003978 ! valve relationship: part_of UBERON:0005208 ! right atrium valve [Term] id: EHDAA2:0000969 name: vitelline arterial plexus left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0000939 ! extraembryonic vitelline artery left (embryonic human) relationship: part_of UBERON:0006002 ! vitelline artery [Term] id: EHDAA2:0000970 name: vitelline artery left (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from EHDAA2:0000939 ! extraembryonic vitelline artery left (embryonic human) relationship: develops_from EHDAA2:0000969 ! vitelline arterial plexus left (embryonic human) relationship: part_of UBERON:0006002 ! vitelline artery [Term] id: EHDAA2:0000980 name: early lens fibres (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005656 ! lens vesicle epithelium relationship: part_of UBERON:0005426 ! lens vesicle [Term] id: EHDAA2:0000994 name: limb system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0000922 ! embryo [Term] id: EHDAA2:0001003 name: liver left lobe primitive bare area (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000015 ! anatomical boundary relationship: located_in UBERON:0001115 ! left lobe of liver [Term] id: EHDAA2:0001011 name: liver right lobe primitive bare area (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000015 ! anatomical boundary relationship: located_in UBERON:0001114 ! right lobe of liver [Term] id: EHDAA2:0001039 name: lumbar vertebral pre-cartilage condensation group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0006074 ! lumbar region of vertebral column [Term] id: EHDAA2:0001050 name: male nephric duct (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000175 ! male anatomical structure is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0003074 ! mesonephric duct relationship: part_of UBERON:0000079 ! male reproductive system [Term] id: EHDAA2:0001051 name: male nephric duct lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005082 ! tube lumen relationship: located_in EHDAA2:0001050 ! male nephric duct (embryonic human) [Term] id: EHDAA2:0001060 name: mandibular artery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0001616 ! maxillary artery relationship: part_of EHDAA2:0004521 ! head arteries (embryonic human) [Term] id: EHDAA2:0001083 name: median lingual swelling associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0006756 ! median lingual swelling [Term] id: EHDAA2:0001085 name: median lingual swelling epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0013156 ! 1st arch mandibular endoderm relationship: part_of UBERON:0006756 ! median lingual swelling [Term] id: EHDAA2:0001090 name: medulla oblongata alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0000924 ! myelencephalon alar plate (embryonic human) relationship: part_of UBERON:0005240 ! basal plate medulla oblongata [Term] id: EHDAA2:0001091 name: medulla oblongata marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000926 ! myelencephalon marginal layer (embryonic human) relationship: part_of EHDAA2:0001098 ! medulla oblongata lateral wall (embryonic human) [Term] id: EHDAA2:0001094 name: medulla oblongata basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0000929 ! myelencephalon basal plate (embryonic human) relationship: part_of UBERON:0005240 ! basal plate medulla oblongata [Term] id: EHDAA2:0001096 name: medulla oblongata ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000927 ! myelencephalon ventricular layer (embryonic human) relationship: part_of EHDAA2:0001098 ! medulla oblongata lateral wall (embryonic human) [Term] id: EHDAA2:0001098 name: medulla oblongata lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000923 ! myelencephalon lateral wall (embryonic human) relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: EHDAA2:0001124 name: mesenteric sac (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0001138 ! superior mesenteric vein relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: EHDAA2:0001129 name: mesonephric artery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0005599 ! common dorsal aorta relationship: part_of EHDAA2:0004503 ! body arteries (embryonic human) relationship: part_of UBERON:0001008 ! excretory system [Term] id: EHDAA2:0001141 name: metanephros drainage component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0000084 ! ureteric bud relationship: part_of UBERON:0000081 ! metanephros [Term] id: EHDAA2:0001142 name: metanephros excretory component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0000081 ! metanephros [Term] id: EHDAA2:0001145 name: metanephros medullary stroma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0010531 ! metanephros induced blastemal cells relationship: part_of UBERON:0000081 ! metanephros [Term] id: EHDAA2:0001146 name: metanephros medullary tubules (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0010535 ! primitive metanephric nephron relationship: part_of EHDAA2:0001142 ! metanephros excretory component (embryonic human) relationship: part_of EHDAA2:0001145 ! metanephros medullary stroma (embryonic human) [Term] id: EHDAA2:0001147 name: metanephros primitive collecting ducts (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0000084 ! ureteric bud relationship: part_of EHDAA2:0001141 ! metanephros drainage component (embryonic human) [Term] id: EHDAA2:0001150 name: pons alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004370 ! rhombomere 01 alar plate (embryonic human) relationship: develops_from EHDAA2:0004387 ! rhombomere 03 alar plate (embryonic human) relationship: develops_from EHDAA2:0004389 ! rhombomere 02 alar plate (embryonic human) relationship: develops_from EHDAA2:0004391 ! early isthmus alar plate (embryonic human) relationship: part_of UBERON:0005239 ! basal plate metencephalon [Term] id: EHDAA2:0001151 name: cerebellum mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium relationship: develops_from EHDAA2:0004370 ! rhombomere 01 alar plate (embryonic human) relationship: develops_from EHDAA2:0004391 ! early isthmus alar plate (embryonic human) relationship: part_of EHDAA2:0004404 ! cerebellum lateral wall (embryonic human) [Term] id: EHDAA2:0001152 name: cerebellum marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000761 ! early isthmus marginal layer (embryonic human) relationship: develops_from EHDAA2:0001643 ! rhombomere 01 marginal layer (embryonic human) relationship: part_of EHDAA2:0004404 ! cerebellum lateral wall (embryonic human) [Term] id: EHDAA2:0001153 name: cerebellum ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000766 ! early isthmus ventricular layer (embryonic human) relationship: develops_from EHDAA2:0001646 ! rhombomere 01 ventricular layer (embryonic human) relationship: part_of EHDAA2:0004404 ! cerebellum lateral wall (embryonic human) [Term] id: EHDAA2:0001155 name: pons basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004371 ! rhombomere 01 basal plate (embryonic human) relationship: develops_from EHDAA2:0004388 ! rhombomere 03 basal plate (embryonic human) relationship: develops_from EHDAA2:0004390 ! rhombomere 02 basal plate (embryonic human) relationship: part_of UBERON:0005239 ! basal plate metencephalon [Term] id: EHDAA2:0001157 name: pons ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001646 ! rhombomere 01 ventricular layer (embryonic human) relationship: develops_from EHDAA2:0001656 ! rhombomere 02 ventricular layer (embryonic human) relationship: develops_from EHDAA2:0001666 ! rhombomere 03 ventricular layer (embryonic human) relationship: part_of EHDAA2:0001159 ! pons lateral wall (embryonic human) [Term] id: EHDAA2:0001159 name: pons lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of UBERON:0000988 ! pons [Term] id: EHDAA2:0001161416 name: pons sulcus limitans (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0006846 ! groove relationship: develops_from EHDAA2:0000638 ! future metencephalon sulcus limitans (embryonic human) relationship: located_in EHDAA2:0001159 ! pons lateral wall (embryonic human) [Term] id: EHDAA2:0001165 name: midbrain future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001166 ! midbrain primary meninx future arachnoid layer (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) relationship: part_of UBERON:0003288 ! meninx of midbrain [Term] id: EHDAA2:0001166 name: midbrain primary meninx future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) [Term] id: EHDAA2:0001167 name: midbrain future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001168 ! midbrain primary meninx future dura mater (embryonic human) relationship: part_of UBERON:0003288 ! meninx of midbrain relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0001168 name: midbrain primary meninx future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0001169 name: midbrain future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) relationship: part_of UBERON:0003288 ! meninx of midbrain [Term] id: EHDAA2:0001170 name: midbrain primary meninx future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_from EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0001176 ! midbrain primary meninx (embryonic human) relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) [Term] id: EHDAA2:0001173 name: midbrain marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0005495 ! midbrain lateral wall [Term] id: EHDAA2:0001176 name: midbrain primary meninx (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: part_of EHDAA2:0004453 ! primary meninx (embryonic human) relationship: part_of UBERON:0003288 ! meninx of midbrain [Term] id: EHDAA2:0001178 name: midbrain ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: part_of UBERON:0005495 ! midbrain lateral wall [Term] id: EHDAA2:0001184 name: middle sacral vein (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004526 ! body venous capillary plexus (embryonic human) relationship: part_of EHDAA2:0004543 ! body veins (embryonic human) [Term] id: EHDAA2:0001190 name: midgut duodenum associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009478 ! associated mesenchyme of midgut relationship: part_of UBERON:0003287 ! midgut region of duodenum [Term] id: EHDAA2:0001216 name: myelencephalon floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000650 ! future myelencephalon floor plate (embryonic human) relationship: part_of UBERON:0005290 ! myelencephalon [Term] id: EHDAA2:0001218 name: myelencephalon roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000652 ! future myelencephalon roof plate (embryonic human) relationship: part_of UBERON:0005290 ! myelencephalon [Term] id: EHDAA2:0001231 name: nasal mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0000869 ! intermaxillary process mesenchyme (embryonic human) relationship: develops_from UBERON:0009204 ! medial nasal process mesenchyme relationship: develops_from UBERON:0009205 ! lateral nasal process mesenchyme relationship: part_of UBERON:0000004 ! olfactory apparatus [Term] id: EHDAA2:0001235 name: nasal surface ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000870 ! intermaxillary process surface ectoderm (embryonic human) relationship: develops_from UBERON:0005233 ! medial-nasal process ectoderm relationship: develops_from UBERON:0009206 ! lateral nasal process surface ectoderm relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0000076 ! external ectoderm [Term] id: EHDAA2:0001240 name: nasopharynx associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: part_of UBERON:0001728 ! nasopharynx [Term] id: EHDAA2:0001250 name: cervical neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: AEO:0000217 ! migrating developing tissue relationship: develops_from EHDAA2:0004669 ! neural tube lateral wall (embryonic human) relationship: part_of UBERON:0002342 ! neural crest [Term] id: EHDAA2:0001251 name: trunk neural ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0002346 ! neurectoderm relationship: part_of UBERON:0002346 ! neurectoderm [Term] id: EHDAA2:0001259 name: neural tube lateral wall alar column (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0005883 ! neural tube lateral wall mantle layer relationship: part_of UBERON:0005883 ! neural tube lateral wall mantle layer [Term] id: EHDAA2:0001260 name: spinal cord lateral wall basal column (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0005496 ! neural tube lateral wall relationship: part_of UBERON:0005883 ! neural tube lateral wall mantle layer [Term] id: EHDAA2:0001263 name: spinal cord lateral wall marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from UBERON:0005883 ! neural tube lateral wall mantle layer relationship: part_of UBERON:0005496 ! neural tube lateral wall [Term] id: EHDAA2:0001267 name: spinal cord lateral wall ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from UBERON:0005496 ! neural tube lateral wall relationship: part_of UBERON:0005496 ! neural tube lateral wall [Term] id: EHDAA2:0001276 name: early nucleus pulposus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0002328 ! notochord relationship: part_of UBERON:0002090 ! postcranial axial skeleton [Term] id: EHDAA2:0001280 name: obturator internis (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002036 ! striated muscle tissue relationship: develops_from UBERON:0010963 ! trunk and cervical myotome group relationship: part_of UBERON:0004470 ! musculature of pelvic girdle [Term] id: EHDAA2:0001283 name: occipital neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007530 ! migrating mesenchyme population relationship: develops_from EHDAA2:0001567 ! pro-rhombomere d neural crest (embryonic human) relationship: part_of UBERON:0003852 ! rhombencephalon neural crest [Term] id: EHDAA2:0001286 name: oesophagus associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000558 ! lower foregut region associated mesenchyme (embryonic human) relationship: part_of UBERON:0001043 ! esophagus [Term] id: EHDAA2:0001290 name: olfactory cortex mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001986 ! telencephalon mantle layer (embryonic human) relationship: part_of UBERON:0002894 ! olfactory cortex [Term] id: EHDAA2:0001291 name: olfactory cortx marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001988 ! telencephalon marginal layer (embryonic human) relationship: part_of UBERON:0002894 ! olfactory cortex [Term] id: EHDAA2:0001292 name: olfactory cortex ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001996 ! telencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0002894 ! olfactory cortex [Term] id: EHDAA2:0001305 name: optic cup intraretinal space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007473 ! lumen of epithelial sac relationship: located_in UBERON:0003072 ! optic cup [Term] id: EHDAA2:0001323 name: retinal disc (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from UBERON:0004128 ! optic vesicle relationship: part_of UBERON:0004128 ! optic vesicle [Term] id: EHDAA2:0001334 name: otic neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007530 ! migrating mesenchyme population relationship: develops_from UBERON:0003849 ! mesencephalic neural crest relationship: part_of UBERON:0003099 ! cranial neural crest [Term] id: EHDAA2:0001345 name: otocyst pre-vestibular region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0003051 ! ear vesicle relationship: part_of UBERON:0003051 ! ear vesicle [Term] id: EHDAA2:0001346 name: otocyst pre-vestibular region associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009500 ! associated mesenchyme of otocyst relationship: part_of EHDAA2:0001345 ! otocyst pre-vestibular region (embryonic human) [Term] id: EHDAA2:0001347 name: otocyst pre-vestibular region epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0005641 ! otocyst epithelium relationship: part_of EHDAA2:0001345 ! otocyst pre-vestibular region (embryonic human) [Term] id: EHDAA2:0001352 name: conus cordis (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) relationship: part_of EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) [Term] id: EHDAA2:0001355 name: outflow tract endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from EHDAA2:0001352 ! conus cordis (embryonic human) relationship: develops_from UBERON:0002061 ! truncus arteriosus relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0004145 ! outflow tract [Term] id: EHDAA2:0001356 name: outflow tract future ascending aorta (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001355 ! outflow tract endocardium (embryonic human) relationship: develops_from EHDAA2:0004187 ! aortico-pulmonary spiral septum endocardium (embryonic human) relationship: part_of EHDAA2:0001355 ! outflow tract endocardium (embryonic human) [Term] id: EHDAA2:0001357 name: outflow tract future pulmonary artery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001355 ! outflow tract endocardium (embryonic human) relationship: develops_from EHDAA2:0004187 ! aortico-pulmonary spiral septum endocardium (embryonic human) relationship: part_of EHDAA2:0001355 ! outflow tract endocardium (embryonic human) [Term] id: EHDAA2:0001369 name: pancreas body dorsal duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005429 ! dorsal pancreatic duct relationship: part_of UBERON:0001150 ! body of pancreas [Term] id: EHDAA2:0001373 name: dorsal pancreas parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0001386 ! pancreas dorsal primordium parenchyma (embryonic human) relationship: develops_from UBERON:0005429 ! dorsal pancreatic duct relationship: part_of UBERON:0009708 ! dorsal pancreas [Term] id: EHDAA2:0001375 name: dorsal pancreas head (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002365 ! exocrine gland relationship: develops_from UBERON:0009708 ! dorsal pancreas relationship: part_of UBERON:0001069 ! head of pancreas [Term] id: EHDAA2:0001376 name: dorsal pancreas head parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0000105 ! dorsal pancreas head pancreatic duct (embryonic human) relationship: develops_from EHDAA2:0001373 ! dorsal pancreas parenchyma (embryonic human) relationship: part_of EHDAA2:0001375 ! dorsal pancreas head (embryonic human) [Term] id: EHDAA2:0001377 name: ventral pancreas head (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002365 ! exocrine gland relationship: develops_from UBERON:0009709 ! ventral pancreas relationship: part_of UBERON:0001069 ! head of pancreas [Term] id: EHDAA2:0001380 name: ventral pancreas head duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0001064 ! ventral pancreatic duct relationship: part_of EHDAA2:0001377 ! ventral pancreas head (embryonic human) [Term] id: EHDAA2:0001381 name: ventral pancreas head parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0001380 ! ventral pancreas head duct (embryonic human) relationship: develops_from EHDAA2:0001394 ! ventral pancreas parenchyma (embryonic human) relationship: part_of EHDAA2:0001377 ! ventral pancreas head (embryonic human) [Term] id: EHDAA2:0001386 name: pancreas dorsal primordium parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0003923 ! dorsal pancreatic bud relationship: part_of UBERON:0010375 ! pancreas dorsal primordium [Term] id: EHDAA2:0001388 name: pancreas ventral primordium parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0010376 ! pancreas ventral primordium [Term] id: EHDAA2:0001391 name: pancreas tail dorsal pancreatic duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0005429 ! dorsal pancreatic duct relationship: part_of UBERON:0001151 ! tail of pancreas [Term] id: EHDAA2:0001394 name: ventral pancreas parenchyma (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0001388 ! pancreas ventral primordium parenchyma (embryonic human) relationship: develops_from UBERON:0001064 ! ventral pancreatic duct relationship: part_of UBERON:0009709 ! ventral pancreas [Term] id: EHDAA2:0001406 name: greater sac lining (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0005669 ! peritoneal cavity mesothelium relationship: part_of UBERON:0005449 ! greater sac [Term] id: EHDAA2:0001408 name: parietal pericardial cavity mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004874 ! somatopleure relationship: located_in UBERON:0001074 ! pericardial cavity relationship: part_of EHDAA2:0004734 ! pericaridal cavity (embryonic human) [Term] id: EHDAA2:0001409 name: parietal pericardio-peritoneal canal mesothelium namespace: human_developmental_anatomy is_obsolete: true [Term] id: EHDAA2:0001412 name: parietal pleural cavity mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0003390 ! mesothelium of pleural cavity [Term] id: EHDAA2:0001414 name: parotid gland primordium epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0004134 ! upper jaw epithelium from ectoderm (embryonic human) relationship: part_of UBERON:0008801 ! parotid gland primordium [Term] id: EHDAA2:0001415 name: parotid gland primordium mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0003323 ! mesenchyme of upper jaw relationship: part_of UBERON:0008801 ! parotid gland primordium [Term] id: EHDAA2:0001432 name: pelvic splanchnic parasympathetic nerve (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001021 ! nerve relationship: develops_from EHDAA2:0004200 ! sacral parasympathetic ganglia (embryonic human) relationship: develops_from EHDAA2:0004301 ! trunk segmental spinal nerves (embryonic human) relationship: part_of UBERON:0004293 ! parasympathetic nerve [Term] id: EHDAA2:0001468 name: pinna pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from UBERON:0003325 ! mesenchyme of pinna relationship: part_of UBERON:0001757 ! pinna [Term] id: EHDAA2:0001472 name: pituitary primordium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001048 ! primordium relationship: part_of UBERON:0010047 ! oral gland [Term] id: EHDAA2:0001478 name: pleuropericardial canal lining (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of EHDAA2:0004735 ! pleuropericardial canal (embryonic human) [Term] id: EHDAA2:0001482 name: pleuroperitoneal canal mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0006279 ! pleuroperitoneal canal [Term] id: EHDAA2:0001497 name: prevertebral ganglia (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: develops_from EHDAA2:0001972 ! primordial sympathetic ganglia (embryonic human) relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: EHDAA2:0001503 name: primary yolk sac cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007473 ! lumen of epithelial sac relationship: develops_in UBERON:0000090 ! blastocele relationship: located_in UBERON:0008853 ! parietal yolk sac relationship: located_in UBERON:0012466 ! extraembryonic cavities [Term] id: EHDAA2:0001504 name: allantoic diverticulum (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0001040 ! yolk sac relationship: part_of EHDAA2:0000003 ! human conceptus extraembryonic component (embryonic human) [Term] id: EHDAA2:0001514 name: primitive marginal sinus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006282 ! primary head vein relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: EHDAA2:0001519 name: primitive pelvis of ureter (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0001147 ! metanephros primitive collecting ducts (embryonic human) relationship: part_of EHDAA2:0001141 ! metanephros drainage component (embryonic human) [Term] id: EHDAA2:0001524 name: primitive straight sinus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006282 ! primary head vein relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: EHDAA2:0001528 name: primitive transverse sinus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006282 ! primary head vein relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: EHDAA2:0001533 name: primitive heart tube visceral pericardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0005498 ! primitive heart tube [Term] id: EHDAA2:0001536 name: indifferent gonad primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001020 ! reproductive cell population relationship: develops_from EHDAA2:0004050 ! gonadal ridge primordial germ cells (embryonic human) relationship: part_of UBERON:0009117 ! indifferent gonad [Term] id: EHDAA2:0001537 name: hindgut primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000217 ! migrating developing tissue is_a: AEO:0001020 ! reproductive cell population relationship: develops_from EHDAA2:0001539 ! allantois primordial germ cells (embryonic human) relationship: part_of UBERON:0001046 ! hindgut [Term] id: EHDAA2:0001539 name: allantois primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000217 ! migrating developing tissue is_a: AEO:0001020 ! reproductive cell population is_a: UBERON:0007530 ! migrating mesenchyme population relationship: develops_from EHDAA2:0001541 ! yolk sac primordial germ cells (embryonic human) relationship: part_of UBERON:0004340 ! allantois [Term] id: EHDAA2:0001541 name: yolk sac primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001020 ! reproductive cell population relationship: develops_from UBERON:0000924 ! ectoderm relationship: part_of UBERON:0003316 ! mesenchyme of yolk sac [Term] id: EHDAA2:0001542 name: axial vein of lower limb (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004532 ! lower limb vascular plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of UBERON:0002103 ! hindlimb [Term] id: EHDAA2:0001543 name: axial vein of upper limb (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004531 ! upper limb vascular plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of UBERON:0002102 ! forelimb [Term] id: EHDAA2:0001544 name: pro-rhombomere a (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0004321 ! pro-rhombomere group (embryonic human) [Term] id: EHDAA2:0001545 name: pro-rhombomere a floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0001546 name: pro-rhombomere a lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001549 ! pro-rhombomere a neural fold (embryonic human) relationship: part_of EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0001548 name: pro-rhombomere a neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001549 ! pro-rhombomere a neural fold (embryonic human) relationship: part_of UBERON:0003852 ! rhombencephalon neural crest [Term] id: EHDAA2:0001549 name: pro-rhombomere a neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001544 ! pro-rhombomere a (embryonic human) [Term] id: EHDAA2:0001550 name: pro-rhombomere a roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0001551 name: pro-rhombomere b (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0004321 ! pro-rhombomere group (embryonic human) [Term] id: EHDAA2:0001552 name: pro-rhombomere b floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001551 ! pro-rhombomere b (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0001553 name: pro-rhombomere b lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of EHDAA2:0001551 ! pro-rhombomere b (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0001554 name: pro-rhombomere b neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001555 ! pro-rhombomere b neural fold (embryonic human) relationship: part_of UBERON:0003852 ! rhombencephalon neural crest [Term] id: EHDAA2:0001555 name: pro-rhombomere b neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001551 ! pro-rhombomere b (embryonic human) [Term] id: EHDAA2:0001556 name: pro-rhombomere b roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001551 ! pro-rhombomere b (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0001557 name: pro-rhombomere c (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0004321 ! pro-rhombomere group (embryonic human) [Term] id: EHDAA2:0001558 name: pro-rhombomere c floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0001559 name: pro-rhombomere c lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001561 ! pro-rhombomere c neural fold (embryonic human) relationship: part_of EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0001560 name: pro-rhombomere c neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001561 ! pro-rhombomere c neural fold (embryonic human) relationship: part_of UBERON:0003852 ! rhombencephalon neural crest [Term] id: EHDAA2:0001561 name: pro-rhombomere c neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001557 ! pro-rhombomere c (embryonic human) [Term] id: EHDAA2:0001562 name: pro-rhombomere c roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0001563 name: pro-rhombomere d (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0004321 ! pro-rhombomere group (embryonic human) [Term] id: EHDAA2:0001564 name: pro-rhombomere d floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001563 ! pro-rhombomere d (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0001565 name: pro-rhombomere d lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001568 ! pro-rhombomere d neural fold (embryonic human) relationship: part_of EHDAA2:0001563 ! pro-rhombomere d (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0001567 name: pro-rhombomere d neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001568 ! pro-rhombomere d neural fold (embryonic human) relationship: part_of UBERON:0003852 ! rhombencephalon neural crest [Term] id: EHDAA2:0001568 name: pro-rhombomere d neural fold (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000592 ! brain neural ectoderm (embryonic human) relationship: part_of EHDAA2:0001563 ! pro-rhombomere d (embryonic human) [Term] id: EHDAA2:0001578 name: pulmonary valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004186 ! aortico-pulmonary spiral septum mesenchyme (embryonic human) relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0002146 ! pulmonary valve [Term] id: EHDAA2:0001581 name: stomach pyloric region associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001916 ! early stomach associated mesenchyme (embryonic human) relationship: part_of UBERON:0001166 ! pylorus [Term] id: EHDAA2:0001593 name: rectum associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004591 ! internal anal region mesenchyme (embryonic human) relationship: part_of UBERON:0001052 ! rectum [Term] id: EHDAA2:0001597 name: remnant of posterior cardinal vein (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0002065 ! posterior cardinal vein relationship: develops_from UBERON:0009139 ! right posterior cardinal vein relationship: part_of UBERON:0004344 ! cardinal vein [Term] id: EHDAA2:0001598 name: adenohypophysial stem (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005154 ! epithelial cord relationship: develops_from UBERON:0005356 ! Rathke's pouch relationship: part_of UBERON:0002196 ! adenohypophysis [Term] id: EHDAA2:0001610 name: hindgut part of future large intestine (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004582 ! early hindgut (embryonic human) relationship: located_in EHDAA2:0004584 ! hindgut mesothelium (embryonic human) relationship: part_of UBERON:0001046 ! hindgut [Term] id: EHDAA2:0001611 name: hindgut part of future large intestine associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009503 ! associated mesenchyme of hindgut relationship: part_of EHDAA2:0001610 ! hindgut part of future large intestine (embryonic human) [Term] id: EHDAA2:0001613 name: hindgut part of future large intestine epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0003353 ! epithelium of hindgut relationship: part_of EHDAA2:0001610 ! hindgut part of future large intestine (embryonic human) relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: EHDAA2:0001614 name: hindgut part of future large intestine dorsal mesentery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from EHDAA2:0001611 ! hindgut part of future large intestine associated mesenchyme (embryonic human) relationship: part_of EHDAA2:0001610 ! hindgut part of future large intestine (embryonic human) relationship: part_of UBERON:0001046 ! hindgut relationship: part_of UBERON:0002296 ! dorsal mesentery [Term] id: EHDAA2:0001615 name: future jejunum & ileum (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004563 ! early midgut region (embryonic human) relationship: part_of UBERON:0001045 ! midgut [Term] id: EHDAA2:0001616 name: future jejunum & ileum associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009478 ! associated mesenchyme of midgut relationship: part_of EHDAA2:0001615 ! future jejunum & ileum (embryonic human) [Term] id: EHDAA2:0001619 name: future jejunum & ileum epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0003352 ! epithelium of midgut relationship: part_of EHDAA2:0001615 ! future jejunum & ileum (embryonic human) relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: EHDAA2:0001623 name: rest of stomach (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0000945 ! stomach [Term] id: EHDAA2:0001624 name: rest of stomach associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001916 ! early stomach associated mesenchyme (embryonic human) relationship: part_of EHDAA2:0001623 ! rest of stomach (embryonic human) [Term] id: EHDAA2:0001625 name: rest of stomach epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0001276 ! epithelium of stomach relationship: part_of EHDAA2:0001623 ! rest of stomach (embryonic human) relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: EHDAA2:0001626 name: reticulum (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure relationship: develops_from UBERON:0008780 ! inner cell mass derived epiblast relationship: located_in UBERON:0000090 ! blastocele relationship: part_of EHDAA2:0000003 ! human conceptus extraembryonic component (embryonic human) [Term] id: EHDAA2:0001632 name: isthmus primordium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001639 ! early rhombomere 01 (embryonic human) relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: EHDAA2:0001639 name: early rhombomere 01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001642 name: rhombomere 01 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0000626 ! future metencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005567 ! rhombomere 1 lateral wall [Term] id: EHDAA2:0001643 name: rhombomere 01 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004378 ! early rhombomere 01 marginal layer (embryonic human) relationship: part_of EHDAA2:0000627 ! future metencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005567 ! rhombomere 1 lateral wall [Term] id: EHDAA2:0001646 name: rhombomere 01 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) relationship: part_of EHDAA2:0000628 ! future metencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005567 ! rhombomere 1 lateral wall [Term] id: EHDAA2:0001649 name: early rhombomere 02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001652 name: rhombomere 02 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004326 ! early rhombomere 02 lateral wall (embryonic human) relationship: part_of EHDAA2:0000626 ! future metencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005571 ! rhombomere 2 lateral wall [Term] id: EHDAA2:0001653 name: rhombomere 02 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004379 ! early rhombomere 02 marginal layer (embryonic human) relationship: part_of EHDAA2:0000627 ! future metencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005571 ! rhombomere 2 lateral wall [Term] id: EHDAA2:0001656 name: rhombomere 02 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004326 ! early rhombomere 02 lateral wall (embryonic human) relationship: part_of EHDAA2:0000628 ! future metencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005571 ! rhombomere 2 lateral wall [Term] id: EHDAA2:0001659 name: early rhombomere 03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001544 ! pro-rhombomere a (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001662 name: rhombomere 03 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004328 ! early rhombomere 03 lateral wall (embryonic human) relationship: part_of EHDAA2:0000626 ! future metencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005574 ! rhombomere 3 lateral wall [Term] id: EHDAA2:0001663 name: rhombomere 03 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004380 ! early rhombomere 03 marginal layer (embryonic human) relationship: part_of EHDAA2:0000627 ! future metencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005574 ! rhombomere 3 lateral wall [Term] id: EHDAA2:0001666 name: rhombomere 03 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from UBERON:0005574 ! rhombomere 3 lateral wall relationship: part_of EHDAA2:0000628 ! future metencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005574 ! rhombomere 3 lateral wall [Term] id: EHDAA2:0001669 name: early rhombomere 04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001551 ! pro-rhombomere b (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001672 name: rhombomere 04 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005577 ! rhombomere 4 lateral wall [Term] id: EHDAA2:0001673 name: rhombomere 04 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004381 ! early rhombomere 04 marginal layer (embryonic human) relationship: part_of EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005577 ! rhombomere 4 lateral wall [Term] id: EHDAA2:0001676 name: rhombomere 04 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) relationship: part_of EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005577 ! rhombomere 4 lateral wall [Term] id: EHDAA2:0001679 name: early rhombomere 05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001682 name: rhombomere 05 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005580 ! rhombomere 5 lateral wall [Term] id: EHDAA2:0001683 name: rhombomere 05 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004382 ! early rhombomere 05 marginal layer (embryonic human) relationship: part_of EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005580 ! rhombomere 5 lateral wall [Term] id: EHDAA2:0001686 name: rhombomere 05 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) relationship: part_of EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005580 ! rhombomere 5 lateral wall [Term] id: EHDAA2:0001689 name: early rhombomere 06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001692 name: rhombomere 06 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005583 ! rhombomere 6 lateral wall [Term] id: EHDAA2:0001693 name: rhombomere 06 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004383 ! early rhombomere 06 marginal layer (embryonic human) relationship: part_of EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005583 ! rhombomere 6 lateral wall [Term] id: EHDAA2:0001696 name: rhombomere 06 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) relationship: part_of EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005583 ! rhombomere 6 lateral wall [Term] id: EHDAA2:0001699 name: early rhombomere 07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001557 ! pro-rhombomere c (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001702 name: rhombomere 07 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005586 ! rhombomere 7 lateral wall [Term] id: EHDAA2:0001703 name: rhombomere 07 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004384 ! early rhombomere 07 marginal layer (embryonic human) relationship: part_of EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005586 ! rhombomere 7 lateral wall [Term] id: EHDAA2:0001706 name: rhombomere 07 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) relationship: part_of EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005586 ! rhombomere 7 lateral wall [Term] id: EHDAA2:0001708 name: early rhombomere 08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001563 ! pro-rhombomere d (embryonic human) relationship: part_of EHDAA2:0004320 ! early rhombomere group (embryonic human) [Term] id: EHDAA2:0001711 name: rhombomere 08 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) relationship: part_of EHDAA2:0000647 ! future myelencephalon mantle layer (embryonic human) relationship: part_of UBERON:0005589 ! rhombomere 8 lateral wall [Term] id: EHDAA2:0001712 name: rhombomere 08 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004385 ! early rhombomere 08 marginal layer (embryonic human) relationship: part_of EHDAA2:0000648 ! future myelencephalon marginal layer (embryonic human) relationship: part_of UBERON:0005589 ! rhombomere 8 lateral wall [Term] id: EHDAA2:0001715 name: rhombomere 08 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) relationship: part_of EHDAA2:0000649 ! future myelencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0005589 ! rhombomere 8 lateral wall [Term] id: EHDAA2:0001722 name: extraembryonic umbilical vein right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0011921 ! connecting stalk blood islands relationship: part_of EHDAA2:0000479 ! extraembryonic venous system (embryonic human) relationship: part_of UBERON:0007807 ! connecting stalk blood vessel [Term] id: EHDAA2:0001723 name: extraembryonic vitelline artery right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001637 ! artery relationship: develops_from EHDAA2:0004510 ! angioblast clusters (embryonic human) relationship: part_of EHDAA2:0000471 ! extraembryonic arterial system (embryonic human) [Term] id: EHDAA2:0001724 name: extraembryonic vitelline vein right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004510 ! angioblast clusters (embryonic human) relationship: part_of EHDAA2:0000479 ! extraembryonic venous system (embryonic human) [Term] id: EHDAA2:0001728 name: hepato-cardiac vein right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0005471 ! right umbilical vein relationship: develops_from UBERON:0005472 ! right vitelline vein relationship: part_of EHDAA2:0004543 ! body veins (embryonic human) relationship: part_of UBERON:0002423 ! hepatobiliary system [Term] id: EHDAA2:0001732 name: right lung middle lobe associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009603 ! right lung associated mesenchyme relationship: part_of UBERON:0004890 ! right lung accessory lobe [Term] id: EHDAA2:0001737 name: right lung middle lobe segmental bronchi (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005655 ! right lung accessory lobe epithelium relationship: part_of EHDAA2:0004099 ! right lung middle lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0001741 name: right lung lower lobe associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009603 ! right lung associated mesenchyme relationship: part_of UBERON:0002171 ! lower lobe of right lung [Term] id: EHDAA2:0001745 name: right lung lower lobe segmental bronchi (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005640 ! right lung caudal lobe epithelium relationship: part_of EHDAA2:0004098 ! right lung lower lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0001748 name: right lung upper lobe associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009603 ! right lung associated mesenchyme relationship: part_of UBERON:0002170 ! upper lobe of right lung [Term] id: EHDAA2:0001753 name: right lung upper lobe segmental bronchi (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005639 ! right lung cranial lobe epithelium relationship: part_of EHDAA2:0004097 ! right lung upper lobe respiratory tree (embryonic human) [Term] id: EHDAA2:0001764 name: vitelline arterial plexus right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0001723 ! extraembryonic vitelline artery right (embryonic human) relationship: part_of UBERON:0006002 ! vitelline artery [Term] id: EHDAA2:0001765 name: vitelline artery right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from EHDAA2:0001723 ! extraembryonic vitelline artery right (embryonic human) relationship: develops_from EHDAA2:0001764 ! vitelline arterial plexus right (embryonic human) relationship: part_of UBERON:0006002 ! vitelline artery [Term] id: EHDAA2:0001780 name: sclerotome 01 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003441 ! head sclerotome (embryonic human) relationship: develops_from EHDAA2:0001849 ! somite 01 (embryonic human) relationship: part_of EHDAA2:0003442 ! head sclerotome group (embryonic human) [Term] id: EHDAA2:0001782 name: sclerotome 02 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003441 ! head sclerotome (embryonic human) relationship: develops_from EHDAA2:0001850 ! somite 02 (embryonic human) relationship: part_of EHDAA2:0003442 ! head sclerotome group (embryonic human) [Term] id: EHDAA2:0001783 name: sclerotome 03 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003441 ! head sclerotome (embryonic human) relationship: develops_from EHDAA2:0001851 ! somite 03 (embryonic human) relationship: part_of EHDAA2:0003442 ! head sclerotome group (embryonic human) [Term] id: EHDAA2:0001784 name: sclerotome 04 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003441 ! head sclerotome (embryonic human) relationship: develops_from EHDAA2:0001852 ! somite 04 (embryonic human) relationship: part_of EHDAA2:0003442 ! head sclerotome group (embryonic human) [Term] id: EHDAA2:0001785 name: sclerotome 05 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001853 ! somite 05 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001786 name: sclerotome 06 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001854 ! somite 06 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001787 name: sclerotome 07 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001855 ! somite 07 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001788 name: sclerotome 08 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001856 ! somite 08 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001789 name: sclerotome 09 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001857 ! somite 09 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001790 name: sclerotome 10 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001858 ! somite 10 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001791 name: sclerotome 11 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001859 ! somite 11 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001792 name: sclerotome 12 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001860 ! somite 12 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001793 name: sclerotome 13 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001861 ! somite 13 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001794 name: sclerotome 14 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001862 ! somite 14 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001795 name: sclerotome 15 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001863 ! somite 15 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001796 name: sclerotome 16 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001864 ! somite 16 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001797 name: sclerotome 17 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001865 ! somite 17 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001798 name: sclerotome 18 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001866 ! somite 18 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001799 name: sclerotome 19 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001867 ! somite 19 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001800 name: sclerotome 20 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001868 ! somite 20 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001801 name: sclerotome 21 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001869 ! somite 21 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001802 name: sclerotome 22 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001870 ! somite 22 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001803 name: sclerotome 23 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001871 ! somite 23 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001804 name: sclerotome 24 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001872 ! somite 24 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001805 name: sclerotome 25 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001873 ! somite 25 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001806 name: sclerotome 26 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001874 ! somite 26 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001807 name: sclerotome 27 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001875 ! somite 27 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001808 name: sclerotome 28 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001876 ! somite 28 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001809 name: sclerotome 29 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001877 ! somite 29 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001810 name: sclerotome 30 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001878 ! somite 30 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001811 name: sclerotome 31 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001879 ! somite 31 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001812 name: sclerotome 32 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001880 ! somite 32 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001813 name: sclerotome 33 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001881 ! somite 33 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001814 name: sclerotome 34 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001882 ! somite 34 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001815 name: sclerotome 35 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0001883 ! somite 35 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001816 name: sclerotome 36 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001884 ! somite 36 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001817 name: sclerotome 37 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001885 ! somite 37 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001818 name: sclerotome 38 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001886 ! somite 38 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001819 name: sclerotome 39 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0004727 ! trunk and cervical sclerotome (embryonic human) relationship: develops_from EHDAA2:0001887 ! somite 39 (embryonic human) relationship: part_of EHDAA2:0003427 ! trunk and cervical sclerotome group (embryonic human) [Term] id: EHDAA2:0001821 name: secondary yolk sac cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007473 ! lumen of epithelial sac relationship: develops_in EHDAA2:0001503 ! primary yolk sac cavity (embryonic human) relationship: located_in UBERON:0001040 ! yolk sac relationship: located_in UBERON:0012466 ! extraembryonic cavities [Term] id: EHDAA2:0001831 name: septum transversum mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0004161 ! septum transversum [Term] id: EHDAA2:0001848 name: trunk and cervical somite group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0001849 name: somite 01 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005594 ! head somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from EHDAA2:0002108 ! unsegmented head paraxial mesenchyme (embryonic human) relationship: part_of EHDAA2:0000737 ! head somite group (embryonic human) [Term] id: EHDAA2:0001850 name: somite 02 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005594 ! head somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from EHDAA2:0002108 ! unsegmented head paraxial mesenchyme (embryonic human) relationship: part_of EHDAA2:0000737 ! head somite group (embryonic human) [Term] id: EHDAA2:0001851 name: somite 03 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005594 ! head somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from EHDAA2:0002108 ! unsegmented head paraxial mesenchyme (embryonic human) relationship: part_of EHDAA2:0000737 ! head somite group (embryonic human) [Term] id: EHDAA2:0001852 name: somite 04 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005594 ! head somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from EHDAA2:0002108 ! unsegmented head paraxial mesenchyme (embryonic human) relationship: part_of EHDAA2:0000737 ! head somite group (embryonic human) [Term] id: EHDAA2:0001853 name: somite 05 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001854 name: somite 06 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001855 name: somite 07 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001856 name: somite 08 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001857 name: somite 09 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001858 name: somite 10 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001859 name: somite 11 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001860 name: somite 12 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001861 name: somite 13 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001862 name: somite 14 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001863 name: somite 15 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001864 name: somite 16 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001865 name: somite 17 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001866 name: somite 18 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001867 name: somite 19 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001868 name: somite 20 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001869 name: somite 21 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001870 name: somite 22 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001871 name: somite 23 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001872 name: somite 24 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001873 name: somite 25 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001874 name: somite 26 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001875 name: somite 27 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001876 name: somite 28 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001877 name: somite 29 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001878 name: somite 30 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001879 name: somite 31 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001880 name: somite 32 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001881 name: somite 33 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001882 name: somite 34 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001883 name: somite 35 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001884 name: somite 36 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001885 name: somite 37 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001886 name: somite 38 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001887 name: somite 39 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0005598 ! trunk somite is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of EHDAA2:0001848 ! trunk and cervical somite group (embryonic human) [Term] id: EHDAA2:0001891 name: CNS caudal region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003103 ! compound organ relationship: part_of UBERON:0001017 ! central nervous system [Term] id: EHDAA2:0001892 name: spinal cord future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000677 ! early spinal cord meningeal covering (embryonic human) relationship: part_of EHDAA2:0004316 ! future arachnoid layer (embryonic human) relationship: part_of UBERON:0003292 ! meninx of spinal cord [Term] id: EHDAA2:0001893 name: spinal cord future dura mater (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000677 ! early spinal cord meningeal covering (embryonic human) relationship: part_of UBERON:0003292 ! meninx of spinal cord relationship: part_of UBERON:0010115 ! future dura mater [Term] id: EHDAA2:0001894 name: spinal cord future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: part_of EHDAA2:0004315 ! future subarachnoid space (embryonic human) relationship: part_of UBERON:0003292 ! meninx of spinal cord [Term] id: EHDAA2:0001902 name: spinal peripheral nervous system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0000010 ! peripheral nervous system [Term] id: EHDAA2:0001916 name: early stomach associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000558 ! lower foregut region associated mesenchyme (embryonic human) relationship: part_of UBERON:0000945 ! stomach [Term] id: EHDAA2:0001920 name: stomach fundus associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001916 ! early stomach associated mesenchyme (embryonic human) relationship: part_of UBERON:0001160 ! fundus of stomach [Term] id: EHDAA2:0001931 name: stomatodaeum rest of ectoderm namespace: human_developmental_anatomy is_obsolete: true [Term] id: EHDAA2:0001936 name: sublingual gland primordium epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: develops_from EHDAA2:0004133 ! lower jaw epithelium from endoderm (embryonic human) relationship: part_of UBERON:0006297 ! sublingual gland primordium [Term] id: EHDAA2:0001956 name: superior parathyroid associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010256 ! 4th arch mesenchyme from neural crest relationship: part_of UBERON:0006749 ! superior parathyroid gland [Term] id: EHDAA2:0001972 name: primordial sympathetic ganglia (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: develops_from UBERON:0011208 ! medial migration pathway NC-derived mesenchyme relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: EHDAA2:0001974 name: polar trophectoderm syncytiotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: CL:0000228 ! multinucleate cell is_a: UBERON:0000478 ! extraembryonic structure relationship: develops_from UBERON:0006280 ! polar trophectoderm relationship: part_of UBERON:0004345 ! trophectoderm [Term] id: EHDAA2:0001979 name: telencephalic sinus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006282 ! primary head vein relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: EHDAA2:0001986 name: telencephalon mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0005561 ! telencephalon lateral wall relationship: part_of UBERON:0005561 ! telencephalon lateral wall [Term] id: EHDAA2:0001988 name: telencephalon marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from UBERON:0005561 ! telencephalon lateral wall relationship: part_of UBERON:0005561 ! telencephalon lateral wall [Term] id: EHDAA2:0001989 name: telencephalon medium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001893 ! telencephalon [Term] id: EHDAA2:0001993 name: telencephalon primary meninx (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from EHDAA2:0004421 ! mesenchyme from future diencephalic neural crest (embryonic human) relationship: develops_from EHDAA2:0004442 ! mesenchyme from mesencephalic neural crest (embryonic human) relationship: part_of EHDAA2:0004453 ! primary meninx (embryonic human) relationship: part_of UBERON:0003289 ! meninx of telencephalon [Term] id: EHDAA2:0001996 name: telencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from UBERON:0005561 ! telencephalon lateral wall relationship: part_of UBERON:0005561 ! telencephalon lateral wall [Term] id: EHDAA2:0002006 name: terminal-vomeronasal neural-crest-derived mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007530 ! migrating mesenchyme population relationship: develops_from EHDAA2:0004421 ! mesenchyme from future diencephalic neural crest (embryonic human) relationship: develops_from EHDAA2:0004442 ! mesenchyme from mesencephalic neural crest (embryonic human) relationship: part_of UBERON:0005253 ! head mesenchyme [Term] id: EHDAA2:0002008 name: testis mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000175 ! male anatomical structure is_a: UBERON:0001136 ! mesothelium relationship: develops_from EHDAA2:0000718 ! indifferent gonad mesothelium (embryonic human) relationship: part_of UBERON:0000473 ! testis [Term] id: EHDAA2:0002015 name: thoracic vertebral pre-cartilage condensation group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0006073 ! thoracic region of vertebral column [Term] id: EHDAA2:0002016 name: thryoglossal duct (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005154 ! epithelial cord relationship: develops_from UBERON:0003091 ! thyroid primordium relationship: part_of UBERON:0002046 ! thyroid gland [Term] id: EHDAA2:0002018 name: thymus mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0002024 ! thymus primordium mesenchyme (embryonic human) relationship: part_of UBERON:0002370 ! thymus [Term] id: EHDAA2:0002024 name: thymus primordium mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010255 ! 3rd arch mesenchyme from neural crest relationship: part_of UBERON:0005562 ! thymus primordium [Term] id: EHDAA2:0002025 name: thymus primordium epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0007124 ! pharyngeal pouch 3 relationship: develops_from UBERON:0010026 ! ventral part of pharyngeal pouch 3 relationship: part_of UBERON:0005562 ! thymus primordium [Term] id: EHDAA2:0002104 name: ultimobranchial body associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010257 ! 6th arch mesenchyme from neural crest relationship: part_of UBERON:0003092 ! ultimobranchial body [Term] id: EHDAA2:0002108 name: unsegmented head paraxial mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0009617 ! head paraxial mesoderm [Term] id: EHDAA2:0002109 name: trunk unsegmented mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0002144 name: urogenital sinus lumen pelvic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_in UBERON:0009844 ! urogenital sinus lumen relationship: located_in EHDAA2:0004742 ! urogenital sinus epithelium pelvic part (embryonic human) relationship: located_in UBERON:0009844 ! urogenital sinus lumen [Term] id: EHDAA2:0002145 name: urogenital sinus lumen phallic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_in UBERON:0009844 ! urogenital sinus lumen relationship: located_in EHDAA2:0004741 ! urogenital sinus epithelium phallic part (embryonic human) relationship: located_in UBERON:0009844 ! urogenital sinus lumen [Term] id: EHDAA2:0002146 name: urogenital sinus lumen vesical part (embryonic human) namespace: human_developmental_anatomy synonym: "urogenital sinus superior part" EXACT [] is_a: UBERON:0010064 ! open anatomical space relationship: develops_in UBERON:0009844 ! urogenital sinus lumen relationship: located_in EHDAA2:0004740 ! urogenital sinus epithelium vesical part (embryonic human) relationship: located_in UBERON:0009844 ! urogenital sinus lumen [Term] id: EHDAA2:0002157 name: vagal X nerve (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001021 ! nerve relationship: develops_from EHDAA2:0004648 ! superior jugular ganglion (embryonic human) relationship: develops_from UBERON:0005363 ! inferior vagus X ganglion relationship: develops_from UBERON:0010126 ! future nucleus ambiguus relationship: develops_from UBERON:0010127 ! future dorsal motor nucleus of vagus relationship: part_of UBERON:0001785 ! cranial nerve [Term] id: EHDAA2:0002158 name: vagal X ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from UBERON:0005428 ! vagal neural crest relationship: part_of EHDAA2:0000226 ! CNS cranial ganglion (embryonic human) [Term] id: EHDAA2:0002159 name: vagal X inferior ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from EHDAA2:0002158 ! vagal X ganglion (embryonic human) relationship: part_of EHDAA2:0002158 ! vagal X ganglion (embryonic human) [Term] id: EHDAA2:0002161 name: vagal X nerve trunk recurrent laryngeal branch (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001021 ! nerve relationship: develops_from UBERON:0006308 ! vagal X nerve trunk relationship: part_of UBERON:0006308 ! vagal X nerve trunk [Term] id: EHDAA2:0002163 name: vagal X superior ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from EHDAA2:0002158 ! vagal X ganglion (embryonic human) relationship: part_of EHDAA2:0002158 ! vagal X ganglion (embryonic human) [Term] id: EHDAA2:0002165 name: valve mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0009751 ! cardiac mesenchyme [Term] id: EHDAA2:0002218 name: early yolk sac stalk (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0003257 ! yolk sac endoderm relationship: part_of EHDAA2:0004563 ! early midgut region (embryonic human) [Term] id: EHDAA2:0002219 name: yolk sac stalk (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from EHDAA2:0002218 ! early yolk sac stalk (embryonic human) relationship: part_of EHDAA2:0001615 ! future jejunum & ileum (embryonic human) [Term] id: EHDAA2:0002223 name: glandular system (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000093 ! non-connected functional system relationship: part_of UBERON:0000467 ! anatomical system [Term] id: EHDAA2:0003238 name: chorion lacunae (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0012467 ! enclosed anatomical space relationship: develops_in EHDAA2:0004715 ! trophoblastic lacunae (embryonic human) relationship: located_in UBERON:0003224 ! chorion syncytiotrophoblast [Term] id: EHDAA2:0003240 name: tail bud surface ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0002533 ! tail bud [Term] id: EHDAA2:0003243 name: primary yolk sac endoderm (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0008945 ! extraembryonic endoderm relationship: part_of UBERON:0008853 ! parietal yolk sac [Term] id: EHDAA2:0003244 name: chorion cytotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000335 ! polar trophectoderm cytotrophoblast (embryonic human) relationship: develops_from EHDAA2:0000336 ! mural trophectoderm cytotrophoblast (embryonic human) relationship: part_of UBERON:0003124 ! chorion [Term] id: EHDAA2:0003246 name: primary yolk sac mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0001626 ! reticulum (embryonic human) relationship: part_of UBERON:0008853 ! parietal yolk sac [Term] id: EHDAA2:0003247 name: blood cells (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000479 ! tissue relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: develops_from EHDAA2:0004506 ! haematoblasts (embryonic human) relationship: part_of UBERON:0000178 ! blood [Term] id: EHDAA2:0003260 name: vertebra C3 cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003265 ! vertebra C3 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0003261 name: vertebra C4 cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004003 ! vertebra C7 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0003262 name: vertebra C5 cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004001 ! vertebra C5 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0003263 name: vertebra C6 cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004002 ! vertebra C6 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0003264 name: vertebra C7 cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0004003 ! vertebra C7 pre-cartilage condensation (embryonic human) relationship: part_of UBERON:0013505 ! cervical vertebra cartilaginous condensation [Term] id: EHDAA2:0003265 name: vertebra C3 pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0001787 ! sclerotome 07 (embryonic human) relationship: develops_from EHDAA2:0001788 ! sclerotome 08 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003266 name: rib pre-cartilage condensation 01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001792 ! sclerotome 12 (embryonic human) relationship: develops_from EHDAA2:0001793 ! sclerotome 13 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003267 name: rib pre-cartilage condensation 02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001793 ! sclerotome 13 (embryonic human) relationship: develops_from EHDAA2:0001794 ! sclerotome 14 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003268 name: rib pre-cartilage condensation 03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001794 ! sclerotome 14 (embryonic human) relationship: develops_from EHDAA2:0001795 ! sclerotome 15 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003269 name: rib pre-cartilage condensation 04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001795 ! sclerotome 15 (embryonic human) relationship: develops_from EHDAA2:0001796 ! sclerotome 16 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003270 name: rib pre-cartilage condensation 05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001796 ! sclerotome 16 (embryonic human) relationship: develops_from EHDAA2:0001797 ! sclerotome 17 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003271 name: rib pre-cartilage condensation 06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001797 ! sclerotome 17 (embryonic human) relationship: develops_from EHDAA2:0001798 ! sclerotome 18 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003272 name: rib pre-cartilage condensation 07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001798 ! sclerotome 18 (embryonic human) relationship: develops_from EHDAA2:0001799 ! sclerotome 19 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003273 name: rib pre-cartilage condensation 08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001799 ! sclerotome 19 (embryonic human) relationship: develops_from EHDAA2:0001800 ! sclerotome 20 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003274 name: rib pre-cartilage condensation 09 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001800 ! sclerotome 20 (embryonic human) relationship: develops_from EHDAA2:0001801 ! sclerotome 21 (embryonic human) relationship: develops_from EHDAA2:0003309 ! thoracic vertebral pre-cartilage condensation T08 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003275 name: rib pre-cartilage condensation 10 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001801 ! sclerotome 21 (embryonic human) relationship: develops_from EHDAA2:0001802 ! sclerotome 22 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003276 name: rib pre-cartilage condensation 11 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001802 ! sclerotome 22 (embryonic human) relationship: develops_from EHDAA2:0001803 ! sclerotome 23 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003277 name: rib pre-cartilage condensation 12 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001803 ! sclerotome 23 (embryonic human) relationship: develops_from EHDAA2:0001804 ! sclerotome 24 (embryonic human) relationship: part_of UBERON:0006289 ! rib pre-cartilage condensation [Term] id: EHDAA2:0003278 name: rib cartilage condensation 01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003266 ! rib pre-cartilage condensation 01 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003279 name: rib cartilage condensation 02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003267 ! rib pre-cartilage condensation 02 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003280 name: rib cartilage condensation 03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003268 ! rib pre-cartilage condensation 03 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003281 name: rib cartilage condensation 04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003269 ! rib pre-cartilage condensation 04 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003282 name: rib cartilage condensation 05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003270 ! rib pre-cartilage condensation 05 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003283 name: rib cartilage condensation 06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003271 ! rib pre-cartilage condensation 06 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003284 name: rib cartilage condensation 07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003272 ! rib pre-cartilage condensation 07 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003285 name: rib cartilage condensation 08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003273 ! rib pre-cartilage condensation 08 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003286 name: rib cartilage condensation 09 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003274 ! rib pre-cartilage condensation 09 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003287 name: rib cartilage condensation 10 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003275 ! rib pre-cartilage condensation 10 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003288 name: rib cartilage condensation 11 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003276 ! rib pre-cartilage condensation 11 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003289 name: rib cartilage condensation 12 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003277 ! rib pre-cartilage condensation 12 (embryonic human) relationship: part_of UBERON:0006288 ! rib cartilage condensation [Term] id: EHDAA2:0003290 name: vertebral cartilage condensation T01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003302 ! thoracic vertebral pre-cartilage condensation T01 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003291 name: vertebral cartilage condensation T02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003303 ! thoracic vertebral pre-cartilage condensation T02 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003292 name: vertebral cartilage condensation T03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003304 ! thoracic vertebral pre-cartilage condensation T03 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003293 name: vertebral cartilage condensation T04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003305 ! thoracic vertebral pre-cartilage condensation T04 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003294 name: vertebral cartilage condensation T05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003306 ! thoracic vertebral pre-cartilage condensation T05 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003295 name: vertebral cartilage condensation T06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003307 ! thoracic vertebral pre-cartilage condensation T06 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003296 name: vertebral cartilage condensation T07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003308 ! thoracic vertebral pre-cartilage condensation T07 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003297 name: vertebral cartilage condensation T08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003309 ! thoracic vertebral pre-cartilage condensation T08 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003298 name: vertebral cartilage condensation T09 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003310 ! thoracic vertebral pre-cartilage condensation T09 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003299 name: vertebral cartilage condensation T10 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003311 ! thoracic vertebral pre-cartilage condensation T10 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003300 name: vertebral cartilage condensation T11 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003312 ! thoracic vertebral pre-cartilage condensation T11 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003301 name: vertebral cartilage condensation T12 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003313 ! thoracic vertebral pre-cartilage condensation T12 (embryonic human) relationship: part_of UBERON:0013507 ! thoracic vertebra cartilaginous condensation [Term] id: EHDAA2:0003302 name: thoracic vertebral pre-cartilage condensation T01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001792 ! sclerotome 12 (embryonic human) relationship: develops_from EHDAA2:0001793 ! sclerotome 13 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003303 name: thoracic vertebral pre-cartilage condensation T02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001793 ! sclerotome 13 (embryonic human) relationship: develops_from EHDAA2:0001794 ! sclerotome 14 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003304 name: thoracic vertebral pre-cartilage condensation T03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001794 ! sclerotome 14 (embryonic human) relationship: develops_from EHDAA2:0001795 ! sclerotome 15 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003305 name: thoracic vertebral pre-cartilage condensation T04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001795 ! sclerotome 15 (embryonic human) relationship: develops_from EHDAA2:0001796 ! sclerotome 16 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003306 name: thoracic vertebral pre-cartilage condensation T05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001796 ! sclerotome 16 (embryonic human) relationship: develops_from EHDAA2:0001797 ! sclerotome 17 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003307 name: thoracic vertebral pre-cartilage condensation T06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001797 ! sclerotome 17 (embryonic human) relationship: develops_from EHDAA2:0001798 ! sclerotome 18 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003308 name: thoracic vertebral pre-cartilage condensation T07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001798 ! sclerotome 18 (embryonic human) relationship: develops_from EHDAA2:0001799 ! sclerotome 19 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003309 name: thoracic vertebral pre-cartilage condensation T08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001799 ! sclerotome 19 (embryonic human) relationship: develops_from EHDAA2:0001800 ! sclerotome 20 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003310 name: thoracic vertebral pre-cartilage condensation T09 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001800 ! sclerotome 20 (embryonic human) relationship: develops_from EHDAA2:0001801 ! sclerotome 21 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003311 name: thoracic vertebral pre-cartilage condensation T10 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001801 ! sclerotome 21 (embryonic human) relationship: develops_from EHDAA2:0001802 ! sclerotome 22 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003312 name: thoracic vertebral pre-cartilage condensation T11 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001802 ! sclerotome 22 (embryonic human) relationship: develops_from EHDAA2:0001803 ! sclerotome 23 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003313 name: thoracic vertebral pre-cartilage condensation T12 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001803 ! sclerotome 23 (embryonic human) relationship: develops_from EHDAA2:0001804 ! sclerotome 24 (embryonic human) relationship: part_of EHDAA2:0002015 ! thoracic vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003314 name: costal pre-cartilage condensation 01 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003266 ! rib pre-cartilage condensation 01 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003315 name: costal pre-cartilage condensation 02 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003267 ! rib pre-cartilage condensation 02 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003316 name: costal pre-cartilage condensation 03 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003268 ! rib pre-cartilage condensation 03 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003317 name: costal pre-cartilage condensation 04 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003269 ! rib pre-cartilage condensation 04 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003318 name: costal pre-cartilage condensation 05 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003270 ! rib pre-cartilage condensation 05 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003319 name: costal pre-cartilage condensation 06 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003271 ! rib pre-cartilage condensation 06 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003320 name: costal pre-cartilage condensation 07 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003272 ! rib pre-cartilage condensation 07 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003321 name: costal pre-cartilage condensation 08 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003273 ! rib pre-cartilage condensation 08 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003322 name: costal pre-cartilage condensation 09 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003274 ! rib pre-cartilage condensation 09 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003323 name: costal pre-cartilage condensation 10 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003275 ! rib pre-cartilage condensation 10 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003324 name: costal pre-cartilage condensation 11 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003276 ! rib pre-cartilage condensation 11 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003325 name: costal pre-cartilage condensation 12 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0003277 ! rib pre-cartilage condensation 12 (embryonic human) relationship: part_of EHDAA2:0000321 ! costal pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003326 name: coccygeal vertebral cartilage condensation CC1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003330 ! coccygeal vertebral pre-cartilage condensation CC1 (embryonic human) relationship: part_of UBERON:0013517 ! coccygeal vertebra cartilaginous condensation [Term] id: EHDAA2:0003327 name: coccygeal vertebral cartilage condensation CC2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003331 ! coccygeal vertebral pre-cartilage condensation CC2 (embryonic human) relationship: part_of UBERON:0013517 ! coccygeal vertebra cartilaginous condensation [Term] id: EHDAA2:0003328 name: coccygeal vertebral cartilage condensation CC3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003332 ! coccygeal vertebral pre-cartilage condensation CC3 (embryonic human) relationship: part_of UBERON:0013517 ! coccygeal vertebra cartilaginous condensation [Term] id: EHDAA2:0003329 name: coccygeal vertebral cartilage condensation CC4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003333 ! coccygeal vertebral pre-cartilage condensation CC4 (embryonic human) relationship: part_of UBERON:0013517 ! coccygeal vertebra cartilaginous condensation [Term] id: EHDAA2:0003330 name: coccygeal vertebral pre-cartilage condensation CC1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001814 ! sclerotome 34 (embryonic human) relationship: develops_from EHDAA2:0001815 ! sclerotome 35 (embryonic human) relationship: part_of EHDAA2:0000265 ! cocycgeal vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003331 name: coccygeal vertebral pre-cartilage condensation CC2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001815 ! sclerotome 35 (embryonic human) relationship: develops_from EHDAA2:0001816 ! sclerotome 36 (embryonic human) relationship: part_of EHDAA2:0000265 ! cocycgeal vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003332 name: coccygeal vertebral pre-cartilage condensation CC3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001816 ! sclerotome 36 (embryonic human) relationship: develops_from EHDAA2:0001817 ! sclerotome 37 (embryonic human) relationship: part_of EHDAA2:0000265 ! cocycgeal vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003333 name: coccygeal vertebral pre-cartilage condensation CC4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001817 ! sclerotome 37 (embryonic human) relationship: develops_from EHDAA2:0001818 ! sclerotome 38 (embryonic human) relationship: part_of EHDAA2:0000265 ! cocycgeal vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003334 name: lumbar vertebral cartilage condensation L1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003339 ! lumbar vertebral pre-cartilage condensation L1 (embryonic human) relationship: part_of UBERON:0013509 ! lumbar vertebra cartilaginous condensation [Term] id: EHDAA2:0003335 name: lumbar vertebral cartilage condensation L2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003340 ! lumbar vertebral pre-cartilage condensation L2 (embryonic human) relationship: part_of UBERON:0013509 ! lumbar vertebra cartilaginous condensation [Term] id: EHDAA2:0003336 name: lumbar vertebral cartilage condensation L3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003341 ! lumbar vertebral pre-cartilage condensation L3 (embryonic human) relationship: part_of UBERON:0013509 ! lumbar vertebra cartilaginous condensation [Term] id: EHDAA2:0003337 name: lumbar vertebral cartilage condensation L4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003342 ! lumbar vertebral pre-cartilage condensation L4 (embryonic human) relationship: part_of UBERON:0013509 ! lumbar vertebra cartilaginous condensation [Term] id: EHDAA2:0003338 name: lumbar vertebral cartilage condensation L5 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003343 ! lumbar vertebral pre-cartilage condensation L5 (embryonic human) relationship: part_of UBERON:0013509 ! lumbar vertebra cartilaginous condensation [Term] id: EHDAA2:0003339 name: lumbar vertebral pre-cartilage condensation L1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001804 ! sclerotome 24 (embryonic human) relationship: develops_from EHDAA2:0001805 ! sclerotome 25 (embryonic human) relationship: part_of EHDAA2:0001039 ! lumbar vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003340 name: lumbar vertebral pre-cartilage condensation L2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001805 ! sclerotome 25 (embryonic human) relationship: develops_from EHDAA2:0001806 ! sclerotome 26 (embryonic human) relationship: part_of EHDAA2:0001039 ! lumbar vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003341 name: lumbar vertebral pre-cartilage condensation L3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001806 ! sclerotome 26 (embryonic human) relationship: develops_from EHDAA2:0001807 ! sclerotome 27 (embryonic human) relationship: part_of EHDAA2:0001039 ! lumbar vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003342 name: lumbar vertebral pre-cartilage condensation L4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001807 ! sclerotome 27 (embryonic human) relationship: develops_from EHDAA2:0001808 ! sclerotome 28 (embryonic human) relationship: part_of EHDAA2:0001039 ! lumbar vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003343 name: lumbar vertebral pre-cartilage condensation L5 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001808 ! sclerotome 28 (embryonic human) relationship: develops_from EHDAA2:0001809 ! sclerotome 29 (embryonic human) relationship: part_of EHDAA2:0001039 ! lumbar vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0003344 name: sacral vertebral pre-cartilage condensation S1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001809 ! sclerotome 29 (embryonic human) relationship: develops_from EHDAA2:0001810 ! sclerotome 30 (embryonic human) relationship: part_of UBERON:0010744 ! sacral vertebra pre-cartilage condensation [Term] id: EHDAA2:0003345 name: sacral vertebral pre-cartilage condensation S2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001810 ! sclerotome 30 (embryonic human) relationship: develops_from EHDAA2:0001811 ! sclerotome 31 (embryonic human) relationship: part_of UBERON:0010744 ! sacral vertebra pre-cartilage condensation [Term] id: EHDAA2:0003346 name: sacral vertebral pre-cartilage condensation S3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001811 ! sclerotome 31 (embryonic human) relationship: develops_from EHDAA2:0001812 ! sclerotome 32 (embryonic human) relationship: part_of UBERON:0010744 ! sacral vertebra pre-cartilage condensation [Term] id: EHDAA2:0003347 name: sacral vertebral pre-cartilage condensation S4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001812 ! sclerotome 32 (embryonic human) relationship: develops_from EHDAA2:0001813 ! sclerotome 33 (embryonic human) relationship: part_of UBERON:0010744 ! sacral vertebra pre-cartilage condensation [Term] id: EHDAA2:0003348 name: sacral vertebral pre-cartilage condensation S5 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001813 ! sclerotome 33 (embryonic human) relationship: develops_from EHDAA2:0001814 ! sclerotome 34 (embryonic human) relationship: part_of UBERON:0010744 ! sacral vertebra pre-cartilage condensation [Term] id: EHDAA2:0003349 name: sacral vertebral cartilage condensation S1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003344 ! sacral vertebral pre-cartilage condensation S1 (embryonic human) relationship: part_of UBERON:0010745 ! sacral vertebra cartilage condensation [Term] id: EHDAA2:0003350 name: sacral vertebral cartilage condensation S2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003345 ! sacral vertebral pre-cartilage condensation S2 (embryonic human) relationship: part_of UBERON:0010745 ! sacral vertebra cartilage condensation [Term] id: EHDAA2:0003351 name: sacral vertebral cartilage condensation S3 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003346 ! sacral vertebral pre-cartilage condensation S3 (embryonic human) relationship: part_of UBERON:0010745 ! sacral vertebra cartilage condensation [Term] id: EHDAA2:0003352 name: sacral vertebral cartilage condensation S4 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003347 ! sacral vertebral pre-cartilage condensation S4 (embryonic human) relationship: part_of UBERON:0010745 ! sacral vertebra cartilage condensation [Term] id: EHDAA2:0003353 name: sacral vertebral cartilage condensation S5 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0003348 ! sacral vertebral pre-cartilage condensation S5 (embryonic human) relationship: part_of UBERON:0010745 ! sacral vertebra cartilage condensation [Term] id: EHDAA2:0003354 name: dermatome 05 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000345 ! dermomyotome 05 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003355 name: myotome 05 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000345 ! dermomyotome 05 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003356 name: dermatome 06 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000346 ! dermomyotome 06 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003357 name: myotome 06 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000346 ! dermomyotome 06 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003358 name: myotome 07 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000347 ! dermomyotome 07 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003359 name: dermatome 07 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000347 ! dermomyotome 07 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003360 name: dermatome 08 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000348 ! dermomyotome 08 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003361 name: myotome 08 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000348 ! dermomyotome 08 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003362 name: dermatome 09 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000349 ! dermomyotome 09 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003363 name: myotome 09 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000349 ! dermomyotome 09 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003364 name: myotome 10 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000350 ! dermomyotome 10 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003365 name: dermatome 10 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000350 ! dermomyotome 10 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003366 name: dermatome 11 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000351 ! dermomyotome 11 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003367 name: myotome 11 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000351 ! dermomyotome 11 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003368 name: dermatome 12 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000352 ! dermomyotome 12 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003369 name: myotome 12 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000352 ! dermomyotome 12 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003370 name: dermatome 13 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000353 ! dermomyotome 13 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003371 name: myotome 13 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000353 ! dermomyotome 13 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003372 name: dermatome 14 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000354 ! dermomyotome 14 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003373 name: myotome 14 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000354 ! dermomyotome 14 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003374 name: myotome 15 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000355 ! dermomyotome 15 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003375 name: dermatome 15 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000355 ! dermomyotome 15 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003376 name: dermatome 16 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000356 ! dermomyotome 16 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003377 name: myotome 16 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000356 ! dermomyotome 16 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003378 name: myotome 17 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000357 ! dermomyotome 17 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003379 name: dermatome 17 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000357 ! dermomyotome 17 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003380 name: dermatome 18 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000358 ! dermomyotome 18 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003381 name: myotome 18 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000358 ! dermomyotome 18 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003382 name: myotome 19 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000359 ! dermomyotome 19 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003383 name: dermatome 19 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000359 ! dermomyotome 19 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003384 name: myotome 20 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000360 ! dermomyotome 20 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003385 name: dermatome 20 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000360 ! dermomyotome 20 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003386 name: myotome 21 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000361 ! dermomyotome 21 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003387 name: dermatome 21 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000361 ! dermomyotome 21 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003388 name: dermatome 22 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000362 ! dermomyotome 22 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003389 name: myotome 22 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000362 ! dermomyotome 22 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003390 name: myotome 23 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000363 ! dermomyotome 23 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003391 name: dermatome 23 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000363 ! dermomyotome 23 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003392 name: myotome 24 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000364 ! dermomyotome 24 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003393 name: dermatome 24 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000364 ! dermomyotome 24 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003394 name: myotome 25 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000365 ! dermomyotome 25 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003395 name: dermatome 25 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000365 ! dermomyotome 25 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003396 name: dermatome 26 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000366 ! dermomyotome 26 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003397 name: myotome 26 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000366 ! dermomyotome 26 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003398 name: myotome 27 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000367 ! dermomyotome 27 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003399 name: dermatome 27 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000367 ! dermomyotome 27 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003400 name: myotome 28 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000368 ! dermomyotome 28 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003401 name: dermatome 28 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000368 ! dermomyotome 28 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003402 name: myotome 29 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000369 ! dermomyotome 29 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003403 name: dermatome 29 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000369 ! dermomyotome 29 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003404 name: dermatome 30 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000370 ! dermomyotome 30 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003405 name: myotome 30 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000370 ! dermomyotome 30 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003406 name: dermatome 31 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000371 ! dermomyotome 31 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003407 name: myotome 31 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000371 ! dermomyotome 31 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003408 name: myotome 32 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000372 ! dermomyotome 32 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003409 name: dermatome 32 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000372 ! dermomyotome 32 (embryonic human) [Term] id: EHDAA2:0003410 name: dermatome 33 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000373 ! dermomyotome 33 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003411 name: myotome 33 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000373 ! dermomyotome 33 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003412 name: myotome 34 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000374 ! dermomyotome 34 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003413 name: dermatome 34 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000374 ! dermomyotome 34 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003414 name: myotome 35 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000375 ! dermomyotome 35 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003415 name: dermatome 35 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000375 ! dermomyotome 35 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003416 name: myotome 36 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000376 ! dermomyotome 36 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003417 name: dermatome 36 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000376 ! dermomyotome 36 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003418 name: myotome 37 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000377 ! dermomyotome 37 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003419 name: dermatome 37 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000377 ! dermomyotome 37 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003420 name: myotome 38 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000378 ! dermomyotome 38 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003421 name: dermatome 38 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000378 ! dermomyotome 38 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003422 name: myotome 39 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003432 ! trunk and cervical myotome (embryonic human) relationship: develops_from EHDAA2:0000379 ! dermomyotome 39 (embryonic human) relationship: part_of UBERON:0010963 ! trunk and cervical myotome group [Term] id: EHDAA2:0003423 name: dermatome 39 (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: EHDAA2:0003429 ! trunk and cervical dermatome (embryonic human) relationship: develops_from EHDAA2:0000379 ! dermomyotome 39 (embryonic human) relationship: part_of EHDAA2:0003424 ! trunk and cervical dermatome group (embryonic human) [Term] id: EHDAA2:0003424 name: trunk and cervical dermatome group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0003426 name: trunk and cervical dermomyotome group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0003427 name: trunk and cervical sclerotome group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0003429 name: trunk and cervical dermatome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004016 ! dermatome [Term] id: EHDAA2:0003430 name: head dermatome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004016 ! dermatome [Term] id: EHDAA2:0003432 name: trunk and cervical myotome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003082 ! myotome [Term] id: EHDAA2:0003433 name: head myotome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003082 ! myotome [Term] id: EHDAA2:0003434 name: head dermomyotome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000486 ! multilaminar epithelium [Term] id: EHDAA2:0003441 name: head sclerotome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003089 ! sclerotome [Term] id: EHDAA2:0003442 name: head sclerotome group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0009617 ! head paraxial mesoderm [Term] id: EHDAA2:0003444 name: head dermomyotome group (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0009617 ! head paraxial mesoderm [Term] id: EHDAA2:0003451 name: head mesenchyme from head sclerotome (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003442 ! head sclerotome group (embryonic human) [Term] id: EHDAA2:0003452 name: liver haemangioblasts (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000131 ! developing structure with stem cells relationship: develops_from EHDAA2:0001831 ! septum transversum mesenchyme (embryonic human) relationship: part_of UBERON:0002107 ! liver [Term] id: EHDAA2:0003455 name: sinusoid system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0006877 ! vasculature of liver [Term] id: EHDAA2:0003456 name: early liver hepatic sinusoid linings (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: develops_from EHDAA2:0004525 ! liver capillary plexus (embryonic human) relationship: part_of EHDAA2:0003455 ! sinusoid system (embryonic human) [Term] id: EHDAA2:0003457 name: liver left lobe hepatic sinusoid linings (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: develops_from EHDAA2:0003456 ! early liver hepatic sinusoid linings (embryonic human) relationship: part_of EHDAA2:0003455 ! sinusoid system (embryonic human) relationship: part_of UBERON:0001115 ! left lobe of liver [Term] id: EHDAA2:0003458 name: liver right lobe hepatic sinusoid linings (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: develops_from EHDAA2:0003456 ! early liver hepatic sinusoid linings (embryonic human) relationship: part_of EHDAA2:0003455 ! sinusoid system (embryonic human) [Term] id: EHDAA2:0003459 name: liver right quadrate lobe hepatic sinusoid linings (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: develops_from EHDAA2:0003457 ! liver left lobe hepatic sinusoid linings (embryonic human) relationship: develops_from EHDAA2:0003458 ! liver right lobe hepatic sinusoid linings (embryonic human) relationship: part_of EHDAA2:0003458 ! liver right lobe hepatic sinusoid linings (embryonic human) relationship: part_of UBERON:0001114 ! right lobe of liver relationship: part_of UBERON:0001116 ! quadrate lobe of liver [Term] id: EHDAA2:0003460 name: liver right caudate lobe hepatic sinusoid linings (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001981 ! blood vessel relationship: develops_from EHDAA2:0003452 ! liver haemangioblasts (embryonic human) relationship: part_of EHDAA2:0003458 ! liver right lobe hepatic sinusoid linings (embryonic human) relationship: part_of UBERON:0001117 ! caudate lobe of liver [Term] id: EHDAA2:0003461 name: footplate mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003463 ! lower limb bud mesenchyme from myotomes (embryonic human) relationship: part_of UBERON:0003328 ! mesenchyme of footplate [Term] id: EHDAA2:0003462 name: footplate mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003464 ! lower limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0003328 ! mesenchyme of footplate [Term] id: EHDAA2:0003463 name: lower limb bud mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003398 ! myotome 27 (embryonic human) relationship: develops_from EHDAA2:0003400 ! myotome 28 (embryonic human) relationship: develops_from EHDAA2:0003402 ! myotome 29 (embryonic human) relationship: part_of UBERON:0003412 ! pelvic appendage bud mesenchyme [Term] id: EHDAA2:0003464 name: lower limb bud mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0003412 ! pelvic appendage bud mesenchyme [Term] id: EHDAA2:0003466 name: hip mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003464 ! lower limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0003320 ! mesenchyme of hip [Term] id: EHDAA2:0003467 name: hip mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0010963 ! trunk and cervical myotome group relationship: part_of UBERON:0003320 ! mesenchyme of hip [Term] id: EHDAA2:0003468 name: lower leg mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0005259 ! lower leg mesenchyme [Term] id: EHDAA2:0003469 name: lower leg mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003463 ! lower limb bud mesenchyme from myotomes (embryonic human) relationship: part_of UBERON:0005259 ! lower leg mesenchyme [Term] id: EHDAA2:0003470 name: upper limb bud mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: part_of UBERON:0003413 ! pectoral appendage bud mesenchyme [Term] id: EHDAA2:0003471 name: upper limb bud mesenchyeme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003377 ! myotome 16 (embryonic human) relationship: develops_from EHDAA2:0003378 ! myotome 17 (embryonic human) relationship: develops_from EHDAA2:0003381 ! myotome 18 (embryonic human) relationship: part_of UBERON:0003413 ! pectoral appendage bud mesenchyme [Term] id: EHDAA2:0003472 name: handplate mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003470 ! upper limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0009523 ! mesenchyme of handplate [Term] id: EHDAA2:0003473 name: handplate mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003471 ! upper limb bud mesenchyeme from myotomes (embryonic human) relationship: part_of UBERON:0009523 ! mesenchyme of handplate [Term] id: EHDAA2:0003474 name: forearm mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003471 ! upper limb bud mesenchyeme from myotomes (embryonic human) relationship: part_of UBERON:0003327 ! mesenchyme of forearm [Term] id: EHDAA2:0003475 name: forearm mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003470 ! upper limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0003327 ! mesenchyme of forearm [Term] id: EHDAA2:0003476 name: upper arm mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003470 ! upper limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0005258 ! upper arm mesenchyme [Term] id: EHDAA2:0003477 name: upper arm mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003471 ! upper limb bud mesenchyeme from myotomes (embryonic human) relationship: part_of UBERON:0005258 ! upper arm mesenchyme [Term] id: EHDAA2:0003478 name: upper leg mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003463 ! lower limb bud mesenchyme from myotomes (embryonic human) relationship: part_of UBERON:0005254 ! upper leg mesenchyme [Term] id: EHDAA2:0003479 name: upper leg mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003464 ! lower limb bud mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0005254 ! upper leg mesenchyme [Term] id: EHDAA2:0003480 name: carpal region mesenchyme from myotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003473 ! handplate mesenchyme from myotomes (embryonic human) relationship: part_of UBERON:0003319 ! mesenchyme of carpal region [Term] id: EHDAA2:0003481 name: carpal region mesenchyme from somatopleure mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0003472 ! handplate mesenchyme from somatopleure mesenchyme (embryonic human) relationship: part_of UBERON:0003319 ! mesenchyme of carpal region [Term] id: EHDAA2:0003482 name: toe 1 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005719 ! footplate apical ectodermal ridge relationship: part_of UBERON:0003631 ! pedal digit 1 [Term] id: EHDAA2:0003483 name: toe 2 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005719 ! footplate apical ectodermal ridge relationship: part_of UBERON:0003632 ! pedal digit 2 [Term] id: EHDAA2:0003484 name: toe 3 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005719 ! footplate apical ectodermal ridge relationship: part_of UBERON:0003633 ! pedal digit 3 [Term] id: EHDAA2:0003485 name: toe 4 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005719 ! footplate apical ectodermal ridge relationship: part_of UBERON:0003634 ! pedal digit 4 [Term] id: EHDAA2:0003486 name: toe 5 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005719 ! footplate apical ectodermal ridge relationship: part_of UBERON:0003635 ! pedal digit 5 [Term] id: EHDAA2:0003487 name: finger 1 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000405 ! digital region apical ectodermal ridge (embryonic human) relationship: part_of UBERON:0001463 ! manual digit 1 [Term] id: EHDAA2:0003488 name: finger 2 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000405 ! digital region apical ectodermal ridge (embryonic human) relationship: part_of UBERON:0003622 ! manual digit 2 [Term] id: EHDAA2:0003489 name: finger 3 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000405 ! digital region apical ectodermal ridge (embryonic human) relationship: part_of UBERON:0003623 ! manual digit 3 [Term] id: EHDAA2:0003490 name: finger 4 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000405 ! digital region apical ectodermal ridge (embryonic human) relationship: part_of UBERON:0003624 ! manual digit 4 [Term] id: EHDAA2:0003491 name: finger 5 apical ectodermal ridge (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000405 ! digital region apical ectodermal ridge (embryonic human) relationship: part_of UBERON:0003625 ! manual digit 5 [Term] id: EHDAA2:0003494 name: diaphragm body wall component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: part_of UBERON:0010084 ! future diaphragm [Term] id: EHDAA2:0004000 name: vertebra C4 pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0001788 ! sclerotome 08 (embryonic human) relationship: develops_from EHDAA2:0001789 ! sclerotome 09 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004001 name: vertebra C5 pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0001789 ! sclerotome 09 (embryonic human) relationship: develops_from EHDAA2:0001790 ! sclerotome 10 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004002 name: vertebra C6 pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0001790 ! sclerotome 10 (embryonic human) relationship: develops_from EHDAA2:0001791 ! sclerotome 11 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004003 name: vertebra C7 pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from EHDAA2:0001791 ! sclerotome 11 (embryonic human) relationship: develops_from EHDAA2:0001792 ! sclerotome 12 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004004 name: axis pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001786 ! sclerotome 06 (embryonic human) relationship: develops_from EHDAA2:0001787 ! sclerotome 07 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004005 name: atlas pre-cartilage condensation (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from EHDAA2:0001785 ! sclerotome 05 (embryonic human) relationship: develops_from EHDAA2:0001786 ! sclerotome 06 (embryonic human) relationship: part_of EHDAA2:0000241 ! cervical vertebral pre-cartilage condensation group (embryonic human) [Term] id: EHDAA2:0004006 name: mesonephros primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001020 ! reproductive cell population relationship: develops_from EHDAA2:0001537 ! hindgut primordial germ cells (embryonic human) relationship: part_of UBERON:0000080 ! mesonephros [Term] id: EHDAA2:0004007 name: cloacal membrane ectodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0006217 ! cloacal membrane [Term] id: EHDAA2:0004008 name: cloacal membrane endodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009846 ! embryonic cloacal epithelium relationship: part_of UBERON:0003929 ! gut epithelium relationship: part_of UBERON:0006217 ! cloacal membrane [Term] id: EHDAA2:0004010 name: cloacal fold epithelial component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0012292 ! embryonic cloacal fold [Term] id: EHDAA2:0004011 name: cloacal fold mesenchymal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0012292 ! embryonic cloacal fold [Term] id: EHDAA2:0004013 name: anal fold epithelial component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004010 ! cloacal fold epithelial component (embryonic human) relationship: develops_from EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of UBERON:0012293 ! anal fold [Term] id: EHDAA2:0004014 name: anal fold mesenchymal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004011 ! cloacal fold mesenchymal component (embryonic human) relationship: part_of UBERON:0012293 ! anal fold [Term] id: EHDAA2:0004016 name: perineum ectodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004010 ! cloacal fold epithelial component (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of UBERON:0002356 ! perineum relationship: part_of UBERON:0002416 ! integumental system [Term] id: EHDAA2:0004017 name: perineum mesenchymal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004011 ! cloacal fold mesenchymal component (embryonic human) relationship: part_of UBERON:0002356 ! perineum [Term] id: EHDAA2:0004019 name: anal membrane ectodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004007 ! cloacal membrane ectodermal component (embryonic human) relationship: develops_from EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of UBERON:0009195 ! anal membrane [Term] id: EHDAA2:0004023 name: urogenital fold epithelial component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004010 ! cloacal fold epithelial component (embryonic human) relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0004876 ! urogenital ridge [Term] id: EHDAA2:0004024 name: urogenital fold mesenchymal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004011 ! cloacal fold mesenchymal component (embryonic human) relationship: part_of UBERON:0004876 ! urogenital ridge [Term] id: EHDAA2:0004026 name: urogenital membrane ectodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004007 ! cloacal membrane ectodermal component (embryonic human) relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0006307 ! urogenital membrane [Term] id: EHDAA2:0004027 name: urogenital membrane endodermal component (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004008 ! cloacal membrane endodermal component (embryonic human) relationship: part_of UBERON:0000164 ! primitive urogenital sinus relationship: part_of UBERON:0006307 ! urogenital membrane [Term] id: EHDAA2:0004030 name: tricuspid valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004163 ! atrioventricular cushion mesenchyme (embryonic human) relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0002134 ! tricuspid valve [Term] id: EHDAA2:0004031 name: tricuspid valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000281 ! left atrium endocardiium (embryonic human) relationship: part_of UBERON:0002134 ! tricuspid valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004034 name: genital tubercle mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0005876 ! undifferentiated genital tubercle [Term] id: EHDAA2:0004035 name: genital tubercle epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0005876 ! undifferentiated genital tubercle [Term] id: EHDAA2:0004036 name: clitoris epithelium (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004035 ! genital tubercle epithelium (embryonic human) relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0002411 ! clitoris [Term] id: EHDAA2:0004037 name: clitoris mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004034 ! genital tubercle mesenchyme (embryonic human) relationship: part_of UBERON:0002411 ! clitoris [Term] id: EHDAA2:0004038 name: penis mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000175 ! male anatomical structure is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004034 ! genital tubercle mesenchyme (embryonic human) relationship: part_of UBERON:0000989 ! penis [Term] id: EHDAA2:0004040 name: female labial swelling mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0011755 ! female labial swelling [Term] id: EHDAA2:0004041 name: female labial swelling epithelium (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0011755 ! female labial swelling [Term] id: EHDAA2:0004042 name: male genital swelling mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000175 ! male anatomical structure relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0011756 ! male genital swelling [Term] id: EHDAA2:0004043 name: male genital swelling epithelium (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000175 ! male anatomical structure relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0011756 ! male genital swelling [Term] id: EHDAA2:0004045 name: ovary mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000176 ! female anatomical structure is_a: UBERON:0001136 ! mesothelium relationship: develops_from EHDAA2:0000718 ! indifferent gonad mesothelium (embryonic human) relationship: part_of UBERON:0000992 ! female gonad [Term] id: EHDAA2:0004047 name: mesonephros mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0005669 ! peritoneal cavity mesothelium relationship: part_of UBERON:0000080 ! mesonephros [Term] id: EHDAA2:0004049 name: gonadal ridge mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000486 ! multilaminar epithelium relationship: develops_from EHDAA2:0004047 ! mesonephros mesothelium (embryonic human) relationship: part_of UBERON:0005294 ! genital ridge [Term] id: EHDAA2:0004050 name: gonadal ridge primordial germ cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001020 ! reproductive cell population relationship: develops_from EHDAA2:0004006 ! mesonephros primordial germ cells (embryonic human) relationship: part_of UBERON:0005294 ! genital ridge [Term] id: EHDAA2:0004055 name: 5-7 cervical nephrotomes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007503 ! epithelial vesicle relationship: develops_from UBERON:0005494 ! intermediate mesenchyme relationship: part_of UBERON:0002120 ! pronephros [Term] id: EHDAA2:0004056 name: urorectal septum mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004591 ! internal anal region mesenchyme (embryonic human) relationship: part_of UBERON:0005760 ! urorectal septum [Term] id: EHDAA2:0004057 name: urorectal septum epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009846 ! embryonic cloacal epithelium relationship: part_of UBERON:0005760 ! urorectal septum [Term] id: EHDAA2:0004059 name: bladder mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004056 ! urorectal septum mesenchyme (embryonic human) relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: part_of UBERON:0001255 ! urinary bladder [Term] id: EHDAA2:0004066 name: primitive heart tube lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_in EHDAA2:0004067 ! endocardiogenic tissue (embryonic human) relationship: located_in EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) [Term] id: EHDAA2:0004067 name: endocardiogenic tissue (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002050 ! embryonic structure relationship: develops_from EHDAA2:0000214 ! cardiogenic splanchnopleure (embryonic human) relationship: part_of EHDAA2:0004147 ! cardiac system (embryonic human) [Term] id: EHDAA2:0004068 name: lower foregut region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: located_in EHDAA2:0004573 ! foregut mesothelium (embryonic human) relationship: part_of UBERON:0001041 ! foregut [Term] id: EHDAA2:0004070 name: respiratory primordium epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: EHDAA2:0004071 name: respiratory primordium associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: EHDAA2:0004079 name: 6th arch endoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0009722 ! entire pharyngeal arch endoderm [Term] id: EHDAA2:0004080 name: 6th arch ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0003117 ! pharyngeal arch 6 [Term] id: EHDAA2:0004086 name: epiglottis epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005666 ! 4th arch endoderm relationship: part_of UBERON:0000388 ! epiglottis [Term] id: EHDAA2:0004087 name: epiglottis associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005691 ! 4th arch mesenchyme relationship: part_of UBERON:0000388 ! epiglottis [Term] id: EHDAA2:0004090 name: lung bud epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from EHDAA2:0004070 ! respiratory primordium epithelium (embryonic human) relationship: part_of UBERON:0000118 ! lung bud [Term] id: EHDAA2:0004091 name: lung bud associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004093 ! respiratory primordium associated mesenchyme from splanchnopleure (embryonic human) relationship: part_of UBERON:0000118 ! lung bud [Term] id: EHDAA2:0004092 name: respiratory primordium associated mesenchyme from pharyngeal arch mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005691 ! 4th arch mesenchyme relationship: develops_from UBERON:0010031 ! 6th arch mesenchyme relationship: part_of EHDAA2:0004071 ! respiratory primordium associated mesenchyme (embryonic human) [Term] id: EHDAA2:0004093 name: respiratory primordium associated mesenchyme from splanchnopleure (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of EHDAA2:0004071 ! respiratory primordium associated mesenchyme (embryonic human) [Term] id: EHDAA2:0004095 name: left lung lower lobe respiratory tree (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: part_of UBERON:0008953 ! lower lobe of left lung [Term] id: EHDAA2:0004096 name: left lung upper lobe respiratory tree (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: part_of UBERON:0008952 ! upper lobe of left lung [Term] id: EHDAA2:0004097 name: right lung upper lobe respiratory tree (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: part_of UBERON:0002170 ! upper lobe of right lung [Term] id: EHDAA2:0004098 name: right lung lower lobe respiratory tree (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: part_of UBERON:0002171 ! lower lobe of right lung [Term] id: EHDAA2:0004099 name: right lung middle lobe respiratory tree (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007501 ! arborizing epithelial duct system relationship: part_of UBERON:0004890 ! right lung accessory lobe [Term] id: EHDAA2:0004105 name: nasal sac (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000204 ! pit relationship: located_in UBERON:0005384 ! nasal cavity epithelium [Term] id: EHDAA2:0004106 name: nasal conchae mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009205 ! lateral nasal process mesenchyme relationship: part_of UBERON:0001762 ! nasal concha [Term] id: EHDAA2:0004107 name: nasal conchae epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005384 ! nasal cavity epithelium relationship: part_of UBERON:0001762 ! nasal concha relationship: part_of UBERON:0005384 ! nasal cavity epithelium [Term] id: EHDAA2:0004108 name: frontonasal process epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0004066 ! frontonasal prominence [Term] id: EHDAA2:0004110 name: optic system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0000020 ! sense organ [Term] id: EHDAA2:0004111 name: optic vesicle proximal part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0004128 ! optic vesicle relationship: part_of UBERON:0004128 ! optic vesicle [Term] id: EHDAA2:0004120 name: future membranous labyrinth lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0012467 ! enclosed anatomical space relationship: develops_from UBERON:0013526 ! otocyst lumen relationship: located_in UBERON:0010113 ! future membranous labyrinth [Term] id: EHDAA2:0004122 name: early endolymphatic appendage epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0005641 ! otocyst epithelium relationship: part_of EHDAA2:0000438 ! early endolymphatic appendage (embryonic human) [Term] id: EHDAA2:0004123 name: early endolymphatic appendage associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009500 ! associated mesenchyme of otocyst relationship: part_of EHDAA2:0000438 ! early endolymphatic appendage (embryonic human) [Term] id: EHDAA2:0004124 name: pancreas dorsal primordium mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010378 ! mesenchyme from splanchnopleure relationship: part_of UBERON:0010375 ! pancreas dorsal primordium [Term] id: EHDAA2:0004125 name: pancreas ventral primordium mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0001831 ! septum transversum mesenchyme (embryonic human) relationship: develops_from UBERON:0010378 ! mesenchyme from splanchnopleure relationship: part_of UBERON:0010376 ! pancreas ventral primordium [Term] id: EHDAA2:0004126 name: ventral pancreas head mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004131 ! ventral pancreas mesenchyme (embryonic human) relationship: part_of EHDAA2:0001377 ! ventral pancreas head (embryonic human) [Term] id: EHDAA2:0004127 name: dorsal pancreas head mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004128 ! dorsal pancreas mesenchyme (embryonic human) relationship: part_of EHDAA2:0001375 ! dorsal pancreas head (embryonic human) [Term] id: EHDAA2:0004128 name: dorsal pancreas mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004124 ! pancreas dorsal primordium mesenchyme (embryonic human) relationship: part_of UBERON:0009708 ! dorsal pancreas [Term] id: EHDAA2:0004129 name: pancreas body mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004128 ! dorsal pancreas mesenchyme (embryonic human) relationship: part_of UBERON:0001150 ! body of pancreas [Term] id: EHDAA2:0004130 name: pancreas tail mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004128 ! dorsal pancreas mesenchyme (embryonic human) relationship: part_of UBERON:0001151 ! tail of pancreas [Term] id: EHDAA2:0004131 name: ventral pancreas mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004125 ! pancreas ventral primordium mesenchyme (embryonic human) relationship: part_of UBERON:0009709 ! ventral pancreas [Term] id: EHDAA2:0004132 name: lower jaw epithelium from ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004600 ! mandibular process ectoderm (embryonic human) relationship: develops_from UBERON:0011642 ! oral epithelium from ectoderm relationship: part_of UBERON:0003236 ! epithelium of lower jaw relationship: part_of UBERON:0011642 ! oral epithelium from ectoderm [Term] id: EHDAA2:0004133 name: lower jaw epithelium from endoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004136 ! oral epithelium from endoderm (embryonic human) relationship: part_of EHDAA2:0004136 ! oral epithelium from endoderm (embryonic human) relationship: part_of UBERON:0003236 ! epithelium of lower jaw [Term] id: EHDAA2:0004134 name: upper jaw epithelium from ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004108 ! frontonasal process epithelium (embryonic human) relationship: develops_from UBERON:0005233 ! medial-nasal process ectoderm relationship: develops_from UBERON:0009206 ! lateral nasal process surface ectoderm relationship: develops_from UBERON:0011642 ! oral epithelium from ectoderm relationship: develops_from UBERON:0012312 ! maxillary process ectoderm relationship: part_of UBERON:0003235 ! epithelium of upper jaw [Term] id: EHDAA2:0004135 name: upper jaw epithelium from endoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004136 ! oral epithelium from endoderm (embryonic human) relationship: part_of UBERON:0003235 ! epithelium of upper jaw [Term] id: EHDAA2:0004136 name: oral epithelium from endoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0002424 ! oral epithelium [Term] id: EHDAA2:0004140 name: adenohypophysis lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005082 ! tube lumen relationship: develops_from UBERON:0009975 ! remnant of lumen of Rathke's pouch relationship: located_in UBERON:0002196 ! adenohypophysis [Term] id: EHDAA2:0004144 name: heart-associated blood vessels (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of EHDAA2:0004147 ! cardiac system (embryonic human) [Term] id: EHDAA2:0004146 name: primitive heart tube jelly (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000476 ! acellular anatomical structure relationship: develops_from EHDAA2:0000427 ! primitive heart tube myocardium (embryonic human) relationship: part_of UBERON:0005498 ! primitive heart tube [Term] id: EHDAA2:0004147 name: cardiac system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0004535 ! cardiovascular system [Term] id: EHDAA2:0004148 name: outflow tract neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from UBERON:0010255 ! 3rd arch mesenchyme from neural crest relationship: develops_from UBERON:0010256 ! 4th arch mesenchyme from neural crest relationship: develops_from UBERON:0010257 ! 6th arch mesenchyme from neural crest relationship: located_in UBERON:0005263 ! outflow tract cardiac jelly relationship: part_of UBERON:0009751 ! cardiac mesenchyme [Term] id: EHDAA2:0004151 name: atrioventricular canal region jelly (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000476 ! acellular anatomical structure relationship: develops_from EHDAA2:0004146 ! primitive heart tube jelly (embryonic human) relationship: part_of UBERON:0011820 ! atrioventricular region [Term] id: EHDAA2:0004152 name: atrioventicular pre-cushion mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0002348 ! epicardium relationship: located_in EHDAA2:0004151 ! atrioventricular canal region jelly (embryonic human) relationship: part_of UBERON:0009751 ! cardiac mesenchyme relationship: part_of UBERON:0011820 ! atrioventricular region [Term] id: EHDAA2:0004156 name: left ventrical heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from EHDAA2:0000427 ! primitive heart tube myocardium (embryonic human) relationship: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002349 ! myocardium [Term] id: EHDAA2:0004157 name: right ventrical heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from EHDAA2:0000427 ! primitive heart tube myocardium (embryonic human) relationship: part_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002349 ! myocardium [Term] id: EHDAA2:0004159 name: interatrial septum primum heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from EHDAA2:0000427 ! primitive heart tube myocardium (embryonic human) relationship: part_of UBERON:0002349 ! myocardium relationship: part_of UBERON:0004154 ! septum primum [Term] id: EHDAA2:0004160 name: interatrial septum secundum heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from UBERON:0003379 ! cardiac muscle of right atrium relationship: part_of UBERON:0002349 ! myocardium relationship: part_of UBERON:0004155 ! septum secundum [Term] id: EHDAA2:0004161 name: heart tissues (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0000948 ! heart [Term] id: EHDAA2:0004163 name: atrioventricular cushion mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003104 ! mesenchyme relationship: develops_from EHDAA2:0004152 ! atrioventicular pre-cushion mesenchyme (embryonic human) relationship: part_of UBERON:0002062 ! endocardial cushion relationship: part_of UBERON:0009751 ! cardiac mesenchyme [Term] id: EHDAA2:0004165 name: atrioventricular region endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0011820 ! atrioventricular region [Term] id: EHDAA2:0004166 name: atrioventricular region heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from EHDAA2:0000427 ! primitive heart tube myocardium (embryonic human) relationship: part_of UBERON:0002349 ! myocardium relationship: part_of UBERON:0011820 ! atrioventricular region [Term] id: EHDAA2:0004167 name: mitral valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004163 ! atrioventricular cushion mesenchyme (embryonic human) relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0002135 ! mitral valve [Term] id: EHDAA2:0004170 name: right atrium future auricular region heart muscle (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001133 ! cardiac muscle tissue relationship: develops_from UBERON:0003379 ! cardiac muscle of right atrium relationship: part_of EHDAA2:0000298 ! right atrium future auricular region (embryonic human) relationship: part_of UBERON:0002349 ! myocardium [Term] id: EHDAA2:0004171 name: interatrial septum primum endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000426 ! primitive heart tube endocardium (embryonic human) relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0004154 ! septum primum [Term] id: EHDAA2:0004172 name: interatrial septum secundum endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009129 ! right atrium endocardium relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0004155 ! septum secundum [Term] id: EHDAA2:0004173 name: left venous valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0002348 ! epicardium relationship: part_of EHDAA2:0000968 ! left venous valve (embryonic human) relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) [Term] id: EHDAA2:0004174 name: left venous valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009129 ! right atrium endocardium relationship: part_of EHDAA2:0000968 ! left venous valve (embryonic human) relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004175 name: right venous valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0009129 ! right atrium endocardium relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0010189 ! right atrium venous valve [Term] id: EHDAA2:0004176 name: right venous valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0002348 ! epicardium relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0010189 ! right atrium venous valve [Term] id: EHDAA2:0004177 name: inferior vena cava valve leaflet mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004176 ! right venous valve leaflet mesenchyme (embryonic human) relationship: develops_from UBERON:0002348 ! epicardium relationship: part_of EHDAA2:0002165 ! valve mesenchyme (embryonic human) relationship: part_of UBERON:0005485 ! valve of inferior vena cava [Term] id: EHDAA2:0004178 name: inferior vena cava valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004175 ! right venous valve leaflet endocardium (embryonic human) relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0005485 ! valve of inferior vena cava [Term] id: EHDAA2:0004179 name: aortic valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001356 ! outflow tract future ascending aorta (embryonic human) relationship: part_of UBERON:0002137 ! aortic valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004180 name: pulmonary valve leaflet endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001357 ! outflow tract future pulmonary artery (embryonic human) relationship: part_of UBERON:0002146 ! pulmonary valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004181 name: heart lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: located_in UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004186 name: aortico-pulmonary spiral septum mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004148 ! outflow tract neural crest (embryonic human) relationship: part_of UBERON:0006207 ! aortico-pulmonary spiral septum relationship: part_of UBERON:0009751 ! cardiac mesenchyme [Term] id: EHDAA2:0004187 name: aortico-pulmonary spiral septum endocardium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001355 ! outflow tract endocardium (embryonic human) relationship: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0006207 ! aortico-pulmonary spiral septum [Term] id: EHDAA2:0004200 name: sacral parasympathetic ganglia (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from UBERON:0011208 ! medial migration pathway NC-derived mesenchyme relationship: part_of UBERON:0001808 ! parasympathetic ganglion [Term] id: EHDAA2:0004201 name: enteric nervous system ganglia (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion is_a: UBERON:0000480 ! anatomical group relationship: develops_from UBERON:0011208 ! medial migration pathway NC-derived mesenchyme relationship: part_of UBERON:0002005 ! enteric nervous system [Term] id: EHDAA2:0004204 name: optic nervous system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000467 ! anatomical system relationship: part_of EHDAA2:0004110 ! optic system (embryonic human) [Term] id: EHDAA2:0004205 name: branchial placode group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0008814 ! pharyngeal system [Term] id: EHDAA2:0004300 name: trunk dorsal root ganglions (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row is_a: UBERON:0000045 ! ganglion relationship: develops_from UBERON:0003083 ! trunk neural crest relationship: part_of UBERON:0000044 ! dorsal root ganglion [Term] id: EHDAA2:0004301 name: trunk segmental spinal nerves (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001021 ! nerve relationship: develops_from EHDAA2:0004300 ! trunk dorsal root ganglions (embryonic human) relationship: develops_from UBERON:0003083 ! trunk neural crest relationship: part_of UBERON:0001780 ! spinal nerve [Term] id: EHDAA2:0004302 name: cervical mesenchyme from cervical neural crest (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: develops_from EHDAA2:0001250 ! cervical neural crest (embryonic human) relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: EHDAA2:0004303 name: cervical lateral migration pathway NC-derived mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0004302 ! cervical mesenchyme from cervical neural crest (embryonic human) relationship: part_of EHDAA2:0004302 ! cervical mesenchyme from cervical neural crest (embryonic human) [Term] id: EHDAA2:0004304 name: cervical medial migration pathway NC-derived (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure relationship: develops_from EHDAA2:0004302 ! cervical mesenchyme from cervical neural crest (embryonic human) relationship: part_of EHDAA2:0004302 ! cervical mesenchyme from cervical neural crest (embryonic human) [Term] id: EHDAA2:0004306 name: myelencephalon nucleus ambiguus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004307 ! early nucleus ambiguus (embryonic human) relationship: part_of EHDAA2:0000929 ! myelencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004307 name: early nucleus ambiguus (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000132 ! transitional anatomical structure is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0010126 ! future nucleus ambiguus relationship: part_of EHDAA2:0004414 ! rhombomere 07 basal plate (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004308 name: early trochlear nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004392 ! early isthmus basal plate (embryonic human) relationship: part_of EHDAA2:0004392 ! early isthmus basal plate (embryonic human) [Term] id: EHDAA2:0004309 name: early abducens nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004314 name: spiral ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from UBERON:0005428 ! vagal neural crest relationship: part_of UBERON:0001846 ! internal ear [Term] id: EHDAA2:0004315 name: future subarachnoid space (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0012467 ! enclosed anatomical space relationship: part_of UBERON:0010743 ! meningeal cluster [Term] id: EHDAA2:0004316 name: future arachnoid layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0010743 ! meningeal cluster [Term] id: EHDAA2:0004320 name: early rhombomere group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: develops_from EHDAA2:0004321 ! pro-rhombomere group (embryonic human) relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: EHDAA2:0004321 name: pro-rhombomere group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: EHDAA2:0004322 name: rhombencephalon lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0004321 ! pro-rhombomere group (embryonic human) relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: EHDAA2:0004323 name: rhombencephalon roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004321 ! pro-rhombomere group (embryonic human) relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: EHDAA2:0004325 name: early rhombomere 01 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001546 ! pro-rhombomere a lateral wall (embryonic human) relationship: part_of EHDAA2:0001639 ! early rhombomere 01 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004326 name: early rhombomere 02 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001546 ! pro-rhombomere a lateral wall (embryonic human) relationship: part_of EHDAA2:0001649 ! early rhombomere 02 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004327 name: early rhombomere 04 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001553 ! pro-rhombomere b lateral wall (embryonic human) relationship: part_of EHDAA2:0001669 ! early rhombomere 04 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004328 name: early rhombomere 03 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001546 ! pro-rhombomere a lateral wall (embryonic human) relationship: part_of EHDAA2:0001659 ! early rhombomere 03 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004329 name: early rhombomere 05 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001559 ! pro-rhombomere c lateral wall (embryonic human) relationship: part_of EHDAA2:0001679 ! early rhombomere 05 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004330 name: early rhombomere 06 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001559 ! pro-rhombomere c lateral wall (embryonic human) relationship: part_of EHDAA2:0001689 ! early rhombomere 06 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004331 name: early rhombomere 07 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001559 ! pro-rhombomere c lateral wall (embryonic human) relationship: part_of EHDAA2:0001699 ! early rhombomere 07 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004332 name: early rhombomere 08 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0001565 ! pro-rhombomere d lateral wall (embryonic human) relationship: part_of EHDAA2:0001708 ! early rhombomere 08 (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004333 name: early rhombomere 08 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001569 ! pro-rhombomere d roof plate (embryonic human) relationship: part_of EHDAA2:0001708 ! early rhombomere 08 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004334 name: early rhombomere 07 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001562 ! pro-rhombomere c roof plate (embryonic human) relationship: part_of EHDAA2:0001699 ! early rhombomere 07 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004335 name: early rhombomere 06 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001562 ! pro-rhombomere c roof plate (embryonic human) relationship: part_of EHDAA2:0001689 ! early rhombomere 06 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004336 name: early rhombomere 05 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001562 ! pro-rhombomere c roof plate (embryonic human) relationship: part_of EHDAA2:0001679 ! early rhombomere 05 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004337 name: early rhombomere 04 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001556 ! pro-rhombomere b roof plate (embryonic human) relationship: part_of EHDAA2:0001669 ! early rhombomere 04 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004338 name: early rhombomere 03 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001550 ! pro-rhombomere a roof plate (embryonic human) relationship: part_of EHDAA2:0001659 ! early rhombomere 03 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004339 name: early rhombomere 02 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001550 ! pro-rhombomere a roof plate (embryonic human) relationship: part_of EHDAA2:0001649 ! early rhombomere 02 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004340 name: early rhombomere 01 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001569 ! pro-rhombomere d roof plate (embryonic human) relationship: part_of EHDAA2:0001639 ! early rhombomere 01 (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004341 name: early rhombomere 01 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001545 ! pro-rhombomere a floor plate (embryonic human) relationship: part_of EHDAA2:0001639 ! early rhombomere 01 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004342 name: early rhombomere 02 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001545 ! pro-rhombomere a floor plate (embryonic human) relationship: part_of EHDAA2:0001649 ! early rhombomere 02 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004343 name: early rhombomere 03 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001545 ! pro-rhombomere a floor plate (embryonic human) relationship: part_of EHDAA2:0001659 ! early rhombomere 03 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004344 name: early rhombomere 04 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001552 ! pro-rhombomere b floor plate (embryonic human) relationship: part_of EHDAA2:0001669 ! early rhombomere 04 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004345 name: early rhombomere 05 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001558 ! pro-rhombomere c floor plate (embryonic human) relationship: part_of EHDAA2:0001679 ! early rhombomere 05 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004346 name: early rhombomere 06 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001558 ! pro-rhombomere c floor plate (embryonic human) relationship: part_of EHDAA2:0001689 ! early rhombomere 06 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004347 name: early rhombomere 07 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001558 ! pro-rhombomere c floor plate (embryonic human) relationship: part_of EHDAA2:0001699 ! early rhombomere 07 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004348 name: early rhombomere 08 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0001564 ! pro-rhombomere d floor plate (embryonic human) relationship: part_of EHDAA2:0001708 ! early rhombomere 08 (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004349 name: isthmus primordium floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0004341 ! early rhombomere 01 floor plate (embryonic human) relationship: part_of EHDAA2:0001632 ! isthmus primordium (embryonic human) relationship: part_of UBERON:0005500 ! rhombomere floor plate [Term] id: EHDAA2:0004350 name: isthmus primordium roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004340 ! early rhombomere 01 roof plate (embryonic human) relationship: part_of EHDAA2:0001632 ! isthmus primordium (embryonic human) relationship: part_of EHDAA2:0004323 ! rhombencephalon roof plate (embryonic human) [Term] id: EHDAA2:0004351 name: isthmus primordium lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) relationship: part_of EHDAA2:0001632 ! isthmus primordium (embryonic human) relationship: part_of EHDAA2:0004322 ! rhombencephalon lateral wall (embryonic human) [Term] id: EHDAA2:0004352 name: mesomere group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0001891 ! midbrain [Term] id: EHDAA2:0004353 name: mesomere M1 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of EHDAA2:0004352 ! mesomere group (embryonic human) [Term] id: EHDAA2:0004354 name: mesomere M2 (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of EHDAA2:0004352 ! mesomere group (embryonic human) [Term] id: EHDAA2:0004355 name: mesomere M1 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0001178 ! midbrain ventricular layer (embryonic human) relationship: part_of EHDAA2:0004366 ! mesomere M1 lateral wall (embryonic human) [Term] id: EHDAA2:0004356 name: mesomere M1 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: develops_from UBERON:0005495 ! midbrain lateral wall relationship: part_of EHDAA2:0004366 ! mesomere M1 lateral wall (embryonic human) relationship: part_of UBERON:0009581 ! midbrain mantle layer [Term] id: EHDAA2:0004357 name: mesomere M1 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0001173 ! midbrain marginal layer (embryonic human) relationship: part_of EHDAA2:0004366 ! mesomere M1 lateral wall (embryonic human) [Term] id: EHDAA2:0004358 name: mesomere M2 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0001178 ! midbrain ventricular layer (embryonic human) relationship: part_of EHDAA2:0004367 ! mesomere M2 lateral wall (embryonic human) [Term] id: EHDAA2:0004359 name: mesomere M2 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0001173 ! midbrain marginal layer (embryonic human) relationship: part_of EHDAA2:0004367 ! mesomere M2 lateral wall (embryonic human) [Term] id: EHDAA2:0004360 name: mesomere M2 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0004367 ! mesomere M2 lateral wall (embryonic human) relationship: part_of UBERON:0009581 ! midbrain mantle layer [Term] id: EHDAA2:0004363 name: future spinal cord lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0005082 ! tube lumen relationship: located_in UBERON:0001049 ! neural tube relationship: part_of UBERON:0005281 ! ventricular system of central nervous system [Term] id: EHDAA2:0004364 name: mesomere M1 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000621 ! mesencephalon roof plate (embryonic human) relationship: part_of EHDAA2:0004353 ! mesomere M1 (embryonic human) relationship: part_of UBERON:0003299 ! roof plate of midbrain [Term] id: EHDAA2:0004365 name: mesomere M1 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000616 ! mesencephalon floor plate (embryonic human) relationship: part_of EHDAA2:0004353 ! mesomere M1 (embryonic human) relationship: part_of UBERON:0003307 ! floor plate of midbrain [Term] id: EHDAA2:0004366 name: mesomere M1 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0004353 ! mesomere M1 (embryonic human) [Term] id: EHDAA2:0004367 name: mesomere M2 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000617 ! mesencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0004354 ! mesomere M2 (embryonic human) [Term] id: EHDAA2:0004368 name: mesomere M2 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000616 ! mesencephalon floor plate (embryonic human) relationship: part_of EHDAA2:0004354 ! mesomere M2 (embryonic human) relationship: part_of UBERON:0003307 ! floor plate of midbrain [Term] id: EHDAA2:0004369 name: mesomere M2 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000621 ! mesencephalon roof plate (embryonic human) relationship: part_of EHDAA2:0004354 ! mesomere M2 (embryonic human) relationship: part_of UBERON:0003299 ! roof plate of midbrain [Term] id: EHDAA2:0004370 name: rhombomere 01 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001642 ! rhombomere 01 mantle layer (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001642 ! rhombomere 01 mantle layer (embryonic human) [Term] id: EHDAA2:0004371 name: rhombomere 01 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001642 ! rhombomere 01 mantle layer (embryonic human) relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) relationship: part_of EHDAA2:0001642 ! rhombomere 01 mantle layer (embryonic human) [Term] id: EHDAA2:0004372 name: mesomere M1 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0005495 ! midbrain lateral wall relationship: part_of EHDAA2:0004356 ! mesomere M1 mantle layer (embryonic human) [Term] id: EHDAA2:0004373 name: mesomere M1 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0005495 ! midbrain lateral wall relationship: part_of EHDAA2:0004356 ! mesomere M1 mantle layer (embryonic human) [Term] id: EHDAA2:0004374 name: midbrain alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004372 ! mesomere M1 alar plate (embryonic human) relationship: develops_from EHDAA2:0004376 ! mesomere M2 alar plate (embryonic human) relationship: part_of UBERON:0009581 ! midbrain mantle layer [Term] id: EHDAA2:0004376 name: mesomere M2 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004367 ! mesomere M2 lateral wall (embryonic human) relationship: part_of EHDAA2:0004360 ! mesomere M2 mantle layer (embryonic human) [Term] id: EHDAA2:0004377 name: mesomere M2 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004367 ! mesomere M2 lateral wall (embryonic human) relationship: part_of EHDAA2:0004360 ! mesomere M2 mantle layer (embryonic human) [Term] id: EHDAA2:0004378 name: early rhombomere 01 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) relationship: part_of EHDAA2:0004325 ! early rhombomere 01 lateral wall (embryonic human) [Term] id: EHDAA2:0004379 name: early rhombomere 02 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004326 ! early rhombomere 02 lateral wall (embryonic human) relationship: part_of EHDAA2:0004326 ! early rhombomere 02 lateral wall (embryonic human) [Term] id: EHDAA2:0004380 name: early rhombomere 03 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004328 ! early rhombomere 03 lateral wall (embryonic human) relationship: part_of EHDAA2:0004328 ! early rhombomere 03 lateral wall (embryonic human) [Term] id: EHDAA2:0004381 name: early rhombomere 04 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) relationship: part_of EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) [Term] id: EHDAA2:0004382 name: early rhombomere 05 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) relationship: part_of EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) [Term] id: EHDAA2:0004383 name: early rhombomere 06 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) relationship: part_of EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) [Term] id: EHDAA2:0004384 name: early rhombomere 07 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) relationship: part_of EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) [Term] id: EHDAA2:0004385 name: early rhombomere 08 marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) relationship: part_of EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) [Term] id: EHDAA2:0004386 name: isthmus primordium marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004378 ! early rhombomere 01 marginal layer (embryonic human) relationship: part_of EHDAA2:0004351 ! isthmus primordium lateral wall (embryonic human) [Term] id: EHDAA2:0004387 name: rhombomere 03 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001662 ! rhombomere 03 mantle layer (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001662 ! rhombomere 03 mantle layer (embryonic human) [Term] id: EHDAA2:0004388 name: rhombomere 03 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001662 ! rhombomere 03 mantle layer (embryonic human) relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) relationship: part_of EHDAA2:0001662 ! rhombomere 03 mantle layer (embryonic human) [Term] id: EHDAA2:0004389 name: rhombomere 02 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001652 ! rhombomere 02 mantle layer (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001652 ! rhombomere 02 mantle layer (embryonic human) [Term] id: EHDAA2:0004390 name: rhombomere 02 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0001652 ! rhombomere 02 mantle layer (embryonic human) relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) relationship: part_of EHDAA2:0001652 ! rhombomere 02 mantle layer (embryonic human) [Term] id: EHDAA2:0004391 name: early isthmus alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) [Term] id: EHDAA2:0004392 name: early isthmus basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) relationship: part_of EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) [Term] id: EHDAA2:0004393 name: early isthmus cerebellar primordium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0004391 ! early isthmus alar plate (embryonic human) relationship: part_of UBERON:0013163 ! future cerebellum [Term] id: EHDAA2:0004396 name: isthmus floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000758 ! early isthmus floor plate (embryonic human) relationship: part_of UBERON:0003052 ! midbrain-hindbrain boundary [Term] id: EHDAA2:0004397 name: isthmus lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of UBERON:0003052 ! midbrain-hindbrain boundary [Term] id: EHDAA2:0004398 name: isthmus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0000761 ! early isthmus marginal layer (embryonic human) relationship: part_of EHDAA2:0004397 ! isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0004399 name: isthmus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0000760 ! early isthmus mantle layer (embryonic human) relationship: part_of EHDAA2:0004397 ! isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0004400 name: isthmus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0000766 ! early isthmus ventricular layer (embryonic human) relationship: part_of EHDAA2:0004397 ! isthmus lateral wall (embryonic human) [Term] id: EHDAA2:0004401 name: cerebellum roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000765 ! early isthmus roof plate (embryonic human) relationship: develops_from UBERON:0005568 ! rhombomere 1 roof plate relationship: part_of UBERON:0002037 ! cerebellum [Term] id: EHDAA2:0004402 name: isthmus basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004392 ! early isthmus basal plate (embryonic human) relationship: part_of EHDAA2:0004399 ! isthmus mantle layer (embryonic human) [Term] id: EHDAA2:0004403 name: isthmus alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004391 ! early isthmus alar plate (embryonic human) relationship: part_of EHDAA2:0004399 ! isthmus mantle layer (embryonic human) [Term] id: EHDAA2:0004404 name: cerebellum lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: part_of UBERON:0002037 ! cerebellum [Term] id: EHDAA2:0004405 name: pons choroid plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: located_in UBERON:0002422 ! fourth ventricle [Term] id: EHDAA2:0004406 name: pons choroid plexus capillaries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0005720 ! hindbrain venous system relationship: part_of EHDAA2:0004405 ! pons choroid plexus (embryonic human) [Term] id: EHDAA2:0004407 name: pons choroid plexus epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0001157 ! pons ventricular layer (embryonic human) relationship: part_of EHDAA2:0004405 ! pons choroid plexus (embryonic human) [Term] id: EHDAA2:0004408 name: rhombomere 04 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001672 ! rhombomere 04 mantle layer (embryonic human) [Term] id: EHDAA2:0004409 name: rhombomere 04 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004327 ! early rhombomere 04 lateral wall (embryonic human) relationship: part_of EHDAA2:0001672 ! rhombomere 04 mantle layer (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004410 name: rhombomere 05 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001682 ! rhombomere 05 mantle layer (embryonic human) [Term] id: EHDAA2:0004411 name: rhombomere 05 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004329 ! early rhombomere 05 lateral wall (embryonic human) relationship: part_of EHDAA2:0001682 ! rhombomere 05 mantle layer (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004412 name: rhombomere 06 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) relationship: part_of EHDAA2:0001692 ! rhombomere 06 mantle layer (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004413 name: rhombomere 06 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004330 ! early rhombomere 06 lateral wall (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001692 ! rhombomere 06 mantle layer (embryonic human) [Term] id: EHDAA2:0004414 name: rhombomere 07 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) relationship: part_of EHDAA2:0001702 ! rhombomere 07 mantle layer (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004415 name: rhombomere 07 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004331 ! early rhombomere 07 lateral wall (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001702 ! rhombomere 07 mantle layer (embryonic human) [Term] id: EHDAA2:0004416 name: rhombomere 08 basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) relationship: part_of EHDAA2:0001711 ! rhombomere 08 mantle layer (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004417 name: rhombomere 08 alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004332 ! early rhombomere 08 lateral wall (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0001711 ! rhombomere 08 mantle layer (embryonic human) [Term] id: EHDAA2:0004421 name: mesenchyme from future diencephalic neural crest (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: develops_from UBERON:0003851 ! diencephalon neural crest relationship: part_of UBERON:0007213 ! mesenchyme derived from head neural crest [Term] id: EHDAA2:0004424 name: future telencephalon (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0006240 ! future forebrain [Term] id: EHDAA2:0004425 name: future telencephalon medium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000663 ! future telencephalon lateral wall (embryonic human) relationship: part_of EHDAA2:0004424 ! future telencephalon (embryonic human) [Term] id: EHDAA2:0004426 name: future diencephalon D1 neuromere (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0006222 ! future diencephalon [Term] id: EHDAA2:0004427 name: future diencephalon D2 neuromere (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0006222 ! future diencephalon [Term] id: EHDAA2:0004428 name: future diencephalon D1 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004426 ! future diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004429 name: future diencephalon D1 chiasmatic plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004426 ! future diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004430 name: future diencephalon D1 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000665 ! prosencephalon neural fold (embryonic human) relationship: part_of EHDAA2:0004426 ! future diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004432 name: non-optic region of D1 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0004428 ! future diencephalon D1 lateral wall (embryonic human) relationship: part_of EHDAA2:0004428 ! future diencephalon D1 lateral wall (embryonic human) [Term] id: EHDAA2:0004434 name: neurohypohysial region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004435 ! early neurohypohysial region (embryonic human) relationship: part_of EHDAA2:0004460 ! diencephalon D2 floor plate (embryonic human) relationship: part_of UBERON:0000007 ! pituitary gland [Term] id: EHDAA2:0004435 name: early neurohypohysial region (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000601 ! future diencephalon D2 floor plate (embryonic human) relationship: part_of EHDAA2:0000601 ! future diencephalon D2 floor plate (embryonic human) relationship: part_of UBERON:0006240 ! future forebrain [Term] id: EHDAA2:0004436 name: future telencephalon medium anterior wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: part_of EHDAA2:0004425 ! future telencephalon medium (embryonic human) [Term] id: EHDAA2:0004437 name: future telencephalon medium floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: part_of EHDAA2:0004425 ! future telencephalon medium (embryonic human) [Term] id: EHDAA2:0004438 name: commisural plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0004437 ! future telencephalon medium floor plate (embryonic human) relationship: part_of EHDAA2:0001989 ! telencephalon medium (embryonic human) [Term] id: EHDAA2:0004439 name: telencephalon medium anterior wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004436 ! future telencephalon medium anterior wall (embryonic human) relationship: part_of EHDAA2:0001989 ! telencephalon medium (embryonic human) [Term] id: EHDAA2:0004440 name: ependymal fluid (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000188 ! acellular fluid anatomical entity relationship: develops_from UBERON:0005281 ! ventricular system of central nervous system relationship: located_in UBERON:0005281 ! ventricular system of central nervous system [Term] id: EHDAA2:0004442 name: mesenchyme from mesencephalic neural crest (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001016 ! developing mesenchymal structure relationship: develops_from UBERON:0003849 ! mesencephalic neural crest relationship: part_of UBERON:0007213 ! mesenchyme derived from head neural crest [Term] id: EHDAA2:0004444 name: early amygdaloid body (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0000235 ! paleopallium mantle layer (embryonic human) relationship: part_of EHDAA2:0000235 ! paleopallium mantle layer (embryonic human) [Term] id: EHDAA2:0004445 name: telencephalon basal area (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001893 ! telencephalon [Term] id: EHDAA2:0004446 name: telencephalon basal area mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0001986 ! telencephalon mantle layer (embryonic human) relationship: part_of EHDAA2:0004445 ! telencephalon basal area (embryonic human) [Term] id: EHDAA2:0004447 name: telencephalon basal area marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001988 ! telencephalon marginal layer (embryonic human) relationship: part_of EHDAA2:0004445 ! telencephalon basal area (embryonic human) [Term] id: EHDAA2:0004448 name: telencephalon basal area ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001996 ! telencephalon ventricular layer (embryonic human) relationship: part_of EHDAA2:0004445 ! telencephalon basal area (embryonic human) [Term] id: EHDAA2:0004451 name: lateral ventricle choroid plexus capillaries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004452 ! telencephalon pia mater capillaries (embryonic human) relationship: part_of UBERON:0002307 ! choroid plexus of lateral ventricle [Term] id: EHDAA2:0004452 name: telencephalon pia mater capillaries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0013146 ! venous system of brain relationship: located_in UBERON:0003552 ! telencephalon pia mater [Term] id: EHDAA2:0004453 name: primary meninx (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0010743 ! meningeal cluster [Term] id: EHDAA2:0004454 name: diencephalon D1 neuromere (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001894 ! diencephalon [Term] id: EHDAA2:0004455 name: diencephalon D2 neuromere (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001894 ! diencephalon [Term] id: EHDAA2:0004456 name: diencephalon D1 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0004428 ! future diencephalon D1 lateral wall (embryonic human) relationship: part_of EHDAA2:0004454 ! diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004457 name: diencephalon D1 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004430 ! future diencephalon D1 roof plate (embryonic human) relationship: part_of EHDAA2:0004454 ! diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004458 name: diencephalon D1 chiasmatic plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0004429 ! future diencephalon D1 chiasmatic plate (embryonic human) relationship: part_of EHDAA2:0004454 ! diencephalon D1 neuromere (embryonic human) [Term] id: EHDAA2:0004459 name: diencephalon D2 roof plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0000605 ! future diencephalon D2 roof plate (embryonic human) relationship: part_of EHDAA2:0004455 ! diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0004460 name: diencephalon D2 floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from EHDAA2:0000601 ! future diencephalon D2 floor plate (embryonic human) relationship: part_of EHDAA2:0004455 ! diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0004463 name: diencephalon D2 lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from EHDAA2:0000602 ! future diencephalon D2 lateral wall (embryonic human) relationship: part_of EHDAA2:0004455 ! diencephalon D2 neuromere (embryonic human) [Term] id: EHDAA2:0004464 name: diencephalon D1 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004456 ! diencephalon D1 lateral wall (embryonic human) relationship: part_of EHDAA2:0004456 ! diencephalon D1 lateral wall (embryonic human) [Term] id: EHDAA2:0004465 name: diencephalon D1 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004456 ! diencephalon D1 lateral wall (embryonic human) relationship: develops_from EHDAA2:0004464 ! diencephalon D1 ventricular layer (embryonic human) relationship: part_of EHDAA2:0004456 ! diencephalon D1 lateral wall (embryonic human) [Term] id: EHDAA2:0004466 name: diencephalon D2 mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) [Term] id: EHDAA2:0004467 name: diencephalon D2 ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) relationship: part_of EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) [Term] id: EHDAA2:0004468 name: hypothalamic cell cord (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium relationship: develops_from EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) relationship: part_of EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) [Term] id: EHDAA2:0004471 name: ventral thalamus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0010225 ! thalamic complex [Term] id: EHDAA2:0004472 name: synencephalon (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004463 ! diencephalon D2 lateral wall (embryonic human) relationship: part_of UBERON:0001894 ! diencephalon [Term] id: EHDAA2:0004473 name: midbrain sulcus limitans (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0006846 ! groove relationship: located_in UBERON:0001891 ! midbrain [Term] id: EHDAA2:0004476 name: tegmentum marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001173 ! midbrain marginal layer (embryonic human) relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: EHDAA2:0004477 name: tegmentum ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001178 ! midbrain ventricular layer (embryonic human) relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: EHDAA2:0004478 name: tegmentum mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: EHDAA2:0004479 name: tegmentum basal plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from UBERON:0010285 ! midbrain basal plate relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: EHDAA2:0004480 name: tectum ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001178 ! midbrain ventricular layer (embryonic human) relationship: part_of UBERON:0002314 ! midbrain tectum [Term] id: EHDAA2:0004481 name: tectum marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001173 ! midbrain marginal layer (embryonic human) relationship: part_of UBERON:0002314 ! midbrain tectum [Term] id: EHDAA2:0004482 name: tectum mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0009581 ! midbrain mantle layer relationship: part_of UBERON:0002314 ! midbrain tectum [Term] id: EHDAA2:0004483 name: tectum alar plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002020 ! gray matter of neuraxis relationship: develops_from EHDAA2:0004374 ! midbrain alar plate (embryonic human) relationship: part_of EHDAA2:0004482 ! tectum mantle layer (embryonic human) [Term] id: EHDAA2:0004484 name: tegmentum oculomotor nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0001715 ! oculomotor nuclear complex relationship: part_of EHDAA2:0004478 ! tegmentum mantle layer (embryonic human) [Term] id: EHDAA2:0004485 name: tectum trigeminal sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004627 ! midbrain trigeminal sensory nucleus (embryonic human) relationship: part_of EHDAA2:0004482 ! tectum mantle layer (embryonic human) [Term] id: EHDAA2:0004486 name: tegmentum oculomotor III nerve (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001021 ! nerve relationship: develops_from UBERON:0001643 ! oculomotor nerve relationship: part_of EHDAA2:0004478 ! tegmentum mantle layer (embryonic human) [Term] id: EHDAA2:0004487 name: synencephalon mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of EHDAA2:0004472 ! synencephalon (embryonic human) [Term] id: EHDAA2:0004489 name: synencephalon ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of EHDAA2:0004472 ! synencephalon (embryonic human) [Term] id: EHDAA2:0004490 name: subthalamus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of UBERON:0001900 ! subthalamus [Term] id: EHDAA2:0004491 name: subthalamus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004490 ! subthalamus mantle layer (embryonic human) relationship: part_of UBERON:0001900 ! subthalamus [Term] id: EHDAA2:0004492 name: subthalamus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of UBERON:0001900 ! subthalamus [Term] id: EHDAA2:0004493 name: ventral thalamus mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004466 ! diencephalon D2 mantle layer (embryonic human) relationship: part_of EHDAA2:0004471 ! ventral thalamus (embryonic human) [Term] id: EHDAA2:0004494 name: ventral thalamus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004493 ! ventral thalamus mantle layer (embryonic human) relationship: part_of EHDAA2:0004471 ! ventral thalamus (embryonic human) [Term] id: EHDAA2:0004495 name: ventral thalamus ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0004467 ! diencephalon D2 ventricular layer (embryonic human) relationship: part_of EHDAA2:0004471 ! ventral thalamus (embryonic human) [Term] id: EHDAA2:0004497 name: archipallium mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium relationship: develops_from EHDAA2:0001986 ! telencephalon mantle layer (embryonic human) relationship: part_of UBERON:0002961 ! archicortex [Term] id: EHDAA2:0004498 name: archipallium ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001996 ! telencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0002961 ! archicortex [Term] id: EHDAA2:0004499 name: archipallium marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001988 ! telencephalon marginal layer (embryonic human) relationship: part_of UBERON:0002961 ! archicortex [Term] id: EHDAA2:0004500 name: axillary sac (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0001587 ! subclavian vein relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: EHDAA2:0004502 name: lumbar sac (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0005610 ! iliac vein relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: EHDAA2:0004503 name: body arteries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0000468 ! multi-cellular organism relationship: part_of UBERON:0001637 ! artery [Term] id: EHDAA2:0004506 name: haematoblasts (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001016 ! developing mesenchymal structure relationship: develops_from UBERON:0011919 ! yolk sac blood island relationship: part_of UBERON:0011919 ! yolk sac blood island [Term] id: EHDAA2:0004510 name: angioblast clusters (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001016 ! developing mesenchymal structure relationship: develops_from UBERON:0011919 ! yolk sac blood island relationship: part_of UBERON:0003316 ! mesenchyme of yolk sac [Term] id: EHDAA2:0004511 name: subepicardial vasculoplexus capillaries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0002348 ! epicardium relationship: part_of EHDAA2:0004144 ! heart-associated blood vessels (embryonic human) relationship: part_of UBERON:0007798 ! vascular system [Term] id: EHDAA2:0004513 name: fused midline dorsal aorta (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0005613 ! left dorsal aorta relationship: develops_from UBERON:0005622 ! right dorsal aorta relationship: part_of UBERON:0010191 ! aortic system [Term] id: EHDAA2:0004515 name: 4th arch artery right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0010256 ! 4th arch mesenchyme from neural crest relationship: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0004363 ! aortic arch [Term] id: EHDAA2:0004516 name: 6th arch artery right (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003117 ! pharyngeal arch 6 relationship: develops_from UBERON:0010257 ! 6th arch mesenchyme from neural crest relationship: part_of UBERON:0004363 ! aortic arch [Term] id: EHDAA2:0004517 name: stapedial artery definitive (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0001532 ! internal carotid artery relationship: part_of EHDAA2:0004521 ! head arteries (embryonic human) relationship: part_of UBERON:0001756 ! middle ear [Term] id: EHDAA2:0004521 name: head arteries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0001637 ! artery [Term] id: EHDAA2:0004522 name: heart associated arteries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of EHDAA2:0004144 ! heart-associated blood vessels (embryonic human) relationship: part_of EHDAA2:0004503 ! body arteries (embryonic human) [Term] id: EHDAA2:0004523 name: heart associated veins (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of EHDAA2:0004144 ! heart-associated blood vessels (embryonic human) relationship: part_of EHDAA2:0004543 ! body veins (embryonic human) [Term] id: EHDAA2:0004524 name: limb arteries (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0002101 ! limb [Term] id: EHDAA2:0004525 name: liver capillary plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004526 ! body venous capillary plexus (embryonic human) relationship: part_of UBERON:0006877 ! vasculature of liver [Term] id: EHDAA2:0004526 name: body venous capillary plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) [Term] id: EHDAA2:0004527 name: limb veins (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0004582 ! venous system [Term] id: EHDAA2:0004529 name: marginal vein of lower limb (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004532 ! lower limb vascular plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of UBERON:0002103 ! hindlimb [Term] id: EHDAA2:0004530 name: marginal vein of upper limb (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004531 ! upper limb vascular plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of UBERON:0002102 ! forelimb [Term] id: EHDAA2:0004531 name: upper limb vascular plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: part_of UBERON:0002102 ! forelimb [Term] id: EHDAA2:0004532 name: lower limb vascular plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: part_of EHDAA2:0004527 ! limb veins (embryonic human) relationship: part_of EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: part_of UBERON:0002103 ! hindlimb [Term] id: EHDAA2:0004533 name: azygous vein (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0008268 ! right supracardinal vein relationship: part_of EHDAA2:0004543 ! body veins (embryonic human) [Term] id: EHDAA2:0004540 name: embryonic venous capillary plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0004582 ! venous system [Term] id: EHDAA2:0004541 name: head and neck venous capillary plexus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of EHDAA2:0004540 ! embryonic venous capillary plexus (embryonic human) relationship: part_of UBERON:0009141 ! craniocervical region vein [Term] id: EHDAA2:0004543 name: body veins (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0004582 ! venous system [Term] id: EHDAA2:0004545 name: right ventricle chordae tendinae (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007475 ! matrix-based tissue relationship: develops_from UBERON:0009712 ! endocardium of right ventricle relationship: part_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002134 ! tricuspid valve relationship: part_of UBERON:0002165 ! endocardium [Term] id: EHDAA2:0004547 name: third polar body (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000478 ! extraembryonic structure relationship: ends_at CS03 ! CS03 relationship: part_of CL:0002090 ! polar body [Term] id: EHDAA2:0004549 name: oroonasal membrane respiratory epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000487 ! simple squamous epithelium relationship: develops_from EHDAA2:0004552 ! nasal fin respiratory epithelium (embryonic human) relationship: part_of UBERON:0005385 ! nasal cavity respiratory epithelium relationship: part_of UBERON:0009672 ! oronasal membrane [Term] id: EHDAA2:0004550 name: oroonasal membrane oral epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000487 ! simple squamous epithelium relationship: develops_from EHDAA2:0004551 ! nasal fin oral epithelium (embryonic human) relationship: part_of UBERON:0002424 ! oral epithelium relationship: part_of UBERON:0009672 ! oronasal membrane [Term] id: EHDAA2:0004551 name: nasal fin oral epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0011642 ! oral epithelium from ectoderm relationship: part_of UBERON:0009671 ! nasal fin relationship: part_of UBERON:0011642 ! oral epithelium from ectoderm [Term] id: EHDAA2:0004552 name: nasal fin respiratory epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005385 ! nasal cavity respiratory epithelium relationship: part_of UBERON:0009671 ! nasal fin [Term] id: EHDAA2:0004553 name: laryngopharyngeal cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: develops_from UBERON:0006272 ! oronasal cavity relationship: part_of UBERON:0001051 ! hypopharynx [Term] id: EHDAA2:0004555 name: nasopharyngeal cavity (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000215 ! open cavity relationship: develops_from UBERON:0006272 ! oronasal cavity relationship: located_in UBERON:0001728 ! nasopharynx [Term] id: EHDAA2:0004559 name: gut mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of EHDAA2:0004565 ! gut tissues (embryonic human) [Term] id: EHDAA2:0004562 name: appendix associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0000207 ! caecum associated mesenchyme (embryonic human) relationship: part_of UBERON:0001154 ! vermiform appendix [Term] id: EHDAA2:0004563 name: early midgut region (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0001045 ! midgut [Term] id: EHDAA2:0004564 name: midgut part of future large intestine (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004563 ! early midgut region (embryonic human) relationship: part_of UBERON:0001045 ! midgut [Term] id: EHDAA2:0004565 name: gut tissues (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001555 ! digestive tract [Term] id: EHDAA2:0004568 name: early foregut endoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0000925 ! endoderm relationship: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: EHDAA2:0004571 name: laryngopharynx associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: part_of UBERON:0001051 ! hypopharynx [Term] id: EHDAA2:0004573 name: foregut mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0005669 ! peritoneal cavity mesothelium relationship: part_of EHDAA2:0004559 ! gut mesothelium (embryonic human) relationship: part_of UBERON:0001041 ! foregut [Term] id: EHDAA2:0004576 name: midgut mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0005669 ! peritoneal cavity mesothelium relationship: part_of EHDAA2:0004559 ! gut mesothelium (embryonic human) relationship: part_of UBERON:0001045 ! midgut [Term] id: EHDAA2:0004577 name: midgut part of future large intestine epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0003914 ! epithelial tube relationship: develops_from UBERON:0003352 ! epithelium of midgut relationship: part_of EHDAA2:0004564 ! midgut part of future large intestine (embryonic human) relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: EHDAA2:0004578 name: midgut part of future large intestine associated mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009478 ! associated mesenchyme of midgut relationship: part_of EHDAA2:0004564 ! midgut part of future large intestine (embryonic human) [Term] id: EHDAA2:0004579 name: midgut part of future large intestine mesentery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from EHDAA2:0004578 ! midgut part of future large intestine associated mesenchyme (embryonic human) relationship: part_of EHDAA2:0004564 ! midgut part of future large intestine (embryonic human) relationship: part_of UBERON:0003284 ! mesentery of midgut [Term] id: EHDAA2:0004580 name: coecum mesentery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from EHDAA2:0004562 ! appendix associated mesenchyme (embryonic human) relationship: part_of UBERON:0001153 ! caecum relationship: part_of UBERON:0003284 ! mesentery of midgut [Term] id: EHDAA2:0004581 name: future jejunum & ileum mesentery (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from EHDAA2:0001616 ! future jejunum & ileum associated mesenchyme (embryonic human) relationship: part_of EHDAA2:0001615 ! future jejunum & ileum (embryonic human) relationship: part_of UBERON:0003284 ! mesentery of midgut [Term] id: EHDAA2:0004582 name: early hindgut (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: located_in EHDAA2:0004584 ! hindgut mesothelium (embryonic human) relationship: part_of UBERON:0001046 ! hindgut [Term] id: EHDAA2:0004583 name: foregut dorsal mesentery (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0000210 ! row relationship: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0002296 ! dorsal mesentery [Term] id: EHDAA2:0004584 name: hindgut mesothelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0010378 ! mesenchyme from splanchnopleure relationship: part_of EHDAA2:0004559 ! gut mesothelium (embryonic human) relationship: part_of UBERON:0001046 ! hindgut [Term] id: EHDAA2:0004590 name: anal region membranes (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001353 ! anal region [Term] id: EHDAA2:0004591 name: internal anal region mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: part_of UBERON:0012361 ! internal anal region [Term] id: EHDAA2:0004592 name: external anal region surface ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0012469 ! external anal region [Term] id: EHDAA2:0004593 name: rest of external anal region surface ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) relationship: part_of EHDAA2:0004592 ! external anal region surface ectoderm (embryonic human) [Term] id: EHDAA2:0004594 name: peri-arterial mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010255 ! 3rd arch mesenchyme from neural crest relationship: develops_from UBERON:0010256 ! 4th arch mesenchyme from neural crest relationship: develops_from UBERON:0010257 ! 6th arch mesenchyme from neural crest relationship: part_of EHDAA2:0004522 ! heart associated arteries (embryonic human) [Term] id: EHDAA2:0004595 name: thyroid mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0010254 ! 2nd arch mesenchyme from neural crest relationship: develops_from UBERON:0010255 ! 3rd arch mesenchyme from neural crest relationship: part_of UBERON:0002046 ! thyroid gland [Term] id: EHDAA2:0004597 name: membranous interventricular septum mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004186 ! aortico-pulmonary spiral septum mesenchyme (embryonic human) relationship: part_of UBERON:0004666 ! interventricular septum membranous part [Term] id: EHDAA2:0004600 name: mandibular process ectoderm (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0013155 ! 1st arch mandibular ectoderm relationship: part_of UBERON:0005867 ! mandibular prominence [Term] id: EHDAA2:0004608 name: primary palate bone (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007842 ! membrane bone relationship: develops_from UBERON:0005705 ! primary palate mesenchyme relationship: part_of UBERON:0005620 ! primary palate [Term] id: EHDAA2:0004609 name: primary palate epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005659 ! primary palate epithelium relationship: part_of UBERON:0005620 ! primary palate [Term] id: EHDAA2:0004612 name: copula epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0005664 ! 2nd arch endoderm relationship: part_of UBERON:0010034 ! copula linguae [Term] id: EHDAA2:0004613 name: copula associared mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0005689 ! 2nd arch mesenchyme relationship: part_of UBERON:0010034 ! copula linguae [Term] id: EHDAA2:0004625 name: accessory XI ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from EHDAA2:0001567 ! pro-rhombomere d neural crest (embryonic human) relationship: part_of EHDAA2:0000226 ! CNS cranial ganglion (embryonic human) [Term] id: EHDAA2:0004626 name: trigeminal nucleus group (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000480 ! anatomical group [Term] id: EHDAA2:0004627 name: midbrain trigeminal sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) relationship: part_of UBERON:0009581 ! midbrain mantle layer [Term] id: EHDAA2:0004629 name: trigeminal medullary sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004634 ! trigeminal myelencephalon sensory nucleus (embryonic human) relationship: part_of EHDAA2:0001090 ! medulla oblongata alar plate (embryonic human) relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) [Term] id: EHDAA2:0004630 name: trigeminal pontine motor nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004631 ! early trigeminal pontine motor nucleus (embryonic human) relationship: part_of EHDAA2:0001155 ! pons basal plate (embryonic human) relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) [Term] id: EHDAA2:0004631 name: early trigeminal pontine motor nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0009579 ! myelencephalon basal plate relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004632 name: early trigeminal pontine sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0000625 ! future metencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) [Term] id: EHDAA2:0004633 name: early trigeminal myelencephalon sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0000642 ! future myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) [Term] id: EHDAA2:0004634 name: trigeminal myelencephalon sensory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004633 ! early trigeminal myelencephalon sensory nucleus (embryonic human) relationship: part_of EHDAA2:0000924 ! myelencephalon alar plate (embryonic human) relationship: part_of EHDAA2:0004626 ! trigeminal nucleus group (embryonic human) [Term] id: EHDAA2:0004636 name: early hypoglossal nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0009579 ! myelencephalon basal plate relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004637 name: myelencephalon hypoglossal XII nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004636 ! early hypoglossal nucleus (embryonic human) relationship: part_of EHDAA2:0000929 ! myelencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004640 name: early facial nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0010123 ! future facial nucleus relationship: part_of EHDAA2:0004412 ! rhombomere 06 basal plate (embryonic human) [Term] id: EHDAA2:0004642 name: early inferior salivatory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0010124 ! future inferior salivatory nucleus relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004645 name: early superior salivatory nucleus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0010125 ! future superior salivatory nucleus relationship: part_of EHDAA2:0000629 ! future metencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004648 name: superior jugular ganglion (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000045 ! ganglion relationship: develops_from UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: part_of EHDAA2:0000226 ! CNS cranial ganglion (embryonic human) [Term] id: EHDAA2:0004651 name: early dorsal motor nucleus of vagus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from UBERON:0009579 ! myelencephalon basal plate relationship: develops_from UBERON:0010127 ! future dorsal motor nucleus of vagus relationship: part_of UBERON:0009579 ! myelencephalon basal plate [Term] id: EHDAA2:0004652 name: myelencephalon dorsal motor nucleus of vagus (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000125 ! neural nucleus relationship: develops_from EHDAA2:0004651 ! early dorsal motor nucleus of vagus (embryonic human) relationship: part_of EHDAA2:0000929 ! myelencephalon basal plate (embryonic human) [Term] id: EHDAA2:0004663 name: paleopallium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: EHDAA2:0004664 name: neopallium mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium relationship: develops_from EHDAA2:0001986 ! telencephalon mantle layer (embryonic human) relationship: part_of UBERON:0001950 ! neocortex [Term] id: EHDAA2:0004665 name: neopallium ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium relationship: develops_from EHDAA2:0001996 ! telencephalon ventricular layer (embryonic human) relationship: part_of UBERON:0001950 ! neocortex [Term] id: EHDAA2:0004666 name: neopallium marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0001988 ! telencephalon marginal layer (embryonic human) relationship: part_of UBERON:0001950 ! neocortex [Term] id: EHDAA2:0004667 name: epithalamus marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from UBERON:0013159 ! epithalamus mantle layer relationship: part_of UBERON:0001899 ! epithalamus [Term] id: EHDAA2:0004668 name: neural tube floor plate (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000485 ! simple columnar epithelium relationship: develops_from UBERON:0005062 ! neural fold relationship: part_of UBERON:0001049 ! neural tube [Term] id: EHDAA2:0004669 name: neural tube lateral wall (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: develops_from UBERON:0005062 ! neural fold relationship: part_of UBERON:0001049 ! neural tube [Term] id: EHDAA2:0004700 name: brain arterial system (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000477 ! anatomical cluster relationship: part_of EHDAA2:0004521 ! head arteries (embryonic human) relationship: part_of UBERON:0000955 ! brain [Term] id: EHDAA2:0004702 name: olfactory bulb mantle layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001010 ! differentiating neuroepithelium relationship: develops_from EHDAA2:0004446 ! telencephalon basal area mantle layer (embryonic human) relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: EHDAA2:0004703 name: olfactory bulb marginal layer (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0002316 ! white matter relationship: develops_from EHDAA2:0004447 ! telencephalon basal area marginal layer (embryonic human) relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: EHDAA2:0004704 name: olfactory bulb ventricular layer (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001009 ! proliferating neuroepithelium is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from EHDAA2:0004448 ! telencephalon basal area ventricular layer (embryonic human) relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: EHDAA2:0004712 name: mural trophectoderm syncytiotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: CL:0000228 ! multinucleate cell relationship: develops_from EHDAA2:0000336 ! mural trophectoderm cytotrophoblast (embryonic human) relationship: part_of UBERON:0004345 ! trophectoderm [Term] id: EHDAA2:0004713 name: embryonic cavities namespace: human_developmental_anatomy is_obsolete: true [Term] id: EHDAA2:0004715 name: trophoblastic lacunae (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: located_in EHDAA2:0001974 ! polar trophectoderm syncytiotrophoblast (embryonic human) [Term] id: EHDAA2:0004718 name: chorionic villus mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007529 ! loose mesenchyme tissue relationship: develops_from UBERON:0003265 ! chorionic mesoderm relationship: part_of UBERON:0007106 ! chorionic villus [Term] id: EHDAA2:0004719 name: chorionic villus syncytiotropbalst (embryonic human) namespace: human_developmental_anatomy is_a: CL:0000228 ! multinucleate cell relationship: develops_from UBERON:0003224 ! chorion syncytiotrophoblast relationship: part_of UBERON:0007106 ! chorionic villus [Term] id: EHDAA2:0004720 name: chorionic villus cytotrophoblast (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from EHDAA2:0003244 ! chorion cytotrophoblast (embryonic human) relationship: part_of UBERON:0007106 ! chorionic villus [Term] id: EHDAA2:0004721 name: allantoic diverticulum eithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0003257 ! yolk sac endoderm relationship: part_of EHDAA2:0001504 ! allantoic diverticulum (embryonic human) [Term] id: EHDAA2:0004722 name: allantoic diverticulum mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0003316 ! mesenchyme of yolk sac relationship: part_of EHDAA2:0001504 ! allantoic diverticulum (embryonic human) [Term] id: EHDAA2:0004723 name: allantoic mesenchyme (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from EHDAA2:0004722 ! allantoic diverticulum mesenchyme (embryonic human) relationship: part_of UBERON:0004340 ! allantois [Term] id: EHDAA2:0004724 name: allantoic epithelium (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0007499 ! epithelial sac relationship: develops_from EHDAA2:0004721 ! allantoic diverticulum eithelium (embryonic human) relationship: part_of UBERON:0004340 ! allantois [Term] id: EHDAA2:0004729 name: blood haematopoietic stem cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001021 ! stem cell population relationship: develops_from EHDAA2:0000471 ! extraembryonic arterial system (embryonic human) relationship: develops_from EHDAA2:0004510 ! angioblast clusters (embryonic human) relationship: develops_from EHDAA2:0004513 ! fused midline dorsal aorta (embryonic human) relationship: develops_from UBERON:0005323 ! mesonephric mesenchyme relationship: part_of UBERON:0000178 ! blood [Term] id: EHDAA2:0004730 name: liver haematopoietic stem cells (embryonic human) namespace: human_developmental_anatomy is_a: AEO:0001021 ! stem cell population relationship: develops_from EHDAA2:0004729 ! blood haematopoietic stem cells (embryonic human) relationship: located_in UBERON:0002107 ! liver [Term] id: EHDAA2:0004732 name: coelomic cavity lining (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001136 ! mesothelium relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0011997 ! coelom [Term] id: EHDAA2:0004733 name: peritoneal cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0011997 ! coelom [Term] id: EHDAA2:0004734 name: pericaridal cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001062 ! anatomical entity relationship: part_of UBERON:0011997 ! coelom [Term] id: EHDAA2:0004735 name: pleuropericardial canal (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0011997 ! coelom [Term] id: EHDAA2:0004736 name: pleuroperitoneal canal lumen (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0001062 ! anatomical entity relationship: develops_in UBERON:0002323 ! coelemic cavity lumen relationship: located_in UBERON:0006279 ! pleuroperitoneal canal [Term] id: EHDAA2:0004737 name: pleural cavity (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0011997 ! coelom [Term] id: EHDAA2:0004739 name: extraembryonic coelum (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0010064 ! open anatomical space relationship: attached_to UBERON:0002323 ! coelemic cavity lumen relationship: located_in UBERON:0012466 ! extraembryonic cavities [Term] id: EHDAA2:0004740 name: urogenital sinus epithelium vesical part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0004902 ! urogenital sinus epithelium relationship: part_of EHDAA2:0004057 ! urorectal septum epithelium (embryonic human) relationship: part_of UBERON:0004902 ! urogenital sinus epithelium [Term] id: EHDAA2:0004741 name: urogenital sinus epithelium phallic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0004902 ! urogenital sinus epithelium relationship: part_of UBERON:0004902 ! urogenital sinus epithelium [Term] id: EHDAA2:0004742 name: urogenital sinus epithelium pelvic part (embryonic human) namespace: human_developmental_anatomy is_a: UBERON:0000490 ! unilaminar epithelium relationship: develops_from UBERON:0004902 ! urogenital sinus epithelium relationship: part_of UBERON:0004902 ! urogenital sinus epithelium [Term] id: HsapDv:0000001 name: human life cycle namespace: human_developmental_stage def: "Temporal interval that defines human life from the prenatal stage until late adulthood." [Bgee:curator] is_a: UBERON:0000104 ! life cycle [Term] id: HsapDv:0000003 name: Carnegie stage 01 namespace: human_developmental_stage def: "Embryonic stage defined by a fertilized oocyte and presence of pronuclei." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Starts at day 1 post-fertilization, beginning of the first week. xref: XUO:0000130 is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000068 ! embryo stage [Term] id: HsapDv:0000004 name: cleavage stage namespace: human_developmental_stage def: "Embryonic stage consisting of division of cells in the early embryo." [UBERON:0000107] comment: The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula. is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000068 ! embryo stage [Term] id: HsapDv:0000005 name: Carnegie stage 02 namespace: human_developmental_stage def: "Cleavage stage during which cell division occurs with reduction in cytoplasmic volume, and formation of inner and outer cell mass." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 2 and day 3 post-fertilization. xref: XUO:0000131 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000003 ! Carnegie stage 01 relationship: part_of HsapDv:0000004 ! cleavage stage [Term] id: HsapDv:0000007 name: Carnegie stage 03 namespace: human_developmental_stage def: "Blastula stage with the loss of the zona pellucida and the definition of a free blastocyst." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 4 and day 5 post-fertilization. xref: XUO:0000132 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000005 ! Carnegie stage 02 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: HsapDv:0000008 name: Carnegie stage 04 namespace: human_developmental_stage def: "Blastula stage during which the blastocyst becomes attached." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 5 and day 6 post-fertilization. xref: XUO:0000133 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000007 ! Carnegie stage 03 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: HsapDv:0000009 name: Carnegie stage 05 namespace: human_developmental_stage def: "Blastula stage during which implantation occurs." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 7 and day 12 post-fertilization, beginning of the second week. xref: XUO:0000134 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000008 ! Carnegie stage 04 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: HsapDv:0000011 name: Carnegie stage 06 namespace: human_developmental_stage def: "Gastrula stage during which the extraembryonic mesoderm and primitive streak appear." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 13 and day 15 post-fertilization. xref: XUO:0000135 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000009 ! Carnegie stage 05 relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: HsapDv:0000013 name: Carnegie stage 07 namespace: human_developmental_stage def: "Neurula stage during which the notochordal process appears, and gastrulation is continuing." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 15 and day 17 post-fertilization, beginning of the third week. xref: XUO:0000136 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000011 ! Carnegie stage 06 relationship: part_of UBERON:0000110 ! neurula stage [Term] id: HsapDv:0000014 name: Carnegie stage 08 namespace: human_developmental_stage def: "Neurula stage during which the primitive pit and the notochordal canal appear." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 17 and day 19 post-fertilization. xref: XUO:0000137 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000013 ! Carnegie stage 07 relationship: part_of UBERON:0000110 ! neurula stage [Term] id: HsapDv:0000016 name: Carnegie stage 09 namespace: human_developmental_stage def: "Organogenesis stage during which somites 1-3 appear, and neural folds, cardiac primordium, and head fold are present." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 19 and day 21 post-fertilization. xref: XUO:0000138 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000014 ! Carnegie stage 08 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000017 name: Carnegie stage 10 namespace: human_developmental_stage def: "Organogenesis stage during which somites 4-12 appear, and the neural fold fuses." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 22 and day 23 post-fertilization, beginning of the fourth week. xref: XUO:0000139 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000016 ! Carnegie stage 09 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000018 name: Carnegie stage 11 namespace: human_developmental_stage def: "Organogenesis stage during which somites 13-20 appear, and the rostral neuropore closes." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 23 and day 26 post-fertilization. xref: XUO:0000140 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000017 ! Carnegie stage 10 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000019 name: Carnegie stage 12 namespace: human_developmental_stage def: "Organogenesis stage during which somites 21-29 appear, and the caudal neuropore closes." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 26 and day 30 post-fertilization. xref: XUO:0000141 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000018 ! Carnegie stage 11 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000020 name: Carnegie stage 13 namespace: human_developmental_stage def: "Organogenesis developmental stage during which somite 30 appears, and leg buds, lens placode, pharyngeal arches are present." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 28 and day 32 post-fertilization, beginning of the fifth week. xref: XUO:0000142 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000019 ! Carnegie stage 12 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000021 name: Carnegie stage 14 namespace: human_developmental_stage def: "Organogenesis stage during which lens pit and optic cup appear." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 31 and day 35 post-fertilization. xref: XUO:0000143 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000020 ! Carnegie stage 13 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000022 name: Carnegie stage 15 namespace: human_developmental_stage def: "Organogenesis stage during which lens vesicle, nasal pit, and hand plate appear." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 35 and day 38 post-fertilization. xref: XUO:0000144 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000021 ! Carnegie stage 14 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000023 name: Carnegie stage 16 namespace: human_developmental_stage def: "Organogenesis stage during which nasal pits moved ventrally, and features are auricular hillocks, and foot plate." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 37 and day 42 post-fertilization, beginning of the sixth week. xref: XUO:0000145 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000022 ! Carnegie stage 15 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000024 name: Carnegie stage 17 namespace: human_developmental_stage def: "Organogenesis stage during which finger rays become visible." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 42 and day 44 post-fertilization. xref: XUO:0000146 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000023 ! Carnegie stage 16 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000025 name: Carnegie stage 18 namespace: human_developmental_stage def: "Organogenesis stage during which ossification commences." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 44 and day 48 post-fertilization, beginning of the seventh week. xref: XUO:0000147 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000024 ! Carnegie stage 17 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000026 name: Carnegie stage 19 namespace: human_developmental_stage def: "Organogenesis stage during which the straightening of the trunk starts." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 48 and day 51 post-fertilization. xref: XUO:0000148 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000025 ! Carnegie stage 18 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000027 name: Carnegie stage 20 namespace: human_developmental_stage def: "Organogenesis stage during which upper limbs are longer and bent at elbow." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 51 and day 53 post-fertilization, beginning of the eighth week. xref: XUO:0000149 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000026 ! Carnegie stage 19 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000028 name: Carnegie stage 21 namespace: human_developmental_stage def: "Organogenesis stage during which hands and feet turned inward." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 53 and day 54 post-fertilization. xref: XUO:0000150 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000027 ! Carnegie stage 20 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000029 name: Carnegie stage 22 namespace: human_developmental_stage def: "Organogenesis stage during which eyelids and external ears appear." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 54 and day 56 post-fertilization. xref: XUO:0000151 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000028 ! Carnegie stage 21 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000030 name: Carnegie stage 23 namespace: human_developmental_stage def: "Organogenesis stage during which the head, the body, and the limbs are rounded structures." [http://embryology.med.unsw.edu.au/wwwhuman/Stages/CStages.htm] comment: Usually starts between day 56 and day 60 post-fertilization. xref: XUO:0000152 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000029 ! Carnegie stage 22 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: HsapDv:0000031 name: Carnegie stage 05a namespace: human_developmental_stage def: "Carnegie developmental stage 5 defined by a solid trophoblast." [http://nmhm.washingtondc.museum/collections/hdac/Stages_Table.htm] xref: XUO:0000187 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000009 ! Carnegie stage 05 [Term] id: HsapDv:0000032 name: Carnegie stage 05b namespace: human_developmental_stage def: "Carnegie developmental stage 5 defined by a trophoblastic lacunae." [http://nmhm.washingtondc.museum/collections/hdac/Stages_Table.htm] xref: XUO:0000188 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000009 ! Carnegie stage 05 [Term] id: HsapDv:0000033 name: Carnegie stage 05c namespace: human_developmental_stage def: "Carnegie developmental stage 5 defined by a lacunar vascular circle." [http://nmhm.washingtondc.museum/collections/hdac/Stages_Table.htm] xref: XUO:0000189 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000009 ! Carnegie stage 05 [Term] id: HsapDv:0000034 name: Carnegie stage 06a namespace: human_developmental_stage def: "Carnegie developmental stage 6 during which chorionic villi appear." [http://nmhm.washingtondc.museum/collections/hdac/Stages_Table.htm] xref: XUO:0000190 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000011 ! Carnegie stage 06 [Term] id: HsapDv:0000035 name: Carnegie stage 06b namespace: human_developmental_stage def: "Carnegie developmental stage 6 during which the primitive streak appears." [http://nmhm.washingtondc.museum/collections/hdac/Stages_Table.htm] xref: XUO:0000191 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000011 ! Carnegie stage 06 [Term] id: HsapDv:0000037 name: fetal stage namespace: human_developmental_stage def: "Prenatal stage that starts with the fully formed embryo and ends at birth." [Bgee:curator] synonym: "fetus stage" RELATED [] synonym: "foetus stage" RELATED [] xref: EV:0300011 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000045 ! prenatal stage [Term] id: HsapDv:0000045 name: prenatal stage namespace: human_developmental_stage def: "Human developmental stage that starts with fertilization and ends with birth." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000001 ! human life cycle [Term] id: HsapDv:0000046 name: 9th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 8 and under 9 weeks of development." [Bgee:curator] comment: External genitalia begin to distinguish themselves as either male or female. Eyelids are completely closed, and vocal ligaments appear (see http://ehd.org/resources_bpd_documentation_english.php). xref: EV:0300012 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000197 ! third LMP month human stage [Term] id: HsapDv:0000047 name: 10th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 9 and under 10 weeks of development." [Bgee:curator] comment: The fingernails and toenails begin to develop and unique fingerprints appear. Ossification is underway in most bones (see http://ehd.org/resources_bpd_documentation_english.php). xref: EV:0300013 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000197 ! third LMP month human stage [Term] id: HsapDv:0000048 name: 11th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 10 and under 11 weeks of development." [Bgee:curator] comment: The nose and lips are completely formed, and external genitalia can be distinguished as male or female (see http://ehd.org/resources_bpd_documentation_english.php). xref: EV:0300030 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000197 ! third LMP month human stage [Term] id: HsapDv:0000049 name: 12th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 11 and under 12 weeks of development." [Bgee:curator] comment: Upper limb length has nearly reached its final proportion to body size (see http://ehd.org/resources_bpd_documentation_english.php). The assignation of this week to the fourth or third LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). xref: EV:0300014 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000198 ! fourth LMP month human stage [Term] id: HsapDv:0000050 name: 13th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 12 and under 13 weeks of development." [Bgee:curator] xref: EV:0300015 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000198 ! fourth LMP month human stage [Term] id: HsapDv:0000051 name: 14th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 13 and under 14 weeks of development." [Bgee:curator] xref: EV:0300016 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000198 ! fourth LMP month human stage [Term] id: HsapDv:0000052 name: 15th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 14 and under 15 weeks of development." [Bgee:curator] xref: EV:0300031 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000198 ! fourth LMP month human stage [Term] id: HsapDv:0000053 name: 16th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 15 and under 16 weeks of development." [Bgee:curator] comment: The assignation of this week to the fifth or fourth LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). xref: EV:0300017 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000199 ! fifth LMP month human stage [Term] id: HsapDv:0000054 name: 17th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 16 and under 17 weeks of development." [Bgee:curator] xref: EV:0300018 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000199 ! fifth LMP month human stage [Term] id: HsapDv:0000055 name: 18th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 17 and under 18 weeks of development." [Bgee:curator] xref: EV:0300019 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000199 ! fifth LMP month human stage [Term] id: HsapDv:0000056 name: 19th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 18 and under 19 weeks of development." [Bgee:curator] xref: EV:0300020 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000199 ! fifth LMP month human stage [Term] id: HsapDv:0000057 name: 20th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 19 and under 20 weeks of development." [Bgee:curator] comment: The cochlea has reached adult size within the fully developed inner ear (see http://ehd.org/resources_bpd_documentation_english.php). The assignation of this week to the sixth or fifth LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). xref: EV:0300021 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000200 ! sixth LMP month human stage [Term] id: HsapDv:0000058 name: 21st week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 20 and under 21 weeks of development." [Bgee:curator] comment: The lungs gain some ability to breathe air. This stage is considered the age of viability because survival outside the womb becomes possible for some fetuses (see http://ehd.org/resources_bpd_documentation_english.php). xref: EV:0300029 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000200 ! sixth LMP month human stage [Term] id: HsapDv:0000059 name: 22nd week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 21 and under 22 weeks of development." [Bgee:curator] xref: EV:0300022 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000200 ! sixth LMP month human stage [Term] id: HsapDv:0000060 name: 23rd week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 22 and under 23 weeks of development." [Bgee:curator] xref: EV:0300023 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000200 ! sixth LMP month human stage [Term] id: HsapDv:0000061 name: 24th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 23 and under 24 weeks of development." [Bgee:curator] comment: The eyelids reopen (see http://ehd.org/resources_bpd_documentation_english.php). xref: EV:0300024 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000200 ! sixth LMP month human stage [Term] id: HsapDv:0000062 name: 25th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 24 and under 25 weeks of development." [Bgee:curator] comment: The assignation of this week to the seventh or sixth LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). xref: EV:0300032 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000201 ! seventh LMP month human stage [Term] id: HsapDv:0000063 name: 26th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 25 and under 26 weeks of development." [Bgee:curator] xref: EV:0300025 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000201 ! seventh LMP month human stage [Term] id: HsapDv:0000064 name: 27th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 26 and under 27 weeks of development." [Bgee:curator] xref: EV:0300033 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000201 ! seventh LMP month human stage [Term] id: HsapDv:0000065 name: 28th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 27 and under 28 weeks of development." [Bgee:curator] xref: EV:0300026 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000201 ! seventh LMP month human stage [Term] id: HsapDv:0000066 name: 29th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 28 and under 29 weeks of development." [Bgee:curator] comment: The assignation of this week to the eighth or seventh LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). xref: EV:0300034 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000202 ! eighth LMP month human stage [Term] id: HsapDv:0000067 name: 30th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 29 and under 30 weeks of development." [Bgee:curator] xref: EV:0300035 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000202 ! eighth LMP month human stage [Term] id: HsapDv:0000068 name: 31st week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 30 and under 31 weeks of development." [Bgee:curator] xref: EV:0300036 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000202 ! eighth LMP month human stage [Term] id: HsapDv:0000069 name: 32nd week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 31 and under 32 weeks of development." [Bgee:curator] xref: EV:0300027 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000202 ! eighth LMP month human stage [Term] id: HsapDv:0000070 name: 33rd week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 32 and under 33 weeks of development." [Bgee:curator] comment: The assignation of this week to the eighth or ninth LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000202 ! eighth LMP month human stage [Term] id: HsapDv:0000071 name: 34th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 33 and under 34 weeks of development." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000203 ! ninth LMP month human stage [Term] id: HsapDv:0000072 name: 35th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 34 and under 35 weeks of development." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000203 ! ninth LMP month human stage [Term] id: HsapDv:0000073 name: 36th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 35 and under 36 weeks of development." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000203 ! ninth LMP month human stage [Term] id: HsapDv:0000074 name: 37th week post-fertilization human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 36 and under 37 weeks of development." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000203 ! ninth LMP month human stage [Term] id: HsapDv:0000075 name: 38th week post-fertilization and over human stage namespace: human_developmental_stage def: "Fetal stage when the fetus is over 37 weeks of development and until birth." [Bgee:curator] comment: The assignation of this week to the ninth or tenth LMP month is debatable (see http://en.wikipedia.org/wiki/File:Prenatal_development_table.svg). is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000203 ! ninth LMP month human stage [Term] id: HsapDv:0000080 name: immature stage namespace: human_developmental_stage def: "Human developmental stage that covers the period from birth until 12 years old." [Bgee:curator] synonym: "0-12 years" EXACT [] synonym: "child" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000001 ! human life cycle [Term] id: HsapDv:0000081 name: child stage namespace: human_developmental_stage def: "Immature stage that refers to child who is over 2 and under 13 years old." [Bgee:curator] synonym: "2-12 years" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000080 ! immature stage [Term] id: HsapDv:0000084 name: 2-5 year-old child stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 24 months and under 6 years old." [Bgee:curator] synonym: "preschool child" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000081 ! child stage [Term] id: HsapDv:0000085 name: 6-12 year-old child stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 6 and under 13 years old." [Bgee:curator] synonym: "prepubescent" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000081 ! child stage [Term] id: HsapDv:0000086 name: adolescent stage namespace: human_developmental_stage def: "Mature stage that refers to an adolescent who is over 13 and under 19 years old." [Bgee:curator] synonym: "13-18 years" EXACT [] synonym: "teen" RELATED [] synonym: "teenager" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000204 ! mature stage [Term] id: HsapDv:0000087 name: human adult stage namespace: human_developmental_stage def: "Human developmental stage that refers to an adult who is over 19." [Bgee:curator] synonym: "19+ years" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000204 ! mature stage [Term] id: HsapDv:0000088 name: human early adulthood stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is under 45." [Bgee:curator] synonym: "19-44 years" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000087 ! human adult stage [Term] id: HsapDv:0000089 name: young adult stage namespace: human_developmental_stage def: "Early adulthood that refers to an adult who is under 25." [Bgee:curator] synonym: "19-24 years" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000088 ! human early adulthood stage [Term] id: HsapDv:0000090 name: 25-44 year-old human stage namespace: human_developmental_stage def: "Early adulthood that refers to an adult who is over 25 and under 45." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000088 ! human early adulthood stage [Term] id: HsapDv:0000091 name: human late adulthood stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 45." [Bgee:curator] synonym: "45+ years" EXACT [] synonym: "Middle Aged + Aged" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000087 ! human adult stage [Term] id: HsapDv:0000092 name: human middle aged stage namespace: human_developmental_stage def: "Late adulthood that refers to an adult who is over 45 and under 65." [Bgee:curator] synonym: "45-64 years" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000091 ! human late adulthood stage [Term] id: HsapDv:0000094 name: 65-79 year-old human stage namespace: human_developmental_stage def: "Aged stage that refers to an adult who is under 80." [Bgee:curator] synonym: "elderly" RELATED [] is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0007222 ! late adult stage [Term] id: HsapDv:0000095 name: 80 year-old and over human stage namespace: human_developmental_stage def: "Aged stage that refers to an adult who is over 80." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000173 ! 79-year-old human stage relationship: part_of UBERON:0007222 ! late adult stage [Term] id: HsapDv:0000096 name: 2-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 2 and under 3 years old." [Bgee:curator] xref: EV:0300053 is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000084 ! 2-5 year-old child stage [Term] id: HsapDv:0000097 name: 3-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 3 and under 4 years old." [Bgee:curator] xref: EV:0300054 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000096 ! 2-year-old human stage relationship: part_of HsapDv:0000084 ! 2-5 year-old child stage [Term] id: HsapDv:0000098 name: 4-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 4 and under 5 years old." [Bgee:curator] xref: EV:0300055 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000097 ! 3-year-old human stage relationship: part_of HsapDv:0000084 ! 2-5 year-old child stage [Term] id: HsapDv:0000099 name: 5-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 5 and under 6 years old." [Bgee:curator] xref: EV:0300056 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000098 ! 4-year-old human stage relationship: part_of HsapDv:0000084 ! 2-5 year-old child stage [Term] id: HsapDv:0000100 name: 6-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 6 and under 7 years old." [Bgee:curator] xref: EV:0300057 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000099 ! 5-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000101 name: 7-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 7 and under 8 years old." [Bgee:curator] xref: EV:0300058 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000100 ! 6-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000102 name: 8-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 8 and under 9 years old." [Bgee:curator] xref: EV:0300059 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000101 ! 7-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000103 name: 9-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 9 and under 10 years old." [Bgee:curator] xref: EV:0300060 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000102 ! 8-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000104 name: 10-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 10 and under 11 years old." [Bgee:curator] xref: EV:0300061 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000103 ! 9-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000105 name: 11-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 11 and under 12 years old." [Bgee:curator] xref: EV:0300062 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000104 ! 10-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000106 name: 12-year-old human stage namespace: human_developmental_stage def: "Child stage that refers to a child who is over 12 and under 13 years old." [Bgee:curator] xref: EV:0300063 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000105 ! 11-year-old human stage relationship: part_of HsapDv:0000085 ! 6-12 year-old child stage [Term] id: HsapDv:0000107 name: 13-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 13 and under 14 years old." [Bgee:curator] xref: EV:0300065 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000106 ! 12-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000108 name: 14-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 14 and under 15 years old." [Bgee:curator] xref: EV:0300066 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000107 ! 13-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000109 name: 15-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 15 and under 16 years old." [Bgee:curator] xref: EV:0300067 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000108 ! 14-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000110 name: 16-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 16 and under 17 years old." [Bgee:curator] xref: EV:0300068 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000109 ! 15-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000111 name: 17-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 17 and under 18 years old." [Bgee:curator] xref: EV:0300069 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000110 ! 16-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000112 name: 18-year-old human stage namespace: human_developmental_stage def: "Adolescent stage that refers to an adolescent who is over 18 and under 19 years old." [Bgee:curator] xref: EV:0300071 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000111 ! 17-year-old human stage relationship: part_of HsapDv:0000086 ! adolescent stage [Term] id: HsapDv:0000113 name: 19-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is under 20." [Bgee:curator] xref: EV:0300072 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000112 ! 18-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000114 name: 20-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is over 20 and under 21." [Bgee:curator] xref: EV:0300073 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000113 ! 19-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000115 name: 21-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is over 21 and under 22." [Bgee:curator] xref: EV:0300074 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000114 ! 20-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000116 name: 22-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is over 22 and under 23." [Bgee:curator] xref: EV:0300075 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000115 ! 21-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000117 name: 23-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is over 23 and under 24." [Bgee:curator] xref: EV:0300076 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000116 ! 22-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000118 name: 24-year-old human stage namespace: human_developmental_stage def: "Young adult stage that refers to an adult who is over 24 and under 25." [Bgee:curator] xref: EV:0300077 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000117 ! 23-year-old human stage relationship: part_of HsapDv:0000089 ! young adult stage [Term] id: HsapDv:0000119 name: 25-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 25 and under 26." [Bgee:curator] xref: EV:0300078 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000118 ! 24-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000120 name: 26-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adultwho is over 26 and under 27." [Bgee:curator] xref: EV:0300079 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000119 ! 25-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000121 name: 27-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 27 and under 28." [Bgee:curator] xref: EV:0300080 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000120 ! 26-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000122 name: 28-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 28 and under 29." [Bgee:curator] xref: EV:0300081 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000121 ! 27-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000123 name: 29-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 29 and under 30." [Bgee:curator] xref: EV:0300082 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000122 ! 28-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000124 name: 30-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 30 and under 31." [Bgee:curator] xref: EV:0300083 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000123 ! 29-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000125 name: 31-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 31 and under 32." [Bgee:curator] xref: EV:0300084 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000124 ! 30-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000126 name: 32-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 32 and under 33." [Bgee:curator] xref: EV:0300085 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000125 ! 31-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000127 name: 33-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 33 and under 34." [Bgee:curator] xref: EV:0300086 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000126 ! 32-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000128 name: 34-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 34 and under 35." [Bgee:curator] xref: EV:0300087 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000127 ! 33-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000129 name: 35-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 35 and under 36." [Bgee:curator] xref: EV:0300088 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000128 ! 34-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000130 name: 36-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 36 and under 37." [Bgee:curator] xref: EV:0300089 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000129 ! 35-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000131 name: 37-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 37 and under 38." [Bgee:curator] xref: EV:0300090 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000130 ! 36-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000132 name: 38-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 38 and under 39." [Bgee:curator] xref: EV:0300091 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000131 ! 37-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000133 name: 39-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 39 and under 40." [Bgee:curator] xref: EV:0300092 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000132 ! 38-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000134 name: 40-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 40 and under 41." [Bgee:curator] xref: EV:0300093 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000133 ! 39-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000135 name: 41-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 41 and under 42." [Bgee:curator] xref: EV:0300094 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000134 ! 40-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000136 name: 42-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 42 and under 43." [Bgee:curator] xref: EV:0300095 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000135 ! 41-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000137 name: 43-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 43 and under 44." [Bgee:curator] xref: EV:0300096 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000136 ! 42-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000138 name: 44-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 44 and under 45." [Bgee:curator] xref: EV:0300097 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000137 ! 43-year-old human stage relationship: part_of HsapDv:0000090 ! 25-44 year-old human stage [Term] id: HsapDv:0000139 name: 45-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 45 and under 46." [Bgee:curator] xref: EV:0300098 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000138 ! 44-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000140 name: 46-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 46 and under 47." [Bgee:curator] xref: EV:0300099 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000139 ! 45-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000141 name: 47-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 47 and under 48." [Bgee:curator] xref: EV:0300100 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000140 ! 46-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000142 name: 48-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 48 and under 49." [Bgee:curator] xref: EV:0300101 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000141 ! 47-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000143 name: 49-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 49 and under 50." [Bgee:curator] xref: EV:0300102 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000142 ! 48-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000144 name: 50-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 50 and under 51." [Bgee:curator] xref: EV:0300103 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000143 ! 49-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000145 name: 51-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 51 and under 52." [Bgee:curator] xref: EV:0300104 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000144 ! 50-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000146 name: 52-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 52 and under 53." [Bgee:curator] xref: EV:0300105 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000145 ! 51-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000147 name: 53-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 53 and under 54." [Bgee:curator] xref: EV:0300106 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000146 ! 52-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000148 name: 54-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 54 and under 55." [Bgee:curator] xref: EV:0300107 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000147 ! 53-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000149 name: 55-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 55 and under 56." [Bgee:curator] xref: EV:0300108 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000148 ! 54-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000150 name: 56-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 56 and under 57." [Bgee:curator] xref: EV:0300109 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000149 ! 55-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000151 name: 57-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 57 and under 58." [Bgee:curator] xref: EV:0300110 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000150 ! 56-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000152 name: 58-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 58 and under 59." [Bgee:curator] xref: EV:0300111 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000151 ! 57-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000153 name: 59-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 59 and under 60." [Bgee:curator] xref: EV:0300112 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000152 ! 58-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000154 name: 60-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 60 and under 61." [Bgee:curator] xref: EV:0300113 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000153 ! 59-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000155 name: 61-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 61 and under 62." [Bgee:curator] xref: EV:0300114 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000154 ! 60-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000156 name: 62-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 62 and under 63." [Bgee:curator] xref: EV:0300115 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000155 ! 61-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000157 name: 63-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 63 and under 64." [Bgee:curator] xref: EV:0300116 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000156 ! 62-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000158 name: 64-year-old human stage namespace: human_developmental_stage def: "Middle aged stage that refers to an adult who is over 64 and under 65." [Bgee:curator] xref: EV:0300117 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000157 ! 63-year-old human stage relationship: part_of HsapDv:0000092 ! human middle aged stage [Term] id: HsapDv:0000159 name: 65-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 65 and under 66." [Bgee:curator] xref: EV:0300118 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000158 ! 64-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000160 name: 66-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 66 and under 67." [Bgee:curator] xref: EV:0300119 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000159 ! 65-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000161 name: 67-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 67 and under 68." [Bgee:curator] xref: EV:0300120 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000160 ! 66-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000162 name: 68-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 68 and under 69." [Bgee:curator] xref: EV:0300121 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000161 ! 67-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000163 name: 69-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 69 and under 70." [Bgee:curator] xref: EV:0300122 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000162 ! 68-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000164 name: 70-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 70 and under 71." [Bgee:curator] xref: EV:0300124 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000163 ! 69-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000165 name: 71-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 71 and under 72." [Bgee:curator] xref: EV:0300125 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000164 ! 70-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000166 name: 72-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 72 and under 73." [Bgee:curator] xref: EV:0300126 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000165 ! 71-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000167 name: 73-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 73 and under 74." [Bgee:curator] xref: EV:0300127 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000166 ! 72-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000168 name: 74-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 74 and under 75." [Bgee:curator] xref: EV:0300128 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000167 ! 73-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000169 name: 75-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 75 and under 76." [Bgee:curator] xref: EV:0300129 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000168 ! 74-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000170 name: 76-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 76 and under 77." [Bgee:curator] xref: EV:0300130 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000169 ! 75-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000171 name: 77-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 77 and under 78." [Bgee:curator] xref: EV:0300131 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000170 ! 76-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000172 name: 78-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 78 and under 79." [Bgee:curator] xref: EV:0300132 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000171 ! 77-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000173 name: 79-year-old human stage namespace: human_developmental_stage def: "Adult stage that refers to an adult who is over 79 and under 80." [Bgee:curator] xref: EV:0300133 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000172 ! 78-year-old human stage relationship: part_of HsapDv:0000094 ! 65-79 year-old human stage [Term] id: HsapDv:0000174 name: 1 month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 1 and under 2 months old." [Bgee:curator] xref: EV:0300039 is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000175 name: 2-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 2 and under 3 months old." [Bgee:curator] xref: EV:0300040 is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000176 name: 3-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 3 and under 4 months old." [Bgee:curator] xref: EV:0300041 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000175 ! 2-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000177 name: 4-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 4 and under 5 months old." [Bgee:curator] xref: EV:0300042 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000176 ! 3-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000178 name: 5-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 5 and under 6 months old." [Bgee:curator] xref: EV:0300043 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000177 ! 4-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000179 name: 6-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 6 and under 7 months old." [Bgee:curator] xref: EV:0300044 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000178 ! 5-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000180 name: 7-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 7 and under 8 months old." [Bgee:curator] xref: EV:0300045 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000179 ! 6-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000181 name: 8-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 8 and under 9 months old." [Bgee:curator] xref: EV:0300046 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000180 ! 7-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000182 name: 9-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 9 and under 10 months old." [Bgee:curator] xref: EV:0300047 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000181 ! 8-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000183 name: 10-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 10 and under 11 months old." [Bgee:curator] xref: EV:0300048 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000182 ! 9-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000184 name: 11-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 11 and under 12 months old." [Bgee:curator] xref: EV:0300049 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000183 ! 10-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000185 name: 12-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 12 and under 13 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000184 ! 11-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000186 name: 13-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 13 and under 14 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000185 ! 12-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000187 name: 14-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 14 and under 15 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000186 ! 13-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000188 name: 15-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 15 and under 16 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000187 ! 14-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000189 name: 16-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 16 and under 17 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000188 ! 15-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000190 name: 17-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 17 and under 18 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000189 ! 16-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000191 name: 18-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 18 and under 19 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000190 ! 17-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000192 name: 19-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 19 and under 20 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000191 ! 18-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000193 name: 20-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 20 and under 21 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000192 ! 19-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000194 name: 21-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 21 and under 22 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000193 ! 20-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000195 name: 22-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 22 and under 23 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000194 ! 21-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000196 name: 23-month-old human stage namespace: human_developmental_stage def: "Infant stage that refers to an infant who is over 23 and under 24 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by HsapDv:0000195 ! 22-month-old human stage relationship: part_of UBERON:0007221 ! neonate stage [Term] id: HsapDv:0000197 name: third LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the third month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000198 name: fourth LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the fourth month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000199 name: fifth LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the fifth month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000200 name: sixth LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the sixth month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000201 name: seventh LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the seventh month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000202 name: eighth LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the eighth month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000203 name: ninth LMP month human stage namespace: human_developmental_stage def: "Fetal stage that refers to the ninth month of gestation starting from the last menstrual period (LMP)." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000037 ! fetal stage [Term] id: HsapDv:0000204 name: mature stage namespace: human_developmental_stage def: "Human developmental stage that refers to a sexually mature human." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of HsapDv:0000001 ! human life cycle [Typedef] id: immediately_preceded_by name: immediately_preceded_by namespace: zebrafish_anatomical_ontology def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 xref: http://semanticscience.org/resource/SIO_000251 is_a: preceded_by ! preceded_by property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Term] id: OlatDv:0000020 name: Medaka stage 0 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 0 Unfertilized eggs: The mature unfertilized egg is an oblate spheroid measuring average 1,245.9 +/-3.9 um (n=122) in horizontal diameter and a little less (average 1,169.9 +/- 4.0 um, n=122) in vertical diameter. The egg proper is closely surrounded by a thick egg envelope, the chorion. The perivitelline space between the chorion and the vitellus is very difficult to recognize using a light microscope. The micropyle located in the chorion at the animal pole is a small trumpet- or funnel-like structure. A number of short villi (non-attaching filaments; average 200.3 +/- 4.7 / egg, n=38) are distributed over the whole surface of the chorion. At spawning, eggs are held together in clumps by a tuft of long attaching filaments (average 29.6 +/- 1.3 / egg, n=38) on the chorion surface in the vegetal pole area of each egg [13]. A large, transparent yolk sphere is located in the center of each unfertilized egg. The cortical alveoli (vesicles, ca. 0.4-45 um in diameter) and oil droplets are embedded at random in the cortical cytoplasm. The cortical alveoli contain a transparent colloidal material and usually one or sometimes a few spherical bodies [16]. The size of the oil droplets usually varies according to differences in the temperature during and after oocyte maturation, in the time after ovulation and among the individual females. - " [OlatDv:curators] synonym: "unfertilized eggs" EXACT [] is_a: UBERON:0000105 ! life cycle stage [Term] id: OlatDv:0000030 name: Medaka stage 1 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 3 min Stage 1 (3 min) Activated egg stage: When an egg is stimulated by a spermatozoon arriving at the vitelline surface through the micropyle, a transient wave of increase in cytoplasmic free calcium starts at the point of sperm attachment [5,33]. The cortical alveoli in the vicinity of the micropyle also begin to break down (exocytosis of alveolar contents) about 9 sec after sperm attachment [17]. The wave of exocytosis begins to propagate over the whole egg surface and ends at the vegetal pole 154 sec after its beginning. As a result of the exocytosis of cortical alveoli into the narrow space between the chorion and the vitellus, the chorion thins and hardens [24] as it separates from the vitellus to form a wide perivitelline space. Swollen spherical bodies secreted from the cortical alveoli are faintly visible in the perivitelline space. A transient \"contractile wave\" of cortical cytoplasmic layer follows the wave of exocytosis [9,15]. Due to the oscillatory contractions following this distinct contractile wave, the cortical cytoplasm progressively accumulates toward the animal pole to form a thick cytoplasmic layer [1,26]. At 7-8 minutes after sperm entry, the second polar body is extruded onto the surface of the cytoplasm at the center of the area where the germinal vesicle broke down during oocyte maturation. - 3 min " [OlatDv:curators] synonym: "activated egg stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000020 ! Medaka stage 0 [Term] id: OlatDv:0000040 name: Medaka stage 2a namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 30 min Stage 2a (30 min) Blastodisc stage a: The male and the female pronuclei migrate toward and associate with each other at the center of the thick cytoplasmic disc at the animal pole. Chromosomes then appear and divide into two groups at the poles of the spindle marking the end of this stage. Oscillatory contractions cause the peripheral cortical cytoplasm to migrate toward the animal pole where it forms a convex, lens-shaped blastodisc. Meanwhile, oil droplets migrate toward the vegetal pole and begin coalescing. - 30 min " [OlatDv:curators] synonym: "blastodisc stage a" EXACT [] is_a: UBERON:0000105 ! life cycle stage [Term] id: OlatDv:0000050 name: Medaka stage 2b namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 60 min Stage 2b (60 min) Blastodisc stage b: The male and the female pronuclei migrate toward and associate with each other at the center of the thick cytoplasmic disc at the animal pole. Chromosomes then appear and divide into two groups at the poles of the spindle marking the end of this stage. The layer of cortical cytoplasm covering the yolk sphere is very thin except where it forms the cap-shaped blastodisc. By the end of this stage, most of the oil droplets from the animal hemisphere have already migrated to the vegetal hemisphere. Two dimple-like pits on the blastodisc serve as markers to locate the future blastomeres. - 60 min " [OlatDv:curators] synonym: "blastodisc stage b" EXACT [] is_a: UBERON:0000105 ! life cycle stage [Term] id: OlatDv:0000060 name: Medaka stage 3 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 hr 5 min Stage 3 (1 hr 5 min) 2 cell stage: The first cleavage plane is at a right angle to the axis between the second polar body (meiotic spindle) and the micropyle in 60-79% of eggs. The two blastomeres are highly rounded just after cleavage, but are comparatively flat just before the second cleavage. - 1 hr 5 min " [OlatDv:curators] synonym: "2 cell stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage [Term] id: OlatDv:0000070 name: Medaka stage 4 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 hr 45 min Stage 4 (1 hr 45 min) 4 cell stage: The second cleavage furrow develops on the two blastomeres at a right angle to the first cleavage plane. It deepens until each blastomere is divided into 2 of the same size. The oil droplets are larger but fewer and gather toward the vegetal pole. - 1 hr 45 min " [OlatDv:curators] synonym: "4 cell stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000060 ! Medaka stage 3 [Term] id: OlatDv:0000080 name: Medaka stage 5 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 hrs 20 min Stage 5 (2 hrs 20 min) 8 cell stage: The third cleavage plane is parallel to the first and divides the 4 blastomeres into 8 blastomeres. The blastoderm has bilaterally symmetrical rows of blastomeres and elongates along the axis of the second cleavage plane. - 2 hrs 20 min " [OlatDv:curators] synonym: "8 cell stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000070 ! Medaka stage 4 [Term] id: OlatDv:0000090 name: Medaka stage 6 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 hrs 55 min Stage 6 (2 hrs 55 min) 16 cell stage: The fourth cleavage plane, which is parallel to the second, divides the 2 rows of 4 blastomeres into 4 rows of 4 blastomeres. - 2 hrs 55 min " [OlatDv:curators] synonym: "16 cell stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000080 ! Medaka stage 5 [Term] id: OlatDv:0000100 name: Medaka stage 7 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 3 hrs 30 min Stage 7 (3 hrs 30 min) 32 cell stage: The fifth cleavage plane divides the marginal 12blastomeres meridionally into 24, and the central 4 blastomeres horizontally into 8 thereby forming 2 layers, an outer and an inner layer, in the central region. The number of marginal cells is 14. These observations agree with those of Matui [24], Gamo and Terajima [4] and Iwamatsu [11] but differ from the earlier reports of Kamito [21, cf. 30] in which cleavage was reported to continue to occur meridionally at least through the 32 cell stage. - 3 hrs 30 min " [OlatDv:curators] synonym: "32 cell stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000090 ! Medaka stage 6 [Term] id: OlatDv:0000110 name: Medaka stage 8 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 4 hrs 5 min Stage 8 (4 hrs 5 min) Early morula stage: The planes of the sixth and later cleavages are difficult to precisely trace. The blastomeres (64-128) have different cleavage planes depending on their positions within the dome-shaped blastoderm and are arranged in 3 layers. The peripheral blastomeres (21-24) are flattened in shape. The cells (30-35 m in diameter) are arranged in 3-4 layers but are still easily dissociated from each other [31]. - 4 hrs 5 min " [OlatDv:curators] synonym: "early morula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000100 ! Medaka stage 7 [Term] id: OlatDv:0000120 name: Medaka stage 9 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 5 hrs 15 min Stage 9 (5 hrs 15 min) Late morula stage: The blastodermal cells (256-512 blastomeres) are smaller than those of the previous stage and the number of marginal cells (30- 40) has increased. The blastodermal cells (central region, 25- 35 m in diameter) now form 4-5 layers. - 5 hrs 15 min " [OlatDv:curators] synonym: "late morula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000110 ! Medaka stage 8 [Term] id: OlatDv:0000130 name: Medaka stage 10 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 6 hrs 30 min Stage 10 (6 hrs 30 min) Early blastula stage: The blastoderm (about 1,000 cells) is still high (thick) as in the late morula stage, although its inner cells (20-30 m in diameter) are smaller. According to Kageyama [19], the 11th cleavage still takes place synchronously. Nuclei from the marginal cells (40, cf.[19]) migrate out of the cells and are distributed in a few rows in the periblast (cortical syncytial layer). - 6 hrs 30 min " [OlatDv:curators] synonym: "early blastula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000120 ! Medaka stage 9 [Term] id: OlatDv:0000140 name: Medaka stage 11 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 8 hrs 15 min Stage 11 (8 hrs 15 min) Late blastula stage: Projection of the underside of the blastoderm (central cells, about 20 m in diameter) into the yolk sphere is observed. In this stage, some blastomeres begin to cleave asynchronously and to migrate. Several (5-6) rows of periblast nuclei are visible around the blastoderm. - 8 hrs 15 min " [OlatDv:curators] synonym: "Late blastula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000130 ! Medaka stage 10 [Term] id: OlatDv:0000150 name: Medaka stage 12 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 10 hrs 20 min Stage 12 (10 hrs 20 min) Pre-early gastrula stage: The blastoderm has flattened down onto the yolk sphere so that its outer surface follows the curvature of the yolk sphere. The cell layers are slightly thicker on one side. The diameter of the cells in the central region of the blastoderm remains about 20 m. - 10 hrs 20 min " [OlatDv:curators] synonym: "pre-early gastrula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000140 ! Medaka stage 11 [Term] id: OlatDv:0000160 name: Medaka stage 13 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 13 hrs 0 min Stage 13 (13 hrs 0 min) Early gastrula stage: The blastoderm begins to expand (epiboly, about 1/4 of the yolk sphere) over the surface of the yolk sphere, and the presumptive region of the embryonic shield arises as a thickened margin (dorsal lip) of the blastoderm. It is difficult to recognize the boundaries of the flattened marginal cells. The diameter of the cells in the central region of the blastoderm is 15-20 m. - 13 hrs 0 min " [OlatDv:curators] synonym: "early gastrula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000150 ! Medaka stage 12 [Term] id: OlatDv:0000170 name: Medaka stage 14 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 15 hrs 0 min Stage 14 (15 hrs 0 min) Pre-mid gastrula stage: Epiboly progressively advances and the blastoderm covers about 1/3 of the yolk sphere. The germ ring is well-defined, and the embryonic shield increases in size. Weak, rhythmically undulating movements [3,29] begin to occur on the blastoderm but not on the uncovered yolk sphere. - 15 hrs 0 min " [OlatDv:curators] synonym: "pre-mid gastrula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000160 ! Medaka stage 13 [Term] id: OlatDv:0000180 name: Medaka stage 15 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 17 hrs 30 min Stage 15 (17 hrs 30 min) Mid gastrula stage: A streak is visible in the midline of the embryonic shield projecting into the germ ring area. The blastoderm covers about 1/2 of the yolk sphere. The nuclei of the marginal periblast are barely visible on the yolk sphere. - 17 hrs 30 min " [OlatDv:curators] synonym: "mid gastrula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000170 ! Medaka stage 14 [Term] id: OlatDv:0000190 name: Medaka stage 16 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 21 hrs 0 min Stage 16 (21 hrs 0 min) Late gastrula stage: The blastoderm covers 3/4 of the yolk sphere, and the embryonic shield (body) becomes more clearly visible as a narrow streak. The enveloping layer expands uniformly over the yolk sphere until this stage [18]. - 21 hrs 0 min " [OlatDv:curators] synonym: "Late gastrula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000180 ! Medaka stage 15 [Term] id: OlatDv:0000200 name: Medaka stage 17 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 1 hr Stage 17 (1 day 1 hr) Early neurula stage (Head formation): The yolk sphere is nearly covered by the thin blastoderm leaving a small area around the vegetal pole (yolk plug) ex- posed. The head (rudimentary brain) is recognized anteriorly in the distinct embryonic body. A beak-like mass of cells is seen in front of the head. A few small vacuoles (Kupffer's vesicles) appear at the underside of the caudal (posterior) end of the body, which is in contact with a small blastopore. - 1 day 1 hr " [OlatDv:curators] comment: Head formation synonym: "early neurula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000190 ! Medaka stage 16 [Term] id: OlatDv:0000210 name: Medaka stage 18 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 2 hrs Stage 18 (1 day 2 hrs) Late neurula stage (Optic bud formation): The brain and nerve cord in the arrow-shaped embryonic body codevelop as a solid rod of cells. A solid optic bud (rudimentary eye vesicle) appears on each side of the cephalic end. The beak- like cell mass is still visible. The Kufpper's vesicles enlarge somewhat. A small part of the yolk sphere still forms a blastopore at the vegetal pole. - 1 day 2 hrs " [OlatDv:curators] comment: Optic bud formation synonym: "late neurula stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000200 ! Medaka stage 17 [Term] id: OlatDv:0000220 name: Medaka stage 19 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 3 hrs 30 min Stage 19 (1 day 3 hrs 30 min) 2 somite stage: A groove appears in the dorsum of each optic lobe. At the end of this stage (3 somites), two slight knobs are recognized behind the optic vesicles. The blastopore is completely closed. The expansion of the enveloping layer is accomplished without an accompanying increase in the number of constituent cells [18]. - 1 day 3 hrs 30 min " [OlatDv:curators] synonym: "2 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000210 ! Medaka stage 18 [Term] id: OlatDv:0000230 name: Medaka stage 20 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 7 hrs 30 min Stage 20 (1 day 7 hrs 30 min) 4 somite stage: A paired placode of otic (auditory) vesicles appears at the posterior region of the head. Depressions begin to form at the dorsal surface of the eye vesicles. Three parts of the brain (the fore-, the mid- and the hind-brain) are discernible. - 1 day 7 hrs 30 min " [OlatDv:curators] synonym: "4 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000220 ! Medaka stage 19 [Term] id: OlatDv:0000240 name: Medaka stage 21 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 10 hrs Stage 21 (1 day 10 hrs) 6 somite stage (Brain and otic vesicle formation): The optic vesicles differentiate to form the optic cups and the lenses begin to form. The small otic vesicles appear, but they lack otolith. The three regions of the brain are well- defined, and the neural fold (neurocoele) is seen as a median line along the body. The flat body cavity is recognized on the surface of the yolk sphere bilateral to the mid-brain and hind- brain. - 1 day 10 hrs " [OlatDv:curators] comment: Brain and otic vesicle formation synonym: "6 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000230 ! Medaka stage 20 [Term] id: OlatDv:0000250 name: Medaka stage 22 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 14 hrs Stage 22 (1 day 14 hrs) 9 somite stage (Appearance of heart anlage): The tubular heart (heart anlage) appears underneath the head from the posterior end of the mid-brain to the anterior end of the hind-brain. The anlage of the hatching enzyme gland (cell mass) appears at the centroventral side of the hind-brain [28]. The body cavity extends further toward the posterior end of the eye vesicles. Melanophores appear on the yolk sphere. Incomplete lenses are present in the eyes, and the vesicular otocyst is defined. - 1 day 14 hrs " [OlatDv:curators] comment: Appearance of heart anlage synonym: "9 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000240 ! Medaka stage 21 [Term] id: OlatDv:0000260 name: Medaka stage 23 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 17 hrs Stage 23 (1 day 17 hrs) 12 somite stage (Formation of tubular heart): The anterior portion of the straight-tubed heart reaches beneath the posterior end of the eye vesicle. A pair of semi-circular Cuvierian ducts (blood vessels) and the vitello-caudal vein begin to form on the yolk sphere. Kupffer's vesicles shrink. The neurocoele is formed in the fore-, mid- and hind-brains. The spherical optic lenses are completed. A blood island becomes pronounced in the ventral region between the 6th and 11th somites. The anterior (the 3rd - 5th) somites assume a slightly dog-legged shape. The oil droplets have coalesced into a single large drop. - 1 day 17 hrs " [OlatDv:curators] comment: Formation of tubular heart synonym: "12 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000250 ! Medaka stage 22 [Term] id: OlatDv:0000270 name: Medaka stage 24 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 1 day 20 hrs Stage 24 (1 day 20 hrs) 16 somite stage (Start of heart beating): The anterior portion of the heart, which exhibits a slow (about 33-64/min) pulsation, extends up to the anterior end of the fore-brain. Cuvierian ducts and the vitello-caudal vein are still in- complete. Kupffer's vesicles have almost disappeared. Otoliths are not yet present in the otic vesicles. The embryonic body encircles nearly 1/2 of the yolk sphere. The gut (digestive) tube is observed ventral to the dogleg-shaped somites. - 1 day 20 hrs " [OlatDv:curators] comment: Start of heart beating synonym: "16 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000260 ! Medaka stage 23 [Term] id: OlatDv:0000280 name: Medaka stage 25 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 days 2 hrs Stage 25 (2 days 2 hrs) 18-19 somite stage (Onset of blood circulation): When blood circulation begins, the spherical blood cells are first pushed out of the blood island (7th-15th somites) toward the vitello-caudal vein (Fig. 1). The blood is pumped (70-80 heart- beats/min) from the heart out into the anterior cardinal vein and the dorsal aorta roots. The dorsal aorta branching off the perceptible bulbus arteriosus is paired anteriorly with continuations extending to the head as the internal carotid arteries. The carotid artery splits to form the optic plexus, which connects with the left and right ducts of Cuvier. The left and right dorsal aorta roots run caudally until they join to form the dorsal aorta. The dorsal aorta is unpaired through the trunk region and continues into the tail as the vitello-caudal artery (Fig. 1). A countercurrent of the blood stream from the heart into the aorta is still observed. Otoliths appear as two conglomerates of small granules lying against the inner surface of each well-expanded otocyst. The embryonic body encircles nearly 7/12 of the yolk sphere. The dogleg-shaped somites form a herringbone pattern between the 3rd and 10th somites. Kupffer's vesicles have disappeared completely. The bulge of the liver anlage appears at the 1st- 3rd somites just posterior to the future position of the left pectoral fin in the 19 somite stage. - 2 days 2 hrs " [OlatDv:curators] comment: Onset of blood circulation synonym: "18-19 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000270 ! Medaka stage 24 [Term] id: OlatDv:0000290 name: Medaka stage 26 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 days 6 hrs Stage 26 (2 days 6 hrs) 22 somite stage (Development of guanophores and vacuolization of the notochord): Blood containing globular blood cells is pumped out beyond the anterior region of the hind-brain. The caudal vein is observed in the region from the 1st to the 14th somites. The tip of the tail is completely free of the yolk sphere. The anlage of the liver, which first appeared at the 19 somite stage, is not yet well- developed. Red-brown colored guanophores, which first appeared at the ventral side of the mid-brain in the 20 somite embryo, are more clearly seen. Vacuolization of the notochord starts at its anterior region. Differentiating choroidea of the eyes begin to darken due to melanization. - 2 days 6 hrs " [OlatDv:curators] comment: Development of guanophores and vacuolization of the notochord synonym: "22 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000280 ! Medaka stage 25 [Term] id: OlatDv:0000300 name: Medaka stage 27 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 days 10 hrs Stage 27 (2 days 10 hrs) 24 somite stage (Appearance of pectoral fin bud): The tip of the tail where the notochord attaches is pointed. The embryonic body with the tail free from the yolk sphere encircles 5/8 of the yolk sphere. The rudiments of the pectoral fins protrude from the body trunk behind the base of the Cuvierian ducts. The eminences of liver rudiment are clearly seen on the left side beneath the 1st-3rd somites, and the gut tube can be seen beneath the 1st-13th somites curving to the left-ventral in the region between the 1st and 3rd somites. The arterial end of the heart has shifted to the right. The tail is free of the yolk sphere, and its vein is observed from the 10th to the 16th somites. - 2 days 10 hrs " [OlatDv:curators] comment: Appearance of pectoral fin bud synonym: "24 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000290 ! Medaka stage 26 [Term] id: OlatDv:0000310 name: Medaka stage 28 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 2 days 16 hrs Stage 28 (2 days 16 hrs) 30 somite stage (Onset of retinal pigmentation): The embryonic body with a caudal vein between the 10th and 22th somites encircles about 2/3 of the yolk sphere. Pigmentation advances around the retina, and several melanophores occupy the dorsal wall of the viscera beneath the 1st to the 5th somites. The bulge of the liver becomes definitive in the left side of the 3rd to 4th somites. The anlage of the pancreas appears as a ventral eminence on the right side beneath and slightly anterior to the 3rd somite. Three sinuous portions of the vitelline veins consisting of the left and right ducts of Cuvier and 4 sinuous portions of the vitello-caudal vein meander on the yolk sphere. The blood cells (8.7 m in diameter) flatten slightly. The posterior of the two otoliths in each otocyst is slightly larger than the anterior. - 2 days 16 hrs " [OlatDv:curators] comment: Onset of retinal pigmentation synonym: "30 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000300 ! Medaka stage 27 [Term] id: OlatDv:0000320 name: Medaka stage 29 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 3 days 2 hrs Stage 29 (3 days 2 hrs) 34 somite stage (Internal ear formation): The embryonic body encircles about 3/4 of the yolk sphere. The anlage of the pineal gland is recognized as a disc-shaped, round structure at the dorsal surface of the 3rd ventricle. In the heart, the sinus venosus, atrium, ventricle and bulbus arteriosus are differentiated. There is a large, transparent membranous protrusion inside the outer wall and another inside the inner wall of the otic vesicle (internal ear formation). In the region posterior to the eye (where gills will form), a group of large hatching enzyme cells has differentiated from endodermal cells [7,28]. A ventral eminence is prominent behind the otic vesicles, and an- other eminence (the presumptive swim bladder) is discernible at the ventral side of the 3rd somite. The pectoral fin is apparent, and membranous fins are also seen in the tail, which has 19 somites beyond the gut tube. Guanophores begin to disperse on the dorsal surface of the body trunk. The anterior tip of the notochord is located where the branches of the dorsal aorta join. - 3 days 2 hrs " [OlatDv:curators] comment: Internal ear formation synonym: "34 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000310 ! Medaka stage 28 [Term] id: OlatDv:0000330 name: Medaka stage 30 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 3 days 10 hrs " [OlatDv:curators] comment: Blood vessel development synonym: "35 somite stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000320 ! Medaka stage 29 [Term] id: OlatDv:0000340 name: Medaka stage 31 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 3 days 23 hrs Stage 31 (3 days 23 hrs) Gill blood vessel formation stage: Large cells of the hatching enzyme gland migrate up to the region under the central part of the eye, which now has a cornea. Blood circulation is seen in the gill arches. Pigmentation of the melanophores in the choroidea proceeds as a dark network in the eye. The pronephric kidney appears as a bright structure adjacent to the 1st somite. The transparent, colorless gallbladder first appears at the posterior region of the liver. Four transparent, membranous protrusions (the structures of the internal ear) are recognized in the otic vesicles. The anterior region of the oral cavity is formed. The tail has 21 somites and a membranous fin which is wider on the ventral side. - 3 days 23 hrs " [OlatDv:curators] synonym: "Gill blood vessel formation stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000330 ! Medaka stage 30 [Term] id: OlatDv:0000350 name: Medaka stage 32 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 4 days 5 hrs Stage 32 (4 days 5 hrs) Somite completion stage (Formation of pronephros and air bladder): The swim (air)bladder is recognized as a transparent vacuolar body beneath the 3rd somite, and the distinct kidneys (pronephroi) lie in contact with the bilateral sides of the notochord in the 1st somite. In the otic vesicles, a tubular (semicircular canals) membranous labyrinth can be seen. In the posterior end of the tail, the somites are indistinct. The number of whole somites counted is 30. Two hours later, the blood stream is twisted in the posterior end of the tail. - 4 days 5 hrs " [OlatDv:curators] comment: Formation of pronephros and air bladder synonym: "somite completion stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000340 ! Medaka stage 31 [Term] id: OlatDv:0000360 name: Medaka stage 33 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 4 days 10 hrs Stage 33 (4 days 10 hrs) Stage at which notochord vacuolization is completed: The tail tip has not yet reached within inter ocular distance of the eye. Because the eyeball (choroidea) is very dark, the lenses can be seen only with strong trans illumination. The notochord is completely vacuolized to the end of the tail. The pineal gland is distinct at the dorsal surface of the vascularized forebrain. The tips of the membranous margins of the pectoral fins reach the 4th somite. - 4 days 10 hrs " [OlatDv:curators] synonym: "stage at which notochord vacuolization is completed" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000350 ! Medaka stage 32 [Term] id: OlatDv:0000370 name: Medaka stage 34 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 5 days 1 hr Stage 34 (5 days 1 hr) Pectoral fin blood circulation stage: The tip of the caudal fin has several melanophores and reaches the eye. Blood circulation is apparent in the pectoral fins, which frequently move (flutter). The choroidea of the eye becomes so black that it is almost impervious to light. - 5 days 1 hr " [OlatDv:curators] synonym: "pectoral fin blood circulation stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000360 ! Medaka stage 33 [Term] id: OlatDv:0000380 name: Medaka stage 35 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 5 days 12 hrs Stage 35 (5 days 12 hrs) Stage at which visceral blood vessels form: The tip of the caudal fin reaches beyond the posterior border of the eye. Guanophores are distributed from the head to the vicinity of the tail tip. Blood circulates through the internal tissues of the head and the viscera to Cuvier's ducts. The tubular structure of the spinal cord is revealed. The opening of the oral cavity to the mouth and the presence of several pit organs on the frontal bone can be recognized. - 5 days 12 hrs " [OlatDv:curators] synonym: "stage at which visceral blood vessels form" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000370 ! Medaka stage 34 [Term] id: OlatDv:0000390 name: Medaka stage 36 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 6 days Stage 36 (6 days) Heart development stage: The tip of the tail reaches the otic vesicle. Guanophores and melanophores are distributed on the dorsal wall (peritoneum) of the peritoneal cavity beneath the 1st to the 4th somites. The extent of flexion of the atrio-ventricular region of the heart increases so that in a lateral view, the atrium and the ventricle lie adjacent to each other. - 6 days " [OlatDv:curators] synonym: "heart development stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000380 ! Medaka stage 35 [Term] id: OlatDv:0000400 name: Medaka stage 37 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 7 days Stage 37 (7 days) Pericardial cavity formation stage: The tip of the tail lies just past the otic vesicle (total length ca. 3.1 mm). The pharyngeal teeth are visible in the posterior region of the gills between the otic vesicles. The pericardial cavity (cardiac sac) surrounding the heart is easily observed. The slowly moving gut tube has a narrow lumen. - 7 days " [OlatDv:curators] synonym: "pericardial cavity formation stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000390 ! Medaka stage 36 [Term] id: OlatDv:0000410 name: Medaka stage 38 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 8 days Stage 38 (8 days) Spleen development stage (Differentiation of caudal fin begins): The tip of the tail extends beyond the otic vesicle (total length ca. 3.6 mm), and the rudiments of the caudal fin rays can be seen within the round membranous fin. The spleen is recognized as a small reddish globule dorsal to the gut tube beneath the left region of the 3rd-4th somites. The gut tube curves to the left between the 1st and the 4th somites, appearing to detour around the swim bladder (3rd-4th somites). A large well- developed gallbladder can be identified by its yellow or yellowish green tint. Both eyes move actively at the same time accompanying movement of the mouth and the pectoral fins. - 8 days " [OlatDv:curators] comment: Differentiation of caudal fin begins synonym: "spleen development stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000400 ! Medaka stage 37 [Term] id: OlatDv:0000420 name: Medaka stage 39 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - 9 days Stage 39 (9 days) Hatching stage: The tip of the tail extends to the base of the pectoral fin or to the posterior region of the swim bladder (total length 3.8- 4.2 mm). After hatching, the internal wall of the swim bladder expands remarkably. Cells of hatching gland have already disappeared. The embryos dissolve the inner layers of the chorion [27], tear the single outer layer by moving the body and escape from the chorion tail-first. - 9 days " [OlatDv:curators] synonym: "hatching stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000410 ! Medaka stage 38 [Term] id: OlatDv:0000430 name: Medaka stage 40 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 40 1st fry stage: This period extends from hatching until fin rays appear in the caudal and pectoral fins (total length about 4.5 mm). - " [OlatDv:curators] synonym: "1st fry stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000420 ! Medaka stage 39 [Term] id: OlatDv:0000440 name: Medaka stage 41 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 41 2nd fry stage: This period begins after the appearance of jointed rays in the pectoral fins and continues until fin rays appear in the dorsal and anal fins (total length about 5.5 mm). - " [OlatDv:curators] synonym: "2nd fry stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000430 ! Medaka stage 40 [Term] id: OlatDv:0000450 name: Medaka stage 42 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 42 3rd fry stage: This stage follows the appearance of ventral fin rays and scales in addition and extends to the formation of the jointed fin rays in the dorsal and anal fins (total length about 7 mm). - " [OlatDv:curators] synonym: "3rd fry stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000440 ! Medaka stage 41 [Term] id: OlatDv:0000460 name: Medaka stage 43 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 43 1st young fish stage: This is the period before the secondary sexual characteristics are manifested (total length about 22 mm). - " [OlatDv:curators] synonym: "1st young fish stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000450 ! Medaka stage 42 [Term] id: OlatDv:0000470 name: Medaka stage 44 namespace: medaka_ontology def: "Zoological Science 11: 825-839 (1994) - Stage 44 2nd young fish stage: At this stage the mature fish ejaculate sperm and spawn eggs (total length about 23 mm ). - " [OlatDv:curators] synonym: "2nd young fish stage" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by OlatDv:0000460 ! Medaka stage 43 [Typedef] id: immediately_preceded_by name: immediately_preceded_by namespace: zebrafish_anatomical_ontology def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 xref: http://semanticscience.org/resource/SIO_000251 is_a: preceded_by ! preceded_by property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Term] id: GO:0003674 name: molecular_function namespace: molecular_function alt_id: GO:0005554 def: "Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions." [GOC:go_curators] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. Note that when this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "molecular function" EXACT [] synonym: "molecular function unknown" NARROW [] disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0004871 name: signal transducer activity namespace: molecular_function alt_id: GO:0005062 alt_id: GO:0009369 alt_id: GO:0009370 def: "Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." [GOC:go_curators] comment: Ligands do NOT have the molecular function 'signal transducer activity'. subset: goslim_aspergillus ! Aspergillus GO slim subset: goslim_candida ! Candida GO slim subset: goslim_generic ! Generic GO slim subset: goslim_pir ! PIR GO slim subset: goslim_plant ! Plant GO slim subset: goslim_yeast ! Yeast GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity" NARROW [] synonym: "quorum sensing response regulator activity" NARROW [] synonym: "quorum sensing signal generator activity" NARROW [] is_a: GO:0060089 ! molecular transducer activity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0004872 name: receptor activity namespace: molecular_function alt_id: GO:0019041 def: "Combining with an extracellular or intracellular messenger to initiate a change in cell activity." [GOC:ceb, ISBN:0198506732] subset: goslim_metagenomics ! Metagenomics GO slim subset: goslim_plant ! Plant GO slim subset: gosubset_prok ! Prokaryotic GO subset synonym: "receptor guanylate cyclase activity" NARROW [] synonym: "viral antireceptor activity" NARROW [] is_a: GO:0003674 ! molecular_function property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0004888 name: transmembrane signaling receptor activity namespace: molecular_function alt_id: GO:0004926 def: "Combining with an extracellular or intracellular signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity." [GOC:go_curators, Wikipedia:Transmembrane_receptor] subset: gosubset_prok ! Prokaryotic GO subset synonym: "non G protein coupled 7TM receptor activity" NARROW [] synonym: "non-G-protein coupled 7TM receptor activity" NARROW [] synonym: "non-G-protein-coupled 7TM receptor activity" NARROW [] synonym: "transmembrane receptor activity" BROAD [GOC:bf, GOC:signaling] synonym: "transmembrane signalling receptor activity" EXACT [GOC:mah] is_a: GO:0038023 ! signaling receptor activity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0004930 name: G-protein coupled receptor activity namespace: molecular_function alt_id: GO:0001622 alt_id: GO:0001623 alt_id: GO:0001624 alt_id: GO:0001625 alt_id: GO:0016526 def: "Combining with an extracellular signal and transmitting the signal across the membrane by activating an associated G-protein; promotes the exchange of GDP for GTP on the alpha subunit of a heterotrimeric G-protein complex." [GOC:bf, Wikipedia:GPCR, http://www.iuphar-db.org] subset: gosubset_prok ! Prokaryotic GO subset synonym: "EBV-induced receptor" NARROW [] synonym: "Epstein-Barr Virus-induced receptor activity" NARROW [] synonym: "G protein coupled receptor activity" EXACT [] synonym: "G protein linked receptor activity" EXACT [] synonym: "G-protein coupled receptor activity, unknown ligand" NARROW [] synonym: "G-protein linked receptor activity" EXACT [] synonym: "G-protein-coupled receptor activity" EXACT [] synonym: "GPCR activity" EXACT [] synonym: "Mas proto-oncogene receptor activity" NARROW [] synonym: "RDC1 receptor activity" NARROW [] synonym: "SREB receptor" NARROW [] synonym: "ligand-dependent GPCR activity" EXACT [] synonym: "orphan G protein coupled receptor activity" NARROW [] synonym: "orphan G-protein coupled receptor activity" NARROW [] synonym: "orphan GPCR activity" NARROW [] synonym: "receptor activity, G-protein coupled" EXACT [GOC:bf] synonym: "super conserved receptor expressed in brain receptor activity" NARROW [] xref: Reactome:REACT_100062 xref: Reactome:REACT_100632 xref: Reactome:REACT_101654 xref: Reactome:REACT_108337 xref: Reactome:REACT_108705 xref: Reactome:REACT_109480 xref: Reactome:REACT_109715 xref: Reactome:REACT_110075 xref: Reactome:REACT_1430 xref: Reactome:REACT_15298 xref: Reactome:REACT_28243 xref: Reactome:REACT_29193 xref: Reactome:REACT_29686 xref: Reactome:REACT_30471 xref: Reactome:REACT_32708 xref: Reactome:REACT_32983 xref: Reactome:REACT_34075 xref: Reactome:REACT_637 xref: Reactome:REACT_77079 xref: Reactome:REACT_78692 xref: Reactome:REACT_79526 xref: Reactome:REACT_85249 xref: Reactome:REACT_85989 xref: Reactome:REACT_86240 xref: Reactome:REACT_92494 xref: Reactome:REACT_95526 xref: Reactome:REACT_97825 xref: Reactome:REACT_98882 xref: Wikipedia:GPCR is_a: GO:0004888 ! transmembrane signaling receptor activity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0008527 name: taste receptor activity namespace: molecular_function def: "Combining with soluble compounds to initiate a change in cell activity. These receptors are responsible for the sense of taste." [GOC:dph] synonym: "gustatory receptor" EXACT [] is_a: GO:0004930 ! G-protein coupled receptor activity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0038023 name: signaling receptor activity namespace: molecular_function def: "Receiving a signal and transmitting the signal in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." [GOC:bf, GOC:signaling] comment: Note that this term and its child terms are intended for receptors that are directly coupled to a signal transduction pathway. This term should therefore not be used to annotate decoy receptors and other proteins that bind a signal but do not pass the signal on. This term can be used to annotate dependence receptors that transduce a signal when a ligand is withdrawn (in this case, signal withdrawal is considered to be the initiating signal), or receptors that signal at a basal level in the absence of a bound agonist. For receptors that mediate transport of a substance into the cell by receptor-mediated endocytosis, consider instead the term 'cargo receptor activity ; GO:0038024' and its children. synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] synonym: "signalling receptor activity" EXACT [GOC:mah] is_a: GO:0004871 ! signal transducer activity is_a: GO:0004872 ! receptor activity property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0060089 name: molecular transducer activity namespace: molecular_function def: "The molecular function that accepts an input of one form and creates an output of a different form." [GOC:mtg_MIT_16mar07] subset: goslim_pir ! PIR GO slim subset: gosubset_prok ! Prokaryotic GO subset is_a: GO:0003674 ! molecular_function property_value: IAO:0000412 http://purl.obolibrary.org/obo/go.owl [Term] id: MmusDv:0000003 name: Theiler stage 01 namespace: mouse_developmental_stage def: "Embryonic stage defined by a one-cell embryo (fertilised egg) with zona pellucida present." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_1] comment: Starts the mouse development sequence, range from embryonic age 0-0.9 dpc (day post-coitum). synonym: "TS01 (E0-2.5)" RELATED [EMAPA:TS01] synonym: "zygote stage" RELATED [] xref: TS01 xref: XUO:0000045 is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000068 ! embryo stage [Term] id: MmusDv:0000005 name: Theiler stage 02 namespace: mouse_developmental_stage def: "Embryonic cleavage stage defined by a dividing 2-4 cells egg." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_2] comment: Embryonic age 1 dpc (day post-coitum). synonym: "TS02 (E1-2.5)" RELATED [EMAPA:TS02] xref: TS02 xref: XUO:0000046 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000003 ! Theiler stage 01 relationship: part_of UBERON:0000107 ! cleavage stage [Term] id: MmusDv:0000006 name: Theiler stage 03 namespace: mouse_developmental_stage def: "Embryonic cleavage stage defined by a dividing 4-16 cells egg, early to fully compacted morula." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_3] comment: Embryonic age 2 dpc (day post-coitum). synonym: "TS03 (E1-3.5)" RELATED [EMAPA:TS03] xref: TS03 xref: XUO:0000047 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000005 ! Theiler stage 02 relationship: part_of UBERON:0000107 ! cleavage stage [Term] id: MmusDv:0000008 name: Theiler stage 04 namespace: mouse_developmental_stage def: "Embryonic blastula stage defined by a dividing 16-40 cells egg, with early evidence of the blastocoelic cavity." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_4] comment: Embryonic age 3 dpc (day post-coitum). synonym: "TS04 (E2-4)" RELATED [EMAPA:TS04] xref: TS04 xref: XUO:0000048 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000006 ! Theiler stage 03 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: MmusDv:0000009 name: Theiler stage 05 namespace: mouse_developmental_stage def: "Embryonic blastula stage defined by a zona free blastocyst (zona pellucida absent)." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_5] comment: Embryonic age 4 dpc (day post-coitum). synonym: "TS05 (E3-5.5)" RELATED [EMAPA:TS05] xref: TS05 xref: XUO:0000049 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000008 ! Theiler stage 04 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: MmusDv:0000010 name: Theiler stage 06 namespace: mouse_developmental_stage def: "Embryonic blastula stage during which the blastocyst attaches, with first evidence of embryonic endoderm cells covering the blastocoelic surface of the inner cell mass." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_6] comment: Embryonic age 4.5 dpc (day post-coitum). Refers to human CarnegieStage04. synonym: "TS06 (E4-5.5)" RELATED [EMAPA:TS06] xref: TS06 xref: XUO:0000050 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000009 ! Theiler stage 05 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: MmusDv:0000011 name: Theiler stage 07 namespace: mouse_developmental_stage def: "Embryonic blastula stage defined by implantation and formation of the egg cylinder resulting from the rapid increase in the number of inner cell mass cells." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_7] comment: Embryonic age 5 dpc (day post-coitum). Refers to human CarnegieStage05. synonym: "TS07 (E4.5-6)" RELATED [EMAPA:TS07] xref: TS07 xref: XUO:0000051 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000010 ! Theiler stage 06 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: MmusDv:0000012 name: Theiler stage 08 namespace: mouse_developmental_stage def: "Embryonic blastula stage during which the egg cylinder differentiates into embryonic and extra-embryonic regions, and the pro-amniotic cavity appears." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_8] comment: Embryonic age 6 dpc (day post-coitum). Refers to human CarnegieStage05. synonym: "TS08 (E5-6.5)" RELATED [EMAPA:TS08] xref: TS08 xref: XUO:0000052 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000011 ! Theiler stage 07 relationship: part_of UBERON:0000108 ! blastula stage [Term] id: MmusDv:0000014 name: Theiler stage 09 namespace: mouse_developmental_stage def: "Embryonic gastrula stage during which gastrulation starts with first evidence of mesoderm and visible embryonic axis." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_9] comment: Embryonic age 6.5 dpc (day post-coitum). synonym: "TS09 (E6.25-7.25)" RELATED [EMAPA:TS09] xref: TS09 xref: XUO:0000053 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000012 ! Theiler stage 08 relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: MmusDv:0000015 name: Theiler stage 10 namespace: mouse_developmental_stage def: "Embryonic gastrula stage during which the primitive streak bulges into the pro-amniotic cavity and forms the amniotic fold; the exocoelom appears; the allantoic bud first appears, gastrulation continues and the node becomes visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_10] comment: Embryonic age 7 dpc (day post-coitum), (range 6.5-7.5 dpc). Refers to human CarnegieStage08. synonym: "TS10 (E6.5-7.75)" RELATED [EMAPA:TS10] xref: TS10 xref: XUO:0000054 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000014 ! Theiler stage 09 relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: MmusDv:0000016 name: neurula stage namespace: mouse_developmental_stage def: "Embryonic stage defined by formation of a tube from the flat layer of ectodermal cells known as the neural plate." [UBERON:0000110] is_obsolete: true consider: MmusDv:0000017 ! Theiler stage 11 comment: This stage starts the emergence of the central nervous system at embryonic age 7.5 dpc (day post-coitum). synonym: "TheilerStage11" RELATED [] [Term] id: MmusDv:0000017 name: Theiler stage 11 namespace: mouse_developmental_stage def: "Embryonic stage called presomite stage and defined by the formation of the neural plate." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_11] comment: This stage starts the emergence of the central nervous system at embryonic age 7.5 dpc (day post-coitum). synonym: "TS11 (E7.25-8)" RELATED [EMAPA:TS11] synonym: "neurula stage" RELATED [] xref: TS11 xref: XUO:0000055 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000015 ! Theiler stage 10 relationship: part_of UBERON:0000068 ! embryo stage [Term] id: MmusDv:0000019 name: Theiler stage 12 namespace: mouse_developmental_stage def: "Organogenesis stage during which first somites become visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_12] comment: Embryonic age 8 dpc (day post-coitum). Refers to human CarnegieStage09. synonym: "TS12 (E7.5-8.75)" RELATED [EMAPA:TS12] xref: TS12 xref: XUO:0000056 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000017 ! Theiler stage 11 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000020 name: Theiler stage 13 namespace: mouse_developmental_stage def: "Organogenesis stage defined by the turning of the embryo; initiated in embryos with 6-8 pairs of somites and usually completed in embryos with 14-16 pairs of somites." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_13] comment: Embryonic age 8.5 dpc (day post-coitum). Refers to human CarnegieStage10. synonym: "TS13 (E8-9.25)" RELATED [EMAPA:TS13] xref: TS13 xref: XUO:0000057 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000019 ! Theiler stage 12 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000021 name: Theiler stage 14 namespace: mouse_developmental_stage def: "Organogenesis stage during which the rostral extremity of the neural tube closes in embryos with usually about 15-18 somite pairs. Late in the stage the 3rd branchial arch becomes visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_14] comment: Embryonic age 9 dpc (day post-coitum). Refers to human CarnegieStage11. synonym: "TS14 (E8.5-9.75)" RELATED [EMAPA:TS14] xref: TS14 xref: XUO:0000058 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000020 ! Theiler stage 13 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000022 name: Theiler stage 15 namespace: mouse_developmental_stage def: "Organogenesis stage during which the posterior neuropore forms and the condensation of the forelimb bud becomes apparent near the 8th-12th somite pairs." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_15] comment: Embryonic age 9.5 dpc (day post-coitum). Refers to human CarnegieStage12. synonym: "TS15 (E9-10.25)" RELATED [EMAPA:TS15] xref: TS15 xref: XUO:0000059 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000021 ! Theiler stage 14 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000023 name: Theiler stage 16 namespace: mouse_developmental_stage def: "Organogenesis stage during which the posterior neuropore closes and the hind limb bud becomes visible at the level of the 23rd-28th somites." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_16] comment: Embryonic age 10 dpc (day post-coitum). Refers to human CarnegieStages 13 to 15. synonym: "TS16 (E9.5-10.75)" RELATED [EMAPA:TS16] xref: TS16 xref: XUO:0000060 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000022 ! Theiler stage 15 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000024 name: Theiler stage 17 namespace: mouse_developmental_stage def: "Organogenesis stage defined by the deepening of the lens pit and the first appearance of the physiological umbilical hernia." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_17] comment: Embryonic age 10.5 dpc (day post-coitum). Refers to human CarnegieStages 13 to 15. synonym: "TS17 (E10-11.25)" RELATED [EMAPA:TS17] xref: TS17 xref: XUO:0000061 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000023 ! Theiler stage 16 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000025 name: Theiler stage 18 namespace: mouse_developmental_stage def: "Organogenesis stage during which the lens vesicle gradually closes and the nasal pits start to form. The rapid growth of the brain is striking." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_18] comment: Embryonic age 11 dpc (day post-coitum). Refers to human CarnegieStages 13 to 15. synonym: "TS18 (E10.5-11.25)" RELATED [EMAPA:TS18] xref: TS18 xref: XUO:0000062 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000024 ! Theiler stage 17 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000026 name: Theiler stage 19 namespace: mouse_developmental_stage def: "Organogenesis stage during which the lens vesicle becomes completely closed and detached from the ectoderm, and peripheral margins of the eye become well defined." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_19] comment: Embryonic age 11.5 dpc (day post-coitum). Refers to human CarnegieStage16. synonym: "TS19 (E11-12.25)" RELATED [EMAPA:TS19] xref: TS19 xref: XUO:0000063 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000025 ! Theiler stage 18 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000027 name: Theiler stage 20 namespace: mouse_developmental_stage def: "Organogenesis stage during which the handplate develops angles corresponding to the future digits, and tongue and brain vesicles are clearly visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_20] comment: Embryonic age 12 dpc (day post-coitum). Refers to human CarnegieStage17. synonym: "TS20 (E11.5-13)" RELATED [EMAPA:TS20] xref: TS20 xref: XUO:0000064 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000026 ! Theiler stage 19 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000028 name: Theiler stage 21 namespace: mouse_developmental_stage def: "Organogenesis stage during which the digit widths and locations can be discerned, and the pinna rapidly develops and forms a crest at right angles to the head." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_21] comment: Embryonic age 13 dpc (day post-coitum). Refers to human CarnegieStages 18 and 19. synonym: "TS21 (E12.5-14)" RELATED [EMAPA:TS21] xref: TS21 xref: XUO:0000065 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000027 ! Theiler stage 20 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000029 name: Theiler stage 22 namespace: mouse_developmental_stage def: "Organogenesis stage during which the fingers are clearly visible and the long bones of the limbs are present." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_22] comment: Embryonic age 14 dpc (day post-coitum). Refers to human CarnegieStages 20 to 23. synonym: "TS22 (E13.5-15)" RELATED [EMAPA:TS22] xref: TS22 xref: XUO:0000066 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000028 ! Theiler stage 21 relationship: part_of UBERON:0000111 ! organogenesis stage [Term] id: MmusDv:0000030 name: post-embryonic developmental stage namespace: mouse_developmental_stage def: "mouse life cycle that follows the embryonic development stage and during which further organogenesis and histogenesis occur." [Bgee:curator] is_obsolete: true comment: This term was obsoleted to follow human developmental ontology structure. [Term] id: MmusDv:0000032 name: Theiler stage 23 namespace: mouse_developmental_stage def: "Fetal stage during which the toes separate and hair follicles are present in the cephalic region but not at the periphery of the vibrissae." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_23] comment: Embryonic age 15 dpc (day post-coitum). Refers to the human fetal period. synonym: "TS23 (E15)" RELATED [EMAPA:TS23] xref: TS23 xref: XUO:0000067 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000029 ! Theiler stage 22 relationship: part_of UBERON:0007220 ! late embryonic stage [Term] id: MmusDv:0000033 name: Theiler stage 24 namespace: mouse_developmental_stage def: "Fetal stage during which the umbilical hernia disappears and there is a corresponding increase in the size of the peritoneal sac." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_24] comment: Embryonic age 16 dpc (day post-coitum). Refers to the human fetal period. synonym: "TS24 (E16)" RELATED [EMAPA:TS24] xref: TS24 xref: XUO:0000068 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000032 ! Theiler stage 23 relationship: part_of UBERON:0007220 ! late embryonic stage [Term] id: MmusDv:0000034 name: Theiler stage 25 namespace: mouse_developmental_stage def: "Fetal stage during which the thickened skin forms wrinkles and the subcutaneous veins are less visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_25] comment: Embryonic age 17 dpc (day post-coitum). Refers to the human fetal period. synonym: "TS25 (E17)" RELATED [EMAPA:TS25] xref: TS25 xref: XUO:0000069 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000033 ! Theiler stage 24 relationship: part_of UBERON:0007220 ! late embryonic stage [Term] id: MmusDv:0000035 name: Theiler stage 26 namespace: mouse_developmental_stage def: "Fetal stage defined by long whiskers and during which the eyes are barely visible through the closed eyelids." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_26] comment: Embryonic age 18 dpc (day post-coitum). Refers to the human fetal period. synonym: "TS26 (E18)" RELATED [EMAPA:TS26] xref: TS26 xref: XUO:0000070 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000034 ! Theiler stage 25 relationship: part_of UBERON:0007220 ! late embryonic stage [Term] id: MmusDv:0000036 name: Theiler stage 27 namespace: mouse_developmental_stage def: "Early immature stage that refers to the newborn mouse. Description of anatomical structures related to this stage corresponds to the first day of the mouse life." [http://www.emouseatlas.org/emap/ema/theiler_stages/StageDefinition/ts27definition.html] comment: Embryonic age 19-20 dpc (day post-coitum). synonym: "TS27" RELATED [EMAPA:TS27] synonym: "newborn stage" RELATED [] xref: TS27 xref: XUO:0000071 is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000035 ! Theiler stage 26 relationship: part_of MmusDv:0000096 ! early immature stage [Term] id: MmusDv:0000037 name: Theiler stage 28 namespace: mouse_developmental_stage def: "Postnatal development." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_28] is_obsolete: true consider: MmusDv:0000043 ! immature stage comment: This term was obsoleted as it is a broad term to describe the postnatal development, while in our ontology we use the immature stage preceding the mature stage to describe the postnatal development. xref: TS28 xref: XUO:0000072 [Term] id: MmusDv:0000039 name: adolescent stage namespace: mouse_developmental_stage def: "Immature stage that refers to a mouse which is over 4 weeks and under 7 weeks old." [Bgee:curator] is_obsolete: true comment: This stage describes the age at which mice are usually used as adolescent mouse models in the literature. synonym: "4-6 weeks" EXACT [] [Term] id: MmusDv:0000040 name: adult stage namespace: mouse_developmental_stage def: "Mouse developmental stage that refers to a mouse which is over 5 weeks old." [Bgee:curator] is_obsolete: true replaced_by: MmusDv:0000110 ! mature stage comment: The organisation of the postnatal development time in mouse is debatable, literature usually refers to mature or immature mice, with milestone around 6-8 weeks post-natal. synonym: "mature" EXACT [] [Term] id: MmusDv:0000041 name: unknown namespace: mouse_developmental_stage is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000105 ! life cycle stage [Term] id: MmusDv:0000042 name: prenatal stage namespace: mouse_developmental_stage def: "mouse life cycle that starts with fertilization and ends with birth." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000105 ! life cycle stage [Term] id: MmusDv:0000043 name: immature stage namespace: mouse_developmental_stage def: "Mouse developmental stage that covers the period from birth until 5 weeks old." [Bgee:curator] comment: The organisation of the postnatal development time in mouse is debatable, it is commonly accepted that mouse reaches sexual maturity by six weeks of age (see http://www.ahc.umn.edu/rar/breeding.html).synonym: \"postnatal development\" RELATED [] synonym: "P0-adult" RELATED [EMAP:TS28] synonym: "TS28 (P0-Adult)" RELATED [EMAP:TS28] synonym: "Theiler stage 28" RELATED [] synonym: "TheilerStage28" RELATED [] xref: TS28 is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000105 ! life cycle stage [Term] id: MmusDv:0000044 name: 1-7 days namespace: mouse_developmental_stage def: "Early immature stage that refers to the newborn mouse which is over 1 and under 8 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000096 ! early immature stage [Term] id: MmusDv:0000045 name: 1 week namespace: mouse_developmental_stage def: "Infant stage that refers to a mouse which is over 7 days and under 15 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000044 ! 1-7 days relationship: part_of UBERON:0007221 ! neonate stage [Term] id: MmusDv:0000046 name: 2 weeks namespace: mouse_developmental_stage def: "Infant stage that refers to a mouse which is over 14 days and under 22 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000045 ! 1 week relationship: part_of UBERON:0007221 ! neonate stage [Term] id: MmusDv:0000047 name: 3 weeks namespace: mouse_developmental_stage def: "Infant stage that refers to a mouse which is over 21 days and under 29 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000046 ! 2 weeks relationship: part_of UBERON:0007221 ! neonate stage [Term] id: MmusDv:0000048 name: 4 weeks namespace: mouse_developmental_stage def: "Infant stage that refers to a mouse which is over 28 days and under 36 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000047 ! 3 weeks relationship: part_of UBERON:0007221 ! neonate stage [Term] id: MmusDv:0000049 name: 5 weeks namespace: mouse_developmental_stage def: "Infant stage that refers to a mouse which is over 35 days and under 43 days old." [Bgee:curator] comment: This stage is usually the stage during which the sexual maturity occurs. is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000048 ! 4 weeks relationship: part_of UBERON:0007221 ! neonate stage [Term] id: MmusDv:0000050 name: 6 weeks namespace: mouse_developmental_stage def: "Early stage that refers to a mouse which is over 42 days and under 50 days old." [Bgee:curator] comment: This stage is commonly considered in the literature as the milestone that distinguishes between sexually immmature and mature stages (see http://www.ahc.umn.edu/rar/breeding.html). is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000049 ! 5 weeks relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000051 name: 7 weeks namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 49 days and under 57 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000050 ! 6 weeks relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000052 name: 8 weeks namespace: mouse_developmental_stage def: "2 month-old stage that refers to a mouse which is over 56 days and under 64 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000051 ! 7 weeks relationship: part_of MmusDv:0000062 ! 2 month-old stage [Term] id: MmusDv:0000053 name: 9 weeks namespace: mouse_developmental_stage def: "2 month-old stage that refers to a mouse which is over 63 days and under 71 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000052 ! 8 weeks relationship: part_of MmusDv:0000062 ! 2 month-old stage [Term] id: MmusDv:0000054 name: 10 weeks namespace: mouse_developmental_stage def: "2 month-old stage that refers to a mouse which is over 70 days and under 78 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000053 ! 9 weeks relationship: part_of MmusDv:0000062 ! 2 month-old stage [Term] id: MmusDv:0000055 name: 11 weeks namespace: mouse_developmental_stage def: "2 month-old stage that refers to a mouse which is over 77 days and under 85 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000054 ! 10 weeks relationship: part_of MmusDv:0000062 ! 2 month-old stage [Term] id: MmusDv:0000056 name: 12 weeks namespace: mouse_developmental_stage def: "3 month-old stage that refers to a mouse which is over 84 days and under 92 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000055 ! 11 weeks relationship: part_of MmusDv:0000063 ! 3 month-old stage [Term] id: MmusDv:0000057 name: 13 weeks namespace: mouse_developmental_stage def: "3 month-old stage that refers to a mouse which is over 91 days and under 99 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000056 ! 12 weeks relationship: part_of MmusDv:0000063 ! 3 month-old stage [Term] id: MmusDv:0000058 name: 14 weeks namespace: mouse_developmental_stage def: "3 month-old stage that refers to a mouse which is over 98 days and under 106 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000057 ! 13 weeks relationship: part_of MmusDv:0000063 ! 3 month-old stage [Term] id: MmusDv:0000059 name: 15 weeks namespace: mouse_developmental_stage def: "3 month-old stage that refers to a mouse which is over 105 days and under 113 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000058 ! 14 weeks relationship: part_of MmusDv:0000063 ! 3 month-old stage [Term] id: MmusDv:0000061 name: early adult stage namespace: mouse_developmental_stage def: "Mature stage that refers to a adult mouse which is over 6 weeks and under 7 months old." [http://research.jax.org/faculty/harrison/ger1vLifespan1.html#VD] comment: Mice under 7 months of age are commonly considered as young adult in the literature, without loss of functional capability like hearing (see http://www.ncbi.nlm.nih.gov/pubmed/18259074). is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000110 ! mature stage [Term] id: MmusDv:0000062 name: 2 month-old stage namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 2 and under 3 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000063 name: 3 month-old stage namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 3 and under 4 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000062 ! 2 month-old stage relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000064 name: 4 month-old stage namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 4 and under 5 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000063 ! 3 month-old stage relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000065 name: 16 weeks namespace: mouse_developmental_stage def: "4 month-old stage that refers to a mouse which is over 112 days and under 120 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000059 ! 15 weeks relationship: part_of MmusDv:0000064 ! 4 month-old stage [Term] id: MmusDv:0000066 name: 17 weeks namespace: mouse_developmental_stage def: "4 month-old stage that refers to a mouse which is over 119 days and under 127 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000065 ! 16 weeks relationship: part_of MmusDv:0000064 ! 4 month-old stage [Term] id: MmusDv:0000067 name: 18 weeks namespace: mouse_developmental_stage def: "4 month-old stage that refers to a mouse which is over 126 days and under 134 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000066 ! 17 weeks relationship: part_of MmusDv:0000064 ! 4 month-old stage [Term] id: MmusDv:0000068 name: 19 weeks namespace: mouse_developmental_stage def: "4 month-old stage that refers to a mouse which is over 133 days and under 141 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000067 ! 18 weeks relationship: part_of MmusDv:0000064 ! 4 month-old stage [Term] id: MmusDv:0000069 name: 5 month-old stage namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 5 and under 6 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000064 ! 4 month-old stage relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000070 name: 20 weeks namespace: mouse_developmental_stage def: "4 month-old stage that refers to a mouse which is over 140 days and under 148 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000068 ! 19 weeks relationship: part_of MmusDv:0000064 ! 4 month-old stage [Term] id: MmusDv:0000071 name: 21 weeks namespace: mouse_developmental_stage def: "5 month-old stage that refers to a mouse which is over 147 days and under 155 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000070 ! 20 weeks relationship: part_of MmusDv:0000069 ! 5 month-old stage [Term] id: MmusDv:0000072 name: 22 weeks namespace: mouse_developmental_stage def: "5 month-old stage that refers to a mouse which is over 154 days and under 162 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000071 ! 21 weeks relationship: part_of MmusDv:0000069 ! 5 month-old stage [Term] id: MmusDv:0000073 name: 23 weeks namespace: mouse_developmental_stage def: "5 month-old stage that refers to a mouse which is over 161 days and under 169 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000072 ! 22 weeks relationship: part_of MmusDv:0000069 ! 5 month-old stage [Term] id: MmusDv:0000074 name: 24 weeks namespace: mouse_developmental_stage def: "5 month-old stage that refers to a mouse which is over 168 days and under 176 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000073 ! 23 weeks relationship: part_of MmusDv:0000069 ! 5 month-old stage [Term] id: MmusDv:0000075 name: middle aged stage namespace: mouse_developmental_stage def: "Late adult stage that refers to a mouse which is over 7 and under 15 months old." [http://research.jax.org/faculty/harrison/ger1vLifespan1.html#VD] comment: This stage is commonly considered in the literature as the stage during which first evidence of loss of functional capability like hearing occurs in wild type mouse strain (see http://www.ncbi.nlm.nih.gov/pubmed/18259074). is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000097 ! late adult stage [Term] id: MmusDv:0000076 name: aged adult stage namespace: mouse_developmental_stage def: "Late adult stage that refers to a mouse which is over 15 months old." [http://research.jax.org/faculty/harrison/ger1vLifespan1.html#VD] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000097 ! late adult stage [Term] id: MmusDv:0000077 name: 6 month-old stage namespace: mouse_developmental_stage def: "Early adult stage that refers to a mouse which is over 6 and under 7 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000069 ! 5 month-old stage relationship: part_of MmusDv:0000061 ! early adult stage [Term] id: MmusDv:0000078 name: 7 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 7 and under 8 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000077 ! 6 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000079 name: 8 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 8 and under 9 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000078 ! 7 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000080 name: 9 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 9 and under 10 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000079 ! 8 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000081 name: 10 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 10 and under 11 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000080 ! 9 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000082 name: 11 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 11 and under 12 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000081 ! 10 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000083 name: 12 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 12 and under 13 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000082 ! 11 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000084 name: 13 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 13 and under 14 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000083 ! 12 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000085 name: 14 month-old stage namespace: mouse_developmental_stage def: "Middle aged stage that refers to a mouse which is over 14 and under 15 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000084 ! 13 month-old stage relationship: part_of MmusDv:0000075 ! middle aged stage [Term] id: MmusDv:0000086 name: 15 month-old stage namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 15 and under 16 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000085 ! 14 month-old stage relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000087 name: 16 month-old stage namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 16 and under 17 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000086 ! 15 month-old stage relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000088 name: 17 month-old stage namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 17 and under 18 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000087 ! 16 month-old stage relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000089 name: 18 month-old stage namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 18 and under 19 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000088 ! 17 month-old stage relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000090 name: 19 month-old stage namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 19 and under 20 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000089 ! 18 month-old stage relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000091 name: 20 month-old stage and over namespace: mouse_developmental_stage def: "Aged adult stage that refers to a mouse which is over 20 months old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000076 ! aged adult stage [Term] id: MmusDv:0000092 name: Theiler stage 11a namespace: mouse_developmental_stage def: "Embryonic neurula stage during which the neural plate formation occurs and the amniotic cavity is sealed off into three distinct cavities - the amniotic cavity, the exocoelom and the ectoplacental cleft." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_11] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000017 ! Theiler stage 11 [Term] id: MmusDv:0000093 name: Theiler stage 11b namespace: mouse_developmental_stage def: "Embryonic neurula stage during which the neural plate formation occurs and the allantoic bud elongates ." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_11] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000092 ! Theiler stage 11a relationship: part_of MmusDv:0000017 ! Theiler stage 11 [Term] id: MmusDv:0000094 name: Theiler stage 11c namespace: mouse_developmental_stage def: "Embryonic neurula stage during which the neural plate formation occurs and the head folds are formed while the neural groove becomes visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_11] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000093 ! Theiler stage 11b relationship: part_of MmusDv:0000017 ! Theiler stage 11 [Term] id: MmusDv:0000095 name: Theiler stage 11d namespace: mouse_developmental_stage def: "Embryonic neurula stage during which the neural plate formation occurs and the head folds continue to enlarge while the foregut pocket begins to form." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_11] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000094 ! Theiler stage 11c relationship: part_of MmusDv:0000017 ! Theiler stage 11 [Term] id: MmusDv:0000096 name: early immature stage namespace: mouse_developmental_stage def: "Immature stage that covers the period from birth until end of the first week." [Bgee:curator] comment: This stage groups the first seven days of the mouse life as described in K.Theiler's book, The House Mouse, Atlas of Embryonic Development, Springer-Verlag (second printing 1989). is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000043 ! immature stage [Term] id: MmusDv:0000097 name: late adult stage namespace: mouse_developmental_stage def: "Mature stage that refers to an adult mouse which is over 7 months old." [http://research.jax.org/faculty/harrison/ger1vLifespan1.html#VD] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000110 ! mature stage [Term] id: MmusDv:0000098 name: 25 weeks namespace: mouse_developmental_stage def: "6 month-old stage that refers to a mouse which is over 175 days and under 183 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000074 ! 24 weeks relationship: part_of MmusDv:0000077 ! 6 month-old stage [Term] id: MmusDv:0000099 name: 26 weeks namespace: mouse_developmental_stage def: "6 month-old stage that refers to a mouse which is over 182 days and under 190 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000098 ! 25 weeks relationship: part_of MmusDv:0000077 ! 6 month-old stage [Term] id: MmusDv:0000100 name: 27 weeks namespace: mouse_developmental_stage def: "6 month-old stage that refers to a mouse which is over 189 days and under 197 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000099 ! 26 weeks relationship: part_of MmusDv:0000077 ! 6 month-old stage [Term] id: MmusDv:0000101 name: 28 weeks namespace: mouse_developmental_stage def: "6 month-old stage that refers to a mouse which is over 196 days and under 204 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000100 ! 27 weeks relationship: part_of MmusDv:0000077 ! 6 month-old stage [Term] id: MmusDv:0000102 name: 29 weeks namespace: mouse_developmental_stage def: "6 month-old stage that refers to a mouse which is over 203 days and under 211 days old." [Bgee:curator] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000101 ! 28 weeks relationship: part_of MmusDv:0000077 ! 6 month-old stage [Term] id: MmusDv:0000103 name: Theiler stage 09a namespace: mouse_developmental_stage def: "Theiler developmental stage 9 defined by advanced endometrial reaction and during which the egg-cylinder stage advances with the first evidence of an embryonic axis." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Stage_9a] is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000014 ! Theiler stage 09 [Term] id: MmusDv:0000104 name: Theiler stage 09b namespace: mouse_developmental_stage def: "Theiler developmental stage 9 defined by advanced endometrial reaction and during which the first mesodermal cells are produced by gastrulation late in this stage." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Stage_9b] is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000103 ! Theiler stage 09a relationship: part_of MmusDv:0000014 ! Theiler stage 09 [Term] id: MmusDv:0000105 name: Theiler stage 10a namespace: mouse_developmental_stage def: "Theiler developmental stage 10 during which the tissue at the posterior end of the primitive streak bulges into the pro-amniotic cavity and forms the amniotic fold." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Stage_10a] comment: Refers to MS (mid-streak) stage in Downs and Davies staging of gastrulating mouse embryos (PMID: 8269852, 1993). is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000015 ! Theiler stage 10 [Term] id: MmusDv:0000106 name: Theiler stage 10b namespace: mouse_developmental_stage def: "Theiler developmental stage 10 during which small cavities coalesce to form a single cavity in the mesoderm of the posterior amniotic fold, the exocoelom." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_10b] comment: Refers to MS-LS (mid-streak to late streak) stage in Downs and Davies staging of gastrulating mouse embryos, 1993 (see http://www.ncbi.nlm.nih.gov/pubmed/8269852). is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000105 ! Theiler stage 10a relationship: part_of MmusDv:0000015 ! Theiler stage 10 [Term] id: MmusDv:0000107 name: Theiler stage 10c namespace: mouse_developmental_stage def: "Theiler developmental stage 10 during which the allantoic bud first appears, gastrulation continues and the node becomes visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_10c] comment: Refers to MS-LS (mid-streak to late streak) stage in Downs and Davies staging of gastrulating mouse embryos, 1993 (see http://www.ncbi.nlm.nih.gov/pubmed/8269852). is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000106 ! Theiler stage 10b relationship: part_of MmusDv:0000015 ! Theiler stage 10 [Term] id: MmusDv:0000108 name: Theiler stage 12a namespace: mouse_developmental_stage def: "Theiler developmental stage 12 defined by unturned embryo with first appearance of somite pairs 1-4 and during which the allantois extends further into the exocoelom. Maxillary components of the 1st branchial arch become prominent. The preotic sulcus is visible in the 2-3 somite embryo. The cardiogenic plate begins to form and the foregut pocket is clearly visible." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_12a] comment: Embryonic age 8 dpc (day post-coitum). Refers to human CarnegieStage09. is_a: UBERON:0000104 ! life cycle relationship: part_of MmusDv:0000019 ! Theiler stage 12 [Term] id: MmusDv:0000109 name: Theiler stage 12b namespace: mouse_developmental_stage def: "Theiler developmental stage 12 defined by unturned embryo with first appearance of somite pairs 5-7 and during which neural closure occurs in the region of the 4th and 5th somites, extending in both directions from this site. Headfolds are particularly prominent. Optic placodes are first evident and become indented to form the optic pits. The heart rudiment develops rapidly. The allantois contacts the chorion at the end of this stage." [http://php.med.unsw.edu.au/embryology/index.php?title=Mouse_Stages#Theiler_Stage_12b] comment: Embryonic age 8 dpc (day post-coitum). Refers to human CarnegieStage09. is_a: UBERON:0000104 ! life cycle relationship: immediately_preceded_by MmusDv:0000108 ! Theiler stage 12a relationship: part_of MmusDv:0000019 ! Theiler stage 12 [Term] id: MmusDv:0000110 name: mature stage namespace: mouse_developmental_stage def: "Mouse developmental stage that refers to a sexually mature adult mouse which is over 6 weeks old." [Bgee:curator] synonym: "mature" EXACT [] is_a: UBERON:0000104 ! life cycle relationship: part_of UBERON:0000105 ! life cycle stage [Typedef] id: immediately_preceded_by name: immediately_preceded_by namespace: zebrafish_anatomical_ontology def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 xref: http://semanticscience.org/resource/SIO_000251 is_a: preceded_by ! preceded_by property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Term] id: PATO:0000001 name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities." [PATOC:GVG] synonym: "trait" EXACT [] property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000051 name: morphology namespace: quality def: "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." [PATOC:GVG] subset: attribute_slim ! Attribute slim is_a: PATO:0001241 ! physical object quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000052 name: shape namespace: quality alt_id: PATO:0001647 def: "A morphological quality inhering in a bearer by virtue of the bearer's ratios of distances between its features (points, edges, surfaces and also holes etc)." [PATOC:GVG] comment: Shapes are invariant on size transformations. Shapes can be subdivided into 2D and 3D shapes, We can also make a distinction between shapes of complete self-connected objects, and shapes of parts of objects. subset: attribute_slim ! Attribute slim synonym: "relational shape quality" EXACT [] is_a: PATO:0000051 ! morphology property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000136 name: closure namespace: quality def: "A morphological quality pertaining to the degree to which an object contains an opening, aperture, orifice or vent." [PATOC:CJM, PATOC:GVG] subset: attribute_slim ! Attribute slim is_a: PATO:0000051 ! morphology property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000141 name: structure namespace: quality alt_id: PATO:0001452 def: "A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form." [PATOC:GVG] subset: attribute_slim ! Attribute slim synonym: "relational structural quality" EXACT [] is_a: PATO:0000051 ! morphology property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000169 name: viability namespace: quality def: "An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population." [PATOC:GVG] subset: attribute_slim ! Attribute slim subset: disposition_slim ! Disposition slim is_a: PATO:0001995 ! organismal quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000411 name: circular namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being such that every part of the surface or the circumference is equidistant from the center." [thefreedictionary.com:thefreedictionary.com] subset: cell_quality ! cell_quality subset: value_slim ! Value slim synonym: "round" EXACT [] synonym: "rounded" EXACT [] is_a: PATO:0000947 ! elliptic property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000608 name: closed namespace: quality def: "A morphological quality inhering in a bearer by virtue of the bearer's affording blocked passage or view." [answers.com:answers.com] subset: value_slim ! Value slim synonym: "blocked" RELATED [] is_a: PATO:0000136 ! closure disjoint_from: PATO:0000610 ! open property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000610 name: open namespace: quality def: "A morphological quality inhering in a bearer by virtue of the bearer's affording unobstructed passage or view." [answers.com:answers.com] subset: value_slim ! Value slim is_a: PATO:0000136 ! closure property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000947 name: elliptic namespace: quality def: "A spheroid quality inhering in a bearer by virtue of the bearer's being oval with two axes of symmetry, as produced by a conical section." [PATOC:GVG] subset: cell_quality ! cell_quality subset: value_slim ! Value slim synonym: "ellipse-shaped" EXACT [] synonym: "ellipsoid" EXACT [] synonym: "elliptical" EXACT [] synonym: "oval" RELATED [] synonym: "ovoid" RELATED [] is_a: PATO:0002318 ! superelliptic property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001018 name: physical quality namespace: quality alt_id: PATO:0002079 def: "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." [PATOC:GVG] subset: attribute_slim ! Attribute slim synonym: "relational physical quality" EXACT [] xref: Wikipedia:Physical_property is_a: PATO:0001241 ! physical object quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001241 name: physical object quality namespace: quality alt_id: PATO:0001237 alt_id: PATO:0001238 def: "A quality which inheres in a continuant." [PATOC:GVG] comment: Relational qualities are qualities that hold between multiple entities. Normal (monadic) qualities such as the shape of a eyeball exist purely as a quality of that eyeball. A relational quality such as sensitivity to light is a quality of that eyeball (and connecting nervous system) as it relates to incoming light waves/particles. synonym: "monadic quality of a continuant" EXACT [] synonym: "monadic quality of an object" NARROW [] synonym: "monadic quality of continuant" NARROW [] synonym: "multiply inhering quality of a physical entity " EXACT [] synonym: "quality of a continuant" EXACT [] synonym: "quality of a single physical entity" EXACT [] synonym: "quality of an object" EXACT [] synonym: "quality of continuant" EXACT [] xref: snap:Quality is_a: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001422 name: dead namespace: quality def: "A viability quality inhering in a bearer by virtue of the cessation of the bearer's life." [PATOC:GVG] subset: value_slim ! Value slim is_a: PATO:0000169 ! viability property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001546 name: quality of a solid namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's exhibiting the physical characteristics of an entity characterized by particles arranged such that their shape and volume are relatively stable." [Chemistry:http://chemistry.about.com/od/chemistryglossary/a/soliddefinition.htm] subset: attribute_slim ! Attribute slim synonym: "solidity" EXACT [] is_a: PATO:0002198 ! quality of a substance property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001736 name: solid configuration namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's parts having the arrangement which exhibits characteristics of solids." [PATOC:GVG] subset: value_slim ! Value slim synonym: "solid" EXACT [] is_a: PATO:0001546 ! quality of a solid property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001873 name: cylindrical namespace: quality alt_id: PATO:0001203 def: "A convex 3-D shape quality inhering in a bearer by virtue of the bearer's exhibiting a consistently-sized round cross section." [PATOC:MAH] subset: cell_quality ! cell_quality subset: value_slim ! Value slim synonym: "rod-like" EXACT [] synonym: "rod-shaped" EXACT [] synonym: "tubulate" EXACT [] is_a: PATO:0002007 ! convex 3-D shape relationship: has_cross_section PATO:0000411 ! circular property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001987 name: saccular namespace: quality def: "A structural quality inhering in a bearer by virtue of the bearer's having a three dimensional cavity with a narrow or no opening, and often containing an anatomical substance." [PATOC:MAH] subset: value_slim ! Value slim synonym: "sacular" EXACT [] is_a: PATO:0002014 ! structure, cavities property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001995 name: organismal quality namespace: quality def: "A quality that inheres in an entire organism or part of an organism." [PATOC:CJM] is_a: PATO:0001241 ! physical object quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002006 name: 2-D shape namespace: quality def: "A shape that inheres in a 2 dimensional entity, such as a cross section or projection of a 3 dimensional entity." [PATOC:CJM] subset: attribute_slim ! Attribute slim synonym: "2-D projection" RELATED [] synonym: "cross-sectional" RELATED [] is_a: PATO:0000052 ! shape property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002007 name: convex 3-D shape namespace: quality def: "A complete three dimensional shape in which for every line connecting pair of points on the object is within the object. Or: a shape lacking cavities. Contrast: concave." [PATOC:CJM] comment: Use this term or an is_a child of this term when the entire shape of the object is known. subset: attribute_slim ! Attribute slim xref: Image:http://upload.wikimedia.org/wikipedia/commons/0/06/Convex_polygon_illustration1.png is_a: PATO:0002266 ! 3-D shape relationship: has_cross_section PATO:0002006 ! 2-D shape property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002014 name: structure, cavities namespace: quality def: "A structural quality that inheres in a bearer by virtue of the bearer's containing hollow areas." [PATOC:GVG] subset: attribute_slim ! Attribute slim is_a: PATO:0000141 ! structure property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002078 name: hollow namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's having an empty space or cavity within." [url:http://www.merriam-webster.com/dictionary/hollow] subset: value_slim ! Value slim is_a: PATO:0002014 ! structure, cavities property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002198 name: quality of a substance namespace: quality def: "A quality inhering in a bearer by virtue of its constitution." [PATOC:GVG] subset: attribute_slim ! Attribute slim is_a: PATO:0001018 ! physical quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002266 name: 3-D shape namespace: quality def: "A shape that inheres in a 3 dimensional entity." [PATOC:OREGON] is_a: PATO:0000052 ! shape property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002318 name: superelliptic namespace: quality def: "A shape constituting a transition between a rectangle and a circle; a closed curve, of which the circle and ellipse are special cases, whose parametric equation is x = a.cos2/rt, y = b.cos2/rt" [wiktionary:superellipse] synonym: "LamC) curve" EXACT [] is_a: PATO:0002006 ! 2-D shape property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: decreased_in_magnitude_relative_to name: decreased_in_magnitude_relative_to namespace: quality def: "q1 decreased_in_magnitude_relative_to q2 if and only if magnitude(q1) < magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] is_transitive: true comment: This relation is used to determine the 'directionality' of relative qualities such as 'decreased strength', relative to the parent type, 'strength'. is_a: different_in_magnitude_relative_to ! different_in_magnitude_relative_to domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: different_in_magnitude_relative_to name: different_in_magnitude_relative_to namespace: quality def: "q1 different_in_magnitude_relative_to q2 if and only if magnitude(q1) NOT =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: directly_associated_with name: directly_associated_with namespace: quality def: "q1 directly_associated_with q2 iff q1 is dependent on q2, and the magnitude of q1 increases if the magnitude of q2 is increased, or the magnitude of q1 decreases if the magnitude of q2 is decreased. The relationship is not necessarily linear." [PATOC:cjm, Wikipedia:Association_(statistics)] comment: Example: 'Lewy bodies increased number related to dystrophic neurite increased number' (from annotation of PMID:8740227 in http://ccdb.ucsd.edu/1.0/NDPO.owl#ndpo_404). Here the increase in the number of lewy bodies is directly_associated_with the increase in the number of dystrophic neurites.nAssociation is weaker than correlation or proportionality. These relations may be later added to PATO. domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: has_cross_section name: has_cross_section namespace: quality def: "s3 has_cross_section s3 if and only if : there exists some 2d plane that intersects the bearer of s3, and the impression of s3 upon that plane has shape quality s2." [PATOC:CJM] comment: Example: a spherical object has the quality of being spherical, and the spherical quality has_cross_section round. property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: has_dividend_quality name: has_dividend_quality namespace: quality is_a: has_ratio_quality ! has_ratio_quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: has_divisor_quality name: has_divisor_quality namespace: quality is_a: has_ratio_quality ! has_ratio_quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: has_ratio_quality name: has_ratio_quality namespace: quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: increased_in_magnitude_relative_to name: increased_in_magnitude_relative_to namespace: quality def: "q1 increased_in_magnitude_relative_to q2 if and only if magnitude(q1) > magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] is_transitive: true comment: This relation is used to determine the 'directionality' of relative qualities such as 'increased strength', relative to the parent type, 'strength'. is_a: different_in_magnitude_relative_to ! different_in_magnitude_relative_to domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: inversely_associated_with name: inversely_associated_with namespace: quality def: "q1 inversely_associated_with q2 iff q1 is dependent on q2, and the magnitude of q1 decreases if the magnitude of q2 is increased, or the magnitude of q1 increases if the magnitude of q2 is decreased. The relationship is not necessarily linear." [PATOC:cjm, Wikipedia:Association_(statistics)] comment: Association is weaker than correlation or proportionality. These relations may be later added to PATO. domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: similar_in_magnitude_relative_to name: similar_in_magnitude_relative_to namespace: quality def: "q1 similar_in_magnitude_relative_to q2 if and only if magnitude(q1) =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [PATOC:CJM] domain: PATO:0000001 ! quality range: PATO:0000001 ! quality property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Typedef] id: towards name: towards namespace: quality comment: Relation binding a relational quality or disposition to the relevant type of entity. property_value: IAO:0000412 http://purl.obolibrary.org/obo/pato.owl [Term] id: UBERON:0000000 name: processual entity namespace: uberon def: "An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity." [span:ProcessualEntity] subset: upper_level ! abstract upper-level terms not directly useful for analysis disjoint_from: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000002 name: uterine cervix namespace: uberon def: "Lower, narrow portion of the uterus where it joins with the top end of the vagina." [Wikipedia:Cervix] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "canalis cervicis uteri" EXACT LATIN [FMA:17740, FMA:TA] synonym: "caudal segment of uterus" EXACT [] synonym: "cervical canal" EXACT [FMA:17740] synonym: "cervical canal of uterus" EXACT [FMA:17740] synonym: "cervix" BROAD [EFO:0000979] synonym: "cervix uteri" EXACT LATIN [EMAPA:29927] synonym: "neck of uterus" EXACT [FMA:17740] synonym: "uterine cervix" EXACT [FMA:17740] xref: BTO:0001421 xref: BTO:0002249 xref: EFO:0000979 xref: EMAPA:29927 xref: EV:0100114 xref: FMA:17740 xref: GAID:376 xref: MA:0000392 xref: MAT:0000292 xref: MESH:A05.360.319.679.256 xref: OpenCyc:Mx4rvVipEJwpEbGdrcN5Y29ycA xref: SCTID:245494008 xref: UMLS:C0007874 xref: VHOG:0001359 xref: galen:CervixUteri xref: ncithesaurus:Cervix is_a: UBERON:0001560 ! neck of organ is_a: UBERON:0005156 ! reproductive structure relationship: continuous_with UBERON:0000996 ! vagina relationship: part_of UBERON:0000995 ! uterus property_value: external_definition "The narrow caudal end of the uterus that opens into the vagina. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "cervical" xsd:string property_value: homology_notes "The evolution of mammals is associated with radical changes in their reproductive biology, particularly the structure and function of the female reproductive organs. These changes include the evolution of the uterus, cervix, vagina, placenta and specialized cell types associated with each of those structures.[well established][VHOG]" xsd:string [Term] id: UBERON:0000003 name: naris namespace: uberon def: "Orifice of the olfactory system. The naris is the route by which odorants enter the olfactory system[MAH]." [UBERON:MAH] comment: consistency notes: we have classified this as an orifice, according to FMA. Note that in FMA, orifices are immaterial entities, but in ZFA this is a surface structure. Taxon notes: in actinopterygians, both pairs of nares are external. In tetrapods, the exhalant empties into the buccal cavity subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_ontology_conflict ! Terms in this subset group together terms from different anatomy ontologies that have conflicting upper ontology/CARO assignments. For example, in FMA the naris is immaterial and in ZFA it is an organism subdivision. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0000311 xref: EHDAA2:0001225 xref: EHDAA:9083 xref: EMAPA:17847 xref: MA:0000282 xref: SCTID:272650008 xref: VHOG:0000663 xref: galen:Naris is_a: UBERON:0000161 ! orifice relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0000161 ! orifice intersection_of: part_of UBERON:0005725 ! olfactory system property_value: external_definition "One of paired external openings of the nasal chamber.[AAO]" xsd:string property_value: homology_notes "Naris refer to the external and interior naris (choana) of tetrapods, and to anterior and posterior naris of zebrafish. It seems now accepted that the structure is homologous: The choana, a unique 'internal nostril' opening from the nasal sac into the roof of the mouth, is a key part of the tetrapod (land vertebrate) respiratory system. It was the first component of the tetrapod body plan to evolve, well before the origin of limbs, and is therefore crucial to our understanding of the beginning of the fish-tetrapod transition. (...) Here we present new material of Kenichthys, a 395-million-year-old fossil fish from China, that provides direct evidence for the origin of the choana and establishes its homology: it is indeed a displaced posterior external nostril that, during a brief transitional stage illustrated by Kenichthys, separated the maxilla from the premaxilla.[well established][VHOG]" xsd:string [Term] id: UBERON:0000004 name: olfactory apparatus namespace: uberon def: "a protuberance in vertebrates that houses the nostrils, or nares, which admit and expel air for respiration in conjunction with the mouth. Behind the nose are the olfactory mucosa and the sinuses. Behind the nasal cavity, air next passes through the pharynx, shared with the digestive system, and then into the rest of the respiratory system. In humans, the nose is located centrally on the face; on most other mammals, it is on the upper tip of the snout[WP]. GO: The nose is the specialized structure of the face that serves as the organ of the sense of smell and as part of the respiratory system. Includes the nasi externus (external nose) and cavitas nasi (nasal cavity)." [Wikipedia:Nose] comment: TODO - distinguish generic olfactory apparatus from nose; we have olfactory organ for the generic organ - add new class 'olfactory structure'? subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Nasus" RELATED LATIN [Wikipedia:Nose] synonym: "nasal sac" EXACT SENSU [ZFA:0000047] synonym: "nose" EXACT [] synonym: "peripheral olfactory organ" EXACT [] synonym: "proboscis" RELATED [] xref: BTO:0000840 xref: EFO:0000828 xref: EHDAA2:0001274 xref: EHDAA:1502 xref: EMAPA:16542 xref: EV:0100037 xref: EV:0100370 xref: FMA:46472 xref: GAID:77 xref: MA:0000281 xref: MAT:0000139 xref: MESH:A01.456.505.733 xref: MIAA:0000139 xref: OpenCyc:Mx4rvViCbJwpEbGdrcN5Y29ycA xref: SCTID:181195007 xref: TAO:0000047 xref: UMLS:C0028429 xref: ZFA:0000047 xref: galen:Nose xref: http://upload.wikimedia.org/wikipedia/commons/d/d0/Canine-nose.jpg xref: ncithesaurus:Nose is_a: UBERON:0002268 ! olfactory organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0003050 ! olfactory placode relationship: has_function_in GO:0007608 ! sensory perception of smell relationship: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0004089 ! midface [Term] id: UBERON:0000005 name: chemosensory organ namespace: uberon subset: functional_classification ! functional_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chemosensory sensory organ" EXACT [FBbt:00005157] xref: FBbt:00005157 is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0005726 ! chemosensory system intersection_of: UBERON:0000020 ! sense organ intersection_of: capable_of GO:0007606 ! sensory perception of chemical stimulus [Term] id: UBERON:0000006 name: islet of Langerhans namespace: uberon def: "Regions of the pancreas that contain its endocrine (i.e., hormone-producing) cells." [Wikipedia:Islets_of_Langerhans] comment: A primitive exocrine pancreas can be found in holocephalan cartilaginous fish; a pancreatic duct directly ending in the gut lumen is connected to a glandular structure made of exocrine cells and associated with cell islets, which comprises three different hormone-producing cell types: insulin, somatostatin and glucagon (Yui and Fujita, 1986)[PMID:16417468] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "island of Langerhans" RELATED [BTO:0000991] synonym: "island of pancreas" RELATED [BTO:0000991] synonym: "islets of langerhans" RELATED [] synonym: "pancreatic insula" EXACT [] synonym: "pancreatic islet" EXACT [] xref: AAO:0010406 xref: BTO:0000991 xref: EFO:0000856 xref: EMAPA:19246 xref: EMAPA:19247 xref: EMAPA:19248 xref: EV:0100130 xref: FMA:16016 xref: GAID:324 xref: MA:0000127 xref: MAT:0000076 xref: MESH:A03.734.414 xref: MIAA:0000076 xref: UMLS:C0022131 xref: VHOG:0000646 xref: XAO:0000159 xref: http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png xref: ncithesaurus:Islet_of_Langerhans is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part CL:0000168 ! insulin secreting cell relationship: has_part CL:0000172 ! somatostatin secreting cell relationship: has_part CL:0002067 ! type A enterocrine cell relationship: part_of UBERON:0000016 ! endocrine pancreas property_value: external_definition "Anatomical structure which consists of glands developed from pancreatic ducts in the larvae and secrete insulin.[AAO]" xsd:string property_value: homology_notes "Mammals, birds, reptiles and amphibians have a pancreas with similar histology and mode of development, while in some fish, the islet cells are segregated as Brockmann bodies.[well established][VHOG]" xsd:string [Term] id: UBERON:0000007 name: pituitary gland namespace: uberon def: "The pituitary gland is an endocrine gland that secretes hormones that regulate many other glands [GO]. An endocrine gland located ventral to the diencephalon and derived from mixed neuroectodermal and non neuroectodermal origin [ZFIN]." [Wikipedia:Pituitary_gland, ZFIN:curator] comment: Taxon notes: The lamprey possesses a distinct pituitary organ and hormones, the ascidian does not show distinct evidence of them [Sower S, Freamat M, Kavanaugh S. The origins of the vertebrate hypothalamicbpituitarybgonadal (HPG) and hypothalamicbpituitarybthyroid (HPT) endocrine systems: new insights from lampreys. Gen Comp Endocrinol 2009;161:20-9] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "glandula pituitaria" RELATED [BTO:0001073] synonym: "hypophysis" RELATED [ZFA:0000118] synonym: "hypophysis cerebri" RELATED [MA:0000176] synonym: "hypophysis, glandula pituitaria" RELATED LATIN [Wikipedia:Pituitary_gland] synonym: "pituitary" EXACT [BTO:0001073] synonym: "pituitary body" EXACT [BTO:0001073] xref: AAO:0010536 xref: BM:Die-Hy-HY xref: BTO:0001073 xref: EFO:0000857 xref: EHDAA2:0001471 xref: EHDAA:2183 xref: EHDAA:4477 xref: EMAPA:16647 xref: EMAPA:16898 xref: EV:0100132 xref: FMA:13889 xref: GAID:457 xref: MA:0000176 xref: MAT:0000077 xref: MESH:A06.407.747 xref: MIAA:0000077 xref: NIF_GrossAnatomy:birnlex_1353 xref: OpenCyc:Mx4rv6NQYJwpEbGdrcN5Y29ycA xref: SCTID:181125003 xref: TAO:0000118 xref: UMLS:C0032005 xref: VHOG:0000143 xref: XAO:0000017 xref: ZFA:0000118 xref: http://upload.wikimedia.org/wikipedia/commons/9/97/Gray1180.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray1180.png/200px-Gray1180.png xref: ncithesaurus:Pituitary_Gland is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0003296 ! gland of diencephalon is_a: UBERON:0010133 ! neuroendocrine gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0000924 ! ectoderm relationship: has_function_in GO:0007276 ! gamete generation relationship: has_part CL:0000440 ! melanocyte stimulating hormone secreting cell relationship: has_part CL:0000642 ! folliculostellate cell relationship: has_part UBERON:0002196 ! adenohypophysis relationship: has_part UBERON:0002198 ! neurohypophysis relationship: part_of UBERON:0001894 ! diencephalon property_value: external_definition "An endocrine gland derived from infundibulum of the floor of the diencephalon and an ectodermal dorsal protrusion from the buccal cavity which controls the secretion of many hormones influencing the function of various organs of the body.[AAO]" xsd:string property_value: external_definition "An endocrine gland located ventral to the diencephalon and derived from mixed neuroectodermal and non neuroectodermal origin.[TAO]" xsd:string property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000009 name: submucosa namespace: uberon def: "A layer of dense irregular connective tissue in the gastrointestinal tract that supports the mucosa, as well as joins the mucosa to the bulk of underlying smooth muscle (fibers running circularly within layer of longitudinal muscle). [WP,unvetted]." [Wikipedia:Submucosa] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "organ submucosa" EXACT [FMA:85391] synonym: "region of submucosa" EXACT [FMA:85392] synonym: "submucosa of organ" EXACT [FMA:85391] synonym: "submucosa of region of organ" EXACT [FMA:85392] synonym: "submucous layer" RELATED [BTO:0002107] synonym: "tela submucosa" RELATED [BTO:0002107] synonym: "tunica submucosa" RELATED [] xref: BTO:0002107 xref: FMA:85391 xref: FMA:85392 xref: SCTID:68439008 xref: UMLS:C0225344 xref: http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xref: http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xref: ncithesaurus:Submucosa is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0011822 ! dense irregular connective tissue property_value: has_relational_adjective "submucosal" xsd:string [Term] id: UBERON:0000010 name: peripheral nervous system namespace: uberon def: "Nervous structures including ganglia outside of the central nervous system. Divided into somatic nervous system and autonomic nervous system" [FB:gg, OMD:peripheral+nervous+system, Wikipedia:Peripheral_nervous_system, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "PNS" RELATED [] synonym: "pars peripherica; systema nervosum periphericum" RELATED LATIN [Wikipedia:Peripheral_nervous_system] xref: AAO:0000429 xref: BILA:0000081 xref: BTO:0001028 xref: EFO:0000891 xref: EHDAA2:0001445 xref: EHDAA:2893 xref: EMAPA:16665 xref: EMAPA:18370 xref: EV:0100335 xref: FBbt:00005098 xref: FMA:9903 xref: GAID:715 xref: MA:0000218 xref: MAT:0000338 xref: MESH:A08.800 xref: MIAA:0000338 xref: NIF_GrossAnatomy:birnlex_1111 xref: SCTID:362292005 xref: TAO:0000142 xref: UMLS:C0206417 xref: VHOG:0000399 xref: XAO:0000178 xref: ZFA:0000142 xref: http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/ba/Nervous_system_diagram.png/200px-Nervous_system_diagram.png xref: ncithesaurus:Peripheral_Nervous_System is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0001016 ! nervous system property_value: spatially_disjoint_from UBERON:0001017 property_value: external_definition "Nervous structures including ganglia outside of the central nervous system. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Part of nervous system in which nerves extend throughout the body outside of the brain and spinal cord.[AAO]" xsd:string property_value: homology_notes " (...) specific vertebrate traits within the chordate phylum such as skeletal tissues, PNS, and spectacular head and brain development, are linked to the NC (neural crest) and its derivatives.[well established][VHOG]" xsd:string [Term] id: UBERON:0000011 name: parasympathetic nervous system namespace: uberon def: "The parasympathetic nervous system (PSNS) is a division of the autonomic nervous system (ANS), along with the sympathetic nervous system (SNS) and enteric nervous system (ENS). The ANS is a subdivision of the peripheral nervous system (PNS). ANS sends fibers to three tissues: cardiac muscle, smooth muscle, or glandular tissue. This stimulation, sympathetic or parasympathetic, is to control smooth muscle contraction, regulate cardiac muscle, or stimulate or inhibit glandular secretion [Wikipedia]. The parasympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system. Parasympathetic nerves emerge cranially as pre ganglionic fibers from oculomotor, facial, glossopharyngeal and vagus and from the sacral region of the spinal cord. Most neurons are cholinergic and responses are mediated by muscarinic receptors. The parasympathetic system innervates, for example: salivary glands, thoracic and abdominal viscera, bladder and genitalia [GO]." [Wikipedia:Parasympathetic_nervous_system] comment: Development notes: has developmental contribution from NC in verteberates (UBERONREF:0000002) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "PNS - parasympathetic" EXACT [] synonym: "parasympathetic part of autonomic division of nervous system" EXACT [] synonym: "pars parasympathica divisionis autonomici systematis nervosi" EXACT LATIN [FMA:9907, FMA:TA, Wikipedia:Parasympathetic_nervous_system] xref: AAO:0010488 xref: BTO:0001833 xref: EFO:0000894 xref: EHDA:10096 xref: EHDAA2:0001402 xref: EHDAA:4655 xref: EMAPA:17270 xref: FMA:9907 xref: GAID:708 xref: MA:0000223 xref: MAT:0000101 xref: MESH:A08.800.050.600 xref: MIAA:0000101 xref: NIF_GrossAnatomy:birnlex_2517 xref: SCTID:362496006 xref: TAO:0001575 xref: UMLS:C0030510 xref: VHOG:0000755 xref: ZFA:0001575 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f7/Gray839.png/200px-Gray839.png xref: ncithesaurus:Parasympathetic_Nervous_System is_a: UBERON:0002410 ! autonomic nervous system relationship: part_of UBERON:0002410 ! autonomic nervous system property_value: external_definition "Part of the autonomic nervous system which has opposing physiological effects of the sympathetic nervous system. Examples include decreasing the heart rate or dilating the blood vessels.[AAO]" xsd:string property_value: homology_notes "In mammals, the autonomic nervous system is divided into two contrasting, antagonistic systems of control over visceral activity: the sympathetic system and the parasympathetic system (reference 1); In general, the teleosts may be considered phylogenetically the first class of vertebrates in which the heart is regulated by both sympathetic and parasympathetic neural pathways (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0000012 name: somatic nervous system namespace: uberon def: "The part of the peripheral nervous system consisting of efferent nerves responsible for stimulating muscle contraction, including all the neurons connected with skeletal muscles, skin, and sense organs[WP, modified]." [Wikipedia:Somatic_nervous_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "PNS - somatic" EXACT [] synonym: "somatic nervous system, somatic division" EXACT [NIF_GrossAnatomy:nlx_anat_100301] synonym: "somatic peripheral nervous system" EXACT [NIF_GrossAnatomy:nlx_anat_100301] xref: EFO:0000892 xref: EFO:0000898 xref: FMA:9904 xref: MA:0002850 xref: MAT:0000099 xref: MAT:0000342 xref: MIAA:0000099 xref: MIAA:0000342 xref: NIF_GrossAnatomy:nlx_anat_100301 xref: WBbt:0005760 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0000010 ! peripheral nervous system [Term] id: UBERON:0000013 name: sympathetic nervous system namespace: uberon def: "The Sympathetic Nervous System (SNS) is a branch of the autonomic nervous system along with the enteric nervous system and parasympathetic nervous system. It is always active at a basal level (called sympathetic tone) and becomes more active during times of stress. Its actions during the stress response comprise the fight-or-flight response [Wikipedia]. The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter [GO]." [Wikipedia:Sympathetic_nervous_system] comment: Development notes: has developmental contribution from NC in verteberates (UBERONREF:0000002) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "pars sympathica divisionis autonomici systematis nervosi" EXACT LATIN [FMA:9906, FMA:TA, Wikipedia:Sympathetic_nervous_system] synonym: "sympathetic nervous system" EXACT [] synonym: "sympathetic part of autonomic division of nervous system" EXACT [] xref: AAO:0010487 xref: BTO:0001832 xref: EFO:0000893 xref: EHDAA2:0001971 xref: EHDAA:3769 xref: EMAPA:16985 xref: FMA:9906 xref: GAID:710 xref: MA:0000225 xref: MESH:A08.800.050.800 xref: MIAA:0000100 xref: NIF_GrossAnatomy:birnlex_2516 xref: SCTID:362484004 xref: TAO:0001576 xref: UMLS:C0039044 xref: VHOG:0000384 xref: ZFA:0001576 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray838.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Gray838.png/200px-Gray838.png xref: ncithesaurus:Sympathetic_Nervous_System is_a: UBERON:0002410 ! autonomic nervous system relationship: part_of UBERON:0002410 ! autonomic nervous system property_value: external_definition "Part of the autonomic nervous system which has opposing physiological effects of the parasympathetic nervous system. Examples include increasing the heart rate or constricting the blood vessels.[AAO]" xsd:string property_value: external_definition "The part of the autonomic nervous system which chiefly contains adrenergic fibres and tends to control and reduce secretions, decrease the contractility and hence the tone of smooth muscles and provoke the contraction of blood vessels. Essentially, it consists of preganglionic fibres from the thoracic and upper lumbar parts of the spinal cord. These fibres, by means of delicate rami communicantes, cross over to ganglia sited in a pair of ganglionated cords on each side of the vertebral column or to more peripheral ganglia. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The autonomic nervous system is composed of three divisions: the sympathetic division, the parasympathetic division, and the enteric division. (...) In ray-finned teleost fishes, a sympathetic chain is present, and dual innervation of additional organs can be observed. A similar pattern can be found in amphibians (...). The evolution of the autonomic nervous system has been quite conservative, especially in the tetrapod lineage.[well established][VHOG]" xsd:string [Term] id: UBERON:0000014 name: zone of skin namespace: uberon def: "A sub-region of the skin. Note the distinct between the entire skin of the body, of which there is only 1 in an organism, and zones of skin, of which there can be many. Examples: skin of knee" [GOC:cjm, Wikipedia:Skin] comment: we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive synonym: "portion of skin" EXACT [] synonym: "region of skin" EXACT [] synonym: "skin" EXACT [MA:0000151] synonym: "skin region" EXACT [] synonym: "skin zone" EXACT [] xref: EHDAA2:0001844 xref: EHDAA:6530 xref: EV:0100152 xref: FMA:86166 xref: GAID:933 xref: MA:0000151 xref: MAT:0000284 xref: MESH:A17.815 xref: MIAA:0000284 xref: OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA xref: SCTID:20795001 xref: VHOG:0000860 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/HumanSkinDiagram.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6d/Skin.svg/200px-Skin.svg.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002097 ! skin of body property_value: homology_notes " (...) it is well-established that neural crest cells contribute to both the dermal skeleton (craniofacial bone, teeth, and the caudal fin rays of teleosts) and the integument, including craniofacial dermis and all pigment cells outside the retina (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000015 name: anatomical boundary namespace: uberon def: "Structural anatomical relation which holds between each anatomical entity of one to three dimensions and some immaterial anatomical entity of one lower dimension such that the latter demarcates (delimits) the former from its neighborhood." [FMA:256502] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "anatomical boundary entity" EXACT [FMA:50705] xref: AEO:0000192 xref: FMA:50705 is_a: UBERON:0000466 ! immaterial anatomical entity [Term] id: UBERON:0000016 name: endocrine pancreas namespace: uberon def: "The endocrine pancreas is made up of islet cells that produce insulin, glucagon and somatostatin[GO]." [GOC:GO, Wikipedia:Islets_of_Langerhans] comment: Editor notes - endocrine and exocrine pancrease are not co-associated in hagfishes or lampreys [PMID:20959416] - create a separate class for these? subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "endocrine pancreas" EXACT [] synonym: "endocrine part of pancreas" RELATED [BTO:0000650] synonym: "islets of Langerhans part of pancreas" RELATED [] synonym: "pars endocrina pancreatis" EXACT [] xref: BTO:0000650 xref: EV:0100129 xref: FMA:16018 xref: MA:0001582 xref: SCTID:361339003 xref: TAO:0001260 xref: VHOG:0000049 xref: ZFA:0001260 xref: ncithesaurus:Endocrine_Pancreas is_a: UBERON:0002075 ! viscus is_a: UBERON:0004119 ! endoderm-derived structure relationship: capable_of GO:0030073 ! insulin secretion relationship: capable_of GO:0070091 ! glucagon secretion relationship: capable_of GO:0070253 ! somatostatin secretion relationship: develops_from UBERON:0003923 ! dorsal pancreatic bud relationship: part_of UBERON:0001264 ! pancreas property_value: external_definition "The part of the pancreas that acts as an endocrine gland, consisting of the islets of Langerhans, which secrete insulin and other hormones. [TFD][VHOG]" xsd:string property_value: external_definition "The zebrafish endocrine pancreas is composed of small groups of islet cells that are distributed throughout the exocrine pancreas. The islet cells produce insulin, glucagon and somatostatin.[TAO]" xsd:string property_value: homology_notes "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" xsd:string [Term] id: UBERON:0000017 name: exocrine pancreas namespace: uberon def: "The exocrine pancreas produces and store zymogens of digestive enzymes, such as chymotrypsinogen and trypsinogen in the acinar cells [GO]. The exocrine pancreas is composed of acinar epithelial cells and ductal epithelium that manufacture the proteolytic enzymes and bicarbonate required for digestion." [GOC:GO, Wikipedia:Exocrine_component_of_pancreas] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "exocrine pancreas" EXACT [] synonym: "exocrine part of pancreas" RELATED [BTO:0000434] synonym: "pars exocrina pancreatis" EXACT [] xref: AAO:0010407 xref: BTO:0000434 xref: EV:0100093 xref: FMA:16017 xref: MA:0002415 xref: SCTID:248202004 xref: TAO:0001249 xref: UMLS:C0553695 xref: VHOG:0000048 xref: XAO:0000137 xref: ZFA:0001249 xref: ncithesaurus:Exocrine_Pancreas is_a: UBERON:0002075 ! viscus is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0003924 ! ventral pancreatic bud relationship: has_function_in GO:0007586 ! digestion relationship: part_of UBERON:0001264 ! pancreas relationship: part_of UBERON:0002330 ! exocrine system property_value: external_definition "The exocrine pancreas is composed of acinar epithelial cells and ductal epithelium that manufacture the proteolytic enzymes and bicarbonate required for digestion.[TAO]" xsd:string property_value: external_definition "The part of the pancreas that acts as an exocrine gland, consisting of the pancreatic acini, which produce pancreatic juice and secrete it into the intestine to aid in protein digestion. [TFD][VHOG]" xsd:string property_value: homology_notes "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" xsd:string [Term] id: UBERON:0000018 name: compound eye namespace: uberon def: "A light sensing organ composed of ommatidia" [FB:gg, Wikipedia:Compound_eye] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Facettenauge" RELATED [BTO:0001921] synonym: "Komplexauge" RELATED [BTO:0001921] synonym: "adult compound eye" RELATED [] synonym: "insect eye" RELATED [] synonym: "zusammengesetztes Auge" RELATED [BTO:0001921] xref: BTO:0001921 xref: FBbt:00004508 xref: HAO:0000217 xref: TGMA:0000024 is_a: UBERON:0000970 ! eye relationship: has_part UBERON:0000971 ! ommatidium [Term] id: UBERON:0000019 name: camera-type eye namespace: uberon def: "The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field[GO]. The eye contains the following parts (when they are present in the organism): the eyeball (eye proper), the lacrimal apparatus, the conjuctival, the eyelid." [GO:0043010, UBERON:cjm] comment: AO notes: FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ). MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class 'orbital content' for this subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "camera-type eye plus associated structures" RELATED [] synonym: "eye" BROAD [FMA:54448] synonym: "eyes" RELATED PLURAL [TAO:0000107] synonym: "orbital part of face" EXACT [FMA:54448] synonym: "orbital region" RELATED [FMA:54448] synonym: "regio orbitalis" EXACT LATIN [FMA:54448, FMA:TA] synonym: "vertebrate eye" NARROW [] xref: AAO:0010340 xref: BTO:0004688 xref: EHDAA2:0000484 xref: EHDAA:936 xref: EMAPA:16198 xref: FMA:54448 xref: MA:0000261 xref: NIF_GrossAnatomy:birnlex_1169 xref: OpenCyc:Mx8Ngx4rwKSh9pwpEbGdrcN5Y29ycB4rvVil5pwpEbGdrcN5Y29ycB4rvViTvpwpEbGdrcN5Y29ycA xref: SCTID:181143004 xref: TAO:0000107 xref: UMLS:C0015392 xref: VHOG:0000275 xref: XAO:0000179 xref: ZFA:0000107 xref: ncithesaurus:Eye is_a: UBERON:0000047 ! simple eye is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003072 ! optic cup relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: in_lateral_side_of UBERON:0000033 ! head relationship: part_of UBERON:0004088 ! ocular region property_value: external_definition "A cavitated compound organ that transduces light waves into neural signals.[TAO]" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0000020 name: sense organ namespace: uberon def: "An organ that is capable of detection of chemical stimulus involved in sensory perception of smell." [UBERON:cjm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Sinnesorgan" RELATED [BTO:0000202] synonym: "organ of sense organ system" EXACT [OBOL:accepted] synonym: "organ of sensory organ system" EXACT [OBOL:accepted] synonym: "organ of sensory system" EXACT [OBOL:accepted] synonym: "sense organ system organ" EXACT [OBOL:automatic] synonym: "sensillum" NARROW [WBbt:0006929] synonym: "sensor" RELATED [] synonym: "sensory organ" EXACT [] synonym: "sensory organ system organ" EXACT [OBOL:automatic] synonym: "sensory system organ" EXACT [OBOL:accepted] xref: AEO:0000094 xref: BTO:0000202 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:16192 xref: FBbt:00005155 xref: GAID:63 xref: HAO:0000930 xref: MA:0000017 xref: MESH:A09 xref: SCTID:244485009 xref: UMLS:C0935626 xref: VHOG:0001407 xref: WBbt:0006929 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Gray722.png/200px-Gray722.png xref: ncithesaurus:Organ_of_the_Special_Sense relationship: part_of UBERON:0001032 ! sensory system intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0050911 ! detection of chemical stimulus involved in sensory perception of smell [Term] id: UBERON:0000021 name: cutaneous appendage namespace: uberon def: "Appendage that protrudes from the skin." [UBERON:cjm] comment: Examples: hair, nail (FMA); feather, claw, hoof, horn, wattle, spur, beak, scale(?), antler, bristle. Editors note: Mammary glands develop by similar mechanisms, and there is an argument for including them here (e.g. PMID:20484386), but these structures do not fit the current definition (lactiferous glands are part of the integumentary system in FMA). Note the FMA class is a subdivision of epidermis, which may be too restrictive for our purposes here. TODO: revise after definition of appendage is finalized in CARO2; in addition, verify subtypes w.r.t definition - e.g. beaks may overlap with skin of body rather than being part of it - rhamphotheca may be more appropriate subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "epidermal appendage" NARROW [] synonym: "epidermal growth" RELATED [] synonym: "skin appendage" EXACT [FMA:71012] xref: FMA:71012 xref: SCTID:276160000 is_a: UBERON:0000026 ! appendage relationship: attaches_to UBERON:0002097 ! skin of body relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0000022 name: feather namespace: uberon def: "one of the epidermal growths that form the distinctive outer covering, or plumage, on birds. Feathers are formed in tiny follicles in the epidermis, or outer skin layer, that produce keratin proteins. The N2-keratins in feathers, beaks and claws b and the claws, scales and shells of reptiles b are composed of protein strands hydrogen-bonded into N2-pleated sheets, which are then further twisted and crosslinked by disulfide bridges into structures even tougher than the N1-keratins of mammalian hair, horns and hoof. The exact signals that induce the growth of feathers on the skin are not known but it has been found that the transcription factor cDermo-1 induces the growth of feathers on skin and scales on the leg." [Wikipedia:Feather] comment: Taxon notes: They are among the characteristics that distinguish the extant Aves from other living groups. Feathers have also been noticed in those Theropoda which have been termed feathered dinosaurs. Although feathers cover most parts of the body of birds, they arise only from certain well-defined tracts on the skin. They aid in flight, thermal insulation, waterproofing and coloration that helps in communication and protection. Structure notes: The N2-keratins in feathers, beaks and claws b and the claws, scales and shells of reptiles b are composed of protein strands hydrogen-bonded into N2-pleated sheets, which are then further twisted and crosslinked by disulfide bridges into structures even tougher than the N1-keratins of mammalian hair, horns and hoof. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0000447 xref: EFO:0000955 xref: GAID:1214 xref: MAT:0000156 xref: MESH:A13.370 xref: OpenCyc:Mx4rvVjW-5wpEbGdrcN5Y29ycA xref: SCTID:410027006 xref: http://upload.wikimedia.org/wikipedia/commons/4/41/Parts_of_feather_modified.jpg is_a: UBERON:0000021 ! cutaneous appendage is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0001003 ! epidermis property_value: seeAlso http://xkcd.com/1104/ [Term] id: UBERON:0000023 name: wing namespace: uberon def: "Appendage that is used to produce lift for flight through the air." [Wikipedia:Wing] comment: This class is not monophyletic. See also: GO:0007629 subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001463 xref: EFO:0000885 xref: GAID:1217 xref: MAT:0000202 xref: MESH:A13.395.823 xref: MIAA:0000202 is_a: UBERON:0000026 ! appendage relationship: has_function_in GO:0060361 ! flight property_value: has_relational_adjective "alar" xsd:string [Term] id: UBERON:0000024 name: forelimb wing namespace: uberon def: "Forelimb that is used to produce lift for flight through the air." [] comment: Examples: bat wing, bird wing synonym: "wing wing" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] is_a: UBERON:0000023 ! wing is_a: UBERON:0002102 ! forelimb relationship: homologous_to UBERON:0002102 ! forelimb [Term] id: UBERON:0000025 name: tube namespace: uberon synonym: "epithelial or endothelial lined tube" RELATED [] xref: galen:Tube is_a: UBERON:0004111 ! anatomical conduit relationship: has_quality PATO:0001873 ! cylindrical intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: has_quality PATO:0001873 ! cylindrical property_value: has_relational_adjective "tubular" xsd:string [Term] id: UBERON:0000026 name: appendage namespace: uberon def: "Major subdivision of an organism that protrudes from the body[DOS]. Organ or organ part that is attached to the body of an organism. For example a limb[GO, modified]. An appendage is an external body part, or natural prolongation, that protrudes from an organism's body, such as a vertebrate's limbs[BILA]." [BILA:0000018, GO:0048736, Wikipedia:Appendage] comment: GO includes tree trunks, but excludes antennae. We modify trunk to body in our definition. Note this is currently a subtype of organism subdivision - which would exclude feathers subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Extremitaet" RELATED [BTO:0001492] synonym: "extremity" RELATED [] synonym: "limbs/digits/tail" RELATED [MP:0000001] xref: AEO:0000193 xref: BILA:0000018 xref: BTO:0001492 xref: CARO:0010003 xref: EFO:0000799 xref: EHDAA2:0003193 xref: EV:0100155 xref: FBbt:00007000 xref: HAO:0000144 xref: MAT:0000023 xref: MESH:A01.378 xref: MIAA:0000023 xref: OpenCyc:Mx4rvViC-JwpEbGdrcN5Y29ycA xref: UMLS:C0598782 xref: VSAO:0000075 xref: XAO:0000218 xref: ncithesaurus:Appendage is_a: UBERON:0000475 ! organism subdivision property_value: has_relational_adjective "appendicular" xsd:string [Term] id: UBERON:0000029 name: lymph node namespace: uberon def: "Oval or bean shaped bodies (1 - 30 mm in diameter) located along the lymphatic system. Lymph nodes are garrisons of B, T, and other immune cells. Lymph nodes are found all through the body, and act as filters or traps for foreign particles. They contain white blood cells that use oxygen to process. Thus they are important in the proper functioning of the immune system. The lymph node is surrounded by a fibrous capsule, and inside the lymph node the fibrous capsule extends to form trabeculae. The substance of the lymph node is divided into the outer cortex and the inner medulla surrounded by the former all around except for at the hilum, where the medulla comes in direct contact with the surface. Thin reticular fibers, elastin and reticular fibers form a supporting meshwork called reticular network (RN) inside the node, within which the white blood cells (WBCs), most prominently, lymphocytes are tightly packed as follicles in the cortex. Elsewhere, there are only occasional WBCs. The RN provides not just the structural support, but also provide surface for adhesion of the dendritic cells, macrophages and lymphocytes. It allows for exchange of material with blood through the high endothelial venules and provides the growth and regulatory factors necessary for activation and maturation of immune cells[WP]." [GAID:947, Wikipedia:Lymph_node] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "lymph gland" RELATED [VHOG:0001273] synonym: "nodus lymphaticus" RELATED LATIN [Wikipedia:Lymph_node] xref: BTO:0000784 xref: EFO:0000872 xref: EV:0100050 xref: FMA:5034 xref: GAID:947 xref: MA:0000139 xref: MAT:0000442 xref: MESH:A15.382.520.604.412 xref: OpenCyc:Mx4rwLPqLpwpEbGdrcN5Y29ycA xref: SCTID:181756000 xref: TAO:0005318 xref: UMLS:C0024204 xref: VHOG:0001273 xref: ZFA:0005318 xref: galen:Lymphnode xref: http://upload.wikimedia.org/wikipedia/commons/b/b8/Illu_lymph_node_structure.png xref: ncithesaurus:Lymph_Node is_a: UBERON:0000064 ! organ part relationship: continuous_with UBERON:0001473 ! lymphatic vessel relationship: has_part UBERON:0002391 ! lymph relationship: part_of UBERON:0002465 ! lymphoid system property_value: dubious_for_taxon NCBITaxon:32443 property_value: never_in_taxon NCBITaxon:8570 property_value: homology_notes "Lymph nodes that are associated with the lymphatic system have evolved in mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0000030 name: lamina propria namespace: uberon def: "A thin layer of loose connective tissue which lies beneath the epithelium and together with the epithelium constitutes the mucosa[WP]. The lamina propria contains capillaries and a central lacteal (lymph vessel) in the small intestine, as well as lymphoid tissue. Lamina propria also contains glands with the ducts opening on to the mucosal epithelium, that secrete mucus and serous secretions." [Wikipedia:Lamina_propria] comment: Editor notes: need to implement rules such that \"lamina propria of X\" is classified as part of some \"mucosa of X\" subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lamina propria mucosa" EXACT [] synonym: "lamina propria mucosae" EXACT [] synonym: "tunica propria" RELATED [BTO:0002330] xref: BTO:0002330 xref: FMA:62517 xref: SCTID:298225002 xref: UMLS:C1179187 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/GI_Organization.svg/250px-GI_Organization.svg.png xref: ncithesaurus:Lamina_Propria is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0011825 ! loose connective tissue relationship: immediately_deep_to UBERON:0000483 ! epithelium relationship: part_of UBERON:0000344 ! mucosa [Term] id: UBERON:0000031 name: lamina propria of trachea namespace: uberon def: "A lamina propria that is part of a respiratory airway." [OBOL:automatic] synonym: "lamina propria mucosa of trachea" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of windpipe" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of trachea" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of windpipe" EXACT [OBOL:automatic] synonym: "lamina propria of windpipe" EXACT [OBOL:automatic] synonym: "trachea lamina propria" EXACT [] synonym: "trachea lamina propria mucosa" EXACT [OBOL:automatic] synonym: "trachea lamina propria mucosae" EXACT [OBOL:automatic] synonym: "tracheal lamina propria" EXACT [] synonym: "windpipe lamina propria" EXACT [OBOL:automatic] synonym: "windpipe lamina propria mucosa" EXACT [OBOL:automatic] synonym: "windpipe lamina propria mucosae" EXACT [OBOL:automatic] xref: MA:0001858 xref: UMLS:C1710457 xref: ncithesaurus:Trachea_Lamina_Propria is_a: UBERON:0004779 ! respiratory system lamina propria relationship: part_of UBERON:0000379 ! tracheal mucosa relationship: part_of UBERON:0001005 ! respiratory airway intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001005 ! respiratory airway [Term] id: UBERON:0000032 name: obsolete cranial structure namespace: uberon is_obsolete: true comment: obsoleted as it was a grouping class that served no purpose [Term] id: UBERON:0000033 name: head namespace: uberon def: "The head is the anterior-most division of the body [GO]." [GO:0060322, Wikipedia:Head] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adult head" NARROW [] synonym: "cephalic area" RELATED [SPD:0000016] synonym: "head (volume)" EXACT [FMA:7154] xref: AAO:0010335 xref: AEO:0000106 xref: BILA:0000115 xref: BTO:0000282 xref: EFO:0000964 xref: EHDAA2:0003106 xref: FBbt:00000004 xref: FMA:7154 xref: GAID:61 xref: HAO:0000397 xref: MA:0000023 xref: MAT:0000294 xref: MESH:A01.456 xref: MIAA:0000294 xref: NIF_GrossAnatomy:birnlex_1230 xref: OpenCyc:Mx4rEOLm4rgPEdmAAAACs6hRjg xref: OpenCyc:Mx4rvVi6YJwpEbGdrcN5Y29ycA xref: SCTID:302548004 xref: SPD:0000016 xref: TAO:0001114 xref: TGMA:0000002 xref: UMLS:C0018670 xref: VHOG:0001644 xref: WBbt:0005739 xref: XAO:0003024 xref: ZFA:0001114 xref: galen:Head xref: ncithesaurus:Head is_a: UBERON:0011676 ! axial subdivision of organism relationship: part_of UBERON:0000153 ! anterior region of body relationship: part_of UBERON:0007811 ! craniocervical region property_value: spatially_disjoint_from UBERON:0000948 property_value: spatially_disjoint_from UBERON:0002100 property_value: external_definition "Organism subdivision that is the part of the body consisting of the cranial and pharyngeal regions.[AAO]" xsd:string property_value: external_definition "Organism subdivision which is the part of the body which consists of the cranial and pharygeal regions.[TAO]" xsd:string property_value: homology_notes "Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]" xsd:string [Term] id: UBERON:0000035 name: primary ovarian follicle namespace: uberon synonym: "folliculus ovaricus primarius" EXACT [] synonym: "ovary primary follicle" EXACT [MA:0002907] synonym: "preantral follicle of ovary" EXACT [] synonym: "primary egg follicle" RELATED [] synonym: "primary follicle of ovary" EXACT [FMA:18634] xref: BTO:0000410 xref: EMAPA:19284 xref: FMA:18634 xref: MA:0002907 xref: SCTID:258665002 is_a: UBERON:0001305 ! ovarian follicle [Term] id: UBERON:0000036 name: secondary ovarian follicle namespace: uberon synonym: "antral follice" EXACT [GO:0001547] synonym: "antral follicle of ovary" EXACT [] synonym: "antral ovarian follice" EXACT [GO:0001547] synonym: "folliculus ovaricus secondarius" EXACT [] synonym: "ovary antral follicle" EXACT [MA:0002909] synonym: "ovary secondary follicle" EXACT [MA:0002908] synonym: "secondary egg follicle" RELATED [] synonym: "secondary follicle of ovary" EXACT [] xref: EMAPA:29862 xref: FMA:18637 xref: MA:0002908 xref: MA:0002909 is_a: UBERON:0001305 ! ovarian follicle relationship: develops_from UBERON:0000035 ! primary ovarian follicle [Term] id: UBERON:0000037 name: tertiary ovarian follicle namespace: uberon def: "Ovarian follicle is the basic unit of female reproductive biology and is composed of roughly spherical aggregations of cells found in the ovary. They contain a single oocyte (aka ovum or egg). These structures are periodically initiated to grow and develop, culminating in ovulation of usually a single competent oocyte. These eggs/ova are only developed once every menstrual cycle (i. e, once a month). [WP,unvetted]." [Wikipedia:Graafian_follicle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Graafian follicle" EXACT [] synonym: "folliculi ovarici vesiculosi" EXACT LATIN [FMA:18641, FMA:TA] synonym: "folliculus ovaricus tertiarius" EXACT [] synonym: "folliculus ovaricus tertiarius (vesiculosus)" EXACT [FMA:18641] synonym: "folliculus ovaricus tertiarius (vesiculous)" EXACT [] synonym: "tertiary egg follicle" RELATED [] synonym: "tertiary follicle of ovary" EXACT [FMA:18641] synonym: "vesicular follicle of ovary" EXACT [FMA:18641] synonym: "vesicular ovarian follicle" EXACT [FMA:18641] xref: EMAPA:30763 xref: FMA:18641 xref: SCTID:362261008 xref: UMLS:C0600225 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e6/Primary_follicle-4.JPG/200px-Primary_follicle-4.JPG xref: ncithesaurus:Graafian_Follicle is_a: UBERON:0001305 ! ovarian follicle relationship: develops_from UBERON:0000036 ! secondary ovarian follicle [Term] id: UBERON:0000038 name: follicular fluid namespace: uberon def: "The fluid surrounding the OVUM and GRANULOSA CELLS in the Graafian follicle ( OVARIAN FOLLICLE). The follicular fluid contains sex steroids, glycoprotein hormones, plasma proteins, mucopolysaccharides, and enzymes." [MESH:D015571, Wikipedia:Follicular_fluid] comment: Follicular fluid is a liquid which fills the follicular antrum and surrounds the ovum in an ovarian follicle. This fluid is rich in hyaluronic acid. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "antral fluid, ovarian follicle" RELATED [] synonym: "liquor follicularis" EXACT [FMA:18665] synonym: "liquor folliculi" EXACT LATIN [Wikipedia:Follicular_fluid] synonym: "ovarian follicular fluid" RELATED [BTO:0004383] synonym: "ovary follicle fluid" EXACT [MA:0002511] synonym: "ovary follicular fluid" RELATED [BTO:0004383] xref: BTO:0004383 xref: FMA:18665 xref: GAID:372 xref: MA:0002511 xref: MESH:A05.360.319.114.630.535.150 xref: UMLS:C1709369 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray3.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Gray3.png/200px-Gray3.png xref: ncithesaurus:Ovarian_Follicle_Fluid is_a: UBERON:0000463 ! portion of organism substance relationship: has_part CHEBI:17089 ! glycoprotein relationship: located_in UBERON:0000039 ! follicular antrum relationship: part_of UBERON:0001305 ! ovarian follicle relationship: surrounds CL:0000025 ! egg [Term] id: UBERON:0000039 name: follicular antrum namespace: uberon def: "Region of ovarian follicle filled with follicular fluid." [Wikipedia:Follicular_antrum, http://en.wikipedia.org/wiki/Follicular_antrum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "antral cavity" EXACT [FMA:18675] synonym: "antrum folliculare" EXACT [FMA:18675] synonym: "antrum follicularum" RELATED LATIN [Wikipedia:Follicular_antrum] xref: FMA:18675 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001305 ! ovarian follicle [Term] id: UBERON:0000040 name: Leydig's organ namespace: uberon def: "A hemopoietic organ found in elasmobranchs. Along with the spleen and special tissue around the gonads, this structure produces red blood cells and it is nestled along the top and bottom of the esophagus." [Wikipedia:Leydig's_organ, http://www.elasmo-research.org/education/topics/p_blood_cells.htm] comment: Taxon notes: Found in elasmobranchs (sharks and rays) but with some exceptions. Phenotype notes: Leydig's organ can be quite large - a 1.6-kilogram (3.5-pound) one was reported from a 1.8-metre (6-foot) long Bluntnose Sixgill Shark (Hexanchus griseus). Structure notes: divided into dorsal and ventral patches, gradation varies between species. Lacks erythroblasts and fat cells[Honma 1983] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms is_a: UBERON:0004177 ! hemopoietic organ is_a: UBERON:0005057 ! immune organ relationship: composed_primarily_of CL:0000738 ! leukocyte relationship: part_of UBERON:0002405 ! immune system property_value: never_in_taxon NCBITaxon:7863 [Term] id: UBERON:0000041 name: dermal denticle namespace: uberon def: "Multi-tissue structure composed of enameloid, dentine surrounding a pulp cavity, and bone of attachment anchoring the element into the dermis[VSAO]. small outgrowths which cover the skin of many cartilaginous fish including sharks. They are similar in structure to teeth, and teeth may have evolved from denticle-like structures in primitive fish.[citation needed] The placoid scales in sharks are formed of dentine with dermal papillae located in the core. These scales develop from the dermal layer of the skin, which is in contrast to the epidermal development seen the in the elasmoid scales of tetrapods. The shape of denticle varies from species to species and can be used in identification. Studies have found that the denticles create tiny vortices that reduce drag to make swimming more efficient. Denticles also allow sharks to swim silently compared to other fish that generate considerable noise when they ply the water[WP]." [VSAO:0000079, Wikipedia:Dermal_denticle] comment: TODO check dentin def // Scales and teeth of sharks are examples of dermal skeletal elements that are still composed of the three ancient components-enamel, dentine, and bone. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "odontode scale" EXACT [VSAO:0000079] synonym: "placoid scale" EXACT [] xref: VSAO:0000079 is_a: UBERON:0004756 ! dermal skeletal element relationship: has_part UBERON:0001751 ! dentine property_value: external_definition "Multi-tissue structure composed of enameloid, dentine surrounding a pulp cavity, and bone of attachment anchoring the element into the dermis.[VSAO]" xsd:string [Term] id: UBERON:0000042 name: serous membrane namespace: uberon def: "multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer." [Wikipedia:Serous_membrane, http://purl.obolibrary.org/obo/uberon/tracker/86] comment: in FMA, SM = mesothelium + connective tissue. It excludes the cavity. Serous sac = SM + cavity. Note that the SM is a subtype of wall in FMA. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "serosa" RELATED [Wikipedia:Serous_membrane] synonym: "tunica serosa" EXACT LATIN [FMA:9581] synonym: "wall of serous sac" EXACT [FMA:9581] xref: FMA:9581 xref: GAID:19 xref: MESH:A10.615.789 xref: SCTID:362878009 xref: TAO:0005425 xref: UMLS:C0036760 xref: ZFA:0005425 xref: http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xref: http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xref: ncithesaurus:Serosa is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004457 ! cavity lining relationship: develops_from UBERON:0000926 ! mesoderm relationship: has_part UBERON:0001136 ! mesothelium relationship: has_part UBERON:0002384 ! connective tissue relationship: part_of UBERON:0000060 ! anatomical wall property_value: external_definition "A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]" xsd:string property_value: external_definition "a smooth membrane consisting of a thin layer of cells which excrete serous fluid. Serous membranes line and enclose several body cavities, known as serous cavities, where they secrete a lubricating fluid which reduces friction from muscle movement. Serosa is not to be confused with adventitia, a connective tissue layer which binds together structures rather than reducing friction between them. Each serous membrane is composed of a secretory epithelial layer and a connective tissue layer underneath. The epithelial layer, known as mesothelium, consists of a single layer of avascular flat nucleated cells (cuboidal epithelium) which produce the lubricating serous fluid. This fluid has a consistency similar to thin mucus. These cells are bound tightly to the underlying connective tissue. The connective tissue layer provides the blood vessels and nerves for the overlying secretory cells, and also serves as the binding layer which allows the whole serous membrane to adhere to organs and other structures.[WP]" xsd:string [Term] id: UBERON:0000043 name: tendon namespace: uberon def: "Dense regular connective tissue that connects muscle to bone[VSAO]." [VSAO:0000073, Wikipedia:Tendon] comment: AO notes: in FMA, tendon is an organ component that with parts dense-irregular-connective-tissue of tendon and dense-irregular-connective-tissue of tendon sheath; we follow VSAO in making it a subtype of the former. In VSAO tendons connect muscle to bone; in WP the def states integument (e.g. auricular muscles) - but JB confirms this is not actually tendon but aponeurosis subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sinew" RELATED [Wikipedia:Tendon] synonym: "tendo" RELATED LATIN [Wikipedia:Tendon] xref: AEO:0000091 xref: BTO:0001356 xref: EHDAA2:0003091 xref: EV:0100149 xref: FMA:9721 xref: GAID:276 xref: MA:0000115 xref: MESH:A02.880 xref: OpenCyc:Mx4rvVjefJwpEbGdrcN5Y29ycA xref: SCTID:256667004 xref: UMLS:C0039508 xref: VHOG:0001286 xref: VSAO:0000073 xref: XAO:0000173 xref: ZFA:0005647 xref: galen:Tendon xref: http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3c/Achilles-tendon.jpg/200px-Achilles-tendon.jpg xref: ncithesaurus:Tendon is_a: UBERON:0007846 ! dense regular connective tissue relationship: connects UBERON:0001474 ! bone element relationship: connects UBERON:0001630 ! muscle organ relationship: has_part CL:0000057 ! fibroblast relationship: has_part CL:0000327 ! extracellular matrix secreting cell relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: external_definition "Dense regular connective tissue that connects muscle to bone.[VSAO]" xsd:string property_value: homology_notes "Phylogenetically, tendinous tissue first appears in the invertebrate chordate Branchiostoma as myosepta. This two-dimensional array of collagen fibers is highly organized, with fibers running along two primary axes. In hagfish the first linear tendons appear and the myosepta have developed specialized regions with unidirectional fiber orientation - a linear tendon within the flat sheet of myoseptum.[well established][VHOG]" xsd:string [Term] id: UBERON:0000044 name: dorsal root ganglion namespace: uberon def: "ganglion on the dorsal root of each spinal nerve that is one of a series of ganglia lodging cell bodies of sensory neurons[BTO]. Trunk ganglion which is located adjacent to the spine on a dorsal root and contains the cell bodies of afferent sensory nerves[..]. one on the posterior root of each spinal nerve, composed of unipolar nerve cell bodies of the sensory neurons of the nerve[TFD]." [Wikipedia:Dorsal_root_ganglion] comment: Development notes: The sensory ganglia of spinal nerves arise only from the neural crest, whereas many sensory ganglia of the bdorsalb cranial nerves arise from epibranchial placodes as well as the neural crest[doi: 10.1093/icb/icn065]. Other ontology notes: FMA treats dorsal root ganglion and spinal ganglion as equivalent labels. MA is the only ontology to introduce two classes here (also EHDAA2) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "DRG" RELATED [] synonym: "dorsal root ganglia" RELATED PLURAL [] synonym: "dorsal root ganglion" EXACT [BTO:0001264] synonym: "ganglion of dorsal root" EXACT [OBOL:automatic] synonym: "ganglion sensorium nervi spinalis" RELATED LATIN [BTO:0001264, Wikipedia:Dorsal_root_ganglion] synonym: "ganglion spinale" RELATED [BTO:0001264] synonym: "ganglion spinalis" EXACT [FMA:5888] synonym: "spinal ganglion" EXACT [FMA:5888] xref: AAO:0011032 xref: BTO:0001264 xref: EFO:0000900 xref: EHDAA2:0000418 xref: EHDAA2:0001897 xref: EHDAA:2899 xref: EMAPA:16668 xref: EMAPA:18372 xref: EV:0100373 xref: FMA:5888 xref: MA:0000231 xref: MA:0000232 xref: MAT:0000162 xref: MIAA:0000162 xref: NIF_GrossAnatomy:birnlex_2596 xref: SCTID:244455004 xref: TAO:0000200 xref: UMLS:C0017070 xref: VHOG:0000222 xref: XAO:0000210 xref: ZFA:0000200 xref: http://upload.wikimedia.org/wikipedia/commons/7/71/DRG_Chicken_e7.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/71/DRG_Chicken_e7.jpg/200px-DRG_Chicken_e7.jpg xref: ncithesaurus:Dorsal_Root_Ganglion is_a: UBERON:0001800 ! sensory ganglion is_a: UBERON:0003338 ! ganglion of peripheral nervous system is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003083 ! trunk neural crest intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002261 ! dorsal root of spinal cord property_value: external_definition "Trunk ganglion which is located adjacent to the spine on a dorsal root and contains the cell bodies of afferent sensory nerves.[TAO]" xsd:string property_value: homology_notes "From comparative analyses of craniate brains, a morphotype of the brain in the earliest craniate stock can be constructed. In marked contrast to cephalochordates, the ancestral craniate morphotype had a plethora of unique features, which included a telencephalon with pallial and subpallial parts, paired olfactory bulbs with substantial projections to most or all of the telencephalic pallium, paired lateral eyes and ears, a lateral line system for both electroreception and mechanoreception, spinal cord dorsal root ganglia, and an autonomic nervous system.[well established][VHOG]" xsd:string [Term] id: UBERON:0000045 name: ganglion namespace: uberon def: "A biological tissue mass, most commonly a mass of nerve cell bodies." [Wikipedia:Ganglion] comment: TODO - check vert vs invert. Other species: Any of a number of aggregations of neurons, glial cells and their processes, surrounded by a glial cell and connective tissue sheath (plural: ganglia). // Subdivision of neural tree (organ) which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord); together with a nucleus and its associated nerve, it constitutes a neural tree (organ). Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion. // a cluster of nerve cells and associated glial cells (nuclear location) // Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system. // Structures containing a collection of nerve cell bodies. (Source: BioGlossary, www.Biology-Text.com). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ganglia" RELATED [] synonym: "neural ganglion" RELATED [BTO:0000497] xref: AAO:0010426 xref: AEO:0000135 xref: BTO:0000497 xref: EFO:0000899 xref: EHDAA2:0003135 xref: EHDAA:2897 xref: EHDAA:4662 xref: EHDAA:5621 xref: EHDAA:918 xref: EV:0100372 xref: FBbt:00005137 xref: FMA:5884 xref: MA:0002406 xref: MAT:0000207 xref: MAT:0000343 xref: MESH:A08.340 xref: MIAA:0000207 xref: MIAA:0000343 xref: NIF_GrossAnatomy:nlx_anat_100302 xref: TAO:0000190 xref: TGMA:0001016 xref: UMLS:C0017067 xref: VHOG:0000156 xref: WBbt:0005189 xref: XAO:0000209 xref: ZFA:0000190 xref: ncithesaurus:Ganglion is_a: UBERON:0000479 ! tissue is_a: UBERON:0003714 ! neural tissue relationship: develops_from UBERON:0003869 ! presumptive ganglion relationship: part_of UBERON:0001016 ! nervous system property_value: external_definition "Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system.[AAO]" xsd:string property_value: external_definition "Structures containing a collection of nerve cell bodies. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string property_value: has_relational_adjective "ganglionic" xsd:string property_value: homology_notes "Cranial sensory placodes are focused areas of the head ectoderm of vertebrates that contribute to the development of the cranial sense organs and their associated ganglia. Placodes have long been considered a key character of vertebrates, and their evolution is proposed to have been essential for the evolution of an active predatory lifestyle by early vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000046 name: stemma namespace: uberon def: "eye-spots which may be set into a pit to reduce the angles of light that enters and affects the eyespot, to allow the organism to deduce the angle of incoming light" [Wikipedia:Eye#Pit_eyes, Wikipedia:Stemma] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pit eye" EXACT [Wikipedia:Eye#Pit_eyes] is_a: UBERON:0000047 ! simple eye [Term] id: UBERON:0000047 name: simple eye namespace: uberon def: "An eye with one concave chamber. Note that 'simple' does not imply a reduced level of complexity or acuity." [Wikipedia:Eye#Simple_eyes] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: TGMA:0000729 is_a: UBERON:0000970 ! eye [Term] id: UBERON:0000048 name: pinhole eye namespace: uberon def: "Simple eye that has a small aperture (which may be adjustable) and deep pit. It is only found in the nautiloids." [DOI:10.1146/annurev.ne.15.030192.000245, Wikipedia:Pinhole_eye] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms is_a: UBERON:0000047 ! simple eye [Term] id: UBERON:0000049 name: spherical lensed eye namespace: uberon def: "simple eye that consists of a lens of one refractive index" [Wikipepedia:Eye#Spherical_lensed_eye] subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0000047 ! simple eye [Term] id: UBERON:0000050 name: simple eye with multiple lenses namespace: uberon def: "simple eye that has two or more lenses. Some marine organisms bear more than one lens; for instance the copeopod Pontella has three. The outer has a parabolic surface, countering the effects of spherical aberration while allowing a sharp image to be formed. Copilla's eyes have two lenses, which move in and out like a telescope" [Wikipedia:Eye#Multiple_lenses] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms is_a: UBERON:0000047 ! simple eye relationship: has_part UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0000051 name: fornix of vagina namespace: uberon def: "The deepest portions of the vagina, extending into the recesses created by the vaginal portion of cervix[WP,unvetted]." [Wikipedia:Vaginal_fornix] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fornix" BROAD [] synonym: "fornix vaginae" EXACT LATIN [FMA:19985, FMA:TA] synonym: "vaginal fornices" RELATED PLURAL [] synonym: "vaginal fornix" EXACT [] xref: FMA:19985 xref: SCTID:245475003 xref: UMLS:C0227794 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Female_anatomy.png/200px-Female_anatomy.png xref: ncithesaurus:Vaginal_Fornix is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0000996 ! vagina disjoint_from: UBERON:0000052 ! fornix of brain [Term] id: UBERON:0000052 name: fornix of brain namespace: uberon def: "The fornix (Latin, 'vault' or 'arch') is a C-shaped bundle of fibres in the brain, and carries signals from the hippocampus to the mammillary bodies and septal nuclei. [WP,unvetted]." [Wikipedia:Vaginal_fornix_of_brain_of_brain] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brain fornix" EXACT [] synonym: "cerebral fornix" EXACT [] synonym: "fornix" BROAD [] synonym: "fornix of neuraxis" EXACT [FMA:83865] synonym: "neuraxis fornix" EXACT [FMA:83865] xref: FMA:83865 xref: MA:0002747 xref: NIF_GrossAnatomy:birnlex_705 xref: SCTID:279302004 xref: UMLS:C0458370 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/21/Gray747.png/200px-Gray747.png xref: ncithesaurus:Cerebral_Fornix is_a: UBERON:0002437 ! cerebral white matter [Term] id: UBERON:0000053 name: macula lutea namespace: uberon def: "Oval yellow spot near the center of the retina of the human eye. It has a diameter of around 5 mm and is often histologically defined as having two or more layers of ganglion cells. Near its center is the fovea, a small pit that contains the largest concentration of cone cells in the eye and is responsible for central vision, and also contains the parafovea and perifovea[WP]. It is devoid of retinal blood vessels, except in its periphery, and receives nourishment from the choriocapillaris of the choroid. (From Cline et al., Dictionary of Visual Science, 4th ed)" [MESH:A09.371.729.522, Wikipedia:Macula_of_retina] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "macula" RELATED [] synonym: "macula flava retinae" RELATED [BTO:0003015] synonym: "macula retinae" RELATED [BTO:0003015] synonym: "maculae" RELATED [] xref: BTO:0003015 xref: EV:0100349 xref: FMA:58637 xref: GAID:909 xref: MA:0001306 xref: MESH:A09.371.729.522 xref: NIF_GrossAnatomy:birnlex_2540 xref: SCTID:362517001 xref: UMLS:C0450295 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ed/Human_eye_cross-sectional_view_grayscale.png/200px-Human_eye_cross-sectional_view_grayscale.png xref: ncithesaurus:Macula xref: ncithesaurus:Macula_Lutea is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000966 ! retina disjoint_from: UBERON:0000054 ! macula [Term] id: UBERON:0000054 name: macula namespace: uberon def: "Thickened areas of the saccule or utricle where the termination of the vestibular nerve occurs[MESH,modified]." [MESH:A09.246.631.909.625.125] comment: Usage notes: this refers to the inner ear structure, not the macula of the retina. We follow ZFA in including a grouping class for the macula of utricle and sacule subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "acoustic macula" RELATED [MESH:A09.246.631.909.625.125] synonym: "acoustic maculae" RELATED PLURAL [MESH:A09.246.631.909.625.125] synonym: "macula" EXACT [] synonym: "maculae" EXACT PLURAL [] synonym: "sensory macula" EXACT [ZFA:0000386] synonym: "sensory patch" EXACT [ZFA:0000386] xref: GAID:777 xref: MESH:A09.246.631.909.625.125 xref: TAO:0000386 xref: ZFA:0000386 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part GO:0070451 ! cell hair relationship: part_of UBERON:0001846 ! internal ear property_value: external_definition "Patches of thickened, pseudostratified epithelium of the inner ear, consisting of regular arrays of sensory hair cells interspersed with supporting cells. Each patch has its own charcteristic shape and polarity pattern. (See Anatomical Atlas entry for sensory patches of the ear by T. Whitfield.)[TAO]" xsd:string property_value: has_relational_adjective "macular" xsd:string [Term] id: UBERON:0000055 name: vessel namespace: uberon def: "A tubular structure that contains, conveys body fluid, such as blood or lymph." [UBERON:cjm] comment: compare with UBERON:0008782 subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0004111 ! anatomical conduit [Term] id: UBERON:0000056 name: ureter namespace: uberon def: "Muscular duct that propels urine from the kidneys to the urinary bladder, or related organs. In humans, organ with organ cavity which connects the renal sinus to the urinary bladder. Examples: the right and the left ureters." [FMA:9704, GO:0090189, Wikipedia:Ureter] subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "metanephric duct" RELATED [ISBN10:0073040584, VHOG:0000605] xref: AAO:0010254 xref: BTO:0001409 xref: EFO:0000930 xref: EHDAA2:0002139 xref: EHDAA:9341 xref: EMAPA:17950 xref: EV:0100097 xref: FMA:9704 xref: GAID:438 xref: MA:0000378 xref: MAT:0000120 xref: MESH:A05.810.776 xref: MIAA:0000120 xref: OpenCyc:Mx4rvhmm6JwpEbGdrcN5Y29ycA xref: SCTID:302511008 xref: UMLS:C0041951 xref: VHOG:0000605 xref: XAO:0000144 xref: galen:Ureter xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Urinary_system.svg/200px-Urinary_system.svg.png xref: ncithesaurus:Ureter is_a: UBERON:0000025 ! tube is_a: UBERON:0000062 ! organ is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005179 ! pelvis organ is_a: UBERON:0006555 ! excretory tube relationship: channel_for UBERON:0001088 ! urine relationship: channels_from UBERON:0001224 ! renal pelvis relationship: channels_into UBERON:0001255 ! urinary bladder relationship: develops_from UBERON:0005081 ! ureter ureteric bud relationship: in_lateral_side_of UBERON:0000468 ! multi-cellular organism relationship: part_of UBERON:0002355 ! pelvis relationship: part_of UBERON:0011143 ! upper urinary tract property_value: external_definition "Anatomical structure consisting of long narrow duct which carries urine from the kidney to the urinary bladder.[AAO]" xsd:string property_value: external_definition "The duct of amniotes that carries urine from a metanephric kidney to the urinary bladder. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: has_relational_adjective "ureteral" xsd:string property_value: has_relational_adjective "ureteric" xsd:string property_value: homology_notes "The first embryonic hint of a metanephros is the formation of the metanephric duct that appears as a ureteric diverticulum arising at the base of preexisting mesonephric duct. The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes, and the metanephric duct is usually called the ureter.[well established][VHOG]" xsd:string [Term] id: UBERON:0000057 name: urethra namespace: uberon def: "A tube which connects the urinary bladder to the outside of the body. In males, the urethra travels through the penis, and carries semen as well as urine. In females, the urethra is shorter and emerges above the vaginal opening. The external urethral sphincter is a striated muscle that allows voluntary control over urination." [Wikipedia:Urethra] subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001426 xref: EFO:0000931 xref: EMAPA:30901 xref: EV:0100099 xref: FMA:19667 xref: GAID:390 xref: MA:0000379 xref: MAT:0000121 xref: MESH:A05.360.444.492.726 xref: MIAA:0000121 xref: OpenCyc:Mx4rvVjkypwpEbGdrcN5Y29ycA xref: SCTID:302513006 xref: UMLS:C0041967 xref: VHOG:0001264 xref: XAO:0000153 xref: galen:Urethra xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Female_anatomy.png/200px-Female_anatomy.png xref: ncithesaurus:Urethra is_a: UBERON:0000062 ! organ is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0006554 ! urinary system structure relationship: channel_for UBERON:0001088 ! urine relationship: channels_from UBERON:0001255 ! urinary bladder relationship: continuous_with UBERON:0001255 ! urinary bladder relationship: develops_from UBERON:0000164 ! primitive urogenital sinus relationship: has_function_in GO:0060073 ! micturition relationship: part_of UBERON:0001556 ! lower urinary tract property_value: has_relational_adjective "urethral" xsd:string [Term] id: UBERON:0000058 name: duct namespace: uberon def: "A tube shaped portion of tissue lined with epithelial cells that collects secretions and routes them to their destination[ZFA]." [Wikipedia:Duct_(anatomy), ZFA:0005171] comment: TODO - make distinctions between duct and tube clearer. Single layer of cells vs multiples? Function (e.g. exocrine gland duct?). Different ontologies use it in different ways (e.g. isa epithelial tube in FBbt). Consider adding duct of gland subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anatomical duct" EXACT [] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 xref: FBbt:00100314 xref: FMA:30320 xref: SCTID:91726008 xref: TAO:0005171 xref: UMLS:C0687028 xref: XAO:0004000 xref: ZFA:0005171 xref: galen:Duct xref: ncithesaurus:Duct is_a: UBERON:0004111 ! anatomical conduit relationship: has_function_in GO:0032941 ! secretion by tissue [Term] id: UBERON:0000059 name: large intestine namespace: uberon def: "A subdivision of the digestive tract that connects the small intestine to the cloaca or anus. Lacks or has few villi[Kardong]." [ISBN10:0073040584, Wikipedia:Large_intestine_(anatomy)] subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "intestinum crassum" RELATED [BTO:0000706] xref: AAO:0010396 xref: BTO:0000706 xref: EFO:0000840 xref: EMAPA:19252 xref: EV:0100077 xref: FMA:7201 xref: GAID:306 xref: MA:0000333 xref: MESH:A03.492.411.495 xref: MIAA:0000046 xref: OpenCyc:Mx4rvVkF5pwpEbGdrcN5Y29ycA xref: SCTID:181254001 xref: UMLS:C0021851 xref: VHOG:0000054 xref: XAO:0000131 xref: galen:LargeIntestine xref: ncithesaurus:Large_Intestine is_a: UBERON:0000062 ! organ is_a: UBERON:0004921 ! subdivision of digestive tract relationship: part_of UBERON:0000160 ! intestine relationship: part_of UBERON:0004907 ! lower digestive tract property_value: homology_notes "Intestinal surface area also is increased in amphibians and reptiles by internal folds and occasionally by a few villi. The intestine can be divided into a small intestine and a slightly wider large intestine.[well established][VHOG]" xsd:string [Term] id: UBERON:0000060 name: anatomical wall namespace: uberon alt_id: UBERON:0009915 def: "Organ component adjacent to an organ cavity and which consists of a maximal aggregate of organ component layers." [FMA:82482] comment: AO notes: in FMA, serosa is a wall subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "organ wall" RELATED [FMA:82482] synonym: "wall" EXACT [] synonym: "wall of organ" EXACT [FMA:82482] xref: EMAPA:25036 xref: FMA:82482 xref: galen:Wall is_a: UBERON:0000061 ! anatomical structure relationship: adjacent_to UBERON:0002553 ! anatomical cavity relationship: has_part UBERON:0004923 ! organ component layer [Term] id: UBERON:0000061 name: anatomical structure namespace: uberon def: "Material anatomical entity that has inherent 3D shape and is generated by coordinated expression of the organism's own genome." [CARO:0000003] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "biological structure" EXACT [] xref: AAO:0010825 xref: AEO:0000003 xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: FBbt:00007001 xref: FMA:67135 xref: GAID:781 xref: HAO:0000003 xref: MA:0003000 xref: MESH:A13 xref: SCTID:362889002 xref: TAO:0000037 xref: TGMA:0001823 xref: VHOG:0001759 xref: XAO:0003000 xref: ZFA:0000037 is_a: UBERON:0000465 ! material anatomical entity [Term] id: UBERON:0000062 name: organ namespace: uberon def: "Anatomical structure that performs a specific function or group of functions [WP]. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions[GO]." [Wikipedia:Organ_(anatomy)] comment: note that CARO does not include a generic 'organ' class, only simple and compound organ subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "body organ" RELATED [] synonym: "element" RELATED [] xref: EFO:0000634 xref: FMA:67498 xref: MA:0003001 xref: NIF_GrossAnatomy:birnlex_4 xref: OpenCyc:Mx4rv5XMb5wpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwP3iWpwpEbGdrcN5Y29ycA xref: SCTID:272625005 xref: UMLS:C0178784 xref: ncithesaurus:Organ is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000467 ! anatomical system property_value: never_in_taxon NCBITaxon:110815 [Term] id: UBERON:0000063 name: organ segment namespace: uberon def: "Organ region with one or more fixed or anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyeball[FMA]." [FMA:86140] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "organ region with fixed fiat boundary" EXACT [FMA:86140] synonym: "segment of organ" EXACT [FMA:86140] xref: FMA:86140 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0000064 name: organ part namespace: uberon def: "anatomical structure which has as its direct parts two or more types of tissue and is continuous with one or more anatomical structures likewise constituted by two or more portions of tissues distinct from those of their complement. Examples: osteon, cortical bone, neck of femur, bronchopulmonary segment, left lobe of liver, anterior right side of heart, interventricular branch of left coronary artery, right atrium, mitral valve, head of pancreas[FMA]." [FMA:82472] subset: disjointness_axiom_removed ! A class which has a weakened disjointness axiom, to avoid inconsistency. These are kept separately in the uberon_disjoint_from_strict ontology. subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cardinal organ part" EXACT [] xref: AAO:0011124 xref: EFO:0000635 xref: FMA:82472 xref: SCTID:113343008 xref: SCTID:91717005 is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000062 ! organ [Term] id: UBERON:0000065 name: respiratory tract namespace: uberon def: "anatomical structure that is part of the respiratory system. In mammals consists of upper and lower tracts" [UBERON:cjm] xref: EHDAA2:0001606 xref: EHDAA:1568 xref: EHDAA:2219 xref: EMAPA:16737 xref: OpenCyc:Mx4rvvM--pwpEbGdrcN5Y29ycA xref: SCTID:361110005 xref: VHOG:0000393 is_a: UBERON:0001005 ! respiratory airway is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0007026 ! primitive gut relationship: develops_from UBERON:0008947 ! respiratory primordium relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0000066 name: fully formed stage namespace: uberon def: "The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both juvenile stage, and adult stage. " [UBERON:cjm] synonym: "adult stage" BROAD [] synonym: "fully formed animal stage" EXACT [] synonym: "juvenile-adult stage" EXACT [] xref: BTO:0001043 xref: BilaDO:0000004 xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 is_a: UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage [Term] id: UBERON:0000067 name: embryo stage part namespace: uberon def: "A stage that is part of the embryo stage." [UBERON:cjm] subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "embryonic stage part" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: part_of UBERON:0000068 ! embryo stage [Term] id: UBERON:0000068 name: embryo stage namespace: uberon def: "A life cycle stage that starts with fertilization and ends with the fully formed embryo." [] synonym: "embryogenesis" RELATED [] synonym: "embryonic stage" EXACT [] xref: BilaDO:0000002 xref: EV:0300001 xref: FBdv:00005289 xref: HsapDv:0000002 xref: MmusDv:0000002 xref: OGES:000000 xref: OGES:000022 xref: SCTID:296280003 xref: XAO:1000012 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000104 ! life cycle relationship: simultaneous_with GO:0009790 ! embryo development disjoint_from: UBERON:0000092 ! post-embryonic stage [Term] id: UBERON:0000069 name: larval stage namespace: uberon def: "a distinct juvenile stage many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." [Wikipedia:Larva] comment: It is a misunderstanding that the larval form always reflects the group's evolutionary history. It could be the case, but often the larval stage has evolved secondarily, as in insects. In these cases the larval form might differ more from the group's common origin than the adult form[WP]. Uberon includes clade-specific subclasses. synonym: "ammocoete" NARROW SENSU [Wikipedia:Larva] synonym: "ammocoete stage" NARROW SENSU [Wikipedia:Larva] synonym: "bipinnaria" NARROW SENSU [Wikipedia:Larva] synonym: "bipinnaria stage" NARROW SENSU [Wikipedia:Larva] synonym: "caterpillar" NARROW SENSU [Wikipedia:Larva] synonym: "caterpillar stage" NARROW SENSU [Wikipedia:Larva] synonym: "glochidium" NARROW SENSU [Wikipedia:Larva] synonym: "glochidium stage" NARROW SENSU [Wikipedia:Larva] synonym: "grub" NARROW SENSU [Wikipedia:Larva] synonym: "grub stage" NARROW SENSU [Wikipedia:Larva] synonym: "larva" RELATED [] synonym: "larva stage" EXACT [] synonym: "leptocephalus" NARROW SENSU [Wikipedia:Larva] synonym: "leptocephalus stage" NARROW SENSU [Wikipedia:Larva] synonym: "maggot" NARROW SENSU [Wikipedia:Larva] synonym: "maggot stage" NARROW SENSU [Wikipedia:Larva] synonym: "metacestode" NARROW SENSU [BTO:0000859] synonym: "naiad, nymph" NARROW SENSU [Wikipedia:Larva] synonym: "naiad, nymph stage" NARROW SENSU [Wikipedia:Larva] synonym: "nauplius" NARROW SENSU [Wikipedia:Larva] synonym: "nauplius stage" NARROW SENSU [Wikipedia:Larva] synonym: "nymph" NARROW SENSU [Wikipedia:Larva] synonym: "nymph stage" NARROW SENSU [Wikipedia:Larva] synonym: "planula" NARROW SENSU [Wikipedia:Larva] synonym: "planula stage" NARROW SENSU [Wikipedia:Larva] synonym: "tornaria" NARROW SENSU [NCBITaxon:10219] synonym: "trochophore" NARROW SENSU [Wikipedia:Larva] synonym: "trochophore stage" NARROW SENSU [Wikipedia:Larva] synonym: "veliger" NARROW SENSU [Wikipedia:Larva] synonym: "veliger stage" NARROW SENSU [Wikipedia:Larva] synonym: "wriggler" NARROW SENSU [Wikipedia:Larva] synonym: "wriggler stage" NARROW SENSU [Wikipedia:Larva] synonym: "zoea" NARROW SENSU [Wikipedia:Larva] synonym: "zoea stage" NARROW SENSU [Wikipedia:Larva] xref: BTO:0000915 xref: BTO:0000954 xref: EFO:0001303 xref: FBdv:00005336 xref: MIAA:0000400 xref: OGES:000008 xref: ZFS:0000048 is_a: UBERON:0000092 ! post-embryonic stage relationship: immediately_preceded_by UBERON:0000068 ! embryo stage relationship: simultaneous_with GO:0002164 ! larval development property_value: never_in_taxon NCBITaxon:32524 [Term] id: UBERON:0000070 name: pupal stage namespace: uberon def: "A life stage of some insects undergoing transformation. The pupal stage is found only in holometabolous insects, those that undergo a complete metamorphosis, going through four life stages; embryo, larva, pupa and imago." [Wikipedia:Pupa] synonym: "aurelia stage" NARROW [NCBITaxon:37572, Wikipedia:Pupa] synonym: "chrysalides stage" NARROW [NCBITaxon:37572, Wikipedia:Pupa] synonym: "chrysalis stage" NARROW [NCBITaxon:37572, Wikipedia:Pupa] synonym: "pupa stage" EXACT [] xref: FBdv:00005349 is_a: UBERON:0000092 ! post-embryonic stage relationship: immediately_preceded_by UBERON:0000069 ! larval stage relationship: simultaneous_with GO:0035209 ! pupal development [Term] id: UBERON:0000071 name: death stage namespace: uberon def: "End of the life of an organism." [XAO:0000437] comment: AO notes - ncit:Death is an outcome synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 is_a: UBERON:0000105 ! life cycle stage relationship: finishes UBERON:0000104 ! life cycle relationship: part_of UBERON:0000104 ! life cycle relationship: simultaneous_with GO:0016265 ! death [Term] id: UBERON:0000072 name: segment of respiratory tract namespace: uberon def: "An organ segment that is part of a respiratory tract [Automatically generated definition]." [OBOL:automatic] comment: Note that MA:0000434 has subclasses upper and lower, so it corresponds to a segment of the tract, rather than the tract as a whole synonym: "respiratory tract" RELATED [MA:0000434] xref: MA:0000434 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000063 ! organ segment intersection_of: part_of UBERON:0000065 ! respiratory tract [Term] id: UBERON:0000073 name: regional part of nervous system namespace: uberon def: "An anatomical structure that is part of a nervous system [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "part of nervous system" EXACT [NIF_GrossAnatomy:birnlex_1157] xref: NIF_GrossAnatomy:birnlex_1157 xref: SCTID:25087005 xref: UMLS:C1518256 xref: ncithesaurus:Nervous_System_Part is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0000074 name: renal glomerulus namespace: uberon def: "A capillary tuft which forms a close network with the visceral epithelium (podocytes) and the mesangium to form the filtration barrier and is surrounded by Bowman's capsule in nephrons of the vertebrate kidney[GO]." [MP:0005325, Wikipedia:Glomerulus] comment: ZFA - The multi-tissue structure where the glomerular basement membrane supported by mesonephric podocytes filters blood from the glomerular capillaries. TODO - split glomerulus and glomerular tuft? DONE. GUDMAP: 'Together, the Bowmanbs capsule and the glomerulus comprise the definitive renal corpuscle.' - here the glomerulus is part of the capsule? subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "glomerular capillary tuft" RELATED [ZFA:0001288] synonym: "glomerular tuft" RELATED INCONSISTENT [] synonym: "glomerulus" BROAD [] synonym: "glomerulus renis" RELATED LATIN [Wikipedia:Glomerulus] synonym: "malphigian glomerulus" RELATED [BTO:0000530] synonym: "renal corpuscle" RELATED INCONSISTENT [] synonym: "renal glomeruli" EXACT [TAO:0001288] xref: BTO:0000530 xref: EFO:0003667 xref: EV:0100386 xref: FMA:15624 xref: MA:0001657 xref: MESH:A05.810.453.736.520 xref: SCTID:362217000 xref: TAO:0001288 xref: UMLS:C0022663 xref: ZFA:0001288 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray1130.svg/200px-Gray1130.svg.png xref: ncithesaurus:Glomerulus is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0005749 ! glomerular tuft relationship: part_of UBERON:0001229 ! renal corpuscle relationship: surrounded_by UBERON:0001230 ! glomerular capsule disjoint_from: UBERON:0001047 ! neural glomerulus [Term] id: UBERON:0000075 name: subdivision of skeletal system namespace: uberon alt_id: UBERON:0010322 def: "Anatomical cluster consisting of the skeletal elements and articular elements that are part of an individual subdivision of the organism." [UBERON:cjm, UBERONREF:0000003] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "skeletal system part" RELATED [] synonym: "skeletal system subdivision" EXACT [FMA:85544] xref: FMA:85544 xref: SCTID:118966000 xref: UMLS:C1519343 xref: galen:ComplexSkeletalStructure xref: ncithesaurus:Skeletal_System_Part is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0001434 ! skeletal system [Term] id: UBERON:0000076 name: external ectoderm namespace: uberon def: "The surface ectoderm (or external ectoderm forms the following structures: Skin Epithelium of the mouth and nasal cavity saliavary glands, and glands of mouth and nasal cavity Enamel - as a side note dentin and dental pulp are formed from ectomesenchyme which is derived from ectoderm Epithelium of pineal and pituitary glands Lens and cornea of the eye Apical ectodermal ridge inducing development of the limb buds of the embryo. Sensory receptors in epidermis [WP,unvetted]." [Wikipedia:External_ectoderm] comment: Editor note: merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube). synonym: "surface ectoderm" EXACT [] xref: EHDAA2:0001968 xref: EHDAA:1494 xref: EHDAA:350 xref: EHDAA:4784 xref: EHDAA:4790 xref: EHDAA:4796 xref: EHDAA:7860 xref: EMAPA:16096 xref: EMAPA:16539 xref: FMA:87656 xref: UMLS:C1515087 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1d/Ectoderm.png/200px-Ectoderm.png xref: ncithesaurus:Surface_Ectoderm is_a: UBERON:0000923 ! germ layer relationship: part_of UBERON:0000924 ! ectoderm [Term] id: UBERON:0000077 name: mixed endoderm/mesoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the endoderm and the mesoderm." [UBERON:cjm] comment: Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm [Term] id: UBERON:0000078 name: mixed ectoderm/mesoderm/endoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the ectoderm, mesoderm and endoderm." [UBERON:cjm] comment: Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm [Term] id: UBERON:0000079 name: male reproductive system namespace: uberon def: "the organs associated with producing offspring in the gender that produces spermatozoa." [MP:0001145] synonym: "genitalia of male organism" EXACT [OBOL:automatic] synonym: "male genital organ" RELATED [BTO:0000082] synonym: "male genital system" EXACT [FMA:45664] synonym: "male genitalia" EXACT [] synonym: "male genitals" EXACT [] synonym: "male organism genitalia" EXACT [OBOL:automatic] synonym: "male organism reproductive system" EXACT [OBOL:automatic] synonym: "male reproductive tract" RELATED [MA:0000396] synonym: "reproductive system of male organism" EXACT [OBOL:automatic] synonym: "systema genitale masculinum" RELATED [BTO:0000082] xref: BTO:0000082 xref: EFO:0000970 xref: EHDAA2:0001054 xref: EHDAA:8136 xref: EMAPA:17968 xref: EV:0100101 xref: FBbt:00004927 xref: FMA:45664 xref: GAID:386 xref: HAO:0000505 xref: MA:0000396 xref: MESH:A05.360.444 xref: OpenCyc:Mx4rvViCepwpEbGdrcN5Y29ycA xref: SCTID:361340001 xref: TGMA:0000634 xref: UMLS:C0017422 xref: UMLS:C1963704 xref: VHOG:0000725 xref: WBbt:0008423 xref: XAO:0000155 xref: ncithesaurus:Male_Genitalia xref: ncithesaurus:Male_Reproductive_System is_a: UBERON:0000990 ! reproductive system relationship: part_of UBERON:0003101 ! male organism intersection_of: UBERON:0000990 ! reproductive system intersection_of: part_of UBERON:0003101 ! male organism disjoint_from: UBERON:0000474 ! female reproductive system property_value: homology_notes "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000080 name: mesonephros namespace: uberon def: "In mammals, the mesonephros is the second of the three embryonic kidneys to be established and exists only transiently. In lower vertebrates such as fish and amphibia, the mesonephros will form the mature kidney[GO]. One of three excretory organs that develop in vertebrates. It serves as the main excretory organ of aquatic vertebrates and as a temporary kidney in higher vertebrates. composed of the mesonephric duct (also called the Wolffian duct), mesonephric tubules, and associated capillary tufts. A single tubule and its associated capillary tuft is called a mesonephric excretory unit; these units are similar in structure and function to nephrons of the adult kidney. The mesonephros is derived from intermediate mesoderm in the vertebrate embryo." [GO:0001823, Wikipedia:Mesonephros] comment: By contrast to the pronephros, the histological features of the mesonephros, with its primitive glomeruli, suggest that it probably functions as a primitive kidney, and is involved in the production of much of the amniotic fluid. Within the two mesonephroi, one located on either side of the dorsal mesentery of the hindgut, a substantial number (in the region of about 40 or more) of cranio-caudally segmented mesonephric tubules are formed. It has, however, been suggested that only the most rostrally located 4-6 pairs of mesonephric tubules drain into the mesonephric portion of the nephric duct. This is now seen to extend along the length of the mesonephroi, being located towards their lateral sides. The mesonephros is also retained over a considerably longer period than the pronephros, but gradually undergoes regression in a cranio-caudal direction. While the rostral part displays clear evidence of regression its more caudal part appears to display evidence of functional activity. Within the medial part of the mesonephros, vesicles are formed, although no glomeruli are formed there in this species. It is, however, difficult to believe that the relatively enormous mesonephroi do not have an excretory role in the mouse, only serving as a base for gonadal differentiation. In the human embryo, the medial part of the mesonephric tubules enlarges, become invaginated by capillaries, and form glomeruli. These then take on an excretory role. In the mouse, the mesonephric ducts appear to be patent throughout their length[GUDMAP] comment: Taxon notes: The mesonephros persists and form the permanent kidneys in fishes and amphibians, but in reptiles, birds, and mammals, it atrophies and for the most part disappears rapidly as the permanent kidney (metanephros) begins to develop during the sixth or seventh week. By the beginning of the fifth month only the ducts and a few of the tubules of the mesonephros remain[WP] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Wolffian body" EXACT [BTO:0001542, GOC:yaf, MESH:A16.254.500, Wikipedia:Mesonephros] synonym: "mesonephric kidney" EXACT [XAO:0000141] synonym: "mesonephroi" EXACT PLURAL [http://www.gudmap.org/About/Tutorial/DevMUS.html#DMK_Nephron] synonym: "opisthonephros" RELATED [VHOG:0000038, XAO:0000141] synonym: "opisto nephros" RELATED [] synonym: "opistonephros" RELATED [http://www.usm.maine.edu/bio/courses/bio205/bio205_26_sex.html] xref: AAO:0010384 xref: BTO:0001542 xref: EFO:0000928 xref: EHDAA2:0001130 xref: EHDAA:1581 xref: EHDAA:5903 xref: EMAPA:16744 xref: EMAPA:17369 xref: EMAPA:27644 xref: FMA:72171 xref: GAID:1308 xref: MESH:A16.254.500 xref: SCTID:308799002 xref: TAO:0000529 xref: UMLS:C0025492 xref: VHOG:0000038 xref: XAO:0000141 xref: ZFA:0000529 xref: http://upload.wikimedia.org/wikipedia/commons/a/ad/Gray986.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ad/Gray986.png/200px-Gray986.png xref: ncithesaurus:Mesonephros is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002113 ! kidney relationship: develops_from UBERON:0002120 ! pronephros property_value: external_definition "A kidney formed of nephric tubules arising in the middle region of the nephric ridge; a transient embryonic stage that replaces the pronephros, but is itself replaced by the adult metanephros [in mammals; in fishes and amphibians it is the adult kidney]. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Kardong_KV, Vertebrates:_Comparative_Anatomy, p.745][VHOG]" xsd:string property_value: external_definition "Organ that is the definitive adult kidney. It replaces the earlier pronephros, which degenerates as the mesonephros becomes functional in feeding stage tadpoles.[AAO]" xsd:string property_value: has_relational_adjective "mesonephric" xsd:string property_value: homology_notes "As the pronephros regresses, the archinephric duct induces the sequential differentiation of tubules in the more caudal parts of the nephric ridge. (...) Tubules that differentiate in the middle part of the nephric ridge form a kidney called the mesonephros. This kidney functions in the embryos and larvae of all vertebrates. (...) In all vertebrate embryos, the kidney begins with the differentiation of a few renal tubules from the anterior end of the nephric ridge overlying the pericardial cavity. (...) This early-developing embryonic kidney is called the pronephros.[well established][VHOG]" xsd:string [Term] id: UBERON:0000081 name: metanephros namespace: uberon def: "In mammals, the metanephros is the excretory organ of the fetus, which develops into the mature kidney and is formed from the rear portion of the nephrogenic cord. The metanephros is an endocrine and metabolic organ that filters the blood and excretes the end products of body metabolism in the form of urine[GO]. During the fifth week of gestation, the mesonephric duct develops an outpouching, the ureteric bud, near its attachment to the cloaca. This bud, also called the metanephrogenic diverticulum, grows posteriorly and towards the head of the embryo. The elongated stalk of the ureteric bud, the metanephric duct, later forms the ureter. As the cranial end of the bud extends into the intermediate mesoderm, it undergoes a series of branchings to form the collecting duct system of the kidney. It also forms the major and minor calyces and the renal pelvis." [GO:0001656, Wikipedia:Metanephros#Metanephros] comment: TODO check developmental relationships subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "definite kidney" RELATED [BTO:0001543] synonym: "definitive kidney" RELATED [BTO:0001543] synonym: "hind kidney" RELATED [BTO:0001543] synonym: "metanephric kidney" RELATED [VHOG:0000039] synonym: "metanephron" EXACT [BTO:0001543] xref: BTO:0001543 xref: EHDAA2:0001137 xref: EHDAA:3089 xref: EHDAA:5911 xref: EMAPA:17207 xref: EMAPA:17373 xref: FMA:72172 xref: SCTID:308797000 xref: UMLS:C0231049 xref: VHOG:0000039 xref: ncithesaurus:Metanephros is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002113 ! kidney relationship: developmentally_replaces UBERON:0000080 ! mesonephros relationship: develops_from UBERON:0003220 ! metanephric mesenchyme relationship: develops_from UBERON:0005080 ! metanephric ureteric bud relationship: develops_from UBERON:0005753 ! caudal part of nephrogenic cord property_value: external_definition "A kidney formed of nephric tubules arising in the posterior region of the nephric ridge and drained by a ureter; replaces the embryonic pronephros and mesonephros [in mammals]. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Kardong_KV, Vertebrates:_Comparative_Anatomy, p.745][VHOG]" xsd:string property_value: has_relational_adjective "metanephric" xsd:string property_value: homology_notes "The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes.[well established][VHOG]" xsd:string [Term] id: UBERON:0000082 name: adult mammalian kidney namespace: uberon is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002113 ! kidney relationship: develops_from UBERON:0000081 ! metanephros relationship: develops_from UBERON:0000084 ! ureteric bud [Term] id: UBERON:0000083 name: mesonephric tubule namespace: uberon def: "A mesonephric tubule is an epithelial tube that is part of the mesonephros[GO]. Genital ridge that is next to the mesonephros[WP]." [Wikipedia:Mesonephric_tubules] comment: TODO check synonym: "renal tubules" RELATED PLURAL [VHOG:0000500] synonym: "tubuli mesonephrici" RELATED LATIN [Wikipedia:Mesonephric_tubules] xref: AAO:0010389 xref: EHDAA2:0001134 xref: EMAPA:27588 xref: EMAPA:27659 xref: VHOG:0000500 xref: XAO:0000148 is_a: UBERON:0005103 ! mesonephric epithelium is_a: UBERON:0006555 ! excretory tube intersection_of: UBERON:0003914 ! epithelial tube intersection_of: part_of UBERON:0000080 ! mesonephros property_value: external_definition "Any of the renal tubules composing the mesonephros. In mammals they function as excretory structures during the early embryonic development but are later incorporated into the reproductive system. [TFD][VHOG]" xsd:string property_value: homology_notes "As the pronephros regresses, the archinephric duct induces the sequential differentiation of tubules in the more caudal parts of the nephric ridge. (...) Tubules that differentiate in the middle part of the nephric ridge form a kidney called the mesonephros. This kidney functions in the embryos and larvae of all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000084 name: ureteric bud namespace: uberon def: "a protrusion from the mesonephric duct during the development of the urinary and reproductive organs. It later develops into the adult kidney, except for the nephrons, which, in contrast, originate from the metanephric blastema[WP]. epithelial swelling on the Wolffian duct that elongates to invade the adjacent metanephric mesenchyme[MP]" [MP:0010979, PMID:19828308, Wikipedia:Ureteric_bud, https://sourceforge.net/tracker/?group_id=36855&atid=440764] synonym: "diverticulum" RELATED [BTO:0001646] synonym: "diverticulum metanephricum" RELATED LATIN [Wikipedia:Ureteric_bud] synonym: "gemma ureterica" RELATED LATIN [Wikipedia:Ureteric_bud] synonym: "metanephric bud" RELATED [BTO:0001646] synonym: "metanephric diverticulum" RELATED [Wikipedia:Metanephros#Metanephros] synonym: "ureteric ampulla" RELATED [] synonym: "ureteric diverticulum" RELATED [VHOG:0000541] xref: BTO:0001646 xref: EHDAA2:0002140 xref: EHDAA:3091 xref: EHDAA:5917 xref: EMAPA:17209 xref: EMAPA:17376 xref: SCTID:361528000 xref: UMLS:C1284058 xref: VHOG:0000541 xref: ncithesaurus:Metanephric_Diverticulum is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0003074 ! mesonephric duct relationship: induced_by UBERON:0003220 ! metanephric mesenchyme relationship: part_of UBERON:0003074 ! mesonephric duct property_value: external_definition "Outgrowth of the mesonephric duct that penetrates the metanephric mesoderm and forms the ureter, renal pelvis, major and minor calyces and collecting ducts. [Embryology, See_Dudek_RW_and_Fix_JD, Third_Edition_(2004)_Philadelphia:_Lippincott_William_and_Wilkins, p.137][VHOG]" xsd:string property_value: homology_notes "The first embryonic hint of a metanephros is the formation of the metanephric duct that appears as a ureteric diverticulum arising at the base of preexisting mesonephric duct. The ureteric diverticulum grows dorsally into the posterior region of the nephric ridge. Here it enlarges and stimulates the growth of metanephric tubules that come to make up the metanephric kidney. The metanephros becomes the adult kidney of amniotes, and the metanephric duct is usually called the ureter.[well established][VHOG]" xsd:string [Term] id: UBERON:0000085 name: morula namespace: uberon def: "An embryo at an early stage of embryonic development, consisting of cells (called blastomeres) in a solid ball contained within the zona pellucida[WP] The compacted embryo before cavity formation." [Wikipedia:Morula] comment: EHDAA2 has embryo starting later synonym: "morula (2-16 cells)" RELATED [EHDAA2:0000005] xref: BTO:0001508 xref: EHDAA2:0000005 xref: GAID:1295 xref: MESH:A16.254.270.550 xref: SCTID:361474003 xref: UMLS:C0026573 xref: XAO:1000029 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c6/Blastulation.png/200px-Blastulation.png xref: ncithesaurus:Morula is_a: UBERON:0000922 ! embryo relationship: has_part CL:0000353 ! blastoderm cell relationship: part_of UBERON:0004716 ! conceptus relationship: surrounded_by UBERON:0000086 ! zona pellucida [Term] id: UBERON:0000086 name: zona pellucida namespace: uberon def: "A glycoprotein membrane surrounding the plasma membrane of an oocyte. It is a vital constitutive part of the latter, external but not extraneous to it. The zona pellucida first appears in multilaminar primary oocytes." [Wikipedia:Zona_pellucida] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "oolemma" RELATED [BTO:0003135] synonym: "pellucid zone" RELATED [BTO:0003135] synonym: "striated membrane" RELATED [BTO:0003135] synonym: "vitelline envelope" RELATED [] synonym: "vitelline membrane" RELATED [] synonym: "zona pellucida - vitelline membrane" BROAD [VHOG:0000720] synonym: "zona radiata" RELATED [BTO:0003135] synonym: "zona striata" RELATED [BTO:0003135] xref: BTO:0003135 xref: EHDAA2:0002220 xref: EHDAA:31 xref: EHDAA:62 xref: EMAPA:16035 xref: EMAPA:16049 xref: FMA:18674 xref: GAID:410 xref: MA:0001715 xref: MESH:A05.360.490.690.950 xref: TAO:0001111 xref: UMLS:C0043519 xref: VHOG:0000720 xref: ZFA:0001111 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray3.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Gray3.png/200px-Gray3.png xref: ncithesaurus:Zona_Pellucida is_a: UBERON:0000476 ! acellular anatomical structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000992 ! female gonad relationship: surrounds CL:0000023 ! oocyte property_value: homology_notes "Outside the plasma membrane, three envelopes surround the ovum. The first, the primary egg envelope, lies between the plasma membrane and the surrounding cells of the ovary. The most consistent component of this primary layer is the vitelline membrane, a transparent jacket of fibrous protein. In mammals, the homologous structure is called the zona pellucida.[well established][VHOG]" xsd:string [Term] id: UBERON:0000087 name: inner cell mass namespace: uberon def: "Mass of cells inside the primordial embryo that will eventually give rise to the definitive structures of the fetus. This structure forms in the earliest steps of development, before implantation into the endometrium of the uterus has occurred. The ICM lies within the blastocoele (more correctly termed 'blastocyst cavity', as it is not strictly homologous to the blastocoele of anamniote vertebrates) and is entirely surrounded by the single layer of cells called trophoblast." [Wikipedia:Inner_cell_mass] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "ICM" RELATED [VHOG:0000742] synonym: "embryoblast" RELATED [] synonym: "embryoblastus; massa cellularis interna; pluriblastus senior" RELATED LATIN [Wikipedia:Inner_cell_mass] synonym: "pluriblast" RELATED [] xref: EFO:0000547 xref: EHDAA2:0000830 xref: EHDAA:40 xref: EMAPA:16041 xref: FMA:86557 xref: SCTID:361456007 xref: UMLS:C1283994 xref: VHOG:0000742 xref: http://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/72/Blastocyst_English.svg/200px-Blastocyst_English.svg.png xref: ncithesaurus:Inner_Cell_Mass is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000085 ! morula relationship: develops_from UBERON:0000358 ! blastocyst relationship: part_of UBERON:0000922 ! embryo relationship: surrounded_by UBERON:0000088 ! trophoblast property_value: external_definition "A group of cells found in the mammalian blastocyst that give rise to the embryo. [Biology_Online][VHOG]" xsd:string property_value: homology_notes "A small sphere of cells known as the inner cell mass lies within the trophoblast (of all eutherian mammals).[well established][VHOG]" xsd:string [Term] id: UBERON:0000088 name: trophoblast namespace: uberon def: "Aggregate of cells forming the outer layer of a blastocyst, which provide nutrients to the embryo and develop into a large part of the placenta. They are formed during the first stage of pregnancy and are the first cells to differentiate from the fertilized egg." [Wikipedia:Trophoblast] comment: Development notes: The postimplantation derivatives of the trophectoderm, which make up most of the fetal part of the placenta[PMID:19829370] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "massa cellularis externa" RELATED LATIN [Wikipedia:Trophoblast] synonym: "trophoblast layer" RELATED [MP:0005031] synonym: "trophoblastus" RELATED LATIN [Wikipedia:Trophoblast] synonym: "trophoderm" RELATED [BTO:0001079] xref: BTO:0001079 xref: EV:0100120 xref: FMA:83029 xref: GAID:1152 xref: MESH:A11.936 xref: SCTID:362839005 xref: UMLS:C0041178 xref: http://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/72/Blastocyst_English.svg/200px-Blastocyst_English.svg.png xref: ncithesaurus:Trophoblast is_a: UBERON:0002050 ! embryonic structure relationship: composed_primarily_of CL:0000351 ! trophoblast cell relationship: develops_from UBERON:0004345 ! trophectoderm relationship: part_of UBERON:0000358 ! blastocyst property_value: external_definition "the mesectodermal cell layer arising from the trophectoderm that erodes the uterine mucosa and contributes to the formation of the placenta[MP]" xsd:string property_value: has_relational_adjective "trophoblastic" xsd:string [Term] id: UBERON:0000089 name: hypoblast (generic) namespace: uberon def: "." [Wikipedia:Hypoblast, https://sourceforge.net/tracker/?func=detail&aid=3560500&group_id=36855&atid=440764] comment: this term groups together disparate structures with different relationships. TODO - consider relationship to UBERON:0000091 subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "endomesoderm" RELATED [VHOG:0001222] synonym: "hypoblast" EXACT [VHOG:0001222] synonym: "hypoblastus" RELATED LATIN [Wikipedia:Hypoblast] synonym: "mesendoderm" RELATED [ZFIN:ZDB-PUB-961014-576] xref: AAO:0000229 xref: AAO:0010619 xref: BTO:0003953 xref: EFO:0001930 xref: MAT:0000418 xref: MIAA:0000418 xref: TAO:0000117 xref: UMLS:C1512561 xref: VHOG:0001222 xref: XAO:0003044 xref: ZFA:0000117 xref: http://upload.wikimedia.org/wikipedia/commons/0/02/Cell_differentiation_gastrula.PNG xref: http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png xref: ncithesaurus:Hypoblast is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004750 ! blastoderm property_value: external_definition "A primary germ layer that can give rise to both mesoderm and endoderm.[AAO]" xsd:string property_value: external_definition "The inner of the two layers of the blastoderm that forms during gastrulation and give rise to the definitive mesoderm and endoderm. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "In mammal and avian, extraembryonic endoderm such as visceral endoderm and hypoblast play essential roles in the embryonic axis formation and germ layer development. These extraembryonic tissues are generally considered to have been created in ancestral amniotes evolved from the Xenopus-type ancestor (reference 1); The endomesoderm secretes as yet unidentified signals that posteriorize the ectoderm, which would otherwise adopt an anterior fate. Our results point to a conserved function at the base of deuterostomes for beta-catenin in germ layer specification and to a causal link in the definition of the posterior part of the embryonic ectoderm by way of activating posteriorizing endomesodermal factors (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0000090 name: blastocele namespace: uberon def: "fluid-filled central region of a blastocyst. A blastocoele forms during embryogenesis when a zygote (a fertilized ovum) divides into many cells through mitosis." [Wikipedia:Blastocele] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "blastocoel" RELATED [VHOG:0000811] synonym: "blastocoele" EXACT [] synonym: "blastocoelic cavity" EXACT [EHDAA2:0000175] synonym: "blastocyst cavity" EXACT [] synonym: "cleavage cavity" EXACT [] synonym: "segmentation cavity" EXACT [] xref: AAO:0010433 xref: EHDAA2:0000175 xref: EHDAA:50 xref: EMAPA:16044 xref: SCTID:361455006 xref: VHOG:0000811 xref: XAO:0000294 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Blastocyst.gif/200px-Blastocyst.gif is_a: UBERON:0002553 ! anatomical cavity relationship: surrounded_by UBERON:0002532 ! epiblast (generic) property_value: dubious_for_taxon NCBITaxon:7955 property_value: external_definition "A blastocoel forms during embryogenesis when a zygote (a fertilized ovum) divides into many cells through mitosis. The blastocoel is the cavity of the blastula, a closed space which is invaded by early mesenchyme and later obliterated by the enlarging archenteron.[AAO]" xsd:string property_value: external_definition "The cavity inside the blastula. [The_evolution_of_organ_systems_(2007)_Oxford:_Oxford_University_Press, p.150, see_Schmidt-Rhaesa_A][VHOG]" xsd:string property_value: homology_notes "In the development of many animals, a hollow blastula stage is formed during early embryogenesis. Such a hollow blastula is even regarded as an autapomorphy of Metazoa and is present already in some sponges.[well established][VHOG]" xsd:string [Term] id: UBERON:0000091 name: bilaminar disc namespace: uberon def: "the epiblast and the hypoblast, evolved from the embryoblast" [Wikipedia:Bilaminar_disc] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "bilaminar disk" RELATED [Wikipedia:Bilaminar_disc] synonym: "bilaminary embryonic disc" EXACT [] synonym: "bilaminary germ disc" EXACT [ISBN:9780878932504] xref: UMLS:C1283997 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e3/Gray21.png/200px-Gray21.png xref: ncithesaurus:Bilaminar_Embryonic_Disc is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000087 ! inner cell mass [Term] id: UBERON:0000092 name: post-embryonic stage namespace: uberon def: "stage succeeding embryo, including mature structure" [UBERON:cjm] comment: In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997) synonym: "post-hatching stage" NARROW [] synonym: "postembryonic" RELATED [] synonym: "postembryonic stage" EXACT [] xref: BilaDO:0000003 xref: MmusDv:0000030 xref: OGES:000010 xref: OGES:000014 xref: OGES:000024 xref: WBls:0000022 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000104 ! life cycle relationship: preceded_by UBERON:0000068 ! embryo stage relationship: simultaneous_with GO:0009791 ! post-embryonic development [Term] id: UBERON:0000093 name: sulcus namespace: uberon def: "a depression or fissure in the surface of an organ." [Wikipedia:Sulcus_(anatomy)] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: non_informative ! abstract class brought in to group ontology classes but not informative is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0000094 name: membrane organ namespace: uberon def: "Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]" [FMA:7145] synonym: "membrane of organ" EXACT [] xref: FMA:7145 is_a: UBERON:0000062 ! organ [Term] id: UBERON:0000095 name: cardiac neural crest namespace: uberon def: "portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]" [Wikipedia:Cardiac_neural_crest] comment: AO notes - ZFA treats this as a subtype of NC. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac neural crest complex" RELATED [Wikipedia:Cardiac_neural_crest] synonym: "complexus cristae neuralis cardiacus" RELATED [Wikipedia:Cardiac_neural_crest] xref: TAO:0002173 xref: XAO:0004190 xref: ZFA:0001648 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: overlaps UBERON:0005428 ! vagal neural crest relationship: part_of UBERON:0002342 ! neural crest [Term] id: UBERON:0000100 name: blastopore namespace: uberon def: "Structure around the opening into the archenteron during the embryonic stages of an organism. The distinction between protostomes and deuterostomes is based on the direction in which the mouth (stoma) develops in relation to the blastopore." [Wikipedia:Blastopore] comment: In protostome development, the first opening in development, the blastopore, becomes the animal's mouth; In deuterostome development, the blastopore becomes the animal's anus subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: metazoa_core ! core classes typically found across metazoa. one purpose is to create a rough set of terms that could be used to start a new metazoan AO. Note this subset is not yet fully fleshed out xref: AAO:0000045 xref: BTO:0001695 xref: XAO:0000208 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0004735 ! archenteron property_value: dubious_for_taxon NCBITaxon:7955 property_value: external_definition "A slit-like invagination on the dorsal side of the blastula surface of the embryo where the mesoderm and endoderm move inside the embryo at gatrulation.[AAO]" xsd:string [Term] id: UBERON:0000101 name: lobe of lung namespace: uberon def: "A lung lobe is one of the rounded projections that compose the lung[GO]." [GOC:GO] synonym: "lung lobe" EXACT [] synonym: "pulminory lobe" EXACT [] synonym: "pulmonary lobe" EXACT [FMA:7311] xref: FMA:7311 xref: OpenCyc:Mx4rvo6-vpwpEbGdrcN5Y29ycA xref: SCTID:245524004 xref: UMLS:C0225752 xref: galen:LobeOfLung xref: ncithesaurus:Lung_Lobe is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000102 name: lung vasculature namespace: uberon def: "The lung vasculature is composed of the tubule structures that carry blood or lymph in the lungs[GO]." [GOC:GO] synonym: "lung vascular network" EXACT [OBOL:automatic] synonym: "pulmonary vasculature" EXACT [FMA:73750] synonym: "vascular network of lung" EXACT [OBOL:automatic] synonym: "vasculature of lung" EXACT [OBOL:automatic] xref: FMA:73750 is_a: UBERON:0002049 ! vasculature is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000103 name: life cycle stage boundary namespace: uberon def: "Instant starting or ending a life cycle stage. These can be arbitrary/fiat." [UBERON:cjm] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "life cycle stage transition event" EXACT [] synonym: "life cycle stage transition instant" EXACT [] xref: span:ProcessBoundary is_a: UBERON:0000000 ! processual entity disjoint_from: UBERON:0000105 ! life cycle stage [Term] id: UBERON:0000104 name: life cycle namespace: uberon def: "An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism." [UBERON:cjm] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "life" EXACT [] synonym: "lifespan" EXACT [] xref: FBdv_root:00000000 xref: HsapDv:0000000 xref: MmusDv:0000000 xref: OGES:000011 xref: ncithesaurus:Life is_a: UBERON:0000105 ! life cycle stage [Term] id: UBERON:0000105 name: life cycle stage namespace: uberon def: "A spatiotemporal region encompassing some part of the life cycle of an organism." [UBERON:cjm] comment: Editor notes: we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "developmental stage" EXACT [] synonym: "stage" NARROW [] xref: BILS:0000105 xref: EFO:0000399 xref: MmusDv:0000001 xref: OlatDv:0000010 xref: WBls:0000002 xref: XAO:1000000 xref: ZFS:0000000 xref: ZFS:0100000 xref: ncithesaurus:Developmental_Stage is_a: UBERON:0000000 ! processual entity relationship: has_end UBERON:0000103 ! life cycle stage boundary relationship: has_start UBERON:0000103 ! life cycle stage boundary [Term] id: UBERON:0000106 name: zygote stage namespace: uberon def: "A stage at which the organism is a single cell produced by means of sexual reproduction." [Wikipedia:Zygote] synonym: "1-cell stage" EXACT [] synonym: "fertilized egg stage" EXACT [BTO:0000854] synonym: "one cell stage" EXACT [] synonym: "one-cell stage" RELATED [VHOG:0000745] synonym: "zygote" RELATED [VHOG:0000745] synonym: "zygotum" RELATED LATIN [Wikipedia:Zygote] xref: BILS:0000106 xref: BilaDO:0000005 xref: EFO:0001322 xref: EHDAA:27 xref: EMAPA:16033 xref: FBdv:00005288 xref: VHOG:0000745 xref: XAO:1000001 xref: ZFS:0000001 is_a: UBERON:0000067 ! embryo stage part is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: starts UBERON:0000104 ! life cycle property_value: homology_notes "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" xsd:string [Term] id: UBERON:0000107 name: cleavage stage namespace: uberon def: "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." [GO:0040016, Wikipedia:Cleavage_(embryo)] xref: BILS:0000107 xref: BilaDO:0000006 xref: EFO:0001290 xref: MESH:A16.254.270 xref: MmusDv:0000004 xref: OGES:000015 xref: OGES:000020 xref: XAO:1000004 xref: ZFS:0000046 is_a: UBERON:0000067 ! embryo stage part relationship: immediately_preceded_by UBERON:0000106 ! zygote stage relationship: part_of UBERON:0000068 ! embryo stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: simultaneous_with GO:0040016 ! embryonic cleavage [Term] id: UBERON:0000108 name: blastula stage namespace: uberon def: "An early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [Wikipedia:Blastula] xref: BILS:0000108 xref: BilaDO:0000007 xref: EFO:0001282 xref: HsapDv:0000006 xref: MmusDv:0000007 xref: OGES:000003 xref: OGES:000016 xref: OGES:000021 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg xref: XAO:1000003 xref: ZFS:0000045 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c6/Blastulation.png/200px-Blastulation.png is_a: UBERON:0000067 ! embryo stage part is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage [Term] id: UBERON:0000109 name: gastrula stage namespace: uberon def: "A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GO:0007369] synonym: "blastocystis trilaminaris stage" RELATED [UBERON:cjm] synonym: "trilaminar blastocyst stage" RELATED [UBERON:cjm] synonym: "trilaminar blastoderm stage" RELATED [UBERON:cjm] synonym: "trilaminar disk stage" RELATED [UBERON:cjm] synonym: "trilaminar germ stage" RELATED [UBERON:cjm] synonym: "trilaminar stage" RELATED [UBERON:cjm] xref: BILS:0000109 xref: BilaDO:0000008 xref: EFO:0001296 xref: FBdv:00005317 xref: HsapDv:0000010 xref: MmusDv:0000013 xref: OGES:000004 xref: OGES:000019 xref: XAO:1000005 xref: ZFS:0000047 is_a: UBERON:0000067 ! embryo stage part is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 ! blastula stage relationship: simultaneous_with GO:0007369 ! gastrulation [Term] id: UBERON:0000110 name: neurula stage namespace: uberon def: "Staged defined by the formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GO:0001841] xref: BILS:0000110 xref: BilaDO:0000009 xref: HsapDv:0000012 xref: MmusDv:0000016 xref: XAO:1000006 is_a: UBERON:0000067 ! embryo stage part is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage relationship: simultaneous_with GO:0001841 ! neural tube formation [Term] id: UBERON:0000111 name: organogenesis stage namespace: uberon def: "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." [Wikipedia:Organogenesis] synonym: "segmentation stage" RELATED [] xref: BILS:0000111 xref: BilaDO:0000010 xref: HsapDv:0000015 xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 is_a: UBERON:0000067 ! embryo stage part is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000110 ! neurula stage relationship: simultaneous_with GO:0048513 ! organ development [Term] id: UBERON:0000112 name: juvenile stage namespace: uberon comment: Consider renaming this to '(sexually) immature stage'; in mammals this would include infant (nourishment from lactation) and juvenile (prepubertal no longer dependent on mother) synonym: "immature stage" EXACT [VHOG:FB] xref: BILS:0000112 xref: BTO:0002168 xref: EFO:0001300 xref: EV:0300051 xref: OGES:000009 xref: TS28 xref: XAO:1000010 xref: XtroDO:0000083 xref: ZFS:0000051 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage property_value: external_definition "The stage of being a sexually immature adult animal[XAO:1000010]." xsd:string [Term] id: UBERON:0000113 name: post-juvenile adult stage namespace: uberon def: "The stage of being a sexually mature adult animal." [UBERON:cjm] synonym: "adult stage" BROAD [] xref: BILS:0000113 xref: EFO:0001272 xref: EV:0300064 xref: EV:0300070 xref: MIAA:0000403 xref: MmusDv:0000039 xref: MmusDv:0000040 xref: OGES:000026 xref: OGES:000027 xref: XAO:1000009 xref: ZFS:0000044 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage relationship: preceded_by UBERON:0000112 ! juvenile stage [Term] id: UBERON:0000114 name: lung connective tissue namespace: uberon def: "A portion of connective tissue that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of lung" EXACT [OBOL:automatic] synonym: "lung interstitial tissue" RELATED [MA:0001782] synonym: "lung portion of connective tissue" EXACT [OBOL:automatic] synonym: "lung textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lung" EXACT [OBOL:automatic] synonym: "textus connectivus of lung" EXACT [OBOL:automatic] xref: MA:0001782 xref: SCTID:201609008 is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0003580 ! lower respiratory tract connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000115 name: lung epithelium namespace: uberon def: "the epithelial layer of the lung." [MP:0006382] synonym: "epithelial tissue of lung" EXACT [OBOL:automatic] synonym: "epithelium of lung" EXACT [OBOL:automatic] synonym: "lung epithelial tissue" EXACT [OBOL:automatic] synonym: "pulmonary epithelium" RELATED [BTO:0001653] xref: BTO:0001653 xref: MA:0001783 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004815 ! lower respiratory tract epithelium relationship: develops_from UBERON:0001041 ! foregut intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000116 name: lung saccule namespace: uberon def: "Primitive gas exchange portion of the lung composed of type I and type II cells[GO]." [GO:0060430] is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002299 ! alveolus of lung [Term] id: UBERON:0000117 name: respiratory tube namespace: uberon def: "A tube in the respiratory tract." [GO:0030323] comment: Consider merging into respiratory tract synonym: "segment of tracheobronchial tree" NARROW [FMA:12224] synonym: "tracheobronchial tree segment" NARROW [FMA:12224] xref: FMA:12224 is_a: UBERON:0000025 ! tube is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000025 ! tube intersection_of: part_of UBERON:0000065 ! respiratory tract [Term] id: UBERON:0000118 name: lung bud namespace: uberon def: "Structure derived from foregut that becomes a lung[GO]." [GO:0060431, Wikipedia:Respiratory_bud] comment: Editors note: clarify successors - include bronchi? synonym: "gemma pulmonalis" RELATED LATIN [Wikipedia:Lung_buds] synonym: "gemma respiratoria" RELATED LATIN [Wikipedia:Lung_buds] synonym: "lung bud" RELATED PLURAL [] synonym: "primary lung bud" RELATED [GO:0060572] synonym: "respiratory diverticulum" RELATED [Wikipedia:Lung_buds] xref: BTO:0001643 xref: EHDAA2:0004089 xref: SCTID:361427007 xref: UMLS:C1514420 xref: UMLS:C1514897 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/71/Gray948.png/200px-Gray948.png xref: ncithesaurus:Primary_Bronchial_Bud xref: ncithesaurus:Respiratory_Diverticulum is_a: UBERON:0005153 ! epithelial bud is_a: UBERON:0005911 ! endo-epithelium relationship: adjacent_to UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0005597 ! lung primordium relationship: develops_from UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0000119 name: cell layer namespace: uberon def: "Portion of tissue, that consists of one or more layers of cells connected to each other by cell junctions" [UBERON:cjm] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cell sheath" RELATED [] synonym: "layer of cells" EXACT [] is_a: UBERON:0000479 ! tissue relationship: has_part CL:0000213 ! lining cell [Term] id: UBERON:0000120 name: blood brain barrier namespace: uberon def: "Cell layer consisting of lining cells that separates the central nervous system and the bloodstream. The BBB may consist of endothelial cells or glial cells. An endothelial barrier may have arisen independently several times during evolution. In bichir and lungfish the barrier is formed by brain endothelial cells, while in sturgeon it is formed by a complex perivascular glial sheath, but with no detectable tight junctions." [DOI:10.1002/glia.20642, Wikipedia:Blood-brain_barrier] synonym: "BBB" RELATED [] synonym: "blood-brain barrier" EXACT [] xref: UMLS:C0005854 xref: ncithesaurus:Blood-Brain_Barrier is_a: UBERON:0000119 ! cell layer relationship: adjacent_to UBERON:0000179 ! haemolymphatic fluid relationship: adjacent_to UBERON:0000955 ! brain [Term] id: UBERON:0000121 name: perineurium namespace: uberon def: "Connective tissue surrounding a fascicle." [Wikipedia:Perineurium] comment: consider FBbt:00007090 (perineurium): The outer two layers of glial cells that cover the central nervous system and the nerves. The outer layer is the perineurial sheath (sometimes referred to as the perineurial sheath outer layer); the inner layer is the sub-perineural glial sheath (sometimes referred to as the perineurial sheath inner layer) xref: BTO:0003153 xref: FMA:52585 xref: NIF_GrossAnatomy:nlx_anat_090205 xref: SCTID:362299001 xref: UMLS:C0205890 xref: http://upload.wikimedia.org/wikipedia/commons/9/9c/Gray636.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9c/Gray636.png/200px-Gray636.png xref: ncithesaurus:Perineurium is_a: UBERON:0002384 ! connective tissue relationship: surrounds UBERON:0001019 ! fascicle [Term] id: UBERON:0000122 name: neuron projection bundle namespace: uberon alt_id: UBERON:0005163 def: "A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses." [CARO:0001001, FBC:DOS, FBbt:00005099] synonym: "funiculus" EXACT [] synonym: "nerve fiber bundle" EXACT [FBbt:00005099] synonym: "neural fiber bundle" EXACT [] xref: CARO:0001001 xref: FBbt:00005099 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005162 ! multi cell component structure relationship: has_part GO:0043005 ! neuron projection relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0000123 name: endoneurium namespace: uberon def: "a layer of delicate connective tissue that encloses the myelin sheath of a nerve fiber within a funiculus." [Wikipedia:Endodeurium] xref: FMA:52586 xref: NIF_GrossAnatomy:nlx_anat_090202 xref: SCTID:15931004 xref: UMLS:C0205888 xref: ncithesaurus:Endoneurium is_a: UBERON:0002384 ! connective tissue relationship: surrounds UBERON:0000347 ! myelin sheath relationship: surrounds UBERON:0001021 ! nerve [Term] id: UBERON:0000124 name: epineurium namespace: uberon def: "outermost layer of connective tissue surrounding a peripheral nerve. It includes the blood vessels supplying the nerve. It consists of adipose tissue and fibrocollagenous tissues." [Wikipedia:Epineurium] xref: BTO:0003154 xref: FMA:12234 xref: NIF_GrossAnatomy:nlx_anat_090203 xref: SCTID:64482002 xref: UMLS:C0205889 xref: http://upload.wikimedia.org/wikipedia/commons/9/9c/Gray636.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9c/Gray636.png/200px-Gray636.png xref: ncithesaurus:Epineurium is_a: UBERON:0002384 ! connective tissue relationship: surrounds UBERON:0002003 ! peripheral nerve [Term] id: UBERON:0000125 name: neural nucleus namespace: uberon def: "Anatomical structure consisting of a discrete aggregate of neuronal soma[GO]." [GO:0048857, GO_REF:0000021, Wikipedia:Nucleus_(neuroanatomy)] comment: do not include NIF_Subcellular:sao1702920020 Nucleus. Proposed CUMBO def from MM: A subcortical part of the nervous system consisting of a relatively compact group of cells that is distinguishable histologically that share a commonality of cytoarchitecture, chemoarchitecturel and connectivity. (comments: I put in \"subcortical\" because I don't think we consider either the cerebellar cortex or cerebral cortex to be nuclei. Some people distinguish between a nucleus and a laminar structure (see Wikipedia definition). However, there are structures identified as nuclei that are laminar, e.g., lateral geniculate nucleus, although they are not laminated in all species. Also, I put in \"relatively compact\" and \"distiguishable by histology\" because we have groups of cells, e.g., cholinergic cell groups, doparminergic cell groups that are related on the 3 criteria but which we don't tend to consider nuclei because they don't occupy an easily defined territory. But all is open to debate. synonym: "neuraxis nucleus" EXACT [FMA:83686] synonym: "neuronal nucleus" EXACT [AEO:0000136] synonym: "nucleus" BROAD [] synonym: "nucleus of neuraxis" RELATED [] xref: AEO:0000136 xref: FMA:83686 is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0000481 ! multi-tissue structure relationship: has_part UBERON:0001022 ! cell body relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0000126 name: cranial nerve nucleus namespace: uberon def: "collection of neurons (gray matter) in the brain stem that is associated with one or more cranial nerves." [Wikipedia:Cranial_nerve_nucleus] synonym: "cranial neural nucleus" EXACT [FMA:54501] synonym: "nucleus nervi cranialis" RELATED LATIN [Wikipedia:Cranial_nerve_nucleus] synonym: "nucleus of cranial nerve" EXACT [] xref: FMA:54501 xref: SCTID:280160003 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: overlaps UBERON:0001785 ! cranial nerve [Term] id: UBERON:0000127 name: facial nucleus namespace: uberon comment: FMA has 3 subclasses - left, right and motor nucleus of facial nerve, but no defs. It's not clear how facial nucleus is distinct from facial motor nucleus. synonym: "facial VII motor nucleus" RELATED [MA:0001014] synonym: "facial VII nucleus" EXACT [MA:0001014] synonym: "facial nerve nucleus" EXACT [] synonym: "nucleus of facial nerve" EXACT [FMA:54572] xref: BM:Pons-VII xref: EHDAA2:0004638 xref: EV:0100267 xref: FMA:54572 xref: MA:0001014 xref: SCTID:280166009 xref: UMLS:C0228740 xref: VHOG:0001412 xref: ncithesaurus:Facial_Nerve_Nucleus is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: immediate_transformation_of UBERON:0010123 ! future facial nucleus relationship: part_of UBERON:0000988 ! pons [Term] id: UBERON:0000128 name: olivary body namespace: uberon def: "prominent oval structure in the medulla oblongata, present in pairs, the lower portion of the brainstem. They contain the olivary nuclei" [Wikipedia:Olivary_body] synonym: "oliva" RELATED LATIN [Wikipedia:Olivary_body] synonym: "olive" RELATED [] synonym: "olive body" EXACT [] xref: BTO:0002299 xref: SCTID:279293003 xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Gray679.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9a/Gray679.png/200px-Gray679.png is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0000130 name: transverse foramen namespace: uberon def: "Foramen that pierces the transverse processes of the seven cervical vertebrae. In the upper six vertebrae, the foramen gives passage to the vertebral artery, vertebral vein, and a plexus of sympathetic nerves. The seventh foramen lacks the artery, but contains the vein and sympathetic nerves." [Wikipedia:Transverse_foramen] synonym: "foramen transversarium" EXACT LATIN [Wikipedia:Transverse_foramen] synonym: "foramen transversarium of cervical vertebra" EXACT [FMA:23998] synonym: "transverse foramen of cervical vertebra" EXACT [FMA:23997] xref: FMA:23997 xref: SCTID:280735005 xref: http://upload.wikimedia.org/wikipedia/commons/3/3c/Gray84.png is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0010276 ! vertebral column opening relationship: part_of UBERON:0001077 ! transverse process of vertebra relationship: part_of UBERON:0002413 ! cervical vertebra [Term] id: UBERON:0000144 name: trochlea of humerus namespace: uberon def: "The medial portion of the articular surface of the humerus is named the trochlea, and presents a deep depression between two well-marked borders; it is convex from before backward, concave from side to side, and occupies the anterior, lower, and posterior parts of the extremity. It is directly inferior to the most prominent anterior humeral fossia, the Coronoid fossia. It articulates with the ulna." [Wikipedia:Trochlea_of_humerus] synonym: "humeral trochlea" EXACT [FMA:23370] xref: FMA:23370 xref: SCTID:282817004 xref: http://upload.wikimedia.org/wikipedia/commons/4/4b/Trochleahumeri.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0004404 ! distal epiphysis of humerus [Term] id: UBERON:0000151 name: pectoral fin namespace: uberon def: "The paired pectoral fins are located on each side, usually just behind the operculum, and are homologous to the forelimbs of tetrapods." [Wikipedia:Pectoral_fin#Fins] comment: check definition of limb such that is excludes fins. Note the GO includes pectoral and pelvic fins as types of limbs. The Actinopterygii (ray finned fish) pectoral and pelvic fins aren't homologous as fore- or hindlimbs to those of tetrapods, whereas those of the Sarcopterygii (lobe finned fish) are in fact homologous. synonym: "forefin" EXACT [VSAO:0000147] synonym: "nageoire pectorale@fr" RELATED [VSAO:0000147] synonym: "omoptcC)rygie@fr" RELATED [VSAO:0000147] synonym: "thoracoptcC)rygie@fr" RELATED [VSAO:0000147] xref: BTO:0004653 xref: SCTID:416982006 xref: TAO:0001161 xref: VSAO:0000147 xref: ZFA:0001161 is_a: UBERON:0004710 ! pectoral appendage relationship: develops_from UBERON:0005419 ! pectoral appendage bud intersection_of: UBERON:0002534 ! paired fin intersection_of: part_of UBERON:0010708 ! pectoral complex property_value: external_definition "Paired fin that is located in the thoracic region of the body.[TAO]" xsd:string property_value: external_definition "Paired fin that is located in the thoracic region of the body.[VSAO]" xsd:string [Term] id: UBERON:0000152 name: pelvic fin namespace: uberon def: "The paired pelvic or ventral fins are located ventrally below the pectoral fins. They are homologous to the hindlimbs of tetrapods. The pelvic fin assists the fish in going up or down through the water, turning sharply, and stopping quickly." [Wikipedia:Pectoral_fin#Fins] comment: check definition of limb such that is excludes fins. Note the GO includes pectoral and pelvic fins as types of limbs. synonym: "ischioptcC)rygie@fr" RELATED [VSAO:0000129] synonym: "nageoire pelvienne@fr" RELATED [VSAO:0000129] xref: BTO:0004651 xref: EFO:0003644 xref: TAO:0001184 xref: VSAO:0000129 xref: ZFA:0001184 is_a: UBERON:0004709 ! pelvic appendage relationship: develops_from UBERON:0005420 ! pelvic appendage bud intersection_of: UBERON:0002534 ! paired fin intersection_of: part_of UBERON:0010709 ! pelvic complex property_value: external_definition "Paired fin located in the abdominal position of the body.[TAO]" xsd:string property_value: external_definition "Paired fin located in the abdominal position of the body.[VSAO]" xsd:string [Term] id: UBERON:0000153 name: anterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision relationship: anterior_to UBERON:0000154 ! posterior region of body [Term] id: UBERON:0000154 name: posterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0000155 name: theca cell layer namespace: uberon def: "A layer of the ovarian follicles. They appear as the follicles become tertiary follicles. The theca folliculi are responsible for the production of testosterone from androstenedione in females, and indirectly the production of estrogens by supplying the neighboring granulosa cells with androstenedione that can then be used as a substrate for aromatase." [Wikipedia:Theca_of_follicle] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "layer of theca cells" EXACT [] synonym: "theca cell layer of ovarian follicle" EXACT [] synonym: "theca folliculi" RELATED LATIN [Wikipedia:Theca_of_follicle] synonym: "theca of follicle" EXACT [] synonym: "thecal cell layer" EXACT [ZFA:0001113] xref: BTO:0002853 xref: EFO:0003629 xref: FMA:18656 xref: SCTID:361385000 xref: TAO:0001113 xref: ZFA:0001113 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000119 ! cell layer is_a: UBERON:0005156 ! reproductive structure relationship: has_part CL:0000503 ! theca cell relationship: part_of UBERON:0001305 ! ovarian follicle [Term] id: UBERON:0000156 name: theca externa namespace: uberon alt_id: UBERON:0005182 def: "The theca externa is the outer layers of the theca folliculi. It contains abundant collagen and is mainly supportive." [Wikipedia:Theca_externa] synonym: "external coat of theca folliculi" RELATED [BTO:0002852] synonym: "ovary theca externa" EXACT [MA:0001713] synonym: "theca externa (folliculus ovaricus tertiarius)" EXACT [FMA:18657] synonym: "tunica externa of theca folliculi" EXACT [FMA:18657] synonym: "tunica externa thecae folliculi" RELATED LATIN [BTO:0002852, Wikipedia:Theca_externa] xref: BTO:0002852 xref: FMA:18657 xref: MA:0001713 xref: SCTID:258767003 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/50/Mature_Graffian_follicle.jpg/200px-Mature_Graffian_follicle.jpg is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000158 ! membranous layer is_a: UBERON:0005156 ! reproductive structure relationship: has_part GO:0005581 ! collagen relationship: part_of UBERON:0000155 ! theca cell layer relationship: surrounds UBERON:0000157 ! theca interna [Term] id: UBERON:0000157 name: theca interna namespace: uberon alt_id: UBERON:0005183 def: "Theca interna cells express receptors for luteinizing hormone, which when activated will stimulate the production of androstenedione from cholesterol by the enzyme desmolase. Androstenedione ultimately gives the granulosa cells the precursor substrate for estrogen manufacturing." [Wikipedia:Theca_externa#Theca_interna] synonym: "internal coat of capsule of graafian follicle" RELATED [BTO:0002851] synonym: "ovary theca interna" EXACT [MA:0001714] synonym: "theca interna (folliculus ovaricus tertiarius)" EXACT [FMA:18658] synonym: "tunica interna of theca folliculi" EXACT [FMA:18658] synonym: "tunica interna thecae folliculi" RELATED [BTO:0002851] xref: BTO:0002851 xref: FMA:18658 xref: MA:0001714 xref: SCTID:258869006 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000158 ! membranous layer is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000155 ! theca cell layer [Term] id: UBERON:0000158 name: membranous layer namespace: uberon synonym: "membranous organ component" EXACT [FMA:82500] xref: FMA:82500 is_a: UBERON:0004923 ! organ component layer [Term] id: UBERON:0000159 name: anal canal namespace: uberon def: "The terminal part of the large intestine, continuous proximally with the rectum and distally terminates with the anus." [Wikipedia:Anal_canal] comment: Editor notes: requires alignment with EHDAA2 and complete developmental relationships subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anal canal" EXACT [] synonym: "anal canal viewed anatomically" EXACT [] synonym: "anal pad" RELATED [] synonym: "anatomical anal canal" EXACT [] synonym: "anus" RELATED [] synonym: "canalis analis" RELATED LATIN [BTO:0001978, Wikipedia:Anal_canal] synonym: "cloaca" RELATED [] synonym: "cloacal chamber" RELATED [] synonym: "mesenteron" RELATED [] synonym: "pars analis recti" RELATED [BTO:0001978] xref: BTO:0001978 xref: EMAPA:18256 xref: FMA:15703 xref: MA:0000330 xref: SCTID:245438008 xref: UMLS:C0227411 xref: galen:AnalCanal xref: http://upload.wikimedia.org/wikipedia/commons/1/17/Gray1078.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/17/Gray1078.png/200px-Gray1078.png xref: ncithesaurus:Anal_Canal is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: continuous_with UBERON:0001052 ! rectum relationship: continuous_with UBERON:0001245 ! anus relationship: develops_from UBERON:0011272 ! embryonic skin basal layer relationship: part_of UBERON:0000059 ! large intestine relationship: part_of UBERON:0001353 ! anal region [Term] id: UBERON:0000160 name: intestine namespace: uberon def: "Segment of the alimentary canal extending from the stomach to the anus and, in humans and other mammals, consists of two segments, the small intestine and the large intestine." [GOC:GO, Wikipedia:Intestine] comment: MA also has a class MA:0001524 bowel, not clear how this is different. Usage notes: this class is currently very general, encompassing the C elegans 'intestine', which is a tube of epithelial cells extending from the 'pharynx' to 'rectum'. Taxon notes: [in zebrafish] No stomach, small intestine, or large intestine can be distinguished. However, differences can be found in the morphology of the mucosa columnar epithelial cells and the number of goblet cells, suggesting functional differentiation. The intestine has numerous folds that become progressively shorter in a rostral-to-caudal direction. Proportionally, these folds are significantly larger than the finger-like intestinal villi of mammals and other amniotes (Wallace et al. 2005). Columnar-shaped absorptive enterocytes are the most numerous in the zebrafish intestinal epithelium. Goblet cells are the second most populous epithelial cell type. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bowel" EXACT [] xref: AAO:0000246 xref: ANISEED:1235303 xref: BTO:0000648 xref: EFO:0000834 xref: EV:0100071 xref: FMA:7199 xref: GAID:295 xref: MA:0000328 xref: MA:0001524 xref: MESH:A03.492.411 xref: MIAA:0000043 xref: SCTID:256876008 xref: TAO:0001338 xref: UMLS:C0021853 xref: VHOG:0000056 xref: WBbt:0005772 xref: XAO:0000129 xref: ZFA:0001338 xref: galen:Intestine xref: ncithesaurus:Intestine is_a: UBERON:0004921 ! subdivision of digestive tract relationship: part_of UBERON:0005409 ! gastrointestinal system property_value: external_definition "Portion of the alimentary canal bounded anteriorly by the pyloric sphincter and posteriorly by the cloacal sphincter.[AAO]" xsd:string property_value: external_definition "The tract of the alimentary canal. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: has_relational_adjective "intestinal" xsd:string [Term] id: UBERON:0000161 name: orifice namespace: uberon def: "Anatomical conduit that connects two adjacent body spaces, surrounded by two or more subdivisions of two or more organs. Examples: right atrioventricular orifice, orifice of artery, hilum of kidney, porta hepatis[FMA,modified]." [FMA:3724] comment: in FMA, this is an anatomical conduit *space*, rather than anatomical conduit subset: upper_ontology_conflict ! Terms in this subset group together terms from different anatomy ontologies that have conflicting upper ontology/CARO assignments. For example, in FMA the naris is immaterial and in ZFA it is an organism subdivision. synonym: "anatomical orifice" EXACT [FMA:3724] synonym: "anatomical ostium" EXACT [FMA:3724] synonym: "hilum" NARROW [] xref: FMA:3724 xref: SCTID:91837002 is_a: UBERON:0004111 ! anatomical conduit [Term] id: UBERON:0000162 name: cloaca namespace: uberon def: "Common chamber into which the intestines and excretory system opens. Arises during development in all vertebrates, but in many it becomes subdivided, lost or incorporated into other structures" [ISBN10:0073040584, Wikipedia:Cloaca] comment: Development notes: hindgut endoderm and proctodeal ectoderm. Taxon notes: Human beings only have an embryonic cloaca, which is split up into separate tracts during the development of the urinary and reproductive organs[WP]. Editor notes: adding df link to embryonic cloaca leads to a cycle in uberon-simple, as cloaca is a suberclass of embryonic cloaca synonym: "cloacal chamber" RELATED [AAO:0000095] synonym: "vent" RELATED [XAO:0000244] xref: AAO:0000095 xref: GAID:1206 xref: MESH:A13.223 xref: SCTID:362857006 xref: UMLS:C0008987 xref: VHOG:0001186 xref: XAO:0000244 xref: ncithesaurus:Cloaca is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004185 ! endodermal gut relationship: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0004122 ! genitourinary system property_value: present_in_taxon NCBITaxon:9369 property_value: external_definition "A common passage for fecal, urinary, and reproductive discharge in most lower vertebrates as well as the terminal end of the hindgut before division into rectum, bladder, and genital primordia in mammalian embryos. [TFD][VHOG]" xsd:string property_value: external_definition "Anatomical structure which is the common receptacle for the alimentary canal, Wolffian ducts, oviducts, and the bladder.[AAO]" xsd:string property_value: has_relational_adjective "cloacal" xsd:string property_value: homology_notes "A cloaca is apparently a primitive vertebrate feature because it occurs in most primitive gnathostomes and persists in the embryos of almost all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000163 name: embryonic cloaca namespace: uberon def: "endoderm-lined chamber that develops as pouch-like dilation of the caudal end of the hindgut and receives the allantois ventrally and two mesonephric ducts laterally; caudally it ends blindly at the cloacal membrane formed by the union of proctodeal (anal pit) ectoderm and cloacal endoderm, with no intervening mesoderm[MP]." [MP:0010115, Wikipedia:Cloaca_(embryology)] comment: compare UBERON:0000162 cloaca synonym: "cloaca" RELATED SENSU [] xref: EHDAA2:0000256 xref: EHDAA:4895 xref: EMAPA:27573 xref: EMAPA:27638 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000162 ! cloaca is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004906 ! ectodermal gut is_a: UBERON:0006554 ! urinary system structure relationship: has_developmental_contribution_from UBERON:0003064 ! intermediate mesoderm relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001008 ! excretory system relationship: part_of UBERON:0012361 ! internal anal region [Term] id: UBERON:0000164 name: primitive urogenital sinus namespace: uberon def: "Ventral part of the cloaca remaining after septation of the rectum, which further develops into part of the bladder, part of the prostatic part of the male urethra and the urethra and vestibule in females[MP]." [Wikipedia:Definitive_urogenital_sinus] comment: Note that the term \"urogenital sinus\" may refer to the primitive urogenital sinus present as a transient developmental structure in most mammals or it may refer to a condition in which an unseptated cloaca persists in animals longer than normal[MP] synonym: "UGS" EXACT [MP:0010116] synonym: "fetal UGS" EXACT [PMID:18977204] synonym: "sinus urogenitalis" EXACT LATIN [] synonym: "urogenital sinus" BROAD [MP:0010116] xref: EHDAA2:0004060 xref: EHDAA:5029 xref: EHDAA:5919 xref: EMAPA:17211 xref: EMAPA:17379 xref: SCTID:50961009 xref: UMLS:C0231057 xref: VHOG:0000414 xref: http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6d/Gray1109.png/200px-Gray1109.png xref: ncithesaurus:Urogenital_Sinus is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003064 ! intermediate mesoderm relationship: part_of UBERON:0000163 ! embryonic cloaca relationship: part_of UBERON:0001008 ! excretory system property_value: external_definition "The ventral part of the cloaca after its separation from the rectum, giving rise to the lower part of the bladder in both sexes, to the prostatic portion of the male urethra, and to the urethra and vestibule in the female. [TFD][VHOG]" xsd:string property_value: homology_notes "In mammals the lowly monotremes still have a cloaca. Higher types have done away with this structure and have a separate anal outlet for the rectum. The monotreme cloaca shows the initiation of this subdivision. The cloaca has such includes only the distal part, roughly comparable to the proctodeum. The more proximal part is divided into (1) a large dorsal passage into which the intestine opens, the coprodeum, and (2) a ventral portion, the urodeum with which the bladder connects. (...) the development of the placental mammals recapitulates in many respects the phylogenetic story. In the sexually indifferent stage of placental mammal there is a cloaca. While the indifferent stage still persists, a septum develops, and extends out to the closing membrane. This divides the cloaca into two chambers: a coprodeum continuous with the gut above, and a urodeum or urogenital sinus below.[well established][VHOG]" xsd:string [Term] id: UBERON:0000165 name: mouth namespace: uberon def: "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes teeth, gums, lips, tongue and parts of the palate." [Wikipedia:Mouth, http://purl.obolibrary.org/obo/uberon/references/reference_0000034] comment: AO notes: in FMA, the tongue, palate etc are part of the mouth which is itself a subdivision of the face. subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adult mouth" EXACT [] synonym: "cavital oralis" RELATED LATIN [Wikipedia:Mouth] synonym: "cavitas oris" RELATED [BTO:0001090] synonym: "cavum oris" RELATED [BTO:0001090] synonym: "mouth cavity" RELATED [BTO:0001090] synonym: "oral region" RELATED [EHDAA2:0001326] synonym: "oral vestibule" RELATED [BTO:0001090] synonym: "regio oralis" EXACT LATIN [BTO:0004698, FMA:49184, FMA:TA] synonym: "rima oris" RELATED [BTO:0001090] synonym: "stoma" RELATED [] synonym: "stomatodaeum" RELATED [VHOG:0000812] synonym: "vestibule of mouth" RELATED [BTO:0001090] synonym: "vestibulum oris" RELATED [BTO:0001090] xref: AAO:0010355 xref: BTO:0001090 xref: BTO:0004698 xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 xref: FBbt:00003126 xref: FMA:49184 xref: GAID:75 xref: MA:0000341 xref: MA:0002474 xref: MAT:0000038 xref: MESH:A01.456.505.631 xref: MIAA:0000038 xref: OpenCyc:Mx4rvVidh5wpEbGdrcN5Y29ycA xref: SCTID:21082005 xref: TADS:0000040 xref: TAO:0000547 xref: TAO:0000590 xref: TGMA:0000131 xref: VHOG:0000280 xref: VHOG:0000812 xref: XAO:0003029 xref: ZFA:0000547 xref: ZFA:0000590 xref: galen:Mouth xref: http://purl.obolibrary.org/obo/uberon/images/lamprey_sucker_rosava_3238889218.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/0/06/Mouth_illustration-Otis_Archives.jpg/180px-Mouth_illustration-Otis_Archives.jpg is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000930 ! stomodeum relationship: overlaps UBERON:0001004 ! respiratory system relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: proximal_part_of UBERON:0001555 ! digestive tract property_value: external_definition "Cavity in which food is initially ingested and generally contains teeth, tongue and glands.[AAO]" xsd:string property_value: has_relational_adjective "oral" xsd:string property_value: homology_notes "Molecular and developmental cell lineage data suggest that the acoel mouth opening is homologous to the mouth of protostomes and deuterostomes and that the last common ancestor of the Bilateria (the 'urbilaterian') had only this single digestive opening.[well established][VHOG]" xsd:string [Term] id: UBERON:0000166 name: oral opening namespace: uberon def: "The orifice that connects the mouth to the exterio of the body." [http://purl.obolibrary.org/obo/uberon/references/reference_0000034] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mouth" RELATED INCONSISTENT [] synonym: "oral fissure" EXACT [FMA:59806] synonym: "oral orifice" EXACT [FMA:59806] synonym: "oral part of face" RELATED [] synonym: "subdivision of mouth" RELATED [] xref: FMA:59806 is_a: UBERON:0000161 ! orifice is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: overlaps UBERON:0001004 ! respiratory system relationship: part_of UBERON:0000165 ! mouth property_value: homology_notes " (...) mouth development is very similar in protostomes and 'basal' deuterostomes, whereas the chordate mouth seems to develop at a new position. Recent data for echinoderms and hemichordates further suggest that this change in mouth position may result from change in the influence of a conserved ectodermal patterning system on mouth development. It has been suggested that the mouths of vertebrates and urochordates may constitute a 'new' mouth.[well established][VHOG]" xsd:string [Term] id: UBERON:0000167 name: oral cavity namespace: uberon def: "Anatomical cavity at the start of the digestive tract that that is enclosed by the mouth. The boundaries and contents vary depending on the species. In vertebrates, the boundaries are the oral opening, the cheeks, the palate and (if present) the palatoglossal arch - if this is not present then the mouth and pharynx form the oropharyngeal cavity. The buccal cavity contains the teeth, tongue and palate (when present)" [ISBN10:0073040584, UBERON:cjm, http://purl.obolibrary.org/obo/uberon/references/reference_0000034] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bucca" RELATED [] synonym: "buccal cavity" EXACT [FMA:20292, ISBN10:0073040584] synonym: "cavity of mouth" EXACT [] xref: AAO:0000053 xref: AAO:0000960 xref: EFO:0001975 xref: EHDAA2:0001324 xref: EHDAA:6970 xref: EMAPA:17411 xref: EMAPA:18399 xref: EV:0100057 xref: FMA:20292 xref: HAO:0000669 xref: SCTID:181220002 xref: TAO:0001027 xref: TGMA:0000102 xref: UMLS:C0226896 xref: VHOG:0000188 xref: WBbt:0005255 xref: XAO:0000126 xref: ZFA:0001027 xref: ncithesaurus:Oral_Cavity is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0000165 ! mouth intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0000165 ! mouth property_value: external_definition "Anatomical cavity bounded anteriorly by the mouth and posteriorly by the derivatives of the branchial arches.[AAO]" xsd:string property_value: external_definition "The cavity of the mouth, bounded by the jaw bones and associated structures (muscles and mucosa). [TFD][VHOG]" xsd:string property_value: homology_notes "Echinoderms, hemichordates, and chordates are called deuterostomes because the mouth arises not from the blastopore but from a second invagination at the anterior end of the larva that pushes in to connect with the archenteron.[well established][VHOG]" xsd:string [Term] id: UBERON:0000168 name: segment of colon namespace: uberon def: "An organ segment that is part of a colon [Automatically generated definition]." [OBOL:automatic] xref: FMA:222905 is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0000063 ! organ segment intersection_of: part_of UBERON:0001155 ! colon [Term] id: UBERON:0000170 name: pair of lungs namespace: uberon synonym: "lungs" EXACT [] synonym: "lungs pair" EXACT [] synonym: "pulmones" EXACT LATIN [FMA:68877, FMA:TA] synonym: "set of lungs" EXACT [] xref: FMA:68877 xref: OpenCyc:Mx4rvVjKy5wpEbGdrcN5Y29ycA is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part UBERON:0002167 ! right lung relationship: has_part UBERON:0002168 ! left lung relationship: located_in UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0000171 name: respiration organ namespace: uberon def: "Organ that functions in gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." [GO:0007585] subset: functional_classification ! functional_classification subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "apparatus respiratorius organ" EXACT [OBOL:automatic] synonym: "breathing organ" EXACT [] synonym: "gas exchange organ" RELATED [] synonym: "organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory organ" EXACT [] synonym: "respiratory system organ" EXACT [OBOL:automatic] xref: EMAPA:17607 xref: SCTID:272626006 xref: SPD:0000428 xref: TGMA:0001247 relationship: part_of UBERON:0001004 ! respiratory system intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0007585 ! respiratory gaseous exchange [Term] id: UBERON:0000172 name: vomit namespace: uberon def: "Vomit is a bodily fluid consisting of the expulsed contents of the stomach of an organism disgorged through the mouth or nose." [ENVO:00000338] xref: ENVO:00000338 xref: OpenCyc:Mx4rvViQTJwpEbGdrcN5Y29ycA xref: galen:Vomitus xref: ncithesaurus:Vomitus is_a: UBERON:0000463 ! portion of organism substance [Term] id: UBERON:0000173 name: amniotic fluid namespace: uberon def: "Amniotic fluid is a bodily fluid consisting of watery liquid surrounding and cushioning a growing fetus within the amnion. It allows the fetus to move freely without the walls of the uterus being too tight against its body. Buoyancy is also provided." [ENVO:02000021] synonym: "acqua amnii" RELATED [BTO:0000068] synonym: "liquor amnii" RELATED [BTO:0000068] xref: BTO:0000068 xref: ENVO:02000021 xref: EV:0100123 xref: GAID:1155 xref: MA:0002893 xref: MESH:A12.098 xref: UMLS:C0002638 xref: VHOG:0001267 xref: ncithesaurus:Amniotic_Fluid is_a: UBERON:0000463 ! portion of organism substance relationship: surrounds UBERON:0000922 ! embryo [Term] id: UBERON:0000174 name: excreta namespace: uberon alt_id: UBERON:0000324 alt_id: UBERON:0007550 def: "Excreta are bodily fluids consisting of waste matter, such as sweat or feces, discharged from the body." [ENVO:02000022] synonym: "excreted substance" EXACT [] synonym: "excretion" RELATED [BTO:0000491] synonym: "waste substance" EXACT [AEO:0000184] xref: AEO:0000184 xref: BTO:0000491 xref: EHDAA2:0003184 xref: ENVO:02000022 xref: FMA:9674 xref: galen:Excretion is_a: UBERON:0000463 ! portion of organism substance relationship: output_of GO:0007588 ! excretion [Term] id: UBERON:0000175 name: pleural effusion namespace: uberon def: "Pleural effusion is a bodily fluid that is produced in exess and accumulates in the pleural cavity, the fluid-filled space that surrounds the lungs. Excessive amounts of such fluid can impair breathing by limiting the expansion of the lungs during inhalation." [ENVO:02000033] comment: cede to MPATH? Note the ncit class is under finding. xref: ENVO:02000033 xref: OpenCyc:Mx4rLaTGCK2TEduAAAAOpmP6tw xref: ncithesaurus:Pleural_Effusion is_a: UBERON:0001087 ! pleural fluid [Term] id: UBERON:0000176 name: oronasal secretion namespace: uberon def: "Oronasal secretion is a bodily fluid secreted from the body via the mouth or nose." [ENVO:02000035] xref: ENVO:02000035 is_a: UBERON:0000463 ! portion of organism substance relationship: secreted_by UBERON:0001826 ! nasal cavity mucosa [Term] id: UBERON:0000177 name: pus namespace: uberon def: "Pus is a bodily fluid consisting of a whitish-yellow or yellow substance produced during inflammatory responses of the body that can be found in regions of pyogenic bacterial infections. Pus is produced from the dead and living cells which travel into the intercellular spaces around the affected cells." [ENVO:02000038, Wikipedia:Pus] comment: AO notes: biospecimen in NCIT synonym: "purulent exudate" RELATED [] xref: ENVO:02000038 xref: OpenCyc:Mx4rvVjG6ZwpEbGdrcN5Y29ycA xref: galen:Pus xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/90/Swollen_eye_with_conjunctivitis.jpg/180px-Swollen_eye_with_conjunctivitis.jpg xref: ncithesaurus:Pus is_a: UBERON:0000463 ! portion of organism substance relationship: has_function_in GO:0006954 ! inflammatory response [Term] id: UBERON:0000178 name: blood namespace: uberon def: "Circulating body substance which consists of blood plasma and hemoglobin-carrying red blood cells. Excludes blood analogues (see UBERON:0000179 haemolymphatic fluid)." [FMA:9670, Wikipedia:Blood] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "portion of blood" EXACT [] synonym: "vertebrate blood" EXACT [] synonym: "whole blood" RELATED [BTO:0000089] xref: AAO:0000046 xref: BTO:0000089 xref: EFO:0000296 xref: EHDAA2:0000176 xref: EHDAA:418 xref: EMAPA:16332 xref: ENVO:02000027 xref: EV:0100047 xref: FMA:9670 xref: GAID:965 xref: MA:0000059 xref: MESH:A12.207.152 xref: MIAA:0000315 xref: OpenCyc:Mx4rvVjI8JwpEbGdrcN5Y29ycA xref: TAO:0000007 xref: UMLS:C0005767 xref: VHOG:0000224 xref: XAO:0000124 xref: ZFA:0000007 xref: galen:Blood xref: ncithesaurus:Blood is_a: UBERON:0000179 ! haemolymphatic fluid relationship: has_part CL:0000232 ! erythrocyte relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0004535 ! cardiovascular system property_value: axiom_lost_from_external_ontology "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string property_value: external_definition "A complex mixture of cells suspended in a liquid matrix that delivers nutrients to cells and removes wastes. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string property_value: external_definition "Highly specialized circulating tissue consisting of several types of cells suspended in a fluid medium known as plasma.[AAO]" xsd:string property_value: homology_notes "Recent findings strongly suggest that the molecular pathways involved in the development and function of blood cells are highly conserved among vertebrates and various invertebrates phyla. (...) There is now good reason to believe that, in vertebrates and invertebrates alike, blood cell lineages diverge from a common type of progenitor cell, the hemocytoblast.[well established][VHOG]" xsd:string [Term] id: UBERON:0000179 name: haemolymphatic fluid namespace: uberon def: "Circulating fluid that is part of the hemolymphoid system. Blood, lymph, interstitial fluid or its analogs." [] synonym: "blood or blood analog" RELATED [] is_a: UBERON:0000463 ! portion of organism substance intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: part_of UBERON:0002390 ! hematopoietic system [Term] id: UBERON:0000180 name: lateral lumbar region of abdomen namespace: uberon def: "a region of the posterior torso (lower back) beneath the ribs and above the ilium." [Wikipedia:Abdomen#9-region_scheme, Wikipedia:Latus_(anatomy)] synonym: "flank" EXACT [Wikipedia:Latus_(anatomy)] synonym: "lateral region" EXACT [FMA:14603] synonym: "lateral region of abdomen" EXACT [FMA:14603] synonym: "latus" EXACT [FMA:14603] synonym: "regio lateralis" EXACT [FMA:14603] xref: FMA:14603 xref: SCTID:243329008 xref: UMLS:C0230171 xref: galen:Flank xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray1220.png xref: ncithesaurus:Flank is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0000199 name: neck of radius namespace: uberon def: "the narrow part of the shaft of the radius just below the head." [http://www.medilexicon.com/medicaldictionary.php?t=58913] synonym: "radial neck" EXACT [FMA:23479] xref: FMA:23479 xref: SCTID:181942005 xref: galen:NeckOfRadius is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0004413 ! proximal epiphysis of radius [Term] id: UBERON:0000200 name: gyrus namespace: uberon def: "A ridge, generally surrounded by one or more sulci." [Wikipedia:Gyrus] synonym: "cerebral gyrus" EXACT [BTO:0002495] synonym: "gyri" RELATED PLURAL [BTO:0002495] synonym: "gyri of cerebrum" RELATED PLURAL [BTO:0002495] synonym: "gyrus of cerebrum" RELATED [BTO:0002495] synonym: "gyrus of neuraxis" EXACT [FMA:83874] synonym: "neuraxis gyrus" EXACT [FMA:83874] xref: BTO:0002495 xref: FMA:83874 xref: SCTID:279165009 xref: UMLS:C0458308 xref: ncithesaurus:Cerebral_Gyrus is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: surrounded_by UBERON:0000093 ! sulcus [Term] id: UBERON:0000201 name: endothelial blood brain barrier namespace: uberon def: "A blood brain barrier that is composed of endothelial cells." [UBERON:cjm] xref: NIF_Subcellular:nlx_subcell_100205 is_a: UBERON:0000120 ! blood brain barrier is_a: UBERON:0006914 ! squamous epithelium relationship: has_part UBERON:0001986 ! endothelium intersection_of: UBERON:0000120 ! blood brain barrier intersection_of: has_part CL:0000115 ! endothelial cell [Term] id: UBERON:0000202 name: glial blood brain barrier namespace: uberon def: "A blood brain barrier composed of glial cells." [UBERON:cjm] xref: FBbt:00007091 is_a: UBERON:0000120 ! blood brain barrier relationship: has_part CL:0000124 ! glial cell (sensu Nematoda and Protostomia) intersection_of: UBERON:0000120 ! blood brain barrier intersection_of: has_part CL:0000124 ! glial cell (sensu Nematoda and Protostomia) [Term] id: UBERON:0000203 name: pallium namespace: uberon def: "Dorsal part (roof region) of the telencephalon[GO]." [GO:0021543, ISBN10:0471888893, Wikipedia:Pallium_(neuroanatomy), https://sourceforge.net/tracker/?func=detail&aid=3535324&group_id=76834&atid=994726] comment: Taxon notes: In humans the cerebrum has three parts: the archipallium, the paleopallium and the neopallium. The developing telencephalon or forebrain is divided into pallium and subpallium. In amphibians, the cerebrum includes archipallium, paleopallium and some of the basal nuclei. Reptiles first developed a neopallium, which continued to develop in the brains of more recent species to become the neocortex of humans and Old World monkeys. In fish, the archipallium is the largest part of the cerebrum. Some researchers suggest the early archipallium gave rise to the human hippocampus[WP] subset: developmental_classification ! developmental_classification synonym: "area dorsalis telencephali" EXACT [ZFA:0000505] synonym: "dorsal part of telencephalon" EXACT [ISBN10:0471888893] synonym: "dorsal telencephalic area" EXACT [ZFA:0000505] synonym: "dorsal telencephalon" EXACT [ZFA:0000505] xref: EFO:0003534 xref: SCTID:369224000 xref: TAO:0000505 xref: TAO:0007007 xref: ZFA:0000505 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0011300 ! gray matter of telencephalon relationship: part_of UBERON:0001893 ! telencephalon property_value: external_definition "The mantle of gray matter forming the cerebral cortex. http://www.thefreedictionary.com/pallium[TAO]" xsd:string [Term] id: UBERON:0000204 name: ventral part of telencephalon namespace: uberon def: "Dorsal part (base region) of the telencephalon." [GO:0021544, GO_REF:0000021, ISBN10:0471888893, PMID:12626695] comment: AO notes: BTO term refers specifically to the avian structure subset: developmental_classification ! developmental_classification synonym: "area ventralis telencephali" EXACT [ZFA:0000304] synonym: "subpallium" EXACT [BTO:0003401, GO:0021544, ZFA:0000304] synonym: "ventral telencephalon" EXACT [ZFA:0000304] xref: BTO:0003401 xref: EFO:0003522 xref: TAO:0000304 xref: ZFA:0000304 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: adjacent_to UBERON:0000203 ! pallium relationship: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0000205 name: papula namespace: uberon def: "A thin protuberance on the surface of the body of an echinoderm containing diverticula of the water vascular system lined by ciliated peritoneum. Along with tube feet, provide the principle gas exchange surfaces.." [ISBN:0030229073] synonym: "papulae" EXACT PLURAL [ISBN:0030229073] synonym: "papulli" EXACT PLURAL [] is_a: UBERON:0002535 ! gill [Term] id: UBERON:0000206 name: pharyngeal gill namespace: uberon def: "Gills of vertebrates are developed in the walls of the pharynx along a series of gill slits opening to the exterior. In fish, the gills are located on both sides of the pharynx. Gills are made of filaments which help increase surface area for oxygen exchange. In bony fish, the gills are covered by a bony cover called an operculum. When a fish breathes, it opens its mouth at regular times and draws in a mouthful of water. It then draws the sides of its throat together, forcing the water through the gill openings. The water passes over the gills on the outside. Valves inside the mouth keep the water from escaping through the mouth again. The operculum can be very important in adjusting the pressure of water inside of the pharynx to allow proper ventilation of the gills. Lampreys and sharks lack an operculum, they have multiple gill openings. Also, they must use different methods to force water over the gills. In sharks and rays, this ventilation of the gills is achieved either by the use of spiracles or ram ventilation (ventilation by constantly swimming). Although some animals use this method it is much better for animals to use a spiracle because they are less susceptible to injury." [Wikipedia:Gill#Vertebrate_gills] xref: ANISEED:1235300 is_a: UBERON:0002535 ! gill relationship: adjacent_to UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0000207 name: compound eye corneal lens namespace: uberon def: "A chitinous extracellular secretion of the four underlying cone cells and the pigment cells." [GO:0048058] synonym: "acellular lens" RELATED [] xref: FBbt:00004199 xref: TADS:0000304 is_a: UBERON:0000476 ! acellular anatomical structure is_a: UBERON:0005389 ! transparent eye structure relationship: part_of UBERON:0000018 ! compound eye disjoint_from: UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0000208 name: obsolete cellular lens namespace: uberon is_obsolete: true replaced_by: UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0000209 name: tetrapod frontal bone namespace: uberon def: "In humans: A bone resembling a cockleshell in two portions the squama frontalis, corresponding with the region of the forehead, and an orbital or horizontal portion, the pars orbitalis, which enters into the formation of the roofs of the orbital and nasal cavities." [Wikipedia:Frontal_bone] comment: Taxon notes: fused in humans, paired in other animals Development notes: In the mouse the parietal originates from cephalic paraxial mesoderm (Jiang 2000; Morriss-Kay 2001), whereas in the chicken it is traced back to either mesodermal (Noden 1978) or neural crest (Couly 1992, 1993). synonym: "frontal" NARROW [AAO:0000206] synonym: "frontal bone" NARROW SENSU [FMA:52734, MA:0001466] synonym: "os frontal" NARROW SENSU [Wikipedia:Frontal_bone] synonym: "os frontale" RELATED LATIN [Wikipedia:Frontal_bone] xref: AAO:0000206 xref: EMAPA:19016 xref: FMA:52734 xref: GAID:226 xref: MA:0001466 xref: MESH:A02.835.232.781.375 xref: SCTID:181793006 xref: UMLS:C0016732 xref: VHOG:0001324 xref: VSAO:0000208 xref: http://upload.wikimedia.org/wikipedia/commons/5/5b/Frontal_bone.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray136.png/200px-Gray136.png xref: ncithesaurus:Frontal_Bone is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0010428 ! flat bone is_a: UBERON:0011164 ! neurocranium bone relationship: overlaps UBERON:0001697 ! orbital region relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0003113 ! dermatocranium [Term] id: UBERON:0000210 name: tetrapod parietal bone namespace: uberon def: "In humans: bone forming side and roof of cranium. Each bone is irregularly quadrilateral in form, and has two surfaces, four borders, and four angles." [Wikipedia:Parietal_bone, ZFA:0000514] comment: Taxon notes: The frontal bone in teleost fish is the homolog of the parietal bone in tetrapods[various]. In many non-mammalian tetrapods, they are bordered to the rear by a pair of postparietal bones that may be solely in the roof of the skull, or slope downwards to contribute to the back of the skull, depending on the species. In the living tuatara, and many fossil species, a small opening, the parietal foramen, lies between the two parietal bones. This opening is the location of a third eye in the midline of the skull, which is much smaller than the two main eyes[WP] synonym: "actinopterygian frontal bone" NARROW [TAO:0000514] synonym: "frontal bone" NARROW [TAO:0000514] synonym: "os parietale" RELATED LATIN [Wikipedia:Parietal_bone] synonym: "parietal" NARROW SENSU [AAO:0000390] synonym: "parietal bone" NARROW SENSU [FMA:9613] xref: AAO:0000390 xref: EMAPA:18715 xref: FMA:9613 xref: GAID:229 xref: MA:0001469 xref: MESH:A02.835.232.781.651 xref: SCTID:181794000 xref: UMLS:C0030558 xref: VHOG:0001324 xref: VHOG:0001326 xref: http://upload.wikimedia.org/wikipedia/commons/2/21/Gray132.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/21/Gray132.png/200px-Gray132.png xref: ncithesaurus:Parietal_Bone is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0010428 ! flat bone is_a: UBERON:0011164 ! neurocranium bone relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0004339 ! vault of skull property_value: homology_notes "The homologization of cranial bones of actinopterygians with those of sarcopterygians based on the bone names established in human anatomy is favored in order to permit the building of phylogenetic relationship schemes beyond the taxonomic boundaries of osteichthyans (including tetrapods). (...) In actinopterygians, the terms parietal and postparietal bones have to replace the commonly used terms 'frontal' and 'parietal' bones for the two paired bones on the skull roof.[well established][VHOG]" xsd:string [Term] id: UBERON:0000211 name: ligament namespace: uberon def: "Nonparenchymatous organ that primarily consists of dense connective tissue aggregated into fasciculi by connective tissue. Examples: sutural ligament, radiate sternocostal ligament, ligament of liver, ovarian ligament[FMA]." [FMA:21496, Wikipedia:Ligament] comment: Note this groups both skeletal and non-skeletal ligaments. What is called a \"ligament\" in many AOs is actually a skeletal ligament subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ligament organ" EXACT [FMA:21496] xref: EFO:0001966 xref: FMA:21496 xref: MA:0000113 xref: MESH:A02.513 xref: OpenCyc:Mx4rvVjqpZwpEbGdrcN5Y29ycA xref: SCTID:182358004 xref: TAO:0001682 xref: UMLS:C0023685 xref: VHOG:0001272 xref: XAO:0004031 xref: ZFA:0001675 xref: galen:Ligament xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Knee_diagram.svg xref: ncithesaurus:Ligament is_a: UBERON:0007846 ! dense regular connective tissue relationship: has_part UBERON:0007846 ! dense regular connective tissue property_value: external_definition "Portion of connective tissue that connects bone or cartilage.[TAO]" xsd:string property_value: homology_notes "Compared with their Ediacarian predecessor, Cambrian animals in general were characterized by their much stouter bodies. The stoutness of the body is likely due to the formation of ligaments and tendons, which in turn requires the crosslinking of collagen triple helices.[well established][VHOG]" xsd:string [Term] id: UBERON:0000212 name: toilet claw namespace: uberon def: "specialized claw or nail on the foot of certain primates, used for personal grooming." [Wikipedia:Toilet-claw] is_a: UBERON:0001705 ! nail relationship: has_function_in GO:0007625 ! grooming behavior [Term] id: UBERON:0000218 name: vertebral arch of axis namespace: uberon def: "A neural arch that is part of a cervical vertebra 2." [OBOL:automatic] synonym: "vertebral foramen of cervical vertebra 2" EXACT [] xref: FMA:24053 is_a: UBERON:0008434 ! cervical vertebral arch intersection_of: UBERON:0003861 ! neural arch intersection_of: part_of UBERON:0001093 ! cervical vertebra 2 [Term] id: UBERON:0000219 name: vertebral foramen of atlas namespace: uberon def: "." [Wikipedia:Atlas_(anatomy)#Vertebral_foramen] synonym: "vertebral foramen of cervical vertebra 1" EXACT [] xref: FMA:24293 xref: SCTID:281228008 is_a: UBERON:0008429 ! cervical vertebral foramen intersection_of: UBERON:0001131 ! vertebral foramen intersection_of: part_of UBERON:0001092 ! cervical vertebra 1 [Term] id: UBERON:0000220 name: atlanto-occipital joint namespace: uberon def: "The Atlanto-occipital joint (articulation between the atlas and the occipital bone) consists of a pair of condyloid joints. The atlanto-occipital joint is a synovial joint. The ligaments connecting the bones are: Two Articular capsules; Posterior atlantoC6ccipital membrane; Anterior atlantoC6ccipital membrane; Lateral atlantoC6ccipital" [Wikipedia:Atlanto-occipital_joint] synonym: "articulatio atlanto-occipitalis" EXACT [FMA:24939] synonym: "articulatio atlantooccipitalis" RELATED LATIN [Wikipedia:Atlanto-occipital_joint] synonym: "atlanto occipital joint" EXACT [] synonym: "atlantooccipital joint" EXACT [] synonym: "craniovertebral joint" EXACT [FMA:24939] synonym: "occipito atlantal joint" EXACT [] synonym: "occipito-atlantal joint" EXACT [] xref: FMA:24939 xref: SCTID:361831006 xref: UMLS:C0004169 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Gray304.png xref: ncithesaurus:Atlanto-occipital_Joint xref: ncithesaurus:Atlanto-occipital_Joint-Atlanto is_a: UBERON:0002217 ! synovial joint is_a: UBERON:0004120 ! mesoderm-derived structure relationship: connects UBERON:0001092 ! cervical vertebra 1 relationship: connects UBERON:0001676 ! occipital bone relationship: in_lateral_side_of UBERON:0006072 ! cervical region of vertebral column relationship: part_of UBERON:0011138 ! post-cranial axial skeletal system [Term] id: UBERON:0000221 name: supraauricular point namespace: uberon def: "a craniometric point on the posterior root of the zygomatic process of the temporal bone directly above the auricular point." [http://www.medilexicon.com/medicaldictionary.php?t=70620] synonym: "supra-auricular part of head" EXACT [FMA:224222] xref: FMA:224222 is_a: UBERON:0006983 ! anatomical point [Term] id: UBERON:0000301 name: amniotic cavity namespace: uberon def: "The amniotic cavity is formed by the fusion of the parts of the amniotic fold, which first makes its appearance at the cephalic extremity, and subsequently at the caudal end and sides of the embryo. As the amniotic fold rises and fuses over the dorsal aspect of the embryo, the amniotic cavity is formed. [WP,unvetted]." [Wikipedia:Amniotic_cavity] synonym: "cavitas amniotica" RELATED LATIN [Wikipedia:Amniotic_cavity] xref: BTO:0000025 xref: EHDAA2:0000119 xref: EHDAA:83 xref: EMAPA:16079 xref: FMA:63941 xref: SCTID:280366002 xref: UMLS:C0230976 xref: VHOG:0000855 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray31.png xref: ncithesaurus:Amniotic_Cavity is_a: UBERON:0000464 ! anatomical space is_a: UBERON:0012467 ! enclosed anatomical space relationship: develops_in UBERON:0000087 ! inner cell mass relationship: has_part UBERON:0000173 ! amniotic fluid relationship: has_quality PATO:0000608 ! closed relationship: located_in UBERON:0012466 ! extraembryonic cavities property_value: external_definition "The closed sac between the embryo and the amnion, containing the amniotic fluid. [Free_Online_Medical_Dictionary]" xsd:string [Term] id: UBERON:0000303 name: adductor longus namespace: uberon def: "An adductor muscle that attaches to the hip and femur. In humans, it is a part of the adductor group of the thigh, that as the name suggests adducts the thigh. The adductor longus muscle forms the medial wall of the femoral triangle[WP, generalized]." [Wikipedia:Adductor_longus_muscle] comment: Definition generalized to accommodate AAO class - \"Originates on the iliac portion of the ventral iliac rim and inserts on the lateral surface of the M. adductor magnus.\" [AAO:0010034] synonym: "Musculus adductor longus" RELATED LATIN [Wikipedia:Adductor_longus_muscle] synonym: "adductor longus muscle" EXACT [] synonym: "long adductor muscle" RELATED [BTO:0000029] synonym: "musculus adductor longus" RELATED [BTO:0000029] xref: AAO:0010034 xref: BTO:0000029 xref: FMA:22441 xref: SCTID:181686003 xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Anterior_Hip_Muscles_2.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e2/Anterior_Hip_Muscles_2.PNG/200px-Anterior_Hip_Muscles_2.PNG is_a: UBERON:0004252 ! hindlimb stylopod muscle is_a: UBERON:0011144 ! adductor muscle of hip relationship: has_muscle_insertion UBERON:0000981 ! femur relationship: has_muscle_origin UBERON:0001275 ! pubis relationship: part_of UBERON:0000376 ! hindlimb stylopod property_value: external_definition "Originates on the iliac portion of the ventral iliac rim and inserts on the lateral surface of the M. adductor magnus.[AAO]" xsd:string [Term] id: UBERON:0000304 name: tendon sheath namespace: uberon def: "A layer of membrane around a tendon. It has 2 layers: synovial sheath + fibrous tendon sheath" [Wikipedia:Tendon_sheath] comment: TODO: add layer relations. 'tendon sheath' GAT in FMA. synonym: "synovial tendon sheath" EXACT [FMA:45087] synonym: "vagina tendinis" RELATED LATIN [Wikipedia:Tendon_sheath] xref: BTO:0000051 xref: FMA:45087 xref: FMA:76715 xref: SCTID:361885006 xref: UMLS:C0224856 xref: ncithesaurus:Tendon_Sheath is_a: UBERON:0004923 ! organ component layer relationship: surrounds UBERON:0000043 ! tendon [Term] id: UBERON:0000305 name: amnion namespace: uberon def: "A membrane building the amniotic sac that surrounds and protects an embryo. It is developed in reptiles, birds, and mammals, which are hence called bAmniotab; but not in amphibians and fish (Ichthyopsida), which are consequently termed bAnamniotab. The primary function of this is the protection of the embryo for its development. It stems from parts of the mesoderm on the outer side and the ectoderm on the inner side[WP]." [Wikipedia:Amnion] xref: BTO:0000065 xref: EHDAA2:0000116 xref: EHDAA:136 xref: EMAPA:16109 xref: EV:0100122 xref: FMA:80223 xref: GAID:1298 xref: MESH:A16.254.403.277 xref: SCTID:181457005 xref: UMLS:C0002630 xref: VHOG:0000721 xref: http://upload.wikimedia.org/wikipedia/commons/e/e7/Gray14.png xref: ncithesaurus:Amnion is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005631 ! extraembryonic membrane relationship: develops_from UBERON:0005971 ! amniotic fold relationship: has_developmental_contribution_from UBERON:0000924 ! ectoderm relationship: has_developmental_contribution_from UBERON:0004871 ! somatic layer of lateral plate mesoderm relationship: has_part UBERON:0003254 ! amniotic ectoderm relationship: has_part UBERON:0003262 ! amniotic mesoderm relationship: surrounds UBERON:0000922 ! embryo property_value: external_definition "A thin but tough extraembryonic membrane of reptiles, birds and mammals that lines the chorion and contains the fEtus and the amniotic fluid around it. [Biology_Online][VHOG]" xsd:string property_value: has_relational_adjective "amniotic" xsd:string property_value: homology_notes "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" xsd:string [Term] id: UBERON:0000307 name: blastula namespace: uberon alt_id: UBERON:0007011 def: "Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [Wikipedia:Blastula] comment: TODO - check relationship with epiblast. Note in FMA this is not a subclass of embryo, but in uberon embryo is the whole organism from zygote onwards and thus includes the blastula subset: inconsistent_with_fma ! classes that have some inconsistency with FMA synonym: "blastosphere" RELATED [Wikipedia:Blastula] synonym: "blastula embryo" EXACT [BILA:0000059] xref: BILA:0000059 xref: BTO:0000128 xref: GAID:1294 xref: MESH:A16.254.270.274 xref: OGEM:000006 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c6/Blastulation.png/200px-Blastulation.png is_a: UBERON:0000922 ! embryo relationship: develops_from UBERON:0007010 ! cleaving embryo intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_and_ends_during UBERON:0000108 ! blastula stage [Term] id: UBERON:0000309 name: body wall namespace: uberon def: "the external portion of an animal body comprised of ectoderm and mesoderm layers that encloses the body cavity." [MP:0003385] synonym: "Koerperwand" RELATED [BTO:0000139] synonym: "trunk wall" EXACT [FMA:10427] synonym: "wall of trunk" EXACT [FMA:10427] xref: BTO:0000139 xref: FMA:10427 xref: SCTID:281483004 xref: galen:BodyWall is_a: UBERON:0009569 ! subdivision of trunk [Term] id: UBERON:0000310 name: breast namespace: uberon def: "The breast is the upper ventral region of an animal's torso, particularly that of mammals, including human beings. The breasts of a female primatebs body contain the mammary glands, which secrete milk used to feed infants. Both men and women develop breasts from the same embryological tissues. However, at puberty female sex hormones, mainly estrogens, promote breast development, which does not happen with men. As a result women's breasts become more prominent than men's. [WP,unvetted]." [Wikipedia:Breast] synonym: "mamma" RELATED LATIN [Wikipedia:Breast] synonym: "mammary part of chest" EXACT [FMA:9601] synonym: "mammary region" EXACT [FMA:9601] xref: BTO:0000149 xref: EV:0100124 xref: FMA:9601 xref: GAID:33 xref: MESH:A01.236 xref: OpenCyc:Mx4rvVjV7ZwpEbGdrcN5Y29ycA xref: SCTID:181131000 xref: UMLS:C0006141 xref: galen:Breast xref: http://upload.wikimedia.org/wikipedia/commons/6/6e/Closeup_of_female_breast.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6e/Closeup_of_female_breast.jpg/200px-Closeup_of_female_breast.jpg xref: ncithesaurus:Breast is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0001443 ! chest [Term] id: UBERON:0000311 name: extensor muscle namespace: uberon def: "A muscle that, upon contraction, tends to straighten a joint or limb. The antagonist of a flexor muscle[BTO]. Any of the muscles that increase the angle between members of a limb, as by straightening the elbow or knee or bending the wrist or spine backward. The movement is usually directed backward, with the notable exception of the knee joint. In humans, certain muscles of the hand and foot are named for this function. In the hand these include the extensor carpi radialis brevis, extensor carpi radialis longus, and extensor carpi ulnaris, which run from the humerus (bone of the upper arm) along the back of the forearm to the metacarpal bones at the back of the hand[Britannica]" [http://www.britannica.com/EBchecked/topic/198909/extensor-muscle] synonym: "extensor" RELATED [] xref: BTO:0000151 xref: FMA:75000 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010962 ! extensor pre-muscle mass relationship: part_of UBERON:0004708 ! limb/fin [Term] id: UBERON:0000312 name: inner cambium layer of periosteum namespace: uberon synonym: "cambial layer" EXACT [FMA:234358] synonym: "cambial layer of periosteum" EXACT [FMA:234358] synonym: "cambium" EXACT [] synonym: "cambium layer of periosteum" EXACT [FMA:234358] synonym: "inner cambial layer of periosteum" EXACT [FMA:234358] synonym: "internal layer of periosteum" EXACT [] synonym: "internal periosteum" EXACT [] synonym: "osteogenic layer of periosteum" EXACT [Wikipedia:Periosteum] xref: FMA:234358 is_a: UBERON:0000158 ! membranous layer relationship: composed_primarily_of UBERON:0011824 ! fibrous connective tissue relationship: part_of UBERON:0002515 ! periosteum [Term] id: UBERON:0000313 name: tibial cartilage namespace: uberon def: "Cartilage pertaining to the tibia." [Dorlands_Medical_Dictionary:MerckSource] comment: TODO synonym: "cartilage of tibia" EXACT [FMA:33923] xref: BTO:0000207 xref: FMA:33923 is_a: UBERON:0004270 ! lower leg connective tissue is_a: UBERON:0007391 ! pelvic appendage cartilage tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0000979 ! tibia [Term] id: UBERON:0000314 name: cecum mucosa namespace: uberon def: "A mucosa that is part of a cecum [Automatically generated definition]." [OBOL:automatic] synonym: "Cecal mucosa" EXACT [FMA:14998] synonym: "caecum mucosa" EXACT [OBOL:automatic] synonym: "caecum mucosa of organ" EXACT [OBOL:automatic] synonym: "caecum mucous membrane" EXACT [OBOL:automatic] synonym: "caecum organ mucosa" EXACT [OBOL:automatic] synonym: "cecum mucosa of organ" EXACT [OBOL:automatic] synonym: "cecum mucous membrane" EXACT [OBOL:automatic] synonym: "cecum organ mucosa" EXACT [OBOL:automatic] synonym: "intestinum crassum caecum mucosa" EXACT [OBOL:automatic] synonym: "intestinum crassum caecum mucosa of organ" EXACT [OBOL:automatic] synonym: "intestinum crassum caecum mucous membrane" EXACT [OBOL:automatic] synonym: "intestinum crassum caecum organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of caecum" EXACT [OBOL:automatic] synonym: "mucosa of cecum" EXACT [OBOL:automatic] synonym: "mucosa of intestinum crassum caecum" EXACT [OBOL:automatic] synonym: "mucosa of organ of caecum" EXACT [OBOL:automatic] synonym: "mucosa of organ of cecum" EXACT [OBOL:automatic] synonym: "mucosa of organ of intestinum crassum caecum" EXACT [OBOL:automatic] synonym: "mucous membrane of caecum" EXACT [OBOL:automatic] synonym: "mucous membrane of cecum" EXACT [OBOL:automatic] synonym: "mucous membrane of intestinum crassum caecum" EXACT [OBOL:automatic] synonym: "organ mucosa of caecum" EXACT [OBOL:automatic] synonym: "organ mucosa of cecum" EXACT [OBOL:automatic] synonym: "organ mucosa of intestinum crassum caecum" EXACT [OBOL:automatic] xref: BTO:0000213 xref: FMA:14998 is_a: UBERON:0000064 ! organ part is_a: UBERON:0000317 ! colonic mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001153 ! caecum [Term] id: UBERON:0000315 name: subarachnoid space namespace: uberon def: "The space between the arachnoid and pia mater." [GOC:add, Wikipedia:Subarachnoid_space, http://sourceforge.net/tracker/?func=detail&atid=1109502&aid=3535256&group_id=76834] synonym: "cavitas subarachnoidea" RELATED LATIN [BTO:0000230] synonym: "cavum subarachnoideale" RELATED LATIN [Wikipedia:Subarachnoid_space] synonym: "spatium leptomeningeum" RELATED LATIN [BTO:0000230] synonym: "spatium subarachnoideum" RELATED LATIN [BTO:0000230, Wikipedia:Subarachnoid_space] synonym: "subarachnoid cavity" RELATED [BTO:0000230] xref: BTO:0000230 xref: FMA:83716 xref: GAID:689 xref: MESH:A08.186.566.166.686 xref: SCTID:362311001 xref: http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray769-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f8/Gray769.png/200px-Gray769.png relationship: contains UBERON:0001359 ! cerebrospinal fluid relationship: contains UBERON:0001981 ! blood vessel intersection_of: UBERON:0000464 ! anatomical space intersection_of: adjacent_to UBERON:0002361 ! pia mater intersection_of: adjacent_to UBERON:0002362 ! arachnoid mater [Term] id: UBERON:0000316 name: cervical mucus namespace: uberon def: "A substance produced by the cervix and endocervical glands[BTO]. Thick acidic mucus that blocks the cervical os after mestruation[WP]. This 'infertile' mucus blocks spermatozoa from entering the uterus." [BTO:0000242, Wikipedia:Cervix#Cervical_mucus, Wikipedia:Mucus#Reproductive_system] synonym: "cervix mucus" EXACT [OBOL:automatic] xref: BTO:0000242 xref: FMA:83689 xref: MESH:A12.200.503.339 is_a: UBERON:0000912 ! mucus [Term] id: UBERON:0000317 name: colonic mucosa namespace: uberon alt_id: UBERON:0003347 alt_id: UBERON:0004981 def: "A mucosa that is part of a colon [Automatically generated definition]." [OBOL:automatic] synonym: "colon mucosa" EXACT [FMA:14984] synonym: "colon mucosa of organ" EXACT [OBOL:automatic] synonym: "colon mucous membrane" EXACT [OBOL:automatic] synonym: "colon organ mucosa" EXACT [OBOL:automatic] synonym: "colonic mucosa" EXACT [] synonym: "colonic mucous membrane" EXACT [FMA:14984] synonym: "large bowel mucosa" EXACT [OBOL:automatic] synonym: "large bowel mucosa of organ" EXACT [OBOL:automatic] synonym: "large bowel mucous membrane" EXACT [OBOL:automatic] synonym: "large bowel organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of colon" EXACT [FMA:14984] synonym: "mucosa of large bowel" EXACT [OBOL:automatic] synonym: "mucosa of organ of colon" EXACT [OBOL:automatic] synonym: "mucosa of organ of large bowel" EXACT [OBOL:automatic] synonym: "mucosa of segment of colon" EXACT [FMA:85388] synonym: "mucous membrane of colon" EXACT [OBOL:automatic] synonym: "mucous membrane of large bowel" EXACT [OBOL:automatic] synonym: "organ mucosa of colon" EXACT [OBOL:automatic] synonym: "organ mucosa of large bowel" EXACT [OBOL:automatic] xref: BTO:0000271 xref: EFO:0003038 xref: EMAPA:27375 xref: FMA:14984 xref: FMA:85388 xref: SCTID:362157008 is_a: UBERON:0001207 ! mucosa of large intestine intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001155 ! colon [Term] id: UBERON:0000319 name: cytotrophoblast namespace: uberon def: "The cytotrophoblast (or layer of Langhans) is the inner layer of the trophoblast, interior to the syncytiotrophoblast in an embryo. It serves to anchor the embryonic chorion to the maternal endometrium. Cytotrophoblasts are stem cells in the chorionic villi. During differentiation, mononuclear cytotrophoblast fuse together into the multinucleated syncytiotrophoblasts. The primary villi has only the cytotrophoblast as an axe. [WP,unvetted]." [Wikipedia:Cytotrophoblast] comment: Editors note: todo - unify with EHDAA2, which distinguishes multiple types of cytotrophoblast synonym: "Langhans' layer" RELATED [BTO:0000322] synonym: "cellular trophoblast" EXACT [FMA:83039] synonym: "cytotrophoblastic cell" RELATED [FMA:83039] synonym: "cytotrophoblastic cell layer" EXACT [UBERON:cjm] synonym: "cytotrophoblastus" RELATED LATIN [Wikipedia:Cytotrophoblast] synonym: "layer of Langhans" RELATED [] xref: BTO:0000322 xref: EHDAA:127 xref: EHDAA:152 xref: EHDAA:89 xref: EMAPA:16067 xref: FMA:83039 xref: SCTID:308841008 xref: UMLS:C0230960 xref: VHOG:0000683 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Gray36.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Gray36.png/200px-Gray36.png xref: ncithesaurus:Cytotrophoblast is_a: UBERON:0002050 ! embryonic structure relationship: adjacent_to UBERON:0000371 ! syncytiotrophoblast relationship: adjacent_to UBERON:0000453 ! decidua basalis relationship: part_of UBERON:0000088 ! trophoblast property_value: external_definition "A derivative layer of the trophoblast, the cells of which retain their boundaries and contribute to the extraembryonic mesoderm [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.189, see_Kardong_KV][VHOG]" xsd:string [Term] id: UBERON:0000320 name: duodenal mucosa namespace: uberon alt_id: UBERON:0003348 def: "A mucosa that is part of a duodenum [Automatically generated definition]." [OBOL:automatic] synonym: "Doudenal mucosa" EXACT [FMA:14942] synonym: "Duodenal mucous membrane" EXACT [FMA:14942] synonym: "duodenum mucosa" RELATED [BTO:0000367] synonym: "mucosa of duodenum" EXACT [OBOL:automatic] synonym: "mucous membrane of duodenum" EXACT [OBOL:automatic] xref: BTO:0000367 xref: EMAPA:27235 xref: FMA:14942 xref: SCTID:362146003 is_a: UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0000322 name: cerebral lobe namespace: uberon comment: set/singular synonym: "Cerebral lobes" EXACT [FMA:77800] synonym: "Cerebral lobes set" EXACT [FMA:77800] synonym: "lobi cerebri" EXACT LATIN [FMA:77800, FMA:TA] synonym: "set of cerebral lobes" RELATED [FMA:77800] xref: BTO:0000445 xref: FMA:77800 xref: SCTID:272632001 is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: UBERON:0000323 name: late embryo namespace: uberon comment: TODO - check fetus/embryo. WP: An embryo is a multicellular diploid eukaryote in its earliest stage of development, from the time of first cell division until birth, hatching, or germination. In humans, it is called an embryo until about eight weeks after fertilization (i.e. ten weeks LMP), and from then it is instead called a fetus. synonym: "embryo late growth stage" RELATED [BTO:0000449] synonym: "embryo late stage" RELATED [BTO:0000449] synonym: "fetus" NARROW [BTO:0000449] xref: BTO:0000449 xref: CALOHA:TS-0360 xref: EFO:0001323 xref: FBbt:00005333 xref: FMA:63919 xref: GAID:552 xref: MESH:A16.378 xref: OpenCyc:Mx4rvZfC2ZwpEbGdrcN5Y29ycA xref: SCTID:83418008 xref: UMLS:C0015965 xref: ncithesaurus:Fetus is_a: UBERON:0000922 ! embryo relationship: existence_ends_with UBERON:0007220 ! late embryonic stage [Term] id: UBERON:0000325 name: gastric gland namespace: uberon def: "any of the branched tubules in the inner lining of the stomach that secrete gastric juice and protective mucus." [] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: BTO:0000503 xref: FMA:14919 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003294 ! gland of foregut relationship: part_of UBERON:0006924 ! stomach glandular epithelium [Term] id: UBERON:0000326 name: pancreatic juice namespace: uberon def: "Pancreatic juice is slightly alkaline and contains numerous enzymes and inactive enzyme precursors including alpha-amylase, chymotrypsinogen, lipase, procarboxypeptidase, proelastase, prophospholipase A2, ribonuclease, and trypsinogen. Its high concentration of bicarbonate ions helps to neutralize the acid from the stomach." [GO:0030157] synonym: "succus pancreaticus" RELATED [BTO:0000504] xref: BTO:0000504 xref: FMA:62973 xref: GAID:1166 xref: MESH:A12.200.567 is_a: UBERON:0000456 ! bodily secretion relationship: secreted_by UBERON:0001264 ! pancreas [Term] id: UBERON:0000328 name: gut wall namespace: uberon synonym: "wall of alimentary tract" RELATED [] synonym: "wall of digestive tract" EXACT [] synonym: "wall of gut" EXACT [FMA:45653] xref: BTO:0000547 xref: FMA:45653 is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0000329 name: hair root namespace: uberon def: "The enlarged basal part of a hair within the skin[BTO]. The root of the hair ends in an enlargement, the hair bulb, which is whiter in color and softer in texture than the shaft, and is lodged in a follicular involution of the epidermis called the hair follicle. [Wikipedia]." [BTO:0000555, Wikipedia:Hair_root] synonym: "root of hair" EXACT [FMA:70730] xref: BTO:0000555 xref: FMA:70730 xref: UMLS:C1182707 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Gray944.png/200px-Gray944.png xref: ncithesaurus:Hair_Root is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001037 ! strand of hair [Term] id: UBERON:0000331 name: ileal mucosa namespace: uberon def: "A mucosa that is part of a ileum [Automatically generated definition]." [OBOL:automatic] synonym: "ileal mucous membrane" EXACT [FMA:14956] synonym: "ileum mucosa" EXACT [FMA:14956, OBOL:automatic] synonym: "ileum mucosa of organ" EXACT [OBOL:automatic] synonym: "ileum mucous membrane" EXACT [OBOL:automatic] synonym: "ileum organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of ileum" EXACT [OBOL:automatic] synonym: "mucosa of organ of ileum" EXACT [OBOL:automatic] synonym: "mucous membrane of ileum" EXACT [OBOL:automatic] synonym: "organ mucosa of ileum" EXACT [OBOL:automatic] xref: BTO:0000619 xref: FMA:14956 xref: SCTID:85458007 is_a: UBERON:0000064 ! organ part is_a: UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0002116 ! ileum [Term] id: UBERON:0000332 name: yellow bone marrow namespace: uberon def: "bone marrow in which the fat cells predominate in the meshes of the reticular network." [http://medical-dictionary.thefreedictionary.com/Yellow+Marrow] synonym: "fat marrow" RELATED [BTO:0000635] synonym: "medulla ossium flava" EXACT LATIN [BTO:0000635] synonym: "yellow marrow" RELATED [BTO:0000635] xref: BTO:0000635 xref: FMA:74596 xref: SCTID:328639002 xref: SCTID:5023006 is_a: UBERON:0001013 ! adipose tissue intersection_of: UBERON:0002371 ! bone marrow intersection_of: composed_primarily_of CL:0000136 ! fat cell [Term] id: UBERON:0000333 name: intestinal gland namespace: uberon def: "A gland that is part of the intestinal mucosa. Examples include the intestinal crypts, duodenal gland[cjm]." [UBERON:cjm] comment: Note that some sources treat 'intestinal gland' as synonymous with subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "Lieberkuehn`s gland" RELATED [BTO:0000640] synonym: "bowel mucosa gland" EXACT [OBOL:automatic] synonym: "bowel mucosa of organ gland" EXACT [OBOL:automatic] synonym: "bowel mucous membrane gland" EXACT [OBOL:automatic] synonym: "bowel organ mucosa gland" EXACT [OBOL:automatic] synonym: "crypt of Lieberkuehn" RELATED [BTO:0000640] synonym: "gland of Lieberkuehn" RELATED [BTO:0000640] synonym: "gland of bowel mucosa" EXACT [OBOL:automatic] synonym: "gland of bowel mucosa of organ" EXACT [OBOL:automatic] synonym: "gland of bowel mucous membrane" EXACT [OBOL:automatic] synonym: "gland of bowel organ mucosa" EXACT [OBOL:automatic] synonym: "gland of intestinal mucosa" EXACT [OBOL:automatic] synonym: "gland of intestine mucosa" EXACT [OBOL:automatic] synonym: "gland of intestine mucosa of organ" EXACT [OBOL:automatic] synonym: "gland of intestine mucous membrane" EXACT [OBOL:automatic] synonym: "gland of intestine organ mucosa" EXACT [OBOL:automatic] synonym: "gland of mucosa of bowel" EXACT [OBOL:automatic] synonym: "gland of mucosa of intestine" EXACT [OBOL:automatic] synonym: "gland of mucosa of organ of bowel" EXACT [OBOL:automatic] synonym: "gland of mucosa of organ of intestine" EXACT [OBOL:automatic] synonym: "gland of mucous membrane of bowel" EXACT [OBOL:automatic] synonym: "gland of mucous membrane of intestine" EXACT [OBOL:automatic] synonym: "gland of organ mucosa of bowel" EXACT [OBOL:automatic] synonym: "gland of organ mucosa of intestine" EXACT [OBOL:automatic] synonym: "glandula intestinalis" EXACT [FMA:15052] synonym: "glandulae intestinales" RELATED [] synonym: "intestinal mucosa gland" EXACT [OBOL:automatic] synonym: "intestine mucosa gland" EXACT [OBOL:automatic] synonym: "intestine mucosa of organ gland" EXACT [OBOL:automatic] synonym: "intestine mucous membrane gland" EXACT [OBOL:automatic] synonym: "intestine organ mucosa gland" EXACT [OBOL:automatic] synonym: "mucosa of bowel gland" EXACT [OBOL:automatic] synonym: "mucosa of intestine gland" EXACT [OBOL:automatic] synonym: "mucosa of organ of bowel gland" EXACT [OBOL:automatic] synonym: "mucosa of organ of intestine gland" EXACT [OBOL:automatic] synonym: "mucous membrane of bowel gland" EXACT [OBOL:automatic] synonym: "mucous membrane of intestine gland" EXACT [OBOL:automatic] synonym: "organ mucosa of bowel gland" EXACT [OBOL:automatic] synonym: "organ mucosa of intestine gland" EXACT [OBOL:automatic] xref: BTO:0000640 xref: FMA:15052 xref: SCTID:266297002 is_a: UBERON:0002530 ! gland is_a: UBERON:0003408 ! gland of gut relationship: part_of UBERON:0001242 ! intestinal mucosa intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001242 ! intestinal mucosa [Term] id: UBERON:0000341 name: throat namespace: uberon def: "In anatomy, the throat is the anterior part of the neck, in front of the vertebral column. It consists of the pharynx and larynx. An important feature of the throat is the epiglottis, a flap which separates the esophagus from the trachea and prevents inhalation of food or drink. The throat contains various blood vessels, various pharyngeal muscles, the trachea (windpipe) and the esophagus. The hyoid bone and the clavicle are the only bones located in the throat of mammals. It is sometimes considered a synonym for fauces. [WP,unvetted]." [Wikipedia:Throat] comment: Taxon notes: The hyoid bone and the clavicle are the only bones located in the throat of mammals. synonym: "gula" RELATED LATIN [] xref: BTO:0000828 xref: FMA:228738 xref: OpenCyc:Mx4rwQtO_JwpEbGdrcN5Y29ycA xref: UMLS:C0230069 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Throat_Diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Throat_Diagram.png/200px-Throat_Diagram.png xref: ncithesaurus:Throat is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000974 ! neck property_value: has_relational_adjective "gular" xsd:string [Term] id: UBERON:0000344 name: mucosa namespace: uberon def: "A lining of mostly endodermal origin, covered in epithelium, which is involved in absorption and secretion. They line various body cavities that are exposed to the external environment and internal organs. It is at several places continuous with skin: at the nostrils, the lips, the ears, the genital area, and the anus. The sticky, thick fluid secreted by the mucous membranes and gland is termed mucus. The term mucous membrane refers to where they are found in the body and not every mucous membrane secretes mucus[WP]" [Wikipedia:Mucous_membrane] comment: AO notes: FMA has mucosa vs region of mucosa; these are subtypes of Mucosa: Mucosa of gallbladder, tongue, .... The following are subtypes of Region of mucosa: Mucosa of zone of stomach, trachea, bronchus, dorsum of tongue.... Depends on whether the covered area is an organ or organ component. Uberon does not regard organ vs organ component as crucial distinction and thus collapses these into a single class deliberately synonym: "mucosa of organ" EXACT [FMA:85355] synonym: "mucosa of organ part" EXACT [FMA:85358] synonym: "mucosal region" EXACT [FMA:85358] synonym: "mucous membrane" EXACT [FMA:85355] synonym: "organ mucosa" EXACT [FMA:85355] synonym: "region of mucosa" RELATED [FMA:85358] synonym: "tunica mucosa" RELATED LATIN [BTO:0000886, Wikipedia:Mucous_membrane] xref: AEO:0000199 xref: BTO:0000886 xref: EHDAA2:0003234 xref: EV:0100382 xref: FMA:85355 xref: FMA:85358 xref: GAID:297 xref: MESH:A10.615.550 xref: OpenCyc:Mx4rvmKNOpwpEbGdrcN5Y29ycA xref: SCTID:361693009 xref: UMLS:C0026724 xref: galen:Mucosa xref: http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xref: http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xref: ncithesaurus:Mucosa is_a: UBERON:0004923 ! organ component layer relationship: capable_of GO:0070254 ! mucus secretion property_value: spatially_disjoint_from UBERON:0000009 property_value: has_relational_adjective "mucosal" xsd:string [Term] id: UBERON:0000345 name: myelin namespace: uberon def: "a dielectric (electrically insulating) material that forms a layer, the myelin sheath, usually around only the axon of a neuron. Myelin is about 40 % water; the dry mass of myelin is about 70 - 85 % lipids and about 15 - 30 % proteins. Some of the proteins that make up myelin are myelin basic protein (MBP), myelin oligodendrocyte glycoprotein (MOG), and proteolipid protein (PLP). The primary lipid of myelin is a glycolipid called galactocerebroside (GalC). The intertwining hydrocarbon chains of sphingomyelin serve to strengthen the myelin sheath." [Wikipedia:Myelin] comment: editor note: cede to other ontology. Retired in ncit xref: BTO:0000894 xref: FMA:62977 xref: ncithesaurus:Myelin is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000346 name: myelin membrane namespace: uberon comment: BTO has def The multilamellar myelin membrane is a specisalised lipid-rich domain of the glial cell plasma membrane. FMA has primary term name Myelinated plasma membrane of Schwann cell synonym: "myelinated plasma membrane of Schwann cell" EXACT [FMA:73417] xref: BTO:0000895 xref: FMA:73417 is_a: UBERON:0000470 ! cell part relationship: has_part UBERON:0000345 ! myelin [Term] id: UBERON:0000347 name: myelin sheath namespace: uberon def: "the insulating envelope that surrounds nerve fibers or axons." [MP:0003871] synonym: "medullary sheath" RELATED [BTO:0000900] xref: BTO:0000900 xref: FMA:62983 xref: GAID:731 xref: GO:0043209 xref: MESH:A08.637.600.500 xref: UMLS:C0026973 xref: ncithesaurus:Myelin_Sheath is_a: UBERON:0000470 ! cell part relationship: has_part UBERON:0000345 ! myelin [Term] id: UBERON:0000348 name: ophthalmic nerve namespace: uberon def: "the sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the orbit and its contents, the nasal cavity and the skin of the nose and forehead." [MP:0009798, Wikipedia:Wikipedia:Ophthalmic_nerve] comment: Taxon notes. See: http://palaeos.com/vertebrates/glossary/glossaryPo.html synonym: "ciliary nerve" RELATED [http://palaeos.com/vertebrates/glossary/glossaryPo.html] synonym: "ethmoidal nerve" RELATED [Wikipedia:Ophthalmic_nerve] synonym: "first division of fifth cranial nerve" EXACT [FMA:52621] synonym: "first division of trigeminal nerve" EXACT [FMA:52621] synonym: "nervus ophthalmicus (V1)" EXACT [FMA:52621] synonym: "nervus ophthalmicus (Va)" EXACT [FMA:52621] synonym: "nervus ophthalmicus [v1]" EXACT LATIN [FMA:52621, FMA:TA] synonym: "nervus ophthalmicus [va]" EXACT LATIN [FMA:52621, FMA:TA] synonym: "ophthalmic division" RELATED [BTO:0000926, Wikipedia:Ophthalmic_nerve] synonym: "ophthalmic division [V1]" EXACT [FMA:52621] synonym: "ophthalmic division [Va]" EXACT [FMA:52621] synonym: "ophthalmic division of fifth cranial nerve" EXACT [FMA:52621] synonym: "ophthalmic division of trigeminal nerve (V1)" EXACT [FMA:52621] synonym: "ophthalmic division of trigeminal nerve (Va)" EXACT [FMA:52621] synonym: "ophthalmic nerve [V1]" EXACT [FMA:52621] synonym: "ophthalmic nerve [Va]" EXACT [FMA:52621] synonym: "opthalmic nerve" EXACT [Wikipedia:Ophthalmic_nerve] synonym: "profundus nerve" RELATED [http://palaeos.com/vertebrates/glossary/glossaryPo.html] synonym: "ramus opthalmicus profundus (ramus V1)" EXACT [AAO:0010648] synonym: "trigeminal V nerve ophthalmic division" EXACT [MA:0001104] xref: AAO:0010648 xref: BTO:0000926 xref: EHDAA2:0002088 xref: EHDAA:3744 xref: EMAPA:17800 xref: FMA:52621 xref: GAID:837 xref: MA:0001104 xref: MESH:A08.800.800.120.760.650 xref: OpenCyc:Mx4rwEs_K5wpEbGdrcN5Y29ycA xref: SCTID:280210000 xref: UMLS:C0029082 xref: VHOG:0001349 xref: ncithesaurus:Ophthalmic_Nerve is_a: UBERON:0002003 ! peripheral nerve relationship: branch_of UBERON:0001645 ! trigeminal nerve property_value: external_definition "Sensory medial ramus of the trigeminal nerve.[AAO]" xsd:string property_value: homology_notes "The profundus nerve is a distinct nerve only in fishes. (...) In mammals, the profundus nerve is the same as the most rostral (ophthalmic) branch of the trigeminal nerve.[well established][VHOG]" xsd:string [Term] id: UBERON:0000349 name: limbic system namespace: uberon def: "A set of midline structures surrounding the brainstem of the mammalian brain, originally described anatomically, e.g., hippocampal formation, amygdala, hypothalamus, cingulate cortex. Although the original designation was anatomical, the limbic system has come to be associated with the system in the brain subserving emotional functions. As such, it is very poorly defined and doesn't correspond closely to the anatomical meaning any longer. [BirnLex]. including the hippocampus, amygdala, anterior thalamic nuclei, and limbic cortex, which support a variety of functions including emotion, behavior, long term memory, and olfaction [Wikipedia]." [BIRNLEX:Limbic_system, Wikipedia:Limbic_system] comment: obsoletion recommended. The current part_of children were chosen as the intersection of what is stated in wikipedia and in the FMA. NIF: We are including Limbic System because it is still used by neuroscientists and others, but as a data annotation term, it is very poor because it is not a clearly defined entity. xref: BTO:0000928 xref: FMA:242000 xref: GAID:615 xref: MESH:A08.186.211.577 xref: OpenCyc:Mx4rwAeba5wpEbGdrcN5Y29ycA xref: SCTID:361342009 xref: UMLS:C0023715 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Brain_limbicsystem.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5c/Brain_limbicsystem.jpg/200px-Brain_limbicsystem.jpg xref: ncithesaurus:Limbic_System is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0000351 name: nuchal ligament namespace: uberon def: "a fibrous membrane, which, in the neck, represents the supraspinal ligaments of the upper vertebrC&. As it is required for running, not all animals have a nuchal ligament" [Wikipedia:Nuchal_ligament] synonym: "ligament of neck" EXACT [FMA:13427] synonym: "ligamentum nuchae" EXACT LATIN [FMA:13427] synonym: "paddywhack" RELATED [Wikipedia:Paddywhack] synonym: "paxwax" RELATED [] xref: BTO:0000952 xref: EMAPA:19207 xref: FMA:13427 xref: SCTID:166962007 is_a: UBERON:0003568 ! neck connective tissue is_a: UBERON:0004267 ! back connective tissue is_a: UBERON:0008846 ! skeletal ligament relationship: attaches_to UBERON:0001676 ! occipital bone relationship: attaches_to UBERON:0002413 ! cervical vertebra relationship: part_of UBERON:0012477 ! dorsal part of neck [Term] id: UBERON:0000353 name: parenchyma namespace: uberon def: "functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues. Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin[WP]." [Wikipedia:Parenchyma] xref: EHDAA:3015 xref: EHDAA:3905 xref: EHDAA:3999 xref: EHDAA:4005 xref: EHDAA:6899 xref: EHDAA:6903 xref: EHDAA:6994 xref: EHDAA:8086 xref: EHDAA:9182 xref: EHDAA:9190 xref: EHDAA:9196 xref: EHDAA:9202 xref: FMA:45732 xref: UMLS:C0933845 xref: ncithesaurus:Parenchyma is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0000355 name: pharyngeal mucosa namespace: uberon alt_id: UBERON:0003344 def: "A mucosa that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "Mucous membrane of pharynx" EXACT [FMA:55031] synonym: "mucosa of organ of pharynx" EXACT [OBOL:automatic] synonym: "mucosa of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of the pharynx" RELATED [BTO:0001047] synonym: "organ mucosa of pharynx" EXACT [OBOL:automatic] synonym: "pharynx mucosa" EXACT [OBOL:automatic] synonym: "pharynx mucosa of organ" EXACT [OBOL:automatic] synonym: "pharynx mucous membrane" EXACT [OBOL:automatic] synonym: "pharynx organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa pharyngea" EXACT LATIN [FMA:55031, FMA:TA] synonym: "tunica mucosa pharyngis" EXACT [] xref: BTO:0001047 xref: EMAPA:26957 xref: EMAPA:26965 xref: FMA:55031 xref: SCTID:362121003 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0000358 name: blastocyst namespace: uberon def: "The mammalian blastocyst is a hollow ball of cells containing two cell types, the inner cell mass and the trophectoderm[GO]." [GO:0001824, Wikipedia:Blastocyst] comment: Editor's note: Gilbert fig11.32 has blastocyst has giving rise to ICM and trophoblast (which in this source is a synonym for trophectoderm) synonym: "blastocystis" RELATED LATIN [Wikipedia:Blastocyst] synonym: "blastula" RELATED [FMA:83041] xref: BTO:0001099 xref: EFO:0000295 xref: EV:0100394 xref: FMA:83041 xref: GAID:1153 xref: MESH:A16.254.085 xref: SCTID:308837009 xref: UMLS:C1281743 xref: http://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/72/Blastocyst_English.svg/200px-Blastocyst_English.svg.png xref: ncithesaurus:Blastocyst is_a: UBERON:0002050 ! embryonic structure relationship: existence_starts_and_ends_during UBERON:0000108 ! blastula stage relationship: has_part UBERON:0000087 ! inner cell mass relationship: has_part UBERON:0000088 ! trophoblast relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0000359 name: preputial gland namespace: uberon def: "An exocrine gland that are located in front of the genitals of some mammals (including mice) and produce pheromones[WP]." [Wikipedia:Preputial_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "glandulae preputiales" EXACT LATIN [FMA:71652, FMA:TA] synonym: "preputial glands" EXACT [FMA:71652] synonym: "preputial glands set" EXACT [FMA:71652] synonym: "set of preputial glands" RELATED PLURAL [FMA:71652] xref: FMA:71652 xref: SCTID:278916008 xref: UMLS:C1947929 xref: ncithesaurus:Prepucial_Gland_MMHCC is_a: UBERON:0001821 ! sebaceous gland is_a: UBERON:0003937 ! sex gland relationship: part_of UBERON:0000990 ! reproductive system property_value: dubious_for_taxon NCBITaxon:9606 property_value: external_definition "the paired, lobulated, modified sebaceous glands of the corona, the neck of the glans penis, and the inner surface of the prepuce with pheromonal functions in male rodents; male preputial secretions strongly attract females, may accelerate estrus, and have been implicated in intermale aggression; homologous to the clitoral glands (aka female preputial glands) in female rodents; there is no true anatomical equivalent in humans." xsd:string property_value: homology_notes "There is debate about whether humans have functional homologues to preputial glands." xsd:string [Term] id: UBERON:0000360 name: obsolete rectal gland namespace: uberon is_obsolete: true consider: UBERON:0004757 ! rectal gland consider: UBERON:0004758 ! salt gland consider: UBERON:0004759 ! salt gland of cranial region consider: UBERON:0004760 ! gland of anal canal [Term] id: UBERON:0000361 name: red bone marrow namespace: uberon def: "The red vascular substance consisting of connective tissue and blood vessels, containing primitive blood cells, macrophages, megakaryocytes, and fat cells. Red marrow is found in the cavities of many bones. It manufactures and releases leukocytes and erythrocytes into the bloodstream." [http://medical-dictionary.thefreedictionary.com/red+marrow] synonym: "medulla ossium rubra" EXACT LATIN [BTO:0001160] synonym: "red marrow" RELATED [BTO:0001160] xref: BTO:0001160 xref: FMA:74595 xref: SCTID:328538003 xref: SCTID:75330005 intersection_of: UBERON:0002371 ! bone marrow intersection_of: composed_primarily_of CL:0000988 ! hematopoietic cell [Term] id: UBERON:0000362 name: renal medulla namespace: uberon def: "The renal medulla is the innermost part of the kidney. The renal medulla is split up into a number of sections, known as the renal pyramids. Blood enters into the kidney via the renal artery, which then splits up to form the arcuate arterioles. The arcuate arterioles each in turn branch into interlobular arterioles, which finally reach the glomeruli. At the glomerulus the blood reaches a highly disfavourable pressure gradient and a large exchange surface area, which forces the serum portion of the blood out of the vessel into the renal tubules. Flow continues through the renal tubules, including the proximal tubule, the Loop of Henle, and finally leaves the kidney by means of the collecting duct, leading to the renal ureter. The renal medulla (latin renes medulla = kidney middle) contains the structures of the nephrons responsible for maintaining the salt and water balance of the blood. The renal medulla is hypertonic to the filtrate in the nephron and aids in the reabsorption of water. [WP,unvetted]." [Wikipedia:Renal_medulla] synonym: "kidney medulla" EXACT [OBOL:automatic] synonym: "medulla of kidney" EXACT [OBOL:automatic] synonym: "medulla renalis" EXACT LATIN [FMA:74268, FMA:TA] synonym: "medullary pyramids" EXACT [FMA:74268] synonym: "pyramides renales" EXACT LATIN [FMA:74268, FMA:TA] synonym: "renal marrow" RELATED [BTO:0001167] synonym: "renal medullae" EXACT [FMA:86327] synonym: "renal medullae set" EXACT [FMA:86327] synonym: "renal pyramids" EXACT [FMA:74268] synonym: "renal pyramids set" EXACT [FMA:74268] synonym: "set of medullary pyramids" RELATED [FMA:74268] synonym: "set of renal pyramids" RELATED [FMA:74268] xref: BTO:0001167 xref: EMAPA:19279 xref: FMA:74268 xref: GAID:425 xref: MA:0000373 xref: MESH:A05.810.453.466 xref: SCTID:30737000 xref: UMLS:C0022664 xref: galen:MedullaOfKidney xref: http://upload.wikimedia.org/wikipedia/commons/6/69/Illu_kidney.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/69/Illu_kidney.jpg/200px-Illu_kidney.jpg xref: ncithesaurus:Renal_Medulla is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0006554 ! urinary system structure relationship: has_function_in GO:0070295 ! renal water absorption intersection_of: UBERON:0000958 ! medulla intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0000363 name: reticuloendothelial system namespace: uberon def: "A part of the immune system that consists of the phagocytic cells located in reticular connective tissue. The cells are primarily monocytes and macrophages, and they accumulate in lymph nodes and the spleen. The Kupffer cells of the liver and tissue histiocytes are also part of the RES. A lymphoma of the reticuloendothelial system is called reticuloendotheliosis[WP]." [Wikipedia:Reticuloendothelial_system] synonym: "RES" EXACT [Wikipedia:Reticuloendothelial_system] synonym: "lymphoreticular" RELATED [BioMart:BioMart] synonym: "lymphoreticular system" EXACT [Wikipedia:Reticuloendothelial_system] synonym: "mononuclear phagocyte system" EXACT [FMA:84189] xref: BTO:0001174 xref: EV:0100048 xref: FMA:84189 xref: GAID:1004 xref: MESH:A15.382.812 xref: SCTID:278874002 xref: UMLS:C0035287 xref: ncithesaurus:Reticuloendothelial_System is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0002405 ! immune system [Term] id: UBERON:0000364 name: obsolete rootlet namespace: uberon is_obsolete: true consider: FMA:76787 synonym: "Rootlets" EXACT [FMA:76787] synonym: "Rootlets set" EXACT [FMA:76787] synonym: "fila radicularia" EXACT LATIN [FMA:76787, FMA:TA] xref: BTO:0001192 [Term] id: UBERON:0000365 name: urothelium namespace: uberon def: "The urothelium is the epithelial tissue layer that lines much of the urinary tract, including the renal pelvis, the ureters, the bladder, and parts of the urethra." [Wikipedia:Urothelium] comment: consider merging with transitional epithelium. MA uses the label 'urothelium' exclusively. FMA uses 'transitional epithelium' and has 'urothelium' as a sibling. FMA also lists 'urothelium' as the only example of 'transitional epithelium' synonym: "transitional epithelium" BROAD INCONSISTENT [] synonym: "uroepithelium" EXACT [FMA:67695] xref: BTO:0003906 xref: EMAPA:28089 xref: FMA:67695 xref: GAID:935 xref: MESH:A10.272.850 xref: SCTID:57789003 xref: UMLS:C0227598 xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Harnblase_Urothel.png xref: ncithesaurus:Urothelium is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0005910 ! transitional epithelium intersection_of: part_of UBERON:0001008 ! excretory system property_value: has_relational_adjective "urothelial" xsd:string [Term] id: UBERON:0000366 name: flexor muscle namespace: uberon def: "A muscle that when contracted acts to bend a joint or limb in the body." [BTO:0001257] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "flexor" RELATED [] xref: BTO:0001257 xref: FMA:74559 xref: FMA:74999 xref: TAO:0005271 xref: ZFA:0005271 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010977 ! flexor pre-muscle mass relationship: part_of UBERON:0004708 ! limb/fin property_value: external_definition "A muscle that decreases the angle of a joint.[TAO]" xsd:string [Term] id: UBERON:0000368 name: adductor brevis namespace: uberon def: "The adductor brevis is a muscle in the thigh situated immediately behind the pectineus and adductor longus. It is somewhat triangular in form, and arises by a narrow origin from the outer surfaces of the superior and inferior rami of the pubis, between the gracilis and obturator externus. Its fibers, passing backward, lateralward, and downward, are inserted, by an aponeurosis, into the line leading from the lesser trochanter to the linea aspera and into the upper part of the linea aspera, immediately behind the pectineus and upper part of the adductor longus.[WP]." [Wikipedia:Adductor_brevis_muscle] synonym: "Musculus adductos brevis" EXACT [FMA:22442] synonym: "adductor brevis muscle" EXACT [] xref: BTO:0001288 xref: FMA:22442 xref: OpenCyc:Mx4rv13lfJwpEbGdrcN5Y29ycA xref: SCTID:181687007 xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Anterior_Hip_Muscles_2.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e2/Anterior_Hip_Muscles_2.PNG/200px-Anterior_Hip_Muscles_2.PNG is_a: UBERON:0004252 ! hindlimb stylopod muscle is_a: UBERON:0011144 ! adductor muscle of hip relationship: has_muscle_insertion UBERON:0002504 ! lesser trochanter relationship: has_muscle_origin UBERON:0001275 ! pubis relationship: innervated_by UBERON:0005465 ! obturator nerve relationship: part_of UBERON:0000376 ! hindlimb stylopod [Term] id: UBERON:0000369 name: corpus striatum namespace: uberon def: "The corpus striatum (striated body) is a compound structure consisting of the caudate nucleus and the lentiform nucleus, which consists of the putamen and the globus pallidus[WP]." [Wikipedia:Corpus_striatum] comment: The term has been used in a few different ways: * It is a pair of nuclear masses which form the basal ganglia, along with the subthalamic nucleus and the substantia nigra. * It may also refer to both the basal ganglia and internal capsule collectively.[2] * According to the 1917 version of Gray's Anatomy, it is the combination of the lentiform nucleus (also known as the lenticular nucleus) and the caudate nucleus * According to BrainInfo it is a part of the basal ganglia comprising the globus pallidus and striatum synonym: "striate body" RELATED [BTO:0001311] synonym: "striated body" RELATED [BTO:0001311] xref: BTO:0001311 xref: CALOHA:TS-0183 xref: EFO:0000381 xref: EMAPA:17549 xref: EV:0100184 xref: FMA:77616 xref: GAID:667 xref: MESH:A08.186.211.730.885.105.487 xref: SCTID:279318005 xref: UMLS:C0010097 xref: VHOG:0001175 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Gray656.png/200px-Gray656.png xref: ncithesaurus:Corpus_Striatum is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: immediate_transformation_of UBERON:0010082 ! future corpus striatum relationship: part_of UBERON:0002420 ! basal ganglion property_value: homology_notes "Thus, certain telencephalic characters - such as the presence of a pallium divided into lateral, dorsal, and medial formations and a subpallium divided into striatum and septum - appear to characterize all vertebrates. They are primitive characters and are homologous among all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000370 name: adductor magnus namespace: uberon def: "An adductor muscle that attaches to the pelvic bone and the femur. In humans, the adductor magnus is a large triangular muscle, situated on the medial side of the thigh. The portion which arises from the ischiopubic ramus (a small part of the inferior ramus of the pubis, and the inferior ramus of the ischium) is called the 'adductor magnesius portion', and the portion arising from the tuberosity of the ischium is called the 'hamstring portion'. The hamstring portion is not considered part of the hamstring group of muscles, but it is adjacent to it.[WP,generalized]." [Wikipedia:Adductor_magnus_muscle] comment: Definition generalized to accommodate AAO class - \"Origin by two heads that are separated by a ventral tendon of the M. semitendinosus. One head originates from the ventral border of the pubic portion of the pelvic rim. The other head originates from the ischiatic border of the pelvic rim. The ventral head fuses with accessory head from the M. semitendinosus and inserts along the ventro-medial border of the femur. The dorsal belly merges with the ventral and accessory heads and inserts along the medial surface of the femur.\" [AAO:0010040] synonym: "adductor magnus muscle" EXACT [] synonym: "musculus adductor magnus" RELATED LATIN [Wikipedia:Adductor_magnus_muscle] xref: AAO:0010040 xref: BTO:0001312 xref: FMA:22443 xref: OpenCyc:Mx4rvuSd6JwpEbGdrcN5Y29ycA xref: SCTID:181688002 xref: galen:AdductorMagnus xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Anterior_Hip_Muscles_2.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e2/Anterior_Hip_Muscles_2.PNG/200px-Anterior_Hip_Muscles_2.PNG is_a: UBERON:0004252 ! hindlimb stylopod muscle is_a: UBERON:0011144 ! adductor muscle of hip relationship: has_muscle_insertion UBERON:0000981 ! femur relationship: has_muscle_origin UBERON:0001275 ! pubis relationship: innervated_by UBERON:0001322 ! sciatic nerve relationship: innervated_by UBERON:0005465 ! obturator nerve relationship: part_of UBERON:0000376 ! hindlimb stylopod property_value: external_definition "Origin by two heads that are separated by a ventral tendon of the M. semitendinosus. One head originates from the ventral border of the pubic portion of the pelvic rim. The other head originates from the ischiatic border of the pelvic rim. The ventral head fuses with accessory head from the M. semitendinosus and inserts along the ventro-medial border of the femur. The dorsal belly merges with the ventral and accessory heads and inserts along the medial surface of the femur.[AAO]" xsd:string [Term] id: UBERON:0000371 name: syncytiotrophoblast namespace: uberon def: "extraembryonic cells of trophoblastic shell surrounding embryo, outside the cytotrophoblast layer, involved with implantation of the blastocyst by eroding extracellular matrix surrounding maternal endometrial cells at site of implantation, also contribute to villi. (dark staining, multinucleated)." [Wikipedia:Syncytiotrophoblast, http://embryology.med.unsw.edu.au/Notes/placenta5.htm] synonym: "syncitiotrophoblast" RELATED [] synonym: "syncitiotrophoblastus" RELATED LATIN [Wikipedia:Syncytiotrophoblast] synonym: "syncytial trophoblast" EXACT [FMA:83040] synonym: "syntrophoblast" RELATED [] synonym: "syntrophoblast layer" EXACT [ISBN10:0073040584] xref: BTO:0001335 xref: EHDAA:129 xref: EHDAA:91 xref: EMAPA:16068 xref: FMA:83040 xref: SCTID:256965005 xref: UMLS:C1135936 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Gray36.png xref: ncithesaurus:Syncytiotrophoblast is_a: UBERON:0002050 ! embryonic structure relationship: composed_primarily_of CL:0000525 ! syncytiotrophoblast cell relationship: part_of UBERON:0000088 ! trophoblast relationship: part_of UBERON:0004364 ! ectoplacental cone [Term] id: UBERON:0000372 name: extensor digitorum brevis namespace: uberon def: "a muscle on the upper surface of the foot that helps extend digits 2 through 4." [Wikipedia:Extensor_digitorum_brevis_muscle] synonym: "extensor digitorum brevis muscle" EXACT [] synonym: "musculus extensor digitorum brevis" RELATED LATIN [Wikipedia:Extensor_digitorum_brevis_muscle] xref: BTO:0001337 xref: FMA:51140 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray441.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5f/Gray1241.png/200px-Gray1241.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray441.png/200px-Gray441.png is_a: UBERON:0000311 ! extensor muscle is_a: UBERON:0001498 ! muscle of pes relationship: has_muscle_insertion UBERON:0003221 ! phalanx relationship: has_muscle_origin UBERON:0001450 ! calcaneus relationship: part_of UBERON:0002387 ! pes [Term] id: UBERON:0000373 name: tapetum of corpus callosum namespace: uberon def: "On either side of the corpus collosum, the fibers radiate in the white substance and pass to the various parts of the cerebral cortex; those curving forward from the genu into the frontal lobe constitute the forceps anterior, and those curving backward into the occipital lobe, the forceps posterior. Between these two parts is the main body of the fibers which constitute the tapetum and extend laterally on either side into the temporal lobe, and cover in the central part of the lateral ventricle. [Wikipedia via Greys]" [Wikipedia:Tapetum_of_corpus_callosum] comment: not to be confused with BTO:0001350 or GO:0048655-tapetal layer morphogenesis synonym: "tapetum" BROAD INCONSISTENT [FMA:77208] synonym: "tapetum corporis callosi" RELATED LATIN [Wikipedia:Tapetum_of_corpus_callosum] xref: FMA:77208 xref: SCTID:279312006 xref: http://upload.wikimedia.org/wikipedia/commons/a/aa/Gray733.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Gray733.png/200px-Gray733.png is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0000375 name: mandibular nerve namespace: uberon def: "the motor and sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the auricle, the external acoustic meatus, tympanic membrane, temporal region, the cheek, the skin overlying the mandible, the anterior portion of the tongue, the floor of the mouth, lower teeth and gingiva and transmits motor information from the muscles of mastication, the mylohyoid muscle and digastric muscle and the muscles tensor tympani and tensor veli palatini." [MP:0009800, Wikipedia:Mandibular_nerve] synonym: "inferior maxillary nerve" EXACT [FMA:52996] synonym: "mandibular division [V3]" EXACT [FMA:52996] synonym: "mandibular division [Vc]" EXACT [FMA:52996] synonym: "mandibular division of fifth cranial nerve" EXACT [FMA:52996] synonym: "mandibular division of trigeminal nerve [Vc; V3]" EXACT [FMA:52996] synonym: "mandibular nerve [V3]" EXACT [FMA:52996] synonym: "mandibular nerve [Vc]" EXACT [FMA:52996] synonym: "n. mandibularis" RELATED LATIN [Wikipedia:Mandibular_nerve] synonym: "nervus mandibularis" RELATED [BTO:0001375] synonym: "nervus mandibularis [Vc; V3]" EXACT [FMA:52996] synonym: "nervus mandibularis [v3]" EXACT LATIN [FMA:52996, FMA:TA] synonym: "nervus mandibularis [vc]" EXACT LATIN [FMA:52996, FMA:TA] synonym: "ramus mandibularis (ramus V3)" EXACT [AAO:0010688] synonym: "third division of fifth cranial nerve" EXACT [FMA:52996] synonym: "third division of trigeminal nerve" EXACT [FMA:52996] synonym: "trigeminal V nerve mandibular division" EXACT [MA:0001101] xref: AAO:0010688 xref: AAO:0010703 xref: BTO:0001375 xref: EHDAA2:0002086 xref: FMA:52996 xref: GAID:834 xref: MA:0001101 xref: MESH:A08.800.800.120.760.500 xref: OpenCyc:Mx4rvcQKSpwpEbGdrcN5Y29ycA xref: SCTID:280212008 xref: UMLS:C0024695 xref: VHOG:0001345 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray781.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray781.png/200px-Gray781.png xref: ncithesaurus:Inferior_Maxillary_Nerve is_a: UBERON:0000063 ! organ segment is_a: UBERON:0001021 ! nerve is_a: UBERON:0004732 ! segmental subdivision of nervous system relationship: branch_of UBERON:0001645 ! trigeminal nerve [Term] id: UBERON:0000376 name: hindlimb stylopod namespace: uberon def: "In humans the thigh is the area between the pelvis and the knee. Anatomically, it is part of the lower limb. The single bone in the thigh is called the femur. This bone is very thick and strong (due to the high proportion of cortical bone), and forms a ball and socket joint at the hip, and a condylar joint at the knee. [WP,unvetted]." [Wikipedia:Thigh] comment: Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here synonym: "femur" RELATED LATIN [Wikipedia:Thigh] synonym: "hind limb stylopod" EXACT [OBOL:automatic] synonym: "hind limb stylopodium" EXACT [VHOG:0000349] synonym: "hind propodium" EXACT [AAO:0000887] synonym: "hindlimb propodium" EXACT [AAO:0000887] synonym: "hindlimb stylopod" EXACT [OBOL:automatic] synonym: "hindlimb stylopodium" EXACT [OBOL:automatic] synonym: "inferior member stylopod" EXACT [OBOL:automatic] synonym: "lower extremity stylopod" EXACT [OBOL:automatic] synonym: "proximal segment of free lower limb" EXACT [FMA:24967] synonym: "stylopod of hind limb" EXACT [OBOL:automatic] synonym: "stylopod of hindlimb" EXACT [OBOL:automatic] synonym: "stylopod of inferior member" EXACT [OBOL:automatic] synonym: "stylopod of lower extremity" EXACT [OBOL:automatic] synonym: "stylopod of lower limb" EXACT [] synonym: "thigh" EXACT [] synonym: "upper leg" EXACT [MA:0000052] xref: AAO:0000887 xref: BTO:0001376 xref: EFO:0001943 xref: EHDAA2:0002130 xref: EHDAA:5171 xref: EHDAA:6200 xref: EMAPA:17499 xref: FMA:24967 xref: GAID:50 xref: MA:0000052 xref: MESH:A01.378.610.750 xref: OpenCyc:Mx4rvVjN7JwpEbGdrcN5Y29ycA xref: SCTID:302544002 xref: UMLS:C0039866 xref: VHOG:0000349 xref: galen:Thigh xref: http://upload.wikimedia.org/wikipedia/commons/4/4b/Gray1238.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4b/Gray1238.png/200px-Gray1238.png xref: ncithesaurus:Thigh is_a: UBERON:0002472 ! stylopod is_a: UBERON:0008784 ! lower limb segment relationship: part_of UBERON:0000978 ! leg intersection_of: UBERON:0002472 ! stylopod intersection_of: part_of UBERON:0002103 ! hindlimb property_value: external_definition "Segment of the forearm corresponding to the humerus.[AAO]" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0000377 name: maxillary nerve namespace: uberon def: "the sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the palate, upper teeth and gingiva, the skin between the palpebral fissure and the mouth, and from the nasal cavity and maxillary sinuses." [MP:0009799, Wikipedia:Maxillary_nerve] synonym: "maxillary division [V2]" EXACT [FMA:52724] synonym: "maxillary division [Vb]" EXACT [FMA:52724] synonym: "maxillary division of fifth cranial nerve" EXACT [FMA:52724] synonym: "maxillary division of trigeminal nerve (Vb; V2)" EXACT [FMA:52724] synonym: "maxillary nerve [V2]" EXACT [FMA:52724] synonym: "maxillary nerve [Vb]" EXACT [FMA:52724] synonym: "n. maxillaris" RELATED LATIN [Wikipedia:Maxillary_nerve] synonym: "nervus maxillaris" RELATED [BTO:0001378] synonym: "nervus maxillaris (Vb; V2)" EXACT [FMA:52724] synonym: "nervus maxillaris [v2]" EXACT LATIN [FMA:52724, FMA:TA] synonym: "nervus maxillaris [vb]" EXACT LATIN [FMA:52724, FMA:TA] synonym: "ramus maxillaris (ramus V2)" EXACT [AAO:0010670] synonym: "second division of fifth cranial nerve" EXACT [FMA:52724] synonym: "second division of trigeminal nerve" EXACT [FMA:52724] synonym: "trigeminal V nerve maxillary division" EXACT [MA:0001103] xref: AAO:0010670 xref: BTO:0001378 xref: EHDAA2:0002087 xref: FMA:52724 xref: GAID:836 xref: MA:0001103 xref: MESH:A08.800.800.120.760.550 xref: OpenCyc:Mx4rvWNU9JwpEbGdrcN5Y29ycA xref: SCTID:280211001 xref: VHOG:0001346 xref: http://upload.wikimedia.org/wikipedia/commons/a/a9/Gray779.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a9/Gray779.png/200px-Gray779.png is_a: UBERON:0001021 ! nerve relationship: branch_of UBERON:0001645 ! trigeminal nerve property_value: axiom_lost_from_external_ontology "relationship loss: part_of trunk maxillary-mandibularis (AAO:0010669)[AAO]" xsd:string property_value: external_definition "Medial ramus (sensory) of the trigeminal nerve.[AAO]" xsd:string [Term] id: UBERON:0000378 name: tongue muscle namespace: uberon def: "the muscular portion of the tongue." [MP:0004136, Wikipedia:Muscles_of_tongue] synonym: "muscle of tongue" EXACT [FMA:46689] synonym: "musculi linguae" RELATED LATIN [Wikipedia:Muscles_of_tongue] xref: BTO:0001386 xref: FMA:46689 xref: SCTID:244781004 xref: UMLS:C0448325 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Gray1019.png xref: ncithesaurus:Tongue_Muscle is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002376 ! muscle of head relationship: has_developmental_contribution_from UBERON:0005594 ! head somite intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0000379 name: tracheal mucosa namespace: uberon def: "A mucosa that is part of a respiratory airway." [OBOL:automatic] synonym: "Mucous membrane of trachea" EXACT [FMA:7471] synonym: "Tracheal mucous membrane" EXACT [FMA:7471] synonym: "Tunica mucosa (tracheae)" EXACT [FMA:7471] synonym: "mucosa of organ of trachea" EXACT [OBOL:automatic] synonym: "mucosa of organ of windpipe" EXACT [OBOL:automatic] synonym: "mucosa of trachea" EXACT [OBOL:automatic] synonym: "mucosa of windpipe" EXACT [OBOL:automatic] synonym: "mucous membrane of trachea" EXACT [OBOL:automatic] synonym: "mucous membrane of windpipe" EXACT [OBOL:automatic] synonym: "organ mucosa of trachea" EXACT [OBOL:automatic] synonym: "organ mucosa of windpipe" EXACT [OBOL:automatic] synonym: "trachea mucosa" EXACT [OBOL:automatic] synonym: "trachea mucosa of organ" EXACT [OBOL:automatic] synonym: "trachea mucous membrane" EXACT [OBOL:automatic] synonym: "trachea organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa tracheae" EXACT LATIN [FMA:7471, FMA:TA] synonym: "windpipe mucosa" EXACT [OBOL:automatic] synonym: "windpipe mucosa of organ" EXACT [OBOL:automatic] synonym: "windpipe mucous membrane" EXACT [OBOL:automatic] synonym: "windpipe organ mucosa" EXACT [OBOL:automatic] xref: BTO:0001390 xref: FMA:7471 xref: SCTID:660006 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001005 ! respiratory airway [Term] id: UBERON:0000380 name: obsolete tuber namespace: uberon is_obsolete: true consider: EFO:0001015 consider: FMA:75430 comment: undefined in FMA. BTO and MIAA refers to plant structure only xref: BTO:0001400 xref: OpenCyc:Mx4raeDj5Cw8QdiT7e8pb2JzAA [Term] id: UBERON:0000381 name: urinary bladder detrusor smooth muscle namespace: uberon def: "bundles of smooth muscle fibers forming the muscular wall of the urinary bladder, which are arranged in a longitudinal and a circular layer and, on contraction, serve to expel urine[MP]." [MP:0011774, Wikipedia:Detrusor_urinae_muscle] synonym: "detrusor" EXACT [FMA:68018] synonym: "detrusor muscle" EXACT [BTO:0001453] synonym: "detrusor muscle of bladder" EXACT [EMAPA:28637] synonym: "detrusor urinae muscle" EXACT [Wikipedia:Detrusor_urinae_muscle] synonym: "muscularis propria" BROAD [Wikipedia:Detrusor_urinae_muscle, ncithesaurus:Muscularis_Propria] synonym: "muscularis propria of the urinary bladder" EXACT [Wikipedia:Detrusor_urinae_muscle] synonym: "musculus detrusor vesicae urinariae" RELATED LATIN [Wikipedia:Detrusor_urinae_muscle] synonym: "urinary bladder detrusor muscle" EXACT [MA:0001698] synonym: "urinary bladder detrussor smooth muscle" EXACT [MA:0001698] xref: BTO:0001453 xref: EMAPA:28637 xref: FMA:68018 xref: MA:0001698 xref: SCTID:279414008 xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Illu_bladder.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/57/Illu_bladder.jpg/200px-Illu_bladder.jpg xref: ncithesaurus:Muscularis_Propria is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004228 ! urinary bladder smooth muscle relationship: has_function_in GO:0060073 ! micturition relationship: has_muscle_origin UBERON:0001275 ! pubis relationship: part_of UBERON:0012378 ! muscle layer of urinary bladder relationship: has_muscle_insertion UBERON:0000996 {gci_relation="part_of",gci_filler="UBERON:0003100"} ! vagina relationship: has_muscle_insertion UBERON:0002367 {gci_relation="part_of",gci_filler="UBERON:0003101"} ! prostate gland [Term] id: UBERON:0000382 name: apocrine sweat gland namespace: uberon def: "Apocrine sweat glands are sweat glands composed of a coiled secretory portion located at the junction of the dermis and subcutaneous fat, from which a straight portion inserts and secretes into the infundibular portion of the hair follicle. In humans, apocrine sweat glands are found only in certain locations of the body: the axillae (armpits), the areola of the nipples, and the genitoanal region. The ducts of apocrine glands open into the canals of hair follicles. The stimulus for the secretion of apocrine sweat glands is adrenaline, which is a hormone carried in the blood[WP]." [Wikipedia:Apocrine_sweat_gland] comment: A note of confusion is the difference between apocrine secretion and apocrine sweat gland. Apocrine secretion refers to the apical loss of a cell's membrane to create cell blebs, thus creating a secretory product. Apocrine sweat gland refers to a structure, not a secretion process. Apocrine sweat glands actually use a merocrine type secretion, or that mediated by exocytosis of secretory granules. When \"apocrine gland\" is used without the word sweat, it is often referring to the gland which uses merocrine secretion, and not the secretion method. The important difference in apocrine sweat gland structure is its larger lumen, compared to the more narrow lumen of the eccrine sweat gland. subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "glandula sudorifera apocrina" EXACT LATIN [Wikipedia:Apocrine_sweat_gland] xref: BTO:0001458 xref: FMA:59155 xref: MESH:A10.336.899.206 xref: SCTID:399916008 xref: UMLS:C0930083 xref: ncithesaurus:Apocrine_Sweat_Gland is_a: UBERON:0001820 ! sweat gland is_a: UBERON:0010243 ! merocrine gland relationship: part_of UBERON:0001003 ! epidermis disjoint_from: UBERON:0000423 ! eccrine sweat gland property_value: never_in_taxon NCBITaxon:9822 [Term] id: UBERON:0000383 name: musculature of body namespace: uberon def: "Anatomical system that consists of all the muscles of the body[VSAO, modified]." [VSAO:0000033] comment: AO notes: we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA synonym: "muscle system" EXACT [] synonym: "muscle system of body" EXACT [] synonym: "muscular system" EXACT [FMA:72954] synonym: "musculature system" EXACT [BILA:0000088] synonym: "muskelsystem" RELATED [BTO:0001485] synonym: "set of all muscles" EXACT [FMA:72954] synonym: "set of muscles of body" EXACT [FMA:72954] synonym: "vertebrate muscular system" EXACT [BTO:0001369] xref: AAO:0000307 xref: BILA:0000088 xref: BTO:0001369 xref: BTO:0001485 xref: EFO:0000801 xref: FBbt:00005069 xref: FMA:72954 xref: MA:0002888 xref: MAT:0000025 xref: MIAA:0000025 xref: VSAO:0000033 xref: XAO:0004042 is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: never_in_taxon NCBITaxon:6040 property_value: external_definition "Anatomical system that consists of the muscles of the body.[VSAO]" xsd:string [Term] id: UBERON:0000385 name: obsolete labial gland namespace: uberon is_obsolete: true consider: FMA:71613 consider: HAO:0000449 comment: the label 'labial gland' refers to two distinct classes. From the BTO def: 1. One of the small tubular mucous and serous glands lying beneath the mucous membrane of the lips.n2. A salivary gland, or modification thereof, opening at the base of the labium in certain insects. synonym: "Labial glands" EXACT [FMA:71613] synonym: "Labial glands set" EXACT [FMA:71613] synonym: "glandulae labiales" EXACT LATIN [FMA:71613, FMA:TA] xref: BTO:0001548 [Term] id: UBERON:0000387 name: meniscus namespace: uberon def: "crescent-shaped fibrocartilaginous structure present in the knee, acromioclavicular, sternoclavicular, and temporomandibular joints[2] that, in contrast to articular disks, only partly divides a joint cavity.[3] A small meniscus also occurs in the radio-carpal joint." [Wikipedia:Meniscus_(anatomy)] synonym: "articular disc" EXACT [FMA:76690] xref: BTO:0001592 xref: EV:0100145 xref: FMA:76690 xref: UMLS:C0224498 xref: galen:Meniscus xref: ncithesaurus:Meniscus is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000388 name: epiglottis namespace: uberon def: "a flap of elastic cartilage tissue covered with a mucous membrane, attached to the entrance of the larynx. It projects obliquely upwards behind the tongue and the hyoid bone, pointing dorsally." [Wikipedia:Epiglottis] comment: Editor note: refine definition to better distinguish cartilage from the whole structure xref: BTO:0001628 xref: EHDAA2:0004081 xref: EMAPA:18289 xref: FMA:55130 xref: GAID:111 xref: MESH:A02.165.507.411 xref: OpenCyc:Mx4rvVjxE5wpEbGdrcN5Y29ycA xref: SCTID:245502004 xref: UMLS:C0014540 xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Gray958.png xref: ncithesaurus:Epiglottis is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0001051 ! hypopharynx property_value: never_in_taxon NCBITaxon:8782 property_value: has_relational_adjective "epiglottal" xsd:string [Term] id: UBERON:0000389 name: lens cortex namespace: uberon synonym: "cortex of lens" EXACT [FMA:58970] xref: BTO:0001632 xref: FMA:58970 xref: MESH:A09.371.509.225 xref: SCTID:280626006 is_a: UBERON:0001851 ! cortex is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0000390 name: lens nucleus namespace: uberon def: "The core of the crystalline lens, surrounded by the cortex." [BTO:0001633] comment: editor note: needs checked; cf nucleus in GO synonym: "nucleus of lens" EXACT [FMA:58971] xref: BTO:0001633 xref: FMA:58971 xref: MESH:A09.371.509.670 xref: SCTID:280628007 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0000391 name: leptomeninx namespace: uberon def: "pia mater or arachnoid mater." [Wikipedia:Leptomeninges] comment: AO notes: in FMA/NIF this is a superclass of PM/AM - in BTO it is the mereological sum. We go with superclass here, as we are naming the class in the singular. Editor notes: check relationship to secondary meninx subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "arachnoidea mater et pia mater" RELATED [BTO:0001634] synonym: "leptomeninges" EXACT PLURAL [NIF_GrossAnatomy:nlx_anat_090207] synonym: "pia-arachnoid" RELATED [BTO:0001634] xref: BTO:0001634 xref: FMA:231515 xref: NIF_GrossAnatomy:nlx_anat_090207 xref: SCTID:362303006 xref: UMLS:C0228126 xref: ncithesaurus:Leptomeninges is_a: UBERON:0002360 ! meninx is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0007646 ! endomeninx [Term] id: UBERON:0000392 name: longissimus muscle namespace: uberon def: "The longissimus is the muscle lateral to the semispinalis. It is the longest subdivision of the sacrospinalis that extends forward into the transverse processes of the posterior cervical vertebrae. [WP,unvetted]." [Wikipedia:Longissimus] synonym: "intermediate column of erector spinae" RELATED [] synonym: "longissimus" EXACT [FMA:77178] synonym: "musculus longissimus" EXACT LATIN [BTO:0001648, Wikipedia:Longissimus] xref: BTO:0001648 xref: FMA:77178 xref: SCTID:244858006 xref: http://upload.wikimedia.org/wikipedia/commons/1/1f/Longissimus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1f/Longissimus.png/200px-Longissimus.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_insertion UBERON:0001077 ! transverse process of vertebra relationship: has_muscle_origin UBERON:0001077 ! transverse process of vertebra relationship: innervated_by UBERON:0006839 ! posterior ramus of spinal nerve relationship: part_of UBERON:0002462 ! erector spinae muscle group [Term] id: UBERON:0000395 name: cochlear ganglion namespace: uberon def: "group of nerve cells that serve the sense of hearing by sending a representation of sound from the cochlea to the brain. The cell bodies of the spiral ganglion neurons are found in the spiral structure of the cochlea[WP]. the group of nerve cell bodies that conveys auditory sensation from the organ of Corti to the hindbrain and resides on the cochlear part of the vestibulocochlear nerve (eighth cranial nerve)[MP]." [MP:0002855, Wikipedia:Spiral_ganglion] comment: Editor notes: in BTO this is part of the cochlear modiolus, but this leads to the CG being in both the nervous and skeletal systems synonym: "Corti's ganglion" EXACT [FMA:53445] synonym: "ganglion cochlearis" RELATED [BTO:0001688] synonym: "ganglion of Corti" EXACT [FMA:53445] synonym: "ganglion spirale" RELATED LATIN [Wikipedia:Spiral_ganglion] synonym: "ganglion spirale cochleae" RELATED [BTO:0001688] synonym: "spiral ganglion" EXACT [FMA:53445] synonym: "spiral ganglion of cochlea" RELATED [BTO:0001688] synonym: "vestibulocochlear VIII ganglion cochlear component" EXACT [MA:0001085] xref: BTO:0001688 xref: EHDAA2:0002198 xref: FMA:53445 xref: GAID:722 xref: MA:0001085 xref: MESH:A08.340.390.800 xref: SCTID:368955007 xref: VHOG:0001183 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Gray903.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b1/Gray903.png/200px-Gray903.png is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: located_in UBERON:0006723 ! cochlear modiolus relationship: part_of UBERON:0002827 ! auditory ganglion [Term] id: UBERON:0000396 name: vallate papilla namespace: uberon alt_id: UBERON:0002927 def: "Any one of the largest papilla of the tongue, 8 to 12 in number, arranged in the form of a V anterior to the sulcus terminalis of the tongue" [BTO:0001705, Wikipedia:Vallate_papilla] synonym: "circumvallate papilla" EXACT [MA:0001594] synonym: "circumvallate papilla of tongue" EXACT [FMA:54822] synonym: "papilla vallatae" EXACT PLURAL [FMA:71449, FMA:TA] synonym: "vallate papilla of tongue" EXACT [] xref: BTO:0001705 xref: EMAPA:18271 xref: EMAPA:18654 xref: EMAPA:18871 xref: FMA:54822 xref: MA:0001594 xref: NIF_GrossAnatomy:birnlex_4106_2 xref: SCTID:69517000 xref: UMLS:C1182961 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray1015.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6c/Gray1015.png/200px-Gray1015.png xref: ncithesaurus:Circumvallate_Papilla is_a: UBERON:0001726 ! papilla of tongue [Term] id: UBERON:0000397 name: colonic epithelium namespace: uberon def: "An epithelium that is part of a colon [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Colon epithelium" EXACT [FMA:17302] synonym: "colon epithelial tissue" EXACT [OBOL:automatic] synonym: "colon epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of colon" EXACT [OBOL:automatic] synonym: "epithelial tissue of large bowel" EXACT [OBOL:automatic] synonym: "epithelium of colon" EXACT [OBOL:automatic] synonym: "epithelium of large bowel" EXACT [OBOL:automatic] synonym: "large bowel epithelial tissue" EXACT [OBOL:automatic] synonym: "large bowel epithelium" EXACT [OBOL:automatic] synonym: "posterior intestine epithelium" EXACT [ZFA:0005128] xref: BTO:0001709 xref: FMA:17302 xref: SCTID:42978003 xref: TAO:0005128 xref: ZFA:0005128 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0001278 ! epithelium of large intestine intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001155 ! colon property_value: external_definition "Intestinal epithelium which lines the lumen of the posterior intestine.[TAO]" xsd:string [Term] id: UBERON:0000398 name: cartilage tissue of sternum namespace: uberon def: "Any portion of cartilage tissue that is part of the sternum" [UBERON:cjm] comment: Examples: cartilage of manubrium, cartilage of xiphoid process synonym: "cartilage of sternum" EXACT [FMA:32567] xref: FMA:32567 is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0000975 ! sternum [Term] id: UBERON:0000399 name: jejunal mucosa namespace: uberon alt_id: UBERON:0003349 def: "A mucosa that is part of a jejunum [Automatically generated definition]." [OBOL:automatic] synonym: "jejunal mucous membrane" EXACT [FMA:14949] synonym: "jejunum mucosa" EXACT [FMA:14949] synonym: "jejunum mucosa of organ" EXACT [OBOL:automatic] synonym: "jejunum mucous membrane" EXACT [OBOL:automatic] synonym: "jejunum organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of jejunum" EXACT [FMA:14949] synonym: "mucosa of organ of jejunum" EXACT [OBOL:automatic] synonym: "mucous membrane of jejunum" EXACT [OBOL:automatic] synonym: "organ mucosa of jejunum" EXACT [OBOL:automatic] xref: BTO:0001742 xref: EMAPA:27109 xref: EMAPA:27347 xref: FMA:14949 xref: SCTID:362151009 is_a: UBERON:0000064 ! organ part is_a: UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0002115 ! jejunum [Term] id: UBERON:0000400 name: jejunal epithelium namespace: uberon def: "An epithelium that is part of a jejunum." [OBOL:automatic] synonym: "epithelium of jejunum" EXACT [] xref: BTO:0001743 xref: FMA:17232 xref: SCTID:57300004 is_a: UBERON:0001902 ! epithelium of small intestine is_a: UBERON:0013636 ! epithelium of intestinal villus relationship: part_of UBERON:0008343 ! intestinal villus of jejunum intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002115 ! jejunum [Term] id: UBERON:0000401 name: mandibular ramus namespace: uberon def: "The ramus of the mandible (perpendicular portion) is quadrilateral in shape, and has two surfaces, four borders, and two processes[WP]." [Wikipedia:Ramus_of_the_mandible] synonym: "lower ramus" RELATED [Wikipedia:Ramus_of_the_mandible] synonym: "mandible ramus" EXACT [MA:0002815] synonym: "rami mandibulae" RELATED PLURAL [Wikipedia:Ramus_of_the_mandible] synonym: "ramus mandibulae" RELATED PLURAL [Wikipedia:Ramus_of_the_mandible] synonym: "ramus of mandible" EXACT [FMA:52828] xref: BTO:0001751 xref: EMAPA:25100 xref: FMA:52828 xref: MA:0002815 xref: SCTID:361739000 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001684 ! mandible [Term] id: UBERON:0000402 name: nasal vestibule namespace: uberon def: "The nasal vestibule is the most anterior part of the nasal cavity. It's enclosed by the cartilages of nose and lined by the same epithelium of the skin. The other part of the nasal cavity, which is lined by the respiratory epithelium, is called nasal cavity proper. [WP,unvetted]." [Wikipedia:Nasal_vestibule] synonym: "vestibular part of nasal cavity" EXACT [FMA:59644] synonym: "vestibulum nasale" RELATED [BTO:0001761] synonym: "vestibulum nasi" RELATED LATIN [BTO:0001761, Wikipedia:Nasal_vestibule] xref: BTO:0001761 xref: FMA:59644 xref: SCTID:278940000 xref: http://upload.wikimedia.org/wikipedia/commons/7/7c/Gray994.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7c/Gray994.png/200px-Gray994.png is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001707 ! nasal cavity [Term] id: UBERON:0000403 name: scalp namespace: uberon def: "The outer covering of the calvaria. It is composed of several layers: SKIN; subcutaneous connective tissue; the occipitofrontal muscle which includes the tendonous galea aponeurotica; loose connective tissue; and the pericranium (the PERIOSTEUM of the SKULL)." [MESH:A01.456.810, Wikipedia:Scalp] synonym: "scalpus" RELATED LATIN [Wikipedia:Scalp] xref: BTO:0001809 xref: FMA:46494 xref: GAID:80 xref: MESH:A01.456.810 xref: OpenCyc:Mx4rwNtaz5wpEbGdrcN5Y29ycA xref: SCTID:181480002 xref: UMLS:C0036270 xref: galen:Scalp xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Layers_of_the_scalp_and_meninges.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/eb/Double_cowlick.jpg/200px-Double_cowlick.jpg xref: ncithesaurus:Scalp is_a: UBERON:0000477 ! anatomical cluster relationship: overlaps UBERON:0002097 ! skin of body relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0000407 name: sympathetic trunk namespace: uberon def: "One of a a paired bundle of nerve fibers that run from the base of the skull to the coccyx." [Wikipedia:Sympathetic_trunk] synonym: "gangliated cord" EXACT [Wikipedia:Sympathetic_trunk] synonym: "sympathetic chain" EXACT [FMA:6258] synonym: "sympathetic ganglionic chain" EXACT [Wikipedia:Sympathetic_trunk] synonym: "truncus sympathicus" RELATED LATIN [Wikipedia:Sympathetic_trunk] xref: AAO:0010791 xref: BTO:0001834 xref: EV:0100374 xref: FMA:6258 xref: SCTID:181099004 xref: XAO:0000211 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray847.png is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: in_lateral_side_of UBERON:0000013 ! sympathetic nervous system relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: UBERON:0000408 name: vertebral ganglion namespace: uberon synonym: "Intermediate ganglion" EXACT [FMA:6572] xref: BTO:0001835 xref: FMA:6572 xref: SCTID:176596009 is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004732 ! segmental subdivision of nervous system is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001991 ! cervical ganglion [Term] id: UBERON:0000409 name: serous gland namespace: uberon def: "Serous glands contain serous acini, a grouping of serous cells that secrete a fluid, isotonic with blood plasma, that contains enzymes such as alpha amylase. Serous glands are most common in the parotid gland and lacrimal gland but are also present in the submandibular gland and, to a far lesser extent, the sublingual gland." [Wikipedia:Serous_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: BTO:0001837 xref: FMA:62889 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray1021.png relationship: has_part UBERON:0013232 ! serous acinus intersection_of: UBERON:0002365 ! exocrine gland intersection_of: has_part CL:0000313 ! serous secreting cell property_value: external_definition "glands that secrete watery albuminous material that often contains enzymes[MP:0008052]." xsd:string [Term] id: UBERON:0000410 name: bronchial mucosa namespace: uberon def: "A mucosa that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "Mucous membrane of bronchus" EXACT [FMA:62652] synonym: "bronchi mucosa" EXACT [OBOL:automatic] synonym: "bronchi mucosa of organ" EXACT [OBOL:automatic] synonym: "bronchi mucous membrane" EXACT [OBOL:automatic] synonym: "bronchi organ mucosa" EXACT [OBOL:automatic] synonym: "bronchial trunk mucosa" EXACT [OBOL:automatic] synonym: "bronchial trunk mucosa of organ" EXACT [OBOL:automatic] synonym: "bronchial trunk mucous membrane" EXACT [OBOL:automatic] synonym: "bronchial trunk organ mucosa" EXACT [OBOL:automatic] synonym: "bronchus mucosa" EXACT [OBOL:automatic] synonym: "bronchus mucosa of organ" EXACT [OBOL:automatic] synonym: "bronchus mucous membrane" EXACT [OBOL:automatic] synonym: "bronchus organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of bronchi" EXACT [OBOL:automatic] synonym: "mucosa of bronchial trunk" EXACT [OBOL:automatic] synonym: "mucosa of bronchus" EXACT [OBOL:automatic] synonym: "mucosa of organ of bronchi" EXACT [OBOL:automatic] synonym: "mucosa of organ of bronchial trunk" EXACT [OBOL:automatic] synonym: "mucosa of organ of bronchus" EXACT [OBOL:automatic] synonym: "mucous membrane of bronchi" EXACT [OBOL:automatic] synonym: "mucous membrane of bronchial trunk" EXACT [OBOL:automatic] synonym: "mucous membrane of bronchus" EXACT [OBOL:automatic] synonym: "organ mucosa of bronchi" EXACT [OBOL:automatic] synonym: "organ mucosa of bronchial trunk" EXACT [OBOL:automatic] synonym: "organ mucosa of bronchus" EXACT [OBOL:automatic] synonym: "tunica mucosa bronchi" EXACT LATIN [FMA:62652, FMA:TA] xref: BTO:0001846 xref: FMA:62652 xref: SCTID:30802009 is_a: UBERON:0000064 ! organ part is_a: UBERON:0000379 ! tracheal mucosa is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0000411 name: visual cortex namespace: uberon def: "Area of the occipital lobe concerned with vision." [MESH:A08.186.211.730.885.213.571.735] comment: Editor note: merge with primary visual cortex? FMA and BTO treat as distinct synonym: "V1" RELATED [Wikipedia:Visual_cortex] synonym: "striate cortex" RELATED [MESH:A08.186.211.730.885.213.571.735] xref: BTO:0001857 xref: EFO:0000916 xref: EV:0100171 xref: FMA:242644 xref: GAID:679 xref: MESH:A08.186.211.730.885.213.571.735 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/70/Brodmann_areas_17_18_19.png/200px-Brodmann_areas_17_18_19.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0000412 name: dermal papilla namespace: uberon def: "small, nipple-like extensions (or interdigitations) of the dermis into the epidermis. They can be observed at the surface of the skin in hands and feet as epidermal or papillary ridges (colloquially known as fingerprints). The dermal papillae nourishes all hair follicles and bring food and oxygen to the lower layers of epidermal cells. The pattern of ridges they produce in hands and feet are inherited features that are developed before birth. They remain unaltered (except size) throughout life, and are therefore used for fingerprints. The dermal papillae are part of the uppermost layer of the dermis, the papillary dermis, and the ridges they form greatly increase the surface area between the dermis and epidermis. Because the dermis' main function is to support the epidermis, this greatly increases the exchange of oxygen, nutrients, and waste products between these two layers. Additionally, the increase in surface area prevent the dermal and epidermal layers from separating from each others by strengthening the junction between them. With age, the papillae tend to flatten and sometimes increase in numbers. Dermal papillae also play a pivotal role in hair formation, growth and, cycling" [Wikipedia:Dermal_papillae] comment: Consider adding grouping class for TAO:0001995 synonym: "DPC" RELATED [BTO:0001858] synonym: "dermal papilla cell" RELATED [BTO:0001858] synonym: "dermal papillae" EXACT PLURAL [] synonym: "follicular papilla" EXACT [FMA:70737] synonym: "hair follicle dermal papilla" RELATED [MP:0010687] synonym: "papilla corii" RELATED [BTO:0001858] synonym: "papilla dermatis" RELATED [BTO:0001858] synonym: "papilla dermis" RELATED [BTO:0001858] synonym: "papilla of corium" RELATED [BTO:0001858] synonym: "papillae dermis" RELATED LATIN [Wikipedia:Dermal_papillae] synonym: "skin papilla" RELATED [BTO:0001858] xref: BTO:0001858 xref: FMA:70737 xref: SCTID:320101005 xref: UMLS:C0221931 xref: http://upload.wikimedia.org/wikipedia/commons/3/34/Skin.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/34/Skin.jpg/200px-Skin.jpg xref: ncithesaurus:Dermal_Papilla is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001992 ! papillary layer of dermis [Term] id: UBERON:0000414 name: mucous gland namespace: uberon def: "A gland that secretes mucus[cjm]. In humans, these are found in several different parts of the body, typically stain lighter than serous glands during standard histological preparation. Most are multicellular, but goblet cell are single-celled glands. [WP,modified]." [Wikipedia:Mucous_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "glandula mucosa" RELATED LATIN [BTO:0001979, Wikipedia:Mucous_gland] synonym: "muciparous gland" RELATED [BTO:0001979] synonym: "mucus gland" RELATED [] xref: AAO:0010601 xref: BTO:0001979 xref: FMA:62888 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray1021.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Gray1021.png/200px-Gray1021.png relationship: has_part CL:0000319 ! mucus secreting cell relationship: secretes UBERON:0000912 ! mucus intersection_of: UBERON:0002365 ! exocrine gland intersection_of: capable_of GO:0070254 ! mucus secretion property_value: taxon_notes "In frogs and salamanders, this is the smaller of the two types of gland, the other being the granular (poison) gland. In these species the mucous gland is a cluster of cells that release secretion into a common duct[Kardong]" xsd:string [Term] id: UBERON:0000415 name: artery wall namespace: uberon def: "An anatomical wall that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "Arterial wall" EXACT [FMA:14155] synonym: "wall of artery" EXACT [FMA:14155] xref: BTO:0002009 xref: FMA:14155 xref: galen:ArterialWall is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001637 ! artery [Term] id: UBERON:0000416 name: subdural space namespace: uberon def: "A narrow fluid-containing space, often only a potential space, between the dura mater and the arachnoid." [BTO:0002082, PMID:8421539, Wikipedia:Subdural_space] comment: Consider obsoleting - see PMID:8421539 synonym: "cavum subdurale" RELATED [BTO:0002082] synonym: "spatium subdurale" RELATED [BTO:0002082] synonym: "spatium subdurale, cavum subdurale" RELATED LATIN [Wikipedia:Subdural_space] synonym: "subdural cavity" RELATED [BTO:0002082] synonym: "subdural cleavage" RELATED [BTO:0002082] synonym: "subdural cleft" RELATED [BTO:0002082] xref: BTO:0002082 xref: FMA:83803 xref: GAID:692 xref: MESH:A08.186.566.395.687 xref: SCTID:362308002 xref: http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray769-en.svg is_a: UBERON:0000464 ! anatomical space relationship: adjacent_to UBERON:0002362 ! arachnoid mater relationship: adjacent_to UBERON:0002363 ! dura mater [Term] id: UBERON:0000418 name: obsolete tubercle namespace: uberon is_obsolete: true [Term] id: UBERON:0000420 name: myoepithelium namespace: uberon def: "An epithelium consisting of myopethelial cells, which are contractile cells resembling smooth muscle cells that are present in glands, notably the mammary gland, and aid in secretion. This cell has long weaving dendritic processes containing myofilament[CL]." [CL:0000185, Wikipedia:Myoepithelial_cell] synonym: "myo-epithelium" EXACT [FMA:67805] synonym: "myoepitheliocytus" RELATED LATIN [Wikipedia:Myoepithelial_cell] xref: BTO:0002308 xref: FMA:67805 intersection_of: UBERON:0000488 ! atypical epithelium intersection_of: has_part CL:0000185 ! myoepithelial cell [Term] id: UBERON:0000423 name: eccrine sweat gland namespace: uberon def: "An ordinary, or simple, sweat gland; they are of the merocrine type, unbranched, coiled, tubular glands that are distributed over almost all of the body surface, and promote cooling by evaporation of their secretion." [BTO:0002323, Wikipedia:Eccrine_sweat_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "eccrine gland" RELATED [FMA:59154] synonym: "glandula sudorifera eccrina" EXACT LATIN [Wikipedia:Eccrine_sweat_gland] synonym: "glandula sudorifera merocrina" EXACT LATIN [Wikipedia:Eccrine_sweat_gland] synonym: "merocrine sweat gland" RELATED [] xref: BTO:0002323 xref: FMA:59154 xref: GAID:945 xref: MESH:A10.336.899.480 xref: SCTID:361699008 xref: UMLS:C0013492 xref: ncithesaurus:Eccrine_Sweat_Gland is_a: UBERON:0001820 ! sweat gland is_a: UBERON:0010243 ! merocrine gland relationship: part_of UBERON:0001003 ! epidermis [Term] id: UBERON:0000424 name: gastric pit namespace: uberon alt_id: UBERON:0000425 def: "Gastric pits are indentations in the stomach which denote entrances to the gastric glands. They are deeper in the pylorus than they are in the other parts of the stomach. The human stomach has several million of these pits." [Wikipedia:Gastric_pits] synonym: "foveola gastrica" RELATED [BTO:0002364] synonym: "foveolae gastricae" EXACT PLURAL [FMA:76583, FMA:TA, Wikipedia:Gastric_pits] synonym: "gastric foveola" EXACT [FMA:62947] xref: BTO:0002364 xref: FMA:62947 xref: SCTID:268426007 xref: UMLS:C0227203 xref: http://upload.wikimedia.org/wikipedia/commons/7/73/Illu_stomach_layers.jpg xref: ncithesaurus:Gastric_Pit is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001199 ! mucosa of stomach [Term] id: UBERON:0000426 name: extravillous trophoblast namespace: uberon synonym: "intermediate trophoblast" EXACT [FMA:86561] synonym: "interstitial trophoblast" RELATED [BTO:0002366] xref: BTO:0002366 xref: FMA:86561 is_a: UBERON:0002050 ! embryonic structure [Term] id: UBERON:0000427 name: obsolete cytotrophoblastic cell namespace: uberon is_obsolete: true consider: ncithesaurus:Cytotrophoblastic_Cell [Term] id: UBERON:0000428 name: prostate epithelium namespace: uberon alt_id: UBERON:0002452 def: "the prostate epithelium." [MP:0001168] comment: TODO - check 2 FMA IDs synonym: "epithelial tissue of prostate" EXACT [OBOL:automatic] synonym: "epithelial tissue of prostate gland" EXACT [OBOL:automatic] synonym: "epithelium of prostate" EXACT [OBOL:automatic] synonym: "epithelium of prostate gland" EXACT [OBOL:automatic] synonym: "epithelium of prostatic gland" EXACT [FMA:79643] synonym: "prostate epithelial tissue" EXACT [OBOL:automatic] synonym: "prostate gland epithelial tissue" EXACT [OBOL:automatic] synonym: "prostate gland epithelium" EXACT [] synonym: "prostatic epithelium" EXACT [FMA:66812] synonym: "prostatic gland epithelium" EXACT [] xref: BTO:0002397 xref: FMA:66812 xref: FMA:79643 xref: MA:0001737 xref: UMLS:C1179826 xref: ncithesaurus:Prostatic_Epithelium is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002367 ! prostate gland [Term] id: UBERON:0000429 name: enteric plexus namespace: uberon alt_id: UBERON:0012372 def: "A plexus of autonomic nerve fibers within the wall of the digestive tube, and made up of the submucosal, myenteric, and subserosal plexuses; it contains visceral afferent fibers, sympathetic postganglionic fibers, parasympathetic preganglionic and postganglionic fibers, and parasympathetic postganglionic cell bodies." [BTO:0002437] synonym: "enteric nerve plexus" EXACT [FMA:77597] synonym: "intrinsic nerve plexus" EXACT [MA:0001147] synonym: "plexus entericus" EXACT [BTO:0002437] synonym: "plexus nervosus entericus" EXACT LATIN [FMA:77597, FMA:TA] synonym: "sympathetic enteric nerve plexus" EXACT [FMA:77597] xref: BTO:0002437 xref: FMA:77597 xref: MA:0001147 is_a: UBERON:0001816 ! autonomic nerve plexus is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001810 ! nerve plexus intersection_of: part_of UBERON:0002005 ! enteric nervous system [Term] id: UBERON:0000430 name: ventral intermediate nucleus of thalamus namespace: uberon def: "A nucleus medially located within the ventral nuclei of the thalamus." [BTO:0002469] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "intermediate thalamic nucleus" RELATED [TAO:0000370] synonym: "nucleus ventralis intermedius thalami" RELATED [BTO:0002469] xref: BTO:0002469 xref: EV:0100208 xref: FMA:84347 xref: TAO:0000370 xref: ZFA:0000370 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001900 ! subthalamus [Term] id: UBERON:0000431 name: ventral medial complex of thalamus namespace: uberon synonym: "nuclei ventrales mediales thalami" RELATED [BTO:0002470] synonym: "set of ventral medial nuclei of thalamus" RELATED [FMA:77795] synonym: "ventral medial complex of thalamus" EXACT [FMA:77795] synonym: "ventral medial nuclei of thalamus" EXACT [FMA:77795] xref: BTO:0002470 xref: FMA:77795 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001897 ! thalamus [Term] id: UBERON:0000432 name: endopeduncular nucleus namespace: uberon def: "A portion of the nucleus of ansa lenticularis located medial to the posterior limb of the internal capsule, along the course of the ansa lenticularis and the inferior thalamic peduncle or as a separate nucleus within the internal capsule adjacent to the medial GLOBUS PALLIDUS (NeuroNames, http://rprcsgi.rprc. washington.edu/neuronames/ (September 28, 1998)). In non-primates, the entopeduncular nucleus is analogous to both the medial globus pallidus and the entopeduncular nucleus of human." [MESH:A08.186.211.730.385.800.240] comment: The term entopeduncular nucleus in human neuroanatomy refers to a portion of the nucleus of the ansa lenticularis described variously as located medial to the posterior limb of the internal capsule ( Riley-1943 ), along the course of the ansa lenticularis and the inferior thalamic peduncle ( Crosby-1962 ), or as a separate nucleus within the internal capsule adjacent to the medial segment of the globus pallidus ( Nomina-1983 ).[NN] synonym: "entopeduncular nucleus" RELATED [] synonym: "nucleus endopeduncularis" RELATED [BTO:0002475] synonym: "nucleus entopeduncularis" RELATED [] xref: BTO:0002475 xref: FMA:77691 xref: MESH:A08.186.211.730.385.800.240 xref: SCTID:82705008 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0009641 ! ansa lenticularis [Term] id: UBERON:0000433 name: posterior paraventricular nucleus of thalamus namespace: uberon synonym: "dorsal paraventricular nucleus of thalamus" EXACT [FMA:76961] synonym: "nucleus paraventricularis posterior thalami" RELATED [BTO:0002477] xref: BTO:0002477 xref: FMA:76961 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0000434 name: anterior paraventricular nucleus of thalamus namespace: uberon synonym: "nucleus paraventricularis anterior thalami" RELATED [BTO:0002478] synonym: "ventral paraventricular nucleus of thalamus" EXACT [FMA:76962] xref: BTO:0002478 xref: FMA:76962 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0000435 name: lateral tuberal nucleus namespace: uberon def: "Nerve cell nuclei situated ventrally in the intermediate hypothalamic region, mainly in the lateral hypothalamic area." [BTO:0002481] synonym: "Lateral tuberal hypothalamic nuclei" EXACT [FMA:62336] synonym: "Lateral tuberal nuclei" EXACT [FMA:62336] synonym: "lateral tuberal nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_1206] synonym: "nuclei tuberales laterales" RELATED [BTO:0002481] xref: ABA:TU xref: BM:TU xref: BTO:0002481 xref: EV:0100240 xref: FMA:62336 xref: NIF_GrossAnatomy:birnlex_1206 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002785 ! regional part of lateral hypothalamic region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002430 ! lateral hypothalamic area [Term] id: UBERON:0000437 name: arachnoid barrier layer namespace: uberon def: "The arachnoid barrier layer is a part of the arachnoid meningeal layer. It is formed by tight junctions between the endothelial cells of cerebral capillaries in the arachnoid mater." [BTO:0002498] xref: BTO:0002498 xref: FMA:231559 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002362 ! arachnoid mater [Term] id: UBERON:0000438 name: obsolete set of arachnoid trabecula namespace: uberon is_obsolete: true consider: FMA:77761 synonym: "Arachnoid trabeculae set" EXACT [FMA:77761] synonym: "trabeculae arachnoideae" EXACT LATIN [FMA:77761, FMA:TA] [Term] id: UBERON:0000439 name: arachnoid trabecula namespace: uberon def: "a small, often microscopic, tissue element in the form of a small beam, strut or rod, generally having a mechanical function, and usually but not necessarily composed of dense collagenous tissue." [GO:0060343] synonym: "trabecula arachnoideum" RELATED LATIN [] xref: BTO:0002500 xref: FMA:83979 is_a: UBERON:0000440 ! trabecula is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part GO:0005581 ! collagen relationship: part_of UBERON:0002362 ! arachnoid mater [Term] id: UBERON:0000440 name: trabecula namespace: uberon def: "A small, often microscopic, tissue element in the form of a small beam, strut or rod, generally having a mechanical function, and usually but not necessarily composed of dense collagenous tissue. On histological section, a trabecula can look like a septum, but in three dimensions they are topologically distinct, with trabeculae being roughly rod or pillar-shaped and septa being sheet-like.. Trabeculae are usually composed of dense fibrous tissue, i.e. mainly of collagen, and in most cases provide mechanical strengthening or stiffening to a soft solid organ, such as the spleen. They can be composed of other materials, such as bone or muscle[WP]." [GO:0060343, Wikipedia:Trabecula] subset: grouping_class ! Subset consisting of classes creating for grouping purposes xref: BTO:0002501 xref: FMA:85273 is_a: UBERON:0000064 ! organ part relationship: has_part GO:0005581 ! collagen property_value: has_relational_adjective "trabecular" xsd:string [Term] id: UBERON:0000442 name: right testicular vein namespace: uberon def: "A vein that drains the left pampiniform plexus and empties into the left renal vein." [Dorlands_Medical_Dictionary:MerckSource] synonym: "right spermatic vein" EXACT [MA:0002220] synonym: "vena testicularis (adrenalis) dextra" EXACT [FMA:14341] synonym: "vena testicularis dextra" RELATED [BTO:0002679] synonym: "vena testicularis sinistra" RELATED [BTO:0002680] xref: BTO:0002679 xref: FMA:14341 xref: MA:0002220 xref: SCTID:53500001 relationship: connected_to UBERON:0001142 ! left renal vein relationship: in_left_side_of UBERON:0000468 ! multi-cellular organism intersection_of: UBERON:0001144 ! testicular vein intersection_of: connected_to UBERON:0004534 ! right testicle [Term] id: UBERON:0000443 name: left testicular vein namespace: uberon def: "A vein that drains the right pampiniform plexus and empties into the inferior vena cava." [Dorlands_Medical_Dictionary:MerckSource] synonym: "left spermatic vein" EXACT [MA:0002219] synonym: "vena testicularis dextra" RELATED [BTO:0002679] synonym: "vena testicularis sinistra" RELATED [BTO:0002680] xref: BTO:0002680 xref: FMA:14345 xref: MA:0002219 xref: SCTID:90988008 relationship: in_left_side_of UBERON:0000468 ! multi-cellular organism intersection_of: UBERON:0001144 ! testicular vein intersection_of: connected_to UBERON:0004533 ! left testicle [Term] id: UBERON:0000444 name: lymphoid follicle namespace: uberon def: "." [http://purl.obolibrary.org/obo/uberon/tracker/6, http://purl.obolibrary.org/obo/uberon/tracker/7] comment: introducing part_of to 'cortex of lymph node' as in issue 7 introduces equivalencies; the part_of has instead been added to 'lymph node follicle' synonym: "folliculus lymphaticus" RELATED [BTO:0002684] synonym: "lymphatic follicle" RELATED [BTO:0002684] synonym: "lymphatic nodule" RELATED [BTO:0002684] synonym: "lymphoid nodule" EXACT [FMA:55222] synonym: "nodular lymphoid tissue" EXACT [FMA:55222] synonym: "nodulus lymphaticus" RELATED [BTO:0002684] synonym: "nodulus lymphoideus" RELATED [BTO:0002684] xref: BTO:0002684 xref: FMA:55222 xref: SCTID:64626006 xref: UMLS:C0229654 xref: ncithesaurus:Lymphoid_Follicle is_a: UBERON:0001744 ! lymphoid tissue [Term] id: UBERON:0000445 name: habenular trigone namespace: uberon def: "The habenular trigone is a small depressed triangular area situated in front of the superior colliculus and on the lateral aspect of the posterior part of the taenia thalami. It contains a group of nerve cells termed the ganglion habenulC&. Fibers enter it from the stalk of the pineal body, and others, forming what is termed the habenular commissure, pass across the middle line to the corresponding ganglion of the opposite side. Most of its fibers are, however, directed downward and form a bundle, the fasciculus retroflexus of Meynert, which passes medial to the red nucleus, and, after decussating with the corresponding fasciculus of the opposite side, ends in the interpeduncular ganglion." [Wikipedia:Habenular_trigone] comment: superclass in BTO is thalamic nucleus, not present in most ontologies synonym: "trigone of habenulae" RELATED [BTO:0002700] synonym: "trigonum habenulae" RELATED LATIN [BTO:0002700, Wikipedia:Habenular_trigone] xref: BTO:0002700 xref: FMA:74868 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001894 ! diencephalon relationship: part_of UBERON:0001904 ! habenula [Term] id: UBERON:0000446 name: septum of telencephalon namespace: uberon def: "Subdivision of the telencephalon on the midline between the lateral ventricles which contains the septum pellucidum and the septal nuclei[FMA]." [FMA:61842] synonym: "area septalis" EXACT LATIN [FMA:61842, FMA:TA] synonym: "septal area" EXACT [FMA:61842] synonym: "septum" BROAD [NIF_GrossAnatomy:birnlex_963] synonym: "septum (NN)" EXACT [FMA:61842] synonym: "telencephalon septum" EXACT [FMA:61842] xref: BTO:0002705 xref: FMA:61842 xref: MA:0000924 xref: MESH:A08.186.211.577.750 xref: NIF_GrossAnatomy:birnlex_963 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0000449 name: decidual cell namespace: uberon def: "Before the fertilized ovum reaches the uterus, the mucous membrane of the body of the uterus undergoes important changes and is then known as the decidua. The thickness and vascularity of the mucous membrane are greatly increased; its glands are elongated and open on its free surface by funnel-shaped orifices, while their deeper portions are tortuous and dilated into irregular spaces. The interglandular tissue is also increased in quantity, and is crowded with large round, oval, or polygonal cells, termed decidual cells. Their enlargement is due to glycogen and lipid accumulation in the cytoplasm allowing these cells to provide a rich source of nutrition for the developing embryo. [WP,unvetted]." [Wikipedia:Decidual_cells] comment: request from CL xref: BTO:0002770 xref: FMA:86480 xref: UMLS:C1511740 xref: ncithesaurus:Decidual_Cell is_a: UBERON:0000478 ! extraembryonic structure [Term] id: UBERON:0000450 name: corpus albicans namespace: uberon def: "White fibrous tissue that replaces the regressing corpus luteum in the human ovary in the latter half of pregnancy, or soon after ovulation when pregnancy does not supervene." [BTO:0002784] synonym: "corpus albicans of ovary" EXACT [FMA:18620] synonym: "corpus fibrosum" RELATED [BTO:0002784] synonym: "corpus mamillare" RELATED [BTO:0002784] synonym: "mamillary body" RELATED INCONSISTENT [BTO:0002784] synonym: "mammillary body" RELATED INCONSISTENT [BTO:0002784] xref: BTO:0002784 xref: EMAPA:29888 xref: FMA:18620 xref: SCTID:258043001 is_a: UBERON:0003982 ! mature ovarian follicle [Term] id: UBERON:0000451 name: prefrontal cortex namespace: uberon def: "The prefrontal cortex (PFC) is the anterior part of the frontal lobes of the brain, lying in front of the motor and premotor areas. This brain region has been implicated in planning complex cognitive behaviors, personality expression, decision making and moderating correct social behavior. The basic activity of this brain region is considered to be orchestration of thoughts and actions in accordance with internal goals. The most typical psychological term for functions carried out by the pre-frontal cortex area is executive function. Executive function relates to abilities to differentiate among conflicting thoughts, determine good and bad, better and best, same and different, future consequences of current activities, working toward a defined goal, prediction of outcomes, expectation based on actions, and social 'control' (the ability to suppress urges that, if not suppressed, could lead to socially-unacceptable outcomes). Many authors have indicated an integral link between a person's personality and the functions of the prefrontal cortex. [WP,unvetted]." [Wikipedia:Prefrontal_cortex] comment: TODO - check MA synonym: "frontal association cortex" RELATED ATTRIBUTION_REQUIRED [MA:0000906] synonym: "prefrontal association complex" RELATED [BTO:0002807] synonym: "prefrontal association cortex" EXACT [FMA:224850] xref: BTO:0002807 xref: EFO:0001384 xref: FMA:224850 xref: GAID:676 xref: MA:0000906 xref: MESH:A08.186.211.730.885.213.270.700 xref: NIF_GrossAnatomy:nlx_anat_090801 xref: http://upload.wikimedia.org/wikipedia/commons/5/59/Gray726-Brodman-prefrontal.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/59/Gray726-Brodman-prefrontal.svg/200px-Gray726-Brodman-prefrontal.svg.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0000453 name: decidua basalis namespace: uberon def: "Region between the blastocyst and the myometrium." [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/06placenta.htm] comment: development notes: As the embryo enlarges, the decidua capsularis becomes stretched and smooth. Eventually the decidua capsularis merges with the decidua parietalis, obliterating the uterine cavity synonym: "decidua serotina" RELATED [BTO:0002819] xref: BTO:0002819 xref: EFO:0001918 xref: FMA:86477 xref: MA:0002905 xref: SCTID:362841006 xref: UMLS:C0230965 xref: ncithesaurus:Decidua_Basalis is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0002450 ! decidua [Term] id: UBERON:0000454 name: cerebral subcortex namespace: uberon synonym: "Cerebral medulla" EXACT [FMA:242188] synonym: "subcortex" RELATED [BTO:0002858] xref: BTO:0002858 xref: FMA:242188 xref: ncithesaurus:Cerebral_Subcortex is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0000456 name: bodily secretion namespace: uberon alt_id: UBERON:0006540 def: "Body substance in a liquid or semisolid state produced by an exocrine gland. Example: saliva, sebum, blood, plasma, semen, urine." [FMA:9675] comment: AO notes: BTO has two distunct classes, with exocrine glandular secretion a subtype of secretion - however, all examples in BTO directly under secretion appear to be exocrine gland secretions synonym: "exocrine gland fluid" RELATED [] synonym: "exocrine gland fluid or secretion" RELATED [] synonym: "exocrine gland fluid/secretion" EXACT [MA:0002504] synonym: "exocrine gland secretion" RELATED [] synonym: "external secretion" RELATED [BTO:0002977] synonym: "secreted substance" EXACT [] synonym: "secretion" RELATED [FMA:9675] xref: AEO:0001005 xref: BTO:0002977 xref: BTO:0002979 xref: FMA:9675 xref: MA:0002504 xref: MESH:A12.200 xref: UMLS:C1516992 xref: galen:Secretion xref: ncithesaurus:Exocrine_Gland_Fluid_or_Secretion intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0002365 ! exocrine gland [Term] id: UBERON:0000457 name: cavernous artery namespace: uberon synonym: "Cavernous branch of cavernous part of internal carotid artery" EXACT [FMA:70527] synonym: "ramus sinus cavernosi (pars cavernosa) (arteria carotis interna)" EXACT LATIN [FMA:70527, FMA:TA] xref: BTO:0002996 xref: FMA:70527 is_a: UBERON:0000063 ! organ segment is_a: UBERON:0001637 ! artery [Term] id: UBERON:0000458 name: endocervix namespace: uberon def: "1. The mucous membrane lining the canal of the cervix uteri. 2. The region of the opening of the uterine cervix into the uterine cavity." [BTO:0003002] xref: BTO:0003002 xref: FMA:86485 xref: SCTID:264460007 xref: UMLS:C0227837 xref: ncithesaurus:Endocervix is_a: UBERON:0005156 ! reproductive structure relationship: has_part UBERON:0000485 ! simple columnar epithelium intersection_of: UBERON:0000064 ! organ part intersection_of: proximal_part_of UBERON:0000002 ! uterine cervix [Term] id: UBERON:0000459 name: uterine wall namespace: uberon def: "An anatomical wall that is part of a uterus [Automatically generated definition]." [OBOL:automatic] synonym: "anatomical wall of uterus" EXACT [OBOL:automatic] synonym: "uterus anatomical wall" EXACT [OBOL:automatic] synonym: "uterus wall" EXACT [OBOL:automatic] synonym: "wall of uterus" EXACT [OBOL:automatic] xref: BTO:0003083 xref: FMA:17560 xref: SCTID:245485002 is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000995 ! uterus intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0000460 name: major vestibular gland namespace: uberon def: "Gland found in pairs located slightly below and to the left and right of the opening of the vagina in women. Bartholin's glands are homologous to bulbourethral glands in males. However, while Bartholin's glands are located in the superficial perineal pouch, bulbourethral glands are located in the deep perineal pouch. They secrete mucus to provide vaginal lubrication." [Wikipedia:Bartholin's_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "Bartholin's gland" EXACT [FMA:9598] synonym: "Duverney's gland" RELATED [FMA:9598] synonym: "Tiedemann's gland" EXACT [FMA:9598] synonym: "glandula vestibularis major" RELATED [BTO:0003115] synonym: "greater vestibular gland" RELATED [MA:0002936] synonym: "greater vestibular glands of bartholin" RELATED [Wikipedia:Bartholin%27s_gland] synonym: "vulvovaginal gland" EXACT [FMA:9598] xref: BTO:0003115 xref: FMA:9598 xref: GAID:384 xref: MA:0002936 xref: MESH:A05.360.319.887.220 xref: SCTID:362244005 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003297 ! gland of integumental system is_a: UBERON:0011826 ! vestibular gland relationship: develops_from UBERON:0000164 ! primitive urogenital sinus relationship: in_lateral_side_of UBERON:0005056 ! external female genitalia relationship: part_of UBERON:0002330 ! exocrine system relationship: part_of UBERON:0002416 ! integumental system relationship: secretes UBERON:0000912 ! mucus disjoint_from: UBERON:0010048 ! Duvernoy's gland property_value: sexually_homologous_to UBERON:0002366 [Term] id: UBERON:0000461 name: minor vestibular gland namespace: uberon def: "Small mucous glands opening upon the vestibular mucous membrane between the urethral and the vaginal orifice." [BTO:0003116] comment: Editors note: compare with Skene's gland. Structure notes: check and part_of relationships to mammalian vulva / urethra subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "GuC)rin's gland" RELATED [] synonym: "Guerin's gland" RELATED [BTO:0003116] synonym: "Schueller's gland" RELATED [BTO:0003116] synonym: "female urethral gland" BROAD [EMAPA:29653] synonym: "glandula vestibular minor" EXACT [FMA:20019] synonym: "glandula vestibulares minor" RELATED [BTO:0003116] synonym: "lesser vestibular gland" EXACT [FMA:20019] synonym: "paraurethral gland" RELATED [BTO:0003116] synonym: "periurethral gland" RELATED [BTO:0003116] synonym: "skene's gland" RELATED [BTO:0003116] synonym: "urethral gland of female urethra" RELATED [BTO:0003116] xref: BTO:0003116 xref: FMA:20019 xref: SCTID:279869001 xref: ncithesaurus:Skene_s_Gland is_a: UBERON:0010145 ! paraurethral gland is_a: UBERON:0010187 ! female urethral gland is_a: UBERON:0011826 ! vestibular gland relationship: part_of UBERON:0000474 ! female reproductive system relationship: part_of UBERON:0001334 ! female urethra [Term] id: UBERON:0000462 name: obsolete villus namespace: uberon is_obsolete: true [Term] id: UBERON:0000463 name: portion of organism substance namespace: uberon def: "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." [CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "body fluid or substance" EXACT [MA:0002450] synonym: "body substance" EXACT [FMA:9669] synonym: "organism substance" EXACT [] synonym: "portion of body substance" EXACT [FMA:9669] xref: AAO:0010839 xref: AEO:0000004 xref: BILA:0000004 xref: CARO:0000004 xref: EHDAA2:0003004 xref: FBbt:00007019 xref: FMA:9669 xref: HAO:0000004 xref: MA:0002450 xref: SPD:0000008 xref: TAO:0001487 xref: TGMA:0001824 xref: VHOG:0001726 xref: XAO:0004001 xref: ZFA:0001487 xref: galen:BodySubstance xref: ncithesaurus:Body_Fluid_or_Substance is_a: UBERON:0000465 ! material anatomical entity relationship: part_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0000464 name: anatomical space namespace: uberon def: "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." [CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "lumen" BROAD [] synonym: "lumen space" EXACT [] synonym: "space" BROAD [] xref: AAO:0010110 xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 xref: FBbt:00007017 xref: FMA:5897 xref: HAO:0000005 xref: TAO:0001668 xref: TGMA:0001825 xref: UMLS:C0524461 xref: VHOG:0001728 xref: XAO:0003190 xref: ZFA:0001643 xref: ncithesaurus:Lumen_Space is_a: UBERON:0000466 ! immaterial anatomical entity relationship: surrounded_by UBERON:0000061 ! anatomical structure disjoint_from: UBERON:0006800 ! anatomical line [Term] id: UBERON:0000465 name: material anatomical entity namespace: uberon def: "Anatomical entity that has mass." [CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010264 xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 xref: FBbt:00007016 xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000466 name: immaterial anatomical entity namespace: uberon def: "Anatomical entity that has no mass." [CARO:MAH] subset: disjointness_axiom_removed ! A class which has a weakened disjointness axiom, to avoid inconsistency. These are kept separately in the uberon_disjoint_from_strict ontology. subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "immaterial physical anatomical entity" EXACT [FMA:67112] xref: AAO:0010265 xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 xref: FBbt:00007015 xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000467 name: anatomical system namespace: uberon def: "Anatomical group that is has as its parts distinct anatomical structures interconnected by anatomical structures at a lower level of granularity[CARO]. A group of organs that work together to perform a certain task [Wikipedia]." [CARO:0000011, CARO:MAH, Wikipedia:Organ_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "body system" EXACT [NIF_GrossAnatomy:birnlex_14] synonym: "organ system" EXACT [] synonym: "system" BROAD [GO:0048731] xref: AAO:0000007 xref: AEO:0000011 xref: BILA:0000011 xref: CARO:0000011 xref: EHDAA2:0001330 xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 xref: FBbt:00004856 xref: FMA:7149 xref: HAO:0000011 xref: MA:0000003 xref: NIF_GrossAnatomy:birnlex_14 xref: OpenCyc:Mx4rCWM0QCtDEdyAAADggVbxzQ xref: SCTID:278195005 xref: TAO:0001439 xref: TGMA:0001831 xref: UMLS:C0460002 xref: VHOG:0001725 xref: WBbt:0005746 xref: XAO:0003002 xref: ZFA:0001439 xref: galen:AnatomicalSystem xref: ncithesaurus:Organ_System is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0000468 ! multi-cellular organism property_value: external_definition "Anatomical group that has as its parts distinct anatomical structures interconnected by anatomical structures at a lower level of granularity.[TAO]" xsd:string property_value: external_definition "Anatomical group that is has as its parts distinct anatomical structures interconnected by anatomical structures at a lower level of granularity.[AAO]" xsd:string property_value: external_definition "Anatomical group that is has as its parts distinct anatomical structures interconnected by anatomical structures at a lower level of granularity.[CARO]" xsd:string [Term] id: UBERON:0000468 name: multi-cellular organism namespace: uberon def: "Anatomical structure that is an individual member of a species and consists of more than one cell." [CARO:0000012, CARO:MAH, Wikipedia:Multi-cellular_organism] comment: TODO - split body and mc organism? body continues after death stage subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "Koerper" RELATED [BTO:0001489] synonym: "TS28" RELATED [MA:0002405] synonym: "adult mouse" EXACT [MA:0002405] synonym: "body" EXACT [] synonym: "organism" EXACT [] synonym: "whole body" EXACT [BTO:0001489] synonym: "whole organism" EXACT [] xref: AAO:0010026 xref: AEO:0000103 xref: AEO:0000191 xref: BILA:0000012 xref: BTO:0001489 xref: CARO:0000012 xref: EFO:0002906 xref: EHDAA2:0003103 xref: EHDAA2:0003191 xref: EHDAA:1 xref: EHDAA:9178 xref: EMAPA:25765 xref: EV:0100016 xref: FBbt:00000001 xref: FMA:256135 xref: HAO:0000012 xref: MA:0002405 xref: NIF_GrossAnatomy:birnlex_18 xref: SCTID:243928005 xref: TADS:0000001 xref: TAO:0001094 xref: TGMA:0001832 xref: VHOG:0000671 xref: WBbt:0007833 xref: XAO:0003004 xref: ZFA:0001094 xref: galen:Organism xref: ncithesaurus:Whole_Organism is_a: UBERON:0000061 ! anatomical structure property_value: external_definition "Anatomical structure that is an individual member of a species.[TAO]" xsd:string property_value: has_relational_adjective "organismal" xsd:string [Term] id: UBERON:0000470 name: cell part namespace: uberon def: "Anatomical structure that is a direct part of the cell." [CARO:MAH] comment: todo - move metadata to GO and obsolete this class. Note the inconsistency between the usage of the label 'cell component' in GO and CARO subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cell component" RELATED [CARO:0000014] xref: AAO:0010271 xref: BILA:0000014 xref: CARO:0000014 xref: FBbt:00007012 xref: FMA:86454 xref: GO:0044464 xref: HAO:0000014 xref: NIF_Subcellular:sao-1337158144 xref: OpenCyc:Mx4rwQwkcZwpEbGdrcN5Y29ycA xref: TGMA:0001834 xref: UMLS:C1178969 xref: ncithesaurus:Cell_Part is_a: UBERON:0000061 ! anatomical structure relationship: part_of CL:0000000 ! cell intersection_of: UBERON:0000061 ! anatomical structure intersection_of: part_of CL:0000000 ! cell [Term] id: UBERON:0000471 name: compound organ component namespace: uberon def: "Multi-tissue structure that is part of a compound organ." [CARO:0000019, CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010017 xref: AEO:0000019 xref: BILA:0000019 xref: CARO:0000019 xref: EHDAA2:0003019 xref: HAO:0000019 xref: TAO:0001489 xref: TGMA:0001835 xref: XAO:0003039 xref: ZFA:0001489 is_a: UBERON:0000481 ! multi-tissue structure [Term] id: UBERON:0000472 name: simple organ namespace: uberon def: "Multi-tissue structure that is not part of a compound organ." [CARO:0000021, CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010051 xref: AEO:0000190 xref: BILA:0000021 xref: CARO:0000021 xref: EHDAA2:0003190 xref: HAO:0000021 xref: TAO:0001492 xref: TGMA:0001836 xref: XAO:0003038 xref: ZFA:0001492 is_a: UBERON:0000481 ! multi-tissue structure [Term] id: UBERON:0000473 name: testis namespace: uberon alt_id: UBERON:0002117 def: "gonad of a male animal, produces and releases sperm." [Wikipedia:Testis] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "genitalia of male organism gonad" EXACT [OBOL:automatic] synonym: "genitalia of male organism gonada" EXACT [OBOL:automatic] synonym: "gonad of genitalia of male organism" EXACT [OBOL:automatic] synonym: "gonad of male genitalia" EXACT [OBOL:automatic] synonym: "gonad of male genitals" EXACT [OBOL:automatic] synonym: "gonad of male organism genitalia" EXACT [OBOL:automatic] synonym: "gonad of male organism reproductive system" EXACT [OBOL:automatic] synonym: "gonad of male reproductive system" EXACT [OBOL:automatic] synonym: "gonad of reproductive system of male organism" EXACT [OBOL:automatic] synonym: "gonada of genitalia of male organism" EXACT [OBOL:automatic] synonym: "gonada of male genitalia" EXACT [OBOL:automatic] synonym: "gonada of male genitals" EXACT [OBOL:automatic] synonym: "gonada of male organism genitalia" EXACT [OBOL:automatic] synonym: "gonada of male organism reproductive system" EXACT [OBOL:automatic] synonym: "gonada of male reproductive system" EXACT [OBOL:automatic] synonym: "gonada of reproductive system of male organism" EXACT [OBOL:automatic] synonym: "male genitalia gonad" EXACT [OBOL:automatic] synonym: "male genitalia gonada" EXACT [OBOL:automatic] synonym: "male genitals gonad" EXACT [OBOL:automatic] synonym: "male gonad" EXACT [OBOL:automatic] synonym: "male organism genitalia gonad" EXACT [OBOL:automatic] synonym: "male organism genitalia gonada" EXACT [OBOL:automatic] synonym: "male organism reproductive system gonad" EXACT [OBOL:automatic] synonym: "male organism reproductive system gonada" EXACT [OBOL:automatic] synonym: "male reproductive system gonad" EXACT [OBOL:automatic] synonym: "male reproductive system gonada" EXACT [OBOL:automatic] synonym: "orchis" RELATED [BTO:0001363] synonym: "reproductive system of male organism gonad" EXACT [OBOL:automatic] synonym: "reproductive system of male organism gonada" EXACT [OBOL:automatic] synonym: "testes" RELATED PLURAL [] synonym: "testicle" EXACT [FMA:7210] synonym: "testiculus" RELATED [BTO:0001363] xref: AAO:0000606 xref: BILA:0000124 xref: BTO:0001363 xref: EFO:0000984 xref: EHDAA2:0002007 xref: EHDAA:8146 xref: EMAPA:17972 xref: EV:0100102 xref: FBbt:00004928 xref: FMA:7210 xref: GAID:396 xref: HAO:0001007 xref: MA:0000411 xref: MAT:0000132 xref: MESH:A05.360.444.849 xref: MIAA:0000132 xref: OpenCyc:Mx4rvVjM25wpEbGdrcN5Y29ycA xref: SCTID:181431007 xref: TAO:0000598 xref: UMLS:C0039597 xref: VHOG:0000252 xref: WBbt:0006794 xref: XAO:0000157 xref: ZFA:0000598 xref: galen:Testis xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Gray1144.png/200px-Gray1144.png xref: ncithesaurus:Testis is_a: UBERON:0000991 ! gonad is_a: UBERON:0003135 ! male reproductive organ relationship: develops_from UBERON:0009117 ! indifferent gonad relationship: part_of UBERON:0000079 ! male reproductive system intersection_of: UBERON:0000991 ! gonad intersection_of: part_of UBERON:0000079 ! male reproductive system disjoint_from: UBERON:0000992 ! female gonad disjoint_from: UBERON:0009117 ! indifferent gonad property_value: external_definition "Either of paired male reproductive organs which are involved in the production of sperm and male sex hormones.[AAO]" xsd:string property_value: external_definition "Male reproductive organ.[TAO]" xsd:string property_value: has_relational_adjective "testicular" xsd:string property_value: homology_notes " (...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" xsd:string [Term] id: UBERON:0000474 name: female reproductive system namespace: uberon def: "The organs of the female reproductive system." [Wikipedia:Female_genitalia] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "female genital system" RELATED [] synonym: "female genitalia" RELATED [] synonym: "female organism genitalia" EXACT [OBOL:automatic] synonym: "female organism reproductive system" EXACT [OBOL:automatic] synonym: "female reproductive tract" RELATED [MA:0000381] synonym: "genitalia of female organism" EXACT [OBOL:automatic] synonym: "gynaecological tissue" RELATED [BTO:0000083] synonym: "reproductive system of female organism" EXACT [OBOL:automatic] synonym: "systema genitale femininum" RELATED [BTO:0000083] xref: BTO:0000083 xref: EFO:0000969 xref: EHDAA2:0000506 xref: EHDAA:8116 xref: EMAPA:17959 xref: EV:0100110 xref: FBbt:00004864 xref: FMA:45663 xref: GAID:364 xref: HAO:0000324 xref: MA:0000381 xref: MESH:A05.360.319 xref: MIAA:0000028 xref: OpenCyc:Mx4rvVipTZwpEbGdrcN5Y29ycA xref: SCTID:361386004 xref: TGMA:0000635 xref: UMLS:C0700038 xref: VHOG:0000726 xref: WBbt:0006748 xref: WikipediaCategory:Female_reproductive_system xref: XAO:0000156 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/68/Scheme_female_reproductive_system-en.svg/200px-Scheme_female_reproductive_system-en.svg.png xref: ncithesaurus:Female_Reproductive_System is_a: UBERON:0000990 ! reproductive system relationship: part_of UBERON:0003100 ! female organism intersection_of: UBERON:0000990 ! reproductive system intersection_of: part_of UBERON:0003100 ! female organism property_value: homology_notes "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0000475 name: organism subdivision namespace: uberon def: "Anatomical structure which is a primary subdivision of whole organism. The mereological sum of these is the whole organism." [CARO:0000032, CARO:MAH, Wikipedia:Body_part] comment: Editor note: revise after CARO2. todo - check the inclusion of FMA 'cardinal body part here', and check child terms for consistency subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "anatomic region" EXACT [MA:0002433] synonym: "body part" RELATED [] synonym: "body region" RELATED [FMA:7153] synonym: "cardinal body part" RELATED [FMA:7153] xref: AAO:0010053 xref: AEO:0000032 xref: BILA:0000032 xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: FBbt:00007009 xref: FMA:7153 xref: HAO:0000032 xref: MA:0002433 xref: MAT:0000293 xref: MESH:A01 xref: MIAA:0000293 xref: OpenCyc:Mx4rvViAHJwpEbGdrcN5Y29ycA xref: TAO:0001308 xref: TGMA:0001840 xref: UMLS:C0229962 xref: VHOG:0001758 xref: XAO:0003013 xref: ZFA:0001308 xref: galen:BodyPart xref: ncithesaurus:Body_Part is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0000476 name: acellular anatomical structure namespace: uberon def: "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." [CARO:MAH] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0010268 xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 xref: FBbt:00007013 xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 xref: TGMA:0001841 xref: XAO:0003162 xref: ZFA:0000382 is_a: UBERON:0000061 ! anatomical structure disjoint_from: UBERON:0000480 ! anatomical group property_value: external_definition "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or tissue.[AAO]" xsd:string [Term] id: UBERON:0000477 name: anatomical cluster namespace: uberon def: "Anatomical group that has its parts adjacent to one another." [CARO:MAH] subset: disjointness_axiom_removed ! A class which has a weakened disjointness axiom, to avoid inconsistency. These are kept separately in the uberon_disjoint_from_strict ontology. subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010009 xref: AEO:0000041 xref: BILA:0000041 xref: CARO:0000041 xref: EHDAA2:0003041 xref: FBbt:00007277 xref: FMA:49443 xref: HAO:0000041 xref: TADS:0000605 xref: TAO:0001478 xref: TGMA:0001842 xref: VHOG:0001737 xref: XAO:0003160 xref: ZFA:0001478 is_a: UBERON:0000480 ! anatomical group [Term] id: UBERON:0000478 name: extraembryonic structure namespace: uberon def: "Anatomical structure that is contiguous with the embryo and is comprised of portions of tissue or cells that will not contribute to the embryo." [CARO:MAH, https://cedar.bio.indiana.edu/trac/env/ontologies/ticket/279] comment: see also conceptus extraembryonic component in EHDAA2. Note that the FBbt class is *not* placed here until the tracker issue is resolved. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "extra-embryonic structure" EXACT [] synonym: "extraembryonic component" RELATED [] synonym: "extraembryonic tissue" RELATED [] xref: AAO:0010020 xref: AEO:0000042 xref: BILA:0000042 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 xref: EMAPA:16042 xref: FMA:85537 xref: HAO:0000042 xref: SCTID:314908006 xref: TAO:0000020 xref: TGMA:0001843 xref: UMLS:C1282438 xref: VHOG:0000292 xref: XAO:0004005 xref: ZFA:0000020 xref: ncithesaurus:Extraembryonic_Structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: adjacent_to UBERON:0002050 ! embryonic structure intersection_of: existence_starts_and_ends_during UBERON:0000068 ! embryo stage disjoint_from: UBERON:0002050 ! embryonic structure property_value: seeAlso FBbt:00005835 [Term] id: UBERON:0000479 name: tissue namespace: uberon def: "Anatomical structure, that consists of similar cells and intercellular matrix, aggregated according to genetically determined spatial relationships." [CARO:0000043, CARO:MAH, FMA:9637] comment: This class was sourced from CARO, which was initially sourced from FMA. Nomenclature changes have been made. Note also AEO introduces a class AEO:0000013 'single-cell tissue' subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "portion of tissue" EXACT [CARO:0000043] synonym: "simple tissue" EXACT [AEO:0000043] synonym: "tissue portion" EXACT [] xref: AAO:0000607 xref: AAO:0010054 xref: AEO:0000043 xref: BILA:0000043 xref: CARO:0000043 xref: EHDAA2:0003043 xref: FBbt:00007003 xref: FMA:9637 xref: HAO:0000043 xref: MA:0003002 xref: MESH:A10 xref: NIF_GrossAnatomy:birnlex_19 xref: TAO:0001477 xref: TGMA:0001844 xref: UMLS:C0040300 xref: VHOG:0001757 xref: WBbt:0005729 xref: XAO:0003040 xref: ZFA:0001477 xref: galen:Tissue xref: ncithesaurus:Tissue is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000480 name: anatomical group namespace: uberon def: "Anatomical structure consisting of at least two non-overlapping organs, multi-tissue aggregates or portion of tissues or cells of different types that does not constitute an organism, organ, multi-tissue aggregate, or portion of tissue." [CARO:0000054, CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010008 xref: AEO:0000054 xref: BILA:0000054 xref: CARO:0000054 xref: EHDAA2:0003054 xref: HAO:0000054 xref: TAO:0001512 xref: TGMA:0001846 xref: VHOG:0001724 xref: XAO:0003001 xref: ZFA:0001512 is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000481 name: multi-tissue structure namespace: uberon def: "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." [CARO:0000055, CARO:MAH] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010048 xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 xref: FBbt:00007010 xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 xref: VHOG:0001762 xref: XAO:0003037 xref: ZFA:0001488 is_a: UBERON:0000061 ! anatomical structure relationship: has_part UBERON:0000479 ! tissue [Term] id: UBERON:0000482 name: basal lamina namespace: uberon def: "Acellular anatomical structure that consists of a thin sheet of fibrous proteins that underlie and support the cells of an epithelium. It separates the cells of an epithelium from any underlying tissue." [CARO:MAH, Wikipedia:Basal_lamina] comment: TODO - use GO. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "basal lamina of connective tissue" EXACT [] synonym: "basal laminae" RELATED PLURAL [VHOG:0001592] synonym: "lamina basalis" RELATED LATIN [Wikipedia:Basal_lamina] xref: AAO:0010269 xref: AEO:0000065 xref: BILA:0000065 xref: CARO:0000065 xref: EHDAA2:0003065 xref: FMA:62918 xref: GO:0005605 xref: HAO:0000065 xref: MESH:A10.272.220 xref: NIF_Subcellular:sao1397492660 xref: TAO:0001485 xref: TGMA:0001850 xref: UMLS:C0085872 xref: VHOG:0001592 xref: WBbt:0005756 xref: XAO:0003163 xref: ZFA:0001485 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Basal_lamina.jpg xref: ncithesaurus:Basal_Lamina is_a: UBERON:0000476 ! acellular anatomical structure relationship: adjacent_to UBERON:0000483 ! epithelium property_value: homology_notes "A basal lamina is certainly present in Bilateria and was evaluated as an autapomorphy of this taxon.[well established][VHOG]" xsd:string [Term] id: UBERON:0000483 name: epithelium namespace: uberon def: "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." [CARO:MAH, Wikipedia:Epithelium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial tissue" EXACT [] synonym: "portion of epithelium" EXACT [FMA:9639] xref: AAO:0000144 xref: AAO:0010055 xref: AEO:0000066 xref: BILA:0000066 xref: BTO:0000416 xref: CARO:0000066 xref: EHDAA2:0003066 xref: FBbt:00007005 xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 xref: MESH:A10.272 xref: SCTID:31610004 xref: TAO:0001486 xref: UMLS:C0014609 xref: VHOG:0000387 xref: XAO:0003045 xref: ZFA:0001486 xref: http://upload.wikimedia.org/wikipedia/commons/c/c3/Tkanka_nablonkowa.png xref: ncithesaurus:Epithelium relationship: has_part GO:0005911 ! cell-cell junction intersection_of: UBERON:0000119 ! cell layer intersection_of: has_part CL:0000066 ! epithelial cell union_of: UBERON:0000486 ! multilaminar epithelium union_of: UBERON:0000490 ! unilaminar epithelium property_value: external_definition "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina.[AAO]" xsd:string property_value: external_definition "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina.[CARO]" xsd:string property_value: external_definition "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina.[TAO]" xsd:string property_value: has_relational_adjective "epithelial" xsd:string property_value: homology_notes "The two basic types of metazoan tissue are epithelial and connective. The simplest metazoans, and developmental stages of many primitive invertebrates, consist solely of these two layers. Thus, epithelial and connective tissues may be the primary (original) tissues of metazoans, and both are important in the functional organization of animals.[well established][VHOG]" xsd:string [Term] id: UBERON:0000484 name: simple cuboidal epithelium namespace: uberon def: "Unilaminar epithelium that consists of a single layer of cuboidal cells." [CARO:MAH, Wikipedia:Simple_cuboidal_epithelium] comment: Editor notes: needs to be synchronized with CL - there is no distinct cuboidal cell in CL subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelium simplex cuboideum" EXACT [] xref: AAO:0010064 xref: AEO:0000067 xref: BILA:0000067 xref: CARO:0000067 xref: EHDAA2:0003067 xref: FMA:45566 xref: HAO:0000067 xref: TAO:0001497 xref: UMLS:C0836134 xref: XAO:0004009 xref: ZFA:0001497 xref: http://upload.wikimedia.org/wikipedia/commons/d/d0/Gray1133.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d0/Gray1133.png/200px-Gray1133.png xref: ncithesaurus:Simple_Cuboidal_Epithelium is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0010077 ! cuboidal epithelium [Term] id: UBERON:0000485 name: simple columnar epithelium namespace: uberon def: "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]" [CARO:MAH, FMA:FMA, Wikipedia:Simple_columnar_epithelium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "columnar epithelium" BROAD [EHDAA2:0003068] synonym: "columnar epithlium" BROAD [AEO:0000068] synonym: "epithelium simplex columnare" EXACT [] synonym: "simple columnar epithelium" EXACT [] xref: AAO:0010063 xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 xref: FBbt:00007027 xref: FMA:45567 xref: HAO:0000068 xref: SCTID:32210007 xref: TAO:0001496 xref: UMLS:C0836135 xref: XAO:0004008 xref: ZFA:0001496 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray1059.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray1059.png/200px-Gray1059.png xref: ncithesaurus:Simple_Columnar_Epithelium is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0012274 ! columnar epithelium property_value: external_definition "Unilaminar epithelium that consists of a single layer of columnar cells.[AAO]" xsd:string property_value: external_definition "Unilaminar epithelium that consists of a single layer of columnar cells.[CARO]" xsd:string property_value: external_definition "Unilaminar epithelium that consists of a single layer of columnar cells.[TAO]" xsd:string [Term] id: UBERON:0000486 name: multilaminar epithelium namespace: uberon def: "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]" [CARO:MAH, FMA:FMA, Wikipedia:Stratified_epithelium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "laminated epithelium" RELATED [BTO:0002074] synonym: "stratified epithelium" EXACT [] xref: AAO:0010059 xref: AEO:0000069 xref: BILA:0000069 xref: BTO:0002074 xref: CARO:0000069 xref: EHDAA2:0003069 xref: FMA:45562 xref: HAO:0000069 xref: SCTID:309044005 xref: TAO:0001494 xref: UMLS:C0682575 xref: XAO:0004006 xref: ZFA:0001494 xref: ncithesaurus:Stratified_Epithelium is_a: UBERON:0000483 ! epithelium property_value: external_definition "Epithelium that consists of more than one layer of epithelial cells.[AAO]" xsd:string property_value: external_definition "Epithelium that consists of more than one layer of epithelial cells.[CARO]" xsd:string property_value: external_definition "Epithelium that consists of more than one layer of epithelial cells.[TAO]" xsd:string [Term] id: UBERON:0000487 name: simple squamous epithelium namespace: uberon def: "Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]" [CARO:MAH, FMA:45565, Wikipedia:Simple_squamous_epithelium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelium simplex squamosum" EXACT [] xref: AAO:0010066 xref: AEO:0000070 xref: BILA:0000070 xref: BTO:0002073 xref: CARO:0000070 xref: EHDAA2:0003070 xref: FMA:45565 xref: HAO:0000070 xref: TAO:0001498 xref: UMLS:C0836133 xref: XAO:0004010 xref: ZFA:0001498 xref: http://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg xref: ncithesaurus:Simple_Squamous_Epithelium is_a: UBERON:0006914 ! squamous epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: has_part CL:0000076 ! squamous epithelial cell property_value: external_definition "Unilaminar epithelium that consists of a single layer of squamous cells.[AAO]" xsd:string property_value: external_definition "Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]" xsd:string property_value: external_definition "Unilaminar epithelium that consists of a single layer of squamous cells.[TAO]" xsd:string [Term] id: UBERON:0000488 name: atypical epithelium namespace: uberon def: "Epithelium that consists of epithelial cells not arranged in one ore more layers." [CARO:MAH] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "heterogenous epithelium" EXACT [] xref: AAO:0010057 xref: AEO:0000071 xref: BILA:0000071 xref: CARO:0000071 xref: EHDAA2:0003071 xref: FMA:61741 xref: HAO:0000071 xref: TAO:0001493 xref: XAO:0004004 xref: ZFA:0001493 is_a: UBERON:0000483 ! epithelium property_value: external_definition "Epithelium that consists of epithelial cells not arranged in one or more layers.[TAO]" xsd:string [Term] id: UBERON:0000489 name: cavitated compound organ namespace: uberon def: "Compound organ that contains one or more macroscopic anatomical spaces." [CARO:MAH] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cavitated organ" EXACT [FMA:55671] xref: AAO:0010016 xref: AEO:0000072 xref: BILA:0000072 xref: CARO:0000072 xref: EHDAA2:0003072 xref: FMA:55671 xref: HAO:0000072 xref: TAO:0001490 xref: TGMA:0001857 xref: VHOG:0001730 xref: XAO:0003165 xref: ZFA:0001490 intersection_of: UBERON:0003103 ! compound organ intersection_of: has_part UBERON:0002553 ! anatomical cavity [Term] id: UBERON:0000490 name: unilaminar epithelium namespace: uberon def: "Epithelium which consists of a single layer of epithelial cells. Examples: endothelium, mesothelium, glandular squamous epithelium.[FMA]" [CARO:MAH, FMA:45561] comment: AO/editor notes: consider adding disjointness axiom between unilaminar and multilaminar - but note that this will render EHDAA2:0003244 (chorionic trophoblast) unsatisfiable subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "simple epithelium" EXACT [FMA:45561] xref: AAO:0010062 xref: AEO:0000073 xref: BILA:0000073 xref: BTO:0002073 xref: CARO:0000073 xref: EHDAA2:0003073 xref: FMA:45561 xref: HAO:0000073 xref: SCTID:309043004 xref: TAO:0001495 xref: UMLS:C0682574 xref: XAO:0004007 xref: ZFA:0001495 xref: ncithesaurus:Simple_Epithelium is_a: UBERON:0000483 ! epithelium property_value: external_definition "Epithelium that consists of a single layer of epithelial cells.[AAO]" xsd:string property_value: external_definition "Epithelium that consists of a single layer of epithelial cells.[CARO]" xsd:string property_value: external_definition "Epithelium that consists of a single layer of epithelial cells.[TAO]" xsd:string [Term] id: UBERON:0000491 name: solid compound organ namespace: uberon def: "Compound organ that does not contain macroscopic anatomical spaces." [CARO:MAH] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010019 xref: AEO:0000074 xref: BILA:0000074 xref: CARO:0000074 xref: EHDAA2:0003074 xref: HAO:0000074 xref: TAO:0001491 xref: TGMA:0001859 xref: XAO:0003164 xref: ZFA:0001491 is_a: UBERON:0003103 ! compound organ [Term] id: UBERON:0000569 name: ileocecal valve namespace: uberon def: "The ileocecal valve is a sphincter muscle situated at the junction of the small intestine (ileum) and the large intestine. Its critical function is to limit the reflux of colonic contents into the ileum." [Wikipedia:Ileocecal_valve] synonym: "Tulp's valve" RELATED [Wikipedia:Ileocecal_valve] synonym: "valva ileocaecalis" RELATED LATIN [Wikipedia:Ileocecal_valve] synonym: "valva ileocaecalis (valva ilealis)" EXACT [FMA:15973] xref: FMA:15973 xref: SCTID:362153007 xref: UMLS:C0020880 xref: galen:IleocecalValve xref: http://upload.wikimedia.org/wikipedia/commons/f/fc/Gray1075.png xref: ncithesaurus:Ileocecal_Valve is_a: UBERON:0003978 ! valve is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004590 ! sphincter muscle is_a: UBERON:0011185 ! gastrointestinal sphincter relationship: part_of UBERON:0001073 ! ileocecal junction [Term] id: UBERON:0000642 name: suspensory ligament of duodenum namespace: uberon def: "Ligament that connects the duodenum of the small intestines to the diaphragm. It contains a slender band of skeletal muscle from the diaphragm and a fibromuscular band of smooth muscle from the horizontal and ascending parts of the duodenum. When it contracts, the suspensory muscle of the duodenum widens the angle of the duodenojejunal flexure, allowing movement of the intestinal contents It arises from the right crus as it passes around the esophagus, continues as connective tissue around the stems of the celiac trunk and superior mesenteric artery and inserts into the third and fourth portions of the duodenum and frequently into the duodenojejunal (DJ) flexure (between the duodenum and the jejunum) as well. " [Wikipedia:Suspensory_muscle_of_duodenum] comment: an especially important landmark to note when looking at the bowel for the presence of malrotation of the gut, a syndrome often suspected in young children when they have episodes of recurrent vomiting. Visualizing a normal location of the ligament of Treitz in radiological images is critical in ruling out malrotation of the gut in a child; it is abnormally located when malrotation is present. An abnormally low and fixed position of the ligament of Treitz is a known cause of superior mesenteric artery syndrome. However, identifying it on a CT scan is difficult. Hematemesis (blood in the vomit) or melena (black tarry stools) usually indicate a gastrointestinal bleed from a location proximal to the ligament. Hematochezia (bright red blood or clots in the stools) usually indicates a gastrointestinal bleed from a location distal to the ligament. synonym: "ligament of Treitz" EXACT [FMA:20509] synonym: "muscle of Treitz" EXACT [FMA:20509] synonym: "musculus suspensorius duodeni" EXACT LATIN [FMA:20509, Wikipedia:Suspensory_muscle_of_duodenum] synonym: "suspensory muscle of duodenum" EXACT [FMA:20509] xref: FMA:20509 xref: SCTID:279979000 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Gray1042.png is_a: UBERON:0008841 ! suspensory ligament relationship: attaches_to UBERON:0001103 ! diaphragm relationship: attaches_to UBERON:0002114 ! duodenum intersection_of: UBERON:0008841 ! suspensory ligament intersection_of: attaches_to UBERON:0002114 ! duodenum [Term] id: UBERON:0000711 name: splenius capitis namespace: uberon def: "The splenius capitis is a broad, straplike muscle in the back of the neck. It pulls on the base of the skull from vertebrae in the neck and upper thorax. It arises from the lower half of the ligamentum nuchC&, from the spinous process of the seventh cervical vertebra, and from the spinous processes of the upper three or four thoracic vertebrC&. The fibers of the muscle are directed upward and lateralward and are inserted, under cover of the Sternocleidomastoideus, into the mastoid process of the temporal bone, and into the rough surface on the occipital bone just below the lateral third of the superior nuchal line. The Splenius Capitis muscle is innervated by the dorsal rami of spinal nerves C3-C4. The splenius muscle is a prime mover for head extension. The splenius capitis can also allow lateral flexion and rotation of the cervical spine." [Wikipedia:Splenius_capitis_muscle] synonym: "musculus splenius capitis" RELATED LATIN [Wikipedia:Splenius_capitis_muscle] synonym: "splenius capitis muscle" EXACT [Wikipedia:Splenius_capitis_muscle] xref: FMA:22653 xref: SCTID:244850004 xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Splenius.png is_a: UBERON:0002252 ! splenius is_a: UBERON:0002377 ! muscle of neck relationship: has_muscle_insertion UBERON:0011220 ! mastoid process of temporal bone relationship: has_muscle_origin UBERON:0000351 ! nuchal ligament relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0000908 name: hippocampal commissure namespace: uberon alt_id: UBERON:Commissure-MA_0002723 def: "The lateral portions of the body of the fornix are joined by a thin triangular lamina, named the psalterium (lyra). This lamina contains some transverse fibers that connect the two hippocampi across the middle line and constitute the commissure of fornix (hippocampal commissure)." [Wikipedia:Commissure_of_fornix] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "commissura hippocampi" EXACT LATIN [FMA:61970, FMA:TA] synonym: "commissure of fornix" RELATED [Wikipedia:Commissure_of_fornix] synonym: "commissure of fornix of forebrain" EXACT [FMA:61970] synonym: "delta fornicis" EXACT [MP:0008221] synonym: "dorsal hippocampal commissure" EXACT [FMA:61970] synonym: "fornical commissure" EXACT [FMA:61970] synonym: "fornix commissure" EXACT [FMA:61970] synonym: "hippocampus commissure" EXACT [MP:0008221] xref: FMA:61970 xref: MA:0002723 xref: NIF_GrossAnatomy:birnlex_746 xref: SCTID:369115003 xref: http://upload.wikimedia.org/wikipedia/commons/2/21/Gray747.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/21/Gray747.png/200px-Gray747.png is_a: UBERON:0005340 ! dorsal telencephalic commissure is_a: UBERON:0005970 ! brain commissure relationship: part_of UBERON:0002316 ! white matter relationship: part_of UBERON:0002437 ! cerebral white matter [Term] id: UBERON:0000910 name: chyme namespace: uberon def: "Chyme is a bodily fluid consisting of a liquid substance found in the stomach before passing through the pyloric valve and entering the duodenum. It results from the mechanical and chemical breakdown of a bolus and consists of partially digested food, water, hydrochloric acid, and various digestive enzymes." [Wikipedia:Chyme] synonym: "chymus" EXACT [ENVO:02000026] xref: ENVO:02000026 xref: FMA:62961 is_a: UBERON:0012112 ! ingested food [Term] id: UBERON:0000911 name: chyle namespace: uberon def: "Chyle is a bodily fluid consisting of a milky fluid consisting of lymph and emulsified fats; formed in the small intestine during digestion of ingested fats." [Wikipedia:Chyle, http://wordnet.princeton.edu/perl/webwn?s=chyle] xref: ENVO:02000030 xref: FMA:61403 xref: GAID:1187 xref: MESH:A12.207.630.350 xref: UMLS:C0008730 xref: ncithesaurus:Chyle is_a: UBERON:0000463 ! portion of organism substance relationship: has_part UBERON:0002391 ! lymph [Term] id: UBERON:0000912 name: mucus namespace: uberon def: "Mucus is a bodily fluid consisting of a slippery secretion of the lining of the mucous membranes in the body. It is a viscous colloid containing antiseptic enzymes (such as lysozyme) and immunoglobulins. Mucus is produced by goblet cells in the mucous membranes that cover the surfaces of the membranes. It is made up of mucins and inorganic salts suspended in water." [Wikipedia:Mucus] xref: ENVO:02000040 xref: FMA:66938 xref: GAID:1164 xref: MESH:A12.200.503 xref: OpenCyc:Mx4rvVjHq5wpEbGdrcN5Y29ycA xref: UMLS:C0026727 xref: galen:Mucus xref: ncithesaurus:Mucus is_a: UBERON:0000456 ! bodily secretion relationship: secreted_by UBERON:0000344 ! mucosa property_value: has_relational_adjective "mucoid" xsd:string property_value: has_relational_adjective "mucous" xsd:string [Term] id: UBERON:0000913 name: interstitial fluid namespace: uberon def: "Interstitial fluid is a bodily fluid consisting of a solution which bathes and surrounds the cells of multicellular animals. It is the main component of the extracellular fluid, which also includes plasma and transcellular fluid." [FMA:9673, Wikipedia:Interstitial_fluid] synonym: "intercellular fluid" EXACT [ENVO:02000042] synonym: "tissue fluid" EXACT [ENVO:02000042] xref: ENVO:02000042 xref: FMA:9673 is_a: UBERON:0000463 ! portion of organism substance [Term] id: UBERON:0000914 name: organismal segment namespace: uberon def: "One of the repeated divisions of the whole organism." [FB:gg, Wikipedia:Segmentation_(biology)] comment: editor note: review this post-CARO2 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "segment" EXACT [FBbt:00000003] xref: FBbt:00000003 xref: HAO:0000929 xref: MAT:0000271 xref: MIAA:0000271 is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0000915 name: thoracic segment of trunk namespace: uberon def: "Organismal subdivision of body that lies between the head and the abdomen [Wikipedia]." [Wikipedia:Thorax] comment: Usage notes: note that we use the slightly verbose term 'thoracic segment of trunk' to avoid confusuon with insect thorax. todo - taxonomic constraints. Also, in FMA 'thorax' is a synonym for chest subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "thorax" RELATED [MA:0000022] synonym: "upper body" RELATED [] xref: FMA:259209 xref: MA:0000022 xref: SCTID:302551006 is_a: UBERON:0009569 ! subdivision of trunk is_a: UBERON:0011676 ! axial subdivision of organism property_value: spatially_disjoint_from UBERON:0000026 property_value: spatially_disjoint_from UBERON:0000033 property_value: spatially_disjoint_from UBERON:0002417 [Term] id: UBERON:0000916 name: abdomen namespace: uberon def: "In vertebrates such as mammals the abdomen (belly) constitutes the part of the body between the thorax (chest) and pelvis. The region enclosed by the abdomen is termed the abdominal cavity." [Wikipedia:Abdomen] comment: Taxon notes: Vertebrate specific. In arthropods 'abdomen' is the most distal section of the body which lies behind the thorax or cephalothorax. If need be we can introduce some grouping class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "abdominopelvic region" EXACT [FMA:9577] synonym: "abdominopelvis" EXACT [FMA:9577] synonym: "adult abdomen" RELATED [] synonym: "belly" RELATED [] synonym: "celiac region" RELATED [] xref: BTO:0000020 xref: EFO:0000968 xref: EV:0100011 xref: FMA:9577 xref: GAID:16 xref: MA:0000029 xref: MAT:0000298 xref: MESH:A01.047 xref: MIAA:0000298 xref: OpenCyc:Mx4rvVjgyZwpEbGdrcN5Y29ycA xref: SCTID:302553009 xref: galen:Abdomen is_a: UBERON:0009569 ! subdivision of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk property_value: has_relational_adjective "abdominal" xsd:string [Term] id: UBERON:0000917 name: obsolete abdominal segment namespace: uberon is_obsolete: true consider: FBbt:00000021 consider: HAO:0000016 consider: SPD:0000055 consider: UBERON:0002417 ! abdominal segment of trunk synonym: "segment of abdomen" EXACT [OBOL:automatic] [Term] id: UBERON:0000918 name: obsolete yolk namespace: uberon def: "The nutritive substance contained in the egg." [FB:gg] is_obsolete: true consider: BTO:0000371 consider: FBbt:00000035 consider: GO:0060417 consider: UBERON:0007378 ! egg yolk consider: XAO:0000281 ! vegetal yolk mass (Xenopus) consider: ZFA:0000084 ! yolk synonym: "vegetal yolk mass" BROAD [] synonym: "yolk cell" RELATED [] xref: MAT:0000335 xref: MIAA:0000335 [Term] id: UBERON:0000919 name: obsolete lipid droplet namespace: uberon is_obsolete: true replaced_by: GO:0005811 consider: FBbt:00000037 consider: FMA:62962 consider: GO:0005811 [Term] id: UBERON:0000920 name: egg chorion namespace: uberon def: "A protective, noncellular membrane that surrounds the eggs of various animals including insects and fish [GO]." [GO:0042600, Wikipedia:Chorion_(egg)] subset: dubious_grouping ! Indicates that subclasses in AOs may be inappropriately linked subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chorion" RELATED [] synonym: "chorion (egg)" EXACT [] xref: FBbt:00000038 xref: TAO:0000329 xref: TGMA:0000681 xref: ZFA:0000329 is_a: UBERON:0000476 ! acellular anatomical structure is_a: UBERON:0000478 ! extraembryonic structure relationship: surrounds UBERON:0003125 ! vitelline membrane disjoint_from: UBERON:0003124 ! chorion property_value: external_definition "The egg shell. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0000921 name: obsolete pronucleus namespace: uberon def: "." [Wikipedia:Pronucleus] is_obsolete: true replaced_by: GO:0045120 consider: FBbt:00000048 consider: FMA:84673 consider: GO:0045120 [Term] id: UBERON:0000922 name: embryo namespace: uberon def: "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [BTO:0000379, FB:FBrf0039741, FB:FBrf0041814, GO:0009790, Wikipedia:Embryo] comment: Obsoleted in ZFA. Note that embryo is not classified as an embryonic structure - an embryonic structure is only the parts of an embryo subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "developing organism" RELATED [BILA:0000056] synonym: "developmental tissue" RELATED [] synonym: "embryonic organism" EXACT [BILA:0000056] xref: AAO:0011035 xref: AEO:0000169 xref: BILA:0000056 xref: BTO:0000379 xref: EFO:0001367 xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 xref: FBbt:00000052 xref: FMA:69068 xref: GAID:963 xref: MAT:0000226 xref: MESH:A16.254 xref: MIAA:0000019 xref: OGEM:000001 xref: OpenCyc:Mx4rwP1ceZwpEbGdrcN5Y29ycA xref: SCTID:57991002 xref: UMLS:C0013935 xref: VHOG:0001766 xref: XAO:0000113 xref: ZFA:0000103 xref: http://neurolex.org/wiki/Category:Embryonic_organism xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Wrinkledfrog_embryos.jpg xref: ncithesaurus:Embryo is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_ends_with UBERON:0000068 ! embryo stage intersection_of: existence_starts_with UBERON:0000068 ! embryo stage property_value: has_relational_adjective "embryonic" xsd:string [Term] id: UBERON:0000923 name: germ layer namespace: uberon def: "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." [Wikipedia:Germ_layer] comment: Classically the germ layers are ectoderm, mesoderm and endoderm. Alternatively: primary = ectoderm, endoderm; secondary=mesoderm; tertiary=dorsal mesoderm, NC[UBERONREF:0000002] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "embryonic germ layer" RELATED [] synonym: "embryonic germ layers" RELATED [] synonym: "embryonic tissue" BROAD [FMA:69069] synonym: "germinal layer" EXACT [ncithesaurus:Germinal_Layer] synonym: "primary germ layer" NARROW [GO:0001704, ZFA:0001122] xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: FBbt:00000110 xref: FMA:69069 xref: GAID:1303 xref: MESH:A16.254.425 xref: TAO:0001122 xref: UMLS:C0920502 xref: UMLS:C1708239 xref: VHOG:0001223 xref: XAO:0003011 xref: ZFA:0001122 xref: ncithesaurus:Embryonic_Tissue xref: ncithesaurus:Germinal_Layer is_a: UBERON:0010316 ! germ layer / neural crest relationship: develops_from UBERON:0002532 ! epiblast (generic) relationship: part_of UBERON:0000922 ! embryo property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000924 name: ectoderm namespace: uberon def: "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." [Wikipedia:Ectoderm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "embryonic ectoderm" EXACT [VHOG:0000153] xref: AAO:0000137 xref: BILA:0000036 xref: BTO:0000315 xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 xref: FBbt:00000111 xref: FMA:69070 xref: GAID:1304 xref: MAT:0000155 xref: MAT:0000173 xref: MESH:A16.254.425.273 xref: MIAA:0000173 xref: SCTID:362851007 xref: TAO:0000016 xref: UMLS:C0013574 xref: VHOG:0000153 xref: XAO:0000001 xref: ZFA:0000016 xref: http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png xref: ncithesaurus:Ectoderm is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006601 ! presumptive ectoderm relationship: has_part CL:0000221 ! ectodermal cell property_value: external_definition "Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO]" xsd:string property_value: has_relational_adjective "ectodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000925 name: endoderm namespace: uberon def: "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." [Wikipedia:Endoderm] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "entoderm" RELATED [] xref: AAO:0000139 xref: BILA:0000038 xref: BTO:0000800 xref: EFO:0002545 xref: EHDAA2:0000436 xref: EV:0100005 xref: FBbt:00000125 xref: FMA:69071 xref: GAID:1305 xref: MAT:0000175 xref: MESH:A16.254.425.407 xref: MIAA:0000175 xref: SCTID:362855003 xref: TAO:0000017 xref: UMLS:C0014144 xref: VHOG:0000154 xref: XAO:0000090 xref: ZFA:0000017 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Gray10.png/200px-Gray10.png xref: ncithesaurus:Endoderm is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006595 ! presumptive endoderm relationship: has_part CL:0000223 ! endodermal cell property_value: has_relational_adjective "endodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000926 name: mesoderm namespace: uberon alt_id: UBERON:0003263 def: "The middle germ layer of the embryo, between the endoderm and ectoderm." [Wikipedia:Mesoderm] comment: Taxon notes: sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates[UBERONREF:0000002] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "embryonic mesoderm" RELATED [VHOG:0000152] synonym: "entire mesoderm" RELATED [SCTID:362854004, UBERON:cjm] synonym: "mesodermal mantle" RELATED [] xref: AAO:0000304 xref: BILA:0000037 xref: BTO:0000839 xref: EFO:0001981 xref: EHDAA2:0001128 xref: EHDAA:124 xref: EHDAA:160 xref: EHDAA:168 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 xref: FBbt:00000126 xref: FMA:69072 xref: GAID:522 xref: MAT:0000174 xref: MESH:A16.254.425.660 xref: MIAA:0000174 xref: SCTID:362854004 xref: TAO:0000041 xref: UMLS:C0025485 xref: VHOG:0000152 xref: XAO:0000050 xref: ZFA:0000041 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e8/Mesoderm.png/200px-Mesoderm.png xref: ncithesaurus:Mesoderm is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006603 ! presumptive mesoderm relationship: has_part CL:0000222 ! mesodermal cell property_value: never_in_taxon NCBITaxon:6040 property_value: external_definition "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string property_value: has_relational_adjective "mesodermal" xsd:string property_value: homology_notes "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000927 name: mesectoderm namespace: uberon def: "A double row of cells which are located at the midline from the end of gastrulations. The morphology of these cells is distinct from adjacent ectodermal cells - they are elongated such that one end remains exposed to the outside of the embryo at the mideline while the other end bissects the internalised mesoderm." [FB:FBrf0089570] comment: Split term? The part of the mesenchyme derived from ectoderm, especially from the embryonic neural crest from which the pigment cells, meninges, and most of the branchial cartilages develop.[TFD] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "MesEc" RELATED [] xref: FBbt:00000136 xref: MAT:0000243 xref: MIAA:0000243 is_a: UBERON:0000923 ! germ layer relationship: adjacent_to UBERON:0000924 ! ectoderm property_value: has_relational_adjective "mesectodermal" xsd:string [Term] id: UBERON:0000928 name: embryonic segment namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "segment - embryonic" EXACT [] xref: FBbt:00000154 xref: MAT:0000244 xref: MIAA:0000244 is_a: UBERON:0000914 ! organismal segment is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0000929 name: pharyngeal branch of vagus nerve namespace: uberon def: "Motor nerve of the pharynx, arises from the upper part of the ganglion nodosum, and consists principally of filaments from the cranial portion of the accessory nerve." [Wikipedia:Pharyngeal_branch_of_vagus_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pharyngeal branch" EXACT [] synonym: "pharyngeal branch of inferior vagal ganglion" EXACT [] synonym: "pharyngeal branch of vagus" EXACT [FMA:6234] synonym: "pharyngeal branch of vagus nerve" EXACT [] synonym: "ramus pharyngealis nervi vagalis" EXACT [] synonym: "ramus pharyngeus" EXACT LATIN [FMA:6234, FMA:TA] synonym: "ramus pharyngeus nervi vagi" RELATED LATIN [Wikipedia:Pharyngeal_branch_of_vagus_nerve] synonym: "tenth cranial nerve pharyngeal branch" EXACT [] synonym: "vagal pharyngeal branch" EXACT [] synonym: "vagus nerve pharyngeal branch" EXACT [] xref: FMA:6234 xref: SCTID:280298006 xref: http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Gray791.png/200px-Gray791.png is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0001005 ! respiratory airway relationship: part_of UBERON:0001759 ! vagus nerve [Term] id: UBERON:0000930 name: stomodeum namespace: uberon def: "Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth[ZFA]. In humans, a depression between the brain and the pericardium in an embryo, and is the precursor of the mouth and the anterior lobe of the pituitary gland. The stomodeum is lined by ectoderm, and is separated from the anterior end of the fore-gut by the buccopharyngeal membrane. This membrane is devoid of mesoderm, being formed by the apposition of the stomodeal ectoderm with the fore-gut endoderm; at the end of the third week it disappears, and thus a communication is established between the mouth and the future pharynx[WP]. The anterior part of the embryonic digestive system deriving from the stomodeal invagination of the ectoderm[FBbt]." [Wikipedia:Stomodeum] comment: Editor note: consider indicating location. e.g. anterior. Note some AOs place this as part of oral opening, but it's not clear when this structure comes into existence. Taxon note: This class groups together disparate structures as all being the anterior part of the early metazoan digestive tract and precursor of the mouth. However, the developmental processes vary, so this class may be split in future. E.g. in mammals it is a rostral depression surrounded by prominences. Outgrowth of the prominences produces a stomodeal cavity. subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mouth primordium" EXACT [XAO:0000269] synonym: "primitive oral cavity" EXACT [UBERON:cjm] synonym: "stomatodeum" EXACT [Wikipedia:Stomodeum] synonym: "stomodaeum" EXACT [] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 xref: FBbt:00000439 xref: TAO:0001290 xref: TGMA:0000135 xref: UMLS:C1514977 xref: XAO:0000269 xref: ZFA:0001290 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Gray977.png/200px-Gray977.png xref: ncithesaurus:Stomodeum is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003102 ! surface structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0000924 ! ectoderm relationship: part_of UBERON:0007026 ! primitive gut property_value: external_definition "Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth.[TAO]" xsd:string property_value: has_relational_adjective "stomodeal" xsd:string [Term] id: UBERON:0000931 name: proctodeum namespace: uberon def: "Inward fold on the surface of the embryonic ectoderm that develops into part of the anal passage[ZFA]. A proctodeum is the back ectodermal part of an alimentary canal. It is created during embryogenesis by a folding of the outer body wall[WP]." [Wikipedia:Proctodeum] comment: removed WBbt:0006795 - junction between the alimentary and genital tracts in the male. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anal pit" RELATED [VHOG:0000139] synonym: "embryonic proctodaeum" EXACT [] synonym: "proctodaeum" EXACT [] xref: AAO:0011087 xref: EHDAA2:0000121 xref: FBbt:00000440 xref: TAO:0000066 xref: UMLS:C0231054 xref: VHOG:0000139 xref: XAO:0001019 xref: ZFA:0000066 xref: ncithesaurus:Proctodeum is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000924 ! ectoderm relationship: develops_into UBERON:0001353 ! anal region relationship: part_of UBERON:0007026 ! primitive gut property_value: external_definition "An inward fold on the surface of the embryonic ectoderm that develops into part of the anal passage.[TAO]" xsd:string property_value: external_definition "Inward fold on the surface of the embryonic ectoderm that develops into part of the anal passage.[AAO]" xsd:string property_value: has_relational_adjective "proctodeal" xsd:string [Term] id: UBERON:0000932 name: obsolete ventral longitudinal muscle namespace: uberon is_obsolete: true consider: FBbt:00000482 consider: WBbt:0005814 comment: originally unified on basis of terminological similarity [Term] id: UBERON:0000933 name: pharyngeal muscle namespace: uberon def: "A muscle that acts on the pharynx[WP, vetted]." [UBERON:cjm, Wikipedia:Pharyngeal_muscles] comment: Innervation notes: They are innervated by the pharyngeal branch of the Vagus nerve (CN X) with the exception of the stylopharyngeus muscle which is innervated by the glossopharyngeal nerve (CN IX).[WP] synonym: "branchial muscle" EXACT [ZFA:0000172] synonym: "branchial muscles" RELATED PLURAL [TAO:0000172] synonym: "muscle of pharynx" EXACT [] synonym: "muscle organ of pharynx" EXACT [OBOL:automatic] synonym: "musculi pharyngis" RELATED LATIN [Wikipedia:Pharyngeal_muscles] synonym: "musculus pharyngis" RELATED [BTO:0001048] synonym: "pharynx muscle" EXACT [] synonym: "pharynx muscle organ" EXACT [OBOL:automatic] synonym: "tunica muscularis pharyngis" RELATED LATIN [Wikipedia:Pharyngeal_muscles] xref: BTO:0001048 xref: EFO:0003504 xref: FMA:46619 xref: GAID:154 xref: MA:0001797 xref: MESH:A02.633.567.800 xref: SCTID:244798004 xref: TAO:0000172 xref: UMLS:C0031346 xref: ZFA:0000172 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Gray1030.png xref: ncithesaurus:Pharyngeal_Muscle is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0004467 ! musculature of pharynx property_value: external_definition "A pharyngeal muscle is any muscle that forms part of the pharynx[GO]." xsd:string [Term] id: UBERON:0000934 name: ventral nerve cord namespace: uberon def: "The pair of closely united ventral longitudinal nerves with their segmental ganglia that is characteristic of many elongate invertebrates (as earthworms)[BTO]. A large process bundle that runs along the vental mid-line extending from the ventral region of the nerve ring[WB]. The ventral cord is one of the distinguishing traits of the central nervous system of all arthropods (such as insects, crustaceans and arachnids) as well as many other invertebrates, such as the annelid worms[GO]." [BTO:0002328, GO:0007419, WB:Paper00000938, Wikipedia:Ventral_nerve_cord] comment: The ventral nerve cords make up the nervous system of some phyla of the invertebrates, particularly within the nematodes, annelids and the arthropods. It usually consists of cerebral ganglia anteriorly with the nerve cords running down the ventral ('belly', as opposed to back) plane of the organism. This characteristic is important in qualifying the difference compared to the chordates, which have a dorsal nerve cord. Ventral nerve cords from anterior to posterior (the thoracic and abdominal tagma in the arthropods) are made up of segmented ganglia that are connected by a tract of nerve fibers passing from one side to the other of the nerve cord called commissures. The complete system bears some likeness to a rope ladder. In some animals the bilateral ganglia are fused into a single large ganglion per segment. This characteristic is found mostly in the insects. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ventral cord" EXACT [GO:0007419] xref: BTO:0002328 xref: EFO:0000896 xref: FBbt:00001102 xref: MAT:0000339 xref: MIAA:0000339 xref: WBbt:0005829 is_a: UBERON:0005053 ! nerve cord property_value: never_in_taxon NCBITaxon:7711 [Term] id: UBERON:0000935 name: anterior commissure namespace: uberon def: "bundle of nerve fibers (white matter), connecting the two cerebral hemispheres across the midline, and placed in front of the columns of the fornix. The great majority of fibers connecting the two hemispheres travel through the corpus callosum, which is over 10 times larger than the anterior commissure, and other routes of communication pass through the hippocampal commissure or, indirectly, via subcortical connections. Nevertheless, the anterior commissure is a significant pathway that can be clearly distinguished in the brains of all mammals." [Wikipedia:Anterior_commissure] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "commissura anterior" RELATED LATIN [Wikipedia:Anterior_commissure] synonym: "commissura rostral" RELATED [] synonym: "commissura rostralis" EXACT [] synonym: "precommisure" RELATED [Wikipedia:Anterior_commisure] synonym: "rostral commissure" RELATED [] xref: BM:Tel-AC xref: BTO:0002169 xref: EMAPA:19038 xref: FMA:61961 xref: MA:0002722 xref: NIF_GrossAnatomy:Class_4 xref: NIF_GrossAnatomy:birnlex_1557 xref: SCTID:369119009 xref: TAO:0001108 xref: UMLS:C0152335 xref: VHOG:0001558 xref: ZFA:0001108 xref: http://upload.wikimedia.org/wikipedia/commons/b/b4/Gray744.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b4/Gray744.png/200px-Gray744.png xref: ncithesaurus:Anterior_Commissure is_a: UBERON:0002473 ! intercerebral commissure property_value: homology_notes "In all vertebrates the thin structure that connects the two halves of the telencephalon shows a ridge-like thickening at the basal side known as the anterior commissure.[well established][VHOG]" xsd:string [Term] id: UBERON:0000936 name: posterior commissure namespace: uberon def: "Rounded band of white fibers crossing the middle line on the dorsal aspect of the upper end of the cerebral aqueduct. It is important in the bilateral pupillary light reflex. Its fibers acquire their medullary sheaths early, but their connections have not been definitely determined. Most of them have their origin in a nucleus, the nucleus of the posterior commissure (nucleus of Darkschewitsch), which lies in the central gray substance of the upper end of the cerebral aqueduct, in front of the nucleus of the oculomotor nerve. Some are probably derived from the posterior part of the thalamus and from the superior colliculus, whereas others are believed to be continued downward into the medial longitudinal fasciculus. The posterior commissure interconnects the pretectal nuclei, mediating the consensual pupillary light reflex[WP].Diencephalic tract which is located in the vicinity of the dorsal diencephalon and mesencephalon and connects the pretectal nuclei. From Neuroanatomy of the Zebrafish Brain[ZFA]." [Wikipedia:Posterior_commissure, ZFA:0000320] comment: AO notes: part_of brainstem in MA; midbrain tectum in NIF subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caudal commissure" EXACT [FMA:62072, ZFA:0000320] synonym: "commissura posterior" RELATED LATIN [Wikipedia:Posterior_commissure] synonym: "epithalamic commissure" EXACT [FMA:62072] xref: BM:MB-Tec-PC xref: FMA:62072 xref: MA:0002743 xref: NIF_GrossAnatomy:birnlex_1026 xref: TAO:0000320 xref: UMLS:C0152327 xref: ZFA:0000320 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray715.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray715.png/200px-Gray715.png xref: ncithesaurus:Posterior_Commissure is_a: UBERON:0001020 ! commissure is_a: UBERON:0011590 ! commissure of diencephalon relationship: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0000937 name: obsolete proneural cluster namespace: uberon is_obsolete: true consider: FBbt:00001135 consider: ZFA:0000068 ! proneural cluster (zebrafish) comment: obsoleted because inconsistencies arise due to ZFA term being both embryonic and extraembryonic synonym: "proneural clusters" RELATED [ZFA:0000068] [Term] id: UBERON:0000939 name: imaginal disc namespace: uberon def: "A tissue in the larva which gives rise to the adult external cuticle." [FB:gg, Wikipedia:Imaginal_disc] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "imaginal disk" RELATED [] xref: BTO:0004658 xref: FBbt:00001761 xref: MAT:0000064 xref: MIAA:0000064 is_a: UBERON:0000481 ! multi-tissue structure [Term] id: UBERON:0000941 name: cranial nerve II namespace: uberon def: "Cranial nerve which is comprised of retinal ganglion cell axons running posterior medially towards the optic chiasm, at which some of the axons cross the midline and after which the structure is termed the optic tract. Transmits visual information from the retina to the brain[ZFA]." [ISBN:0471209627, Wikipedia:Optic_nerve, ZFA:0000435] comment: Editor notes: A sensory tract that develops as an outpocketing of the brain - we classify as a cranial nerve as is traditional, but not strictly a nerve. AO notes: (relaion to eye): MA, XAO, AAO and BTO consider this part of the eye. This is in contrast to GO, FMA, EHDAA2 (FMA has a class 'intra-ocular part of optic nerve' which represents the region of overlap). Relation to brain: part of diencephalon in EHDAA2, ZFA. In NIF, has the optic nerve root as part, which is a feature part of the diencphalon. Structure notes: We are consistent here with the FMA in considering CN-II continuous with the retina. Editor notes: - determine the precise relationship between CN II and the CNS subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "02 optic nerve" EXACT [AAO:0010345] synonym: "CN-II" RELATED [ZFA:0000435] synonym: "cranial II" EXACT [] synonym: "nervus opticus" EXACT [] synonym: "nervus opticus [II]" EXACT LATIN [FMA:50863, FMA:TA] synonym: "optic" RELATED [TAO:0000435] synonym: "optic II" EXACT [EHDAA2:0001313] synonym: "optic II nerve" EXACT [EHDAA2:0001313] synonym: "optic nerve" BROAD SENSU [FMA:50863, ZFA:0000435] synonym: "optic nerve [II]" EXACT [] synonym: "second cranial nerve" EXACT [] xref: AAO:0010345 xref: EFO:0004258 xref: EHDAA2:0001313 xref: EHDAA:6788 xref: EMAPA:17575 xref: EMAPA:17846 xref: FMA:50863 xref: GAID:831 xref: MA:0001097 xref: MESH:A08.800.800.120.680 xref: NIF_GrossAnatomy:birnlex_1640 xref: OpenCyc:Mx4rvVjLm5wpEbGdrcN5Y29ycA xref: SCTID:180938001 xref: TAO:0000435 xref: UMLS:C0029130 xref: VHOG:0000543 xref: XAO:0000188 xref: ZFA:0000435 xref: ncithesaurus:Optic_Nerve is_a: UBERON:0002464 ! nerve trunk is_a: UBERON:0004904 ! nerve connecting eye with brain relationship: continuous_with UBERON:0003098 ! optic stalk relationship: develops_from UBERON:0003902 ! retinal neural layer relationship: part_of UBERON:0002104 ! visual system intersection_of: UBERON:0001785 ! cranial nerve intersection_of: continuous_with UBERON:0000959 ! optic chiasma intersection_of: continuous_with UBERON:0000966 ! retina property_value: external_definition "A collection of nerve cells that project visual information from the eyes to the brain. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string property_value: external_definition "Fibrous, somatic sensory element covered by a fibrous connective-tissue sheath and is continuous with the layer of nerve cells on the inner surface of the eye.[AAO]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup (reference 1); The (optic) stalk persists as the optic nerve (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0000942 name: frontal nerve (branch of ophthalmic) namespace: uberon def: "The frontal nerve is the largest branch of the ophthalmic, and may be regarded, both from its size and direction, as the continuation of the nerve. It enters the orbit through the supraorbital foramen, and runs forward between the Levator palpebrC& superioris and the periosteum. Midway between the apex and base of the orbit it divides into two branches, supratrochlear nerve and supraorbital nerve. [WP,unvetted]." [Wikipedia:Frontal_nerve] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "frontal nerve" EXACT [FMA:52638] synonym: "nervus frontalis" RELATED LATIN [Wikipedia:Frontal_nerve] xref: FMA:52638 xref: SCTID:280219004 xref: UMLS:C0228712 xref: http://upload.wikimedia.org/wikipedia/commons/4/45/Gray787.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/45/Gray787.png/200px-Gray787.png xref: ncithesaurus:Frontal_Nerve is_a: UBERON:0001021 ! nerve relationship: branch_of UBERON:0000348 ! ophthalmic nerve [Term] id: UBERON:0000943 name: obsolete labial sensillum namespace: uberon is_obsolete: true consider: FBbt:00002721 consider: WBbt:0005107 [Term] id: UBERON:0000944 name: obsolete dorsal branch namespace: uberon is_obsolete: true consider: FBbt:00003051 consider: FMA:76733 synonym: "dorsal vein" EXACT [] synonym: "ramus dorsalis" EXACT LATIN [FMA:76733, FMA:TA] [Term] id: UBERON:0000945 name: stomach namespace: uberon def: "An expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ. A stomach is lined, in whole or in part by a glandular epithelium." [ISBN10:0073040584, UBERON:cjm, Wikipedia:Stomach] comment: Taxon notes: We restrict this to the vertebrate specific structure - see the grouping class 'food storage organ' for analogous structures in other species. Teleosts: Zebrafish is functionally stomach-less, but may retain ontogenic footprint. Although the precise shape and size of the stomach varies widely among different vertebrates, the relative positions of the oesophageal and duodenal openings remain relatively constant. As a result, the organ always curves somewhat to the left before curving back to meet the pyloric sphincter. However, lampreys, hagfishes, chimaeras, lungfishes, and some teleost fish have no stomach at all, with the oesophagus opening directly into the intestine. The gastric lining is usually divided into two regions, an anterior portion lined by fundic glands, and a posterior with pyloric glands. Cardiac glands are unique to mammals, and even then are absent in a number of species. The distributions of these glands vary between species, and do not always correspond with the same regions as in man. Furthermore, in many non-human mammals, a portion of the stomach anterior to the cardiac glands is lined with epithelium essentially identical to that of the oesophagus. Ruminants, in particular, have a complex stomach, the first three chambers of which are all lined with oesophageal mucosa -- Stomach#In_other_animals subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Ventricular" RELATED LATIN [Wikipedia:Stomach] synonym: "anterior intestine" RELATED [] synonym: "gaster" RELATED [BTO:0001307] synonym: "mesenteron" RELATED [] synonym: "stomach chamber" NARROW [] synonym: "ventriculus" RELATED [] xref: AAO:0000579 xref: ANISEED:1235297 xref: BTO:0001307 xref: EFO:0000837 xref: EHDAA2:0001915 xref: EHDAA:2993 xref: EMAPA:17021 xref: EMAPA:18889 xref: EV:0100070 xref: FMA:7148 xref: GAID:293 xref: MA:0000353 xref: MAT:0000051 xref: MESH:A03.492.766 xref: MIAA:0000051 xref: OpenCyc:Mx4rvVjlqpwpEbGdrcN5Y29ycA xref: SCTID:181246003 xref: TAO:0002121 xref: UMLS:C0038351 xref: VHOG:0000408 xref: XAO:0000128 xref: galen:Stomach xref: http://upload.wikimedia.org/wikipedia/commons/e/e0/Stomach_diagram.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e0/Stomach_diagram.svg/200px-Stomach_diagram.svg.png xref: ncithesaurus:Stomach is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0010039 ! food storage organ relationship: capable_of GO:0001696 ! gastric acid secretion relationship: part_of UBERON:0001041 ! foregut property_value: never_in_taxon NCBITaxon:7955 property_value: external_definition "Portion of alimentary canal with increased circular and longitudinal smooth muscle. Bounded posteriorly by the pyloric sphincter. Mucosal lining has increased folding.[AAO]" xsd:string property_value: homology_notes "It appears that the stomach has an ancient origin. The stomach first appears in the fish lineage. The prevertebrate chordates do not have a true stomach, whereas the cartilaginous and bony fish do. Although most fish do have a true stomach, some fish species appear to have lost the stomach secondarily. The remaining vertebrate lineages do have a true stomach (at least in the adult animal), although there is great variation in the size and shape of the stomach.[well established][VHOG]" xsd:string [Term] id: UBERON:0000946 name: cardial valve namespace: uberon def: "Flap of tissue that prevents regurgitation of blood from the ventricles to the atria or from the pulmonary arteries or aorta to the ventricles." [Wikipedia:Cardiac_valve] comment: Terminology notes: Rector et al: One might be tempted to define bheart valveb equivalently to bvalve in the heartb, and bvalveb as a bstructure which functions as a valveb. But this combination results in the bforamen ovaleb being classified as a kind of bheart valveb, since it is undoubtedly located in the heart and functions as a valve subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac valve" RELATED [GO:0003170] synonym: "heart valve" EXACT [] synonym: "heart valves" RELATED [] synonym: "stomodaeal valve" RELATED [] synonym: "valve of heart" EXACT [] xref: BTO:0000564 xref: EMAPA:17869 xref: EV:0100024 xref: FMA:7110 xref: GAID:176 xref: MA:0000086 xref: MESH:A07.541.510 xref: OpenCyc:Mx4rv8oyuJwpEbGdrcN5Y29ycA xref: SCTID:181285005 xref: TAO:0005065 xref: UMLS:C0018826 xref: VHOG:0000818 xref: XAO:0004126 xref: ZFA:0005065 xref: galen:HeartValve xref: ncithesaurus:Cardiac_Valve is_a: UBERON:0003978 ! valve is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002062 ! endocardial cushion relationship: part_of UBERON:0000948 ! heart disjoint_from: UBERON:0004754 ! foramen ovale of heart property_value: external_definition "One of the four structures within the heart that prevent backflow of blood by opening and closing with each heartbeat. The valves include two semilunar valves, the aortic and pulmonary; the mitral or bicuspid valve; and the tricuspid valve. The valves permit blood flow in only one direction. [TFD][VHOG]" xsd:string property_value: homology_notes "Extensive conservation of valve developmental mechanisms also has been observed among vertebrate species including chicken, mouse, and human.[well established][VHOG]" xsd:string [Term] id: UBERON:0000947 name: aorta namespace: uberon def: "Artery carrying blood from the heart to all the organs and other structures of the body, bringing oxygenated blood to all parts of the body in the systemic circulation" [Wikipedia:Aorta] comment: Editor notes: This class is currently a mixed bag, encompassing (1) the entirety of the mammalian aorta together with (2) the developmental and phylogenetic homologs of its segments: the ventral aorta and dorsal aortae. Taxon notes: All amniotes have a broadly similar arrangement to that of humans, albeit with a number of individual variations. In fish, however, there are two separate vessels referred to as aortas. The ventral aorta carries de-oxygenated blood from the heart to the gills; part of this vessel forms the ascending aorta in tetrapods (the remainder forms the pulmonary artery). A second, dorsal aorta carries oxygenated blood from the gills to the rest of the body, and is homologous with the descending aorta of tetrapods. The two aortas are connected by a number of vessels, one passing through each of the gills. Amphibians also retain the fifth connecting vessel, so that the aorta has two parallel arches[WP]. subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "aorta, arteria maxima" RELATED LATIN [Wikipedia:Aorta] synonym: "dorsal aorta" NARROW SENSU [Wikipedia:Aorta#In_other_animals, ZFA:0000014] synonym: "trunk of aortic tree" EXACT [] synonym: "trunk of systemic arterial tree" EXACT [] xref: AAO:0010213 xref: BTO:0000135 xref: EFO:0000265 xref: EMAPA:18601 xref: EV:0100027 xref: FMA:3734 xref: GAID:469 xref: MA:0000062 xref: MAT:0000035 xref: MESH:A07.231.114.056 xref: MIAA:0000035 xref: OpenCyc:Mx4rvVjvTpwpEbGdrcN5Y29ycA xref: SCTID:181298001 xref: UMLS:C0003483 xref: VHOG:0001523 xref: XAO:0003010 xref: galen:Aorta xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Aorta_scheme.jpg xref: ncithesaurus:Aorta is_a: UBERON:0001637 ! artery is_a: UBERON:0003509 ! arterial blood vessel is_a: UBERON:0004573 ! systemic artery relationship: overlaps UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0004571 ! systemic arterial system relationship: part_of UBERON:0010191 ! aortic system property_value: external_definition "The main artery of the circulatory system which carries oxygenated blood from the heart to all the arteries of the body except those of the lungs.[AAO]" xsd:string property_value: has_relational_adjective "aortic" xsd:string property_value: homology_notes "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string [Term] id: UBERON:0000948 name: heart namespace: uberon def: "a myogenic muscular organ found in the cardiovascular system. It is responsible for pumping blood throughout the blood vessels by repeated, rhythmic contractions. The vertebrate heart is composed of cardiac muscle, which is an involuntary striated muscle tissue found only in this organ, and connective tissue. Primitive fish have a four-chambered heart; however, the chambers are arranged sequentially so that this primitive heart is quite unlike the four-chambered hearts of mammals and birds. The first chamber is the sinus venosus, which collects de-oxygenated blood, from the body, through the hepatic and cardinal veins. From here, blood flows into the atrium and then to the powerful muscular ventricle where the main pumping action takes place. The fourth and final chamber is the conus arteriosus which contains several valves and sends blood to the ventral aorta. The ventral aorta delivers blood to the gills where it is oxygenated and flows, through the dorsal aorta, into the rest of the body. (In tetrapods, the ventral aorta has divided in two; one half forms the ascending aorta, while the other forms the pulmonary artery. In the adult fish, the four chambers are not arranged in a straight row but, instead, form an S-shape with the latter two chambers lying above the former two. This relatively simpler pattern is found in cartilaginous fish and in the more primitive ray-finned fish. In teleosts, the conus arteriosus is very small and can more accurately be described as part of the aorta rather than of the heart proper. The conus arteriosus is not present in any amniotes which presumably having been absorbed into the ventricles over the course of evolution. Similarly, while the sinus venosus is present as a vestigial structure in some reptiles and birds, it is otherwise absorbed into the right atrium and is no longer distinguishable[WP]." [Wikipedia:Heart] comment: note that we use the term 'circulatory organ' for the generic class. Taxon notes:\" the ascidian tube-like heart lacks chambers....The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepi- thelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium.... The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates... all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)\" doi:10.1101/gad.1485706 subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Herz" RELATED [BTO:0000562] synonym: "branchial heart" NARROW SENSU [] synonym: "chambered heart" EXACT [UBERON:cjm] synonym: "vertebrate heart" EXACT [] xref: AAO:0010210 xref: BILA:0000020 xref: BTO:0000562 xref: EFO:0000815 xref: EHDAA2:0000738 xref: EHDAA:420 xref: EMAPA:16105 xref: EV:0100018 xref: FMA:7088 xref: GAID:174 xref: MA:0000072 xref: MAT:0000036 xref: MESH:A07.541 xref: MIAA:0000036 xref: OpenCyc:Mx4rvVjvDpwpEbGdrcN5Y29ycA xref: SCTID:302509004 xref: TAO:0000114 xref: UMLS:C0018787 xref: VHOG:0000276 xref: XAO:0000064 xref: ZFA:0000114 xref: galen:Heart xref: ncithesaurus:Heart is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0004141 ! heart tube relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0004535 ! cardiovascular system intersection_of: UBERON:0007100 ! circulatory organ intersection_of: has_part UBERON:0004151 ! cardiac chamber property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" xsd:string property_value: external_definition "Blood pumping organ composed of four chambers: sinus venosus, atrium, cardiac ventricle and bulbus arteriosus.[TAO]" xsd:string property_value: external_definition "Part of the circulatory system responsible for pumping blood; composed of three chambers--two atria and one ventricle.[AAO]" xsd:string property_value: has_relational_adjective "cardiac" xsd:string property_value: homology_notes "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[well established][VHOG]" xsd:string [Term] id: UBERON:0000949 name: endocrine system namespace: uberon def: "Anatomical system that consists of the glands and parts of glands that produce endocrine secretions and help to integrate and control bodily metabolic activity." [NLM:endocrine+system, Wikipedia:Endocrine_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "endocrine glandular system" EXACT [EHDAA2:0002224] synonym: "endocrine system" EXACT [] synonym: "systema endocrinum" EXACT [] xref: AAO:0010279 xref: EFO:0002969 xref: EHDAA2:0002224 xref: EV:0100128 xref: FBbt:00005068 xref: FMA:9668 xref: GAID:439 xref: MA:0000012 xref: MESH:A06 xref: SCTID:278876000 xref: TAO:0001158 xref: UMLS:C0014136 xref: VHOG:0000098 xref: XAO:0000158 xref: ZFA:0001158 xref: ncithesaurus:Endocrine_System intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0050886 ! endocrine process disjoint_from: UBERON:0000990 ! reproductive system disjoint_from: UBERON:0001004 ! respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001008 ! excretory system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "Anatomical system containing glands which regulates bodily functions though the secretion of hormones.[AAO]" xsd:string property_value: has_relational_adjective "endocrine" xsd:string property_value: homology_notes "Multicellular organisms have complex endocrine systems, allowing responses to environmental stimuli, regulation of development, reproduction, and homeostasis. Nuclear receptors (NRs), a metazoan-specific family of ligand-activated transcription factors, play central roles in endocrine responses, as intermediates between signaling molecules and target genes. The NR family includes ligand-bound and orphan receptors, that is, receptors with no known ligand or for which there is no ligand Pocket. Understanding NR evolution has been further improved by comparison of several completed genomes, particularly those of deuterostomes and ecdysozoans. In contrast, evolution of NR ligands is still much debated. One hypothesis proposes that several independent gains and losses of ligand-binding ability in NRs occurred in protostomes and deuterostomes. A second hypothesis, pertaining to the NR3 subfamily (vertebrate steroid hormone receptors and estrogen related receptor), proposes that before the divergence of protostomes and deuterostomes, there was an ancestral steroid receptor (AncSR) that was ligand-activated and that orphan receptors secondarily lost the ability to bind a ligand. (...) Our analysis reveals that steroidogenesis has been independently elaborated in the 3 main bilaterian lineages (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000950 name: gracilis namespace: uberon def: "The most superficial muscle on the medial side of the thigh. It is thin and flattened, broad above, narrow and tapering below. It arises by a thin aponeurosis from the anterior margins of the lower half of the symphysis pubis and the upper half of the pubic arch." [Wikipedia:Gracilis_muscle] comment: Editor's note: AAO has minor and major gracilis, which merge together, attaching the pelvic rim to the tibiofibula - this could be grouped with the mammalian gracilis at some level; note the current insertion site is 'tibia' which would be modified for amphibian tibiafibula subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gracilis muscle" EXACT [BTO:0000536] synonym: "musculus gracilis" EXACT LATIN [Wikipedia:Gracilis_muscle] xref: BTO:0000536 xref: FMA:43882 xref: MA:0002311 xref: OpenCyc:Mx4rv7If8pwpEbGdrcN5Y29ycA xref: SCTID:181689005 xref: UMLS:C0224439 xref: galen:Gracilis xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Anterior_Hip_Muscles_2.PNG xref: ncithesaurus:Gracilis is_a: UBERON:0004252 ! hindlimb stylopod muscle is_a: UBERON:0011144 ! adductor muscle of hip relationship: has_muscle_insertion UBERON:0000979 ! tibia relationship: has_muscle_origin UBERON:0001272 ! innominate bone relationship: homologous_to UBERON:0011914 ! pubioischiotibialis muscle relationship: part_of UBERON:0000376 ! hindlimb stylopod [Term] id: UBERON:0000951 name: rotator muscle of the vertebral column namespace: uberon def: "Any of a number of short transversospinal muscles chiefly developed in cervical, lumbar, and thoracic regions, arising from the transverse process of one vertebra and inserted into the root of the spinous process of the next two or three vertebrae above, with nerve supply from the dorsal branches of the spinal nerve, and whose actions rotate the vertebral column." [http://medical-dictionary.thefreedictionary.com/rotator+muscle] comment: This class was created automatically from a combination of ontologies synonym: "rotator muscle" EXACT [FMA:23081] xref: FMA:23081 xref: SCTID:244872002 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0002324 ! muscle of back is_a: UBERON:0004518 ! muscle of vertebral column relationship: attaches_to UBERON:0002412 ! vertebra relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0000952 name: obsolete adductor muscle namespace: uberon is_obsolete: true consider: UBERON:0011144 ! adductor muscle of hip consider: UBERON:0011145 ! adductor muscle comment: obsoleted as it conflated a generic functional grouping with a specific group of muscles in the leg/hip [Term] id: UBERON:0000953 name: obsolete visceral muscle namespace: uberon def: "involuntary non-striated muscle." [Wikipedia:Smooth_muscle] is_obsolete: true comment: terminological note: GO uses visceral and smooth interchangeably synonym: "adult visceral muscle" RELATED [] synonym: "smooth muscle" EXACT [] [Term] id: UBERON:0000954 name: obsolete intestine muscle namespace: uberon def: "intestinal muscle cell, attach to intestine and body wall anterior to anus" [WB:Paper00000653] is_obsolete: true consider: FBbt:00003537 consider: WBbt:0005796 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intestinal muscle" EXACT [] [Term] id: UBERON:0000955 name: brain namespace: uberon def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals.[1] Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." [Wikipedia:Brain] comment: include synganglion? subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "encephalon" RELATED [BTO:0000142] synonym: "synganglion" RELATED [] xref: AAO:0010478 xref: ABA:Brain xref: BILA:0000135 xref: BTO:0000142 xref: EFO:0000302 xref: EHDAA2:0000183 xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 xref: FBbt:00005095 xref: FMA:50801 xref: GAID:571 xref: MA:0000168 xref: MAT:0000098 xref: MESH:A08.186.211 xref: MIAA:0000098 xref: NIF_GrossAnatomy:birnlex_796 xref: OpenCyc:Mx4rvVjT65wpEbGdrcN5Y29ycA xref: SCTID:258335003 xref: TAO:0000008 xref: UMLS:C0006104 xref: VHOG:0000157 xref: XAO:0000010 xref: ZFA:0000008 xref: galen:Brain xref: ncithesaurus:Brain is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001017 ! central nervous system property_value: external_definition "Cavitated compound organ which is comprised of gray and white matter and surrounds the cerebral ventricular system.[TAO]" xsd:string property_value: external_definition "Part of the central nervous system situated within the cranium and composed of both nerve cell bodies and nerve fibers.[AAO]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0000956 name: cerebral cortex namespace: uberon def: "The cerebral cortex is a structure within the brain that plays a key role in memory, attention, perceptual awareness, thought, language, and consciousness. It constitutes the outermost layer of the cerebrum. In preserved brains, it has a grey color, hence the name 'grey matter'. Grey matter is formed by neurons and their unmyelinated fibers, whereas the white matter below the grey matter of the cortex is formed predominantly by myelinated axons interconnecting different regions of the central nervous system. The human cerebral cortex is 2b4 mm (0.08b0.16 inches) thick. The surface of the cerebral cortex is folded in large mammals, such that more than two-thirds of the cortical surface is buried in the grooves, called 'sulci. ' The phylogenetically most recent part of the cerebral cortex, the neocortex, also called isocortex, is differentiated into six horizontal layers; the more ancient part of the cerebral cortex, the hippocampus (also called archicortex), has at most three cellular layers, and is divided into subfields. Relative variations in thickness or cell type (among other parameters) allow us to distinguish between different neocortical architectonic fields. The geometry of at least some of these fields seems to be related to the anatomy of the cortical folds, and, for example, layers in the upper part of the cortical ridges seem to be more clearly differentiated than in its deeper parts. [WP,unvetted]." [Wikipedia:Cerebral_cortex] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brain cortex" RELATED [BTO:0000233] synonym: "cortex cerebri" RELATED LATIN [Wikipedia:Cerebral_cortex] synonym: "cortex of cerebral hemisphere" EXACT [] synonym: "pallium of the brain" RELATED [BTO:0000233] xref: ABA:CTX xref: BM:Tel-Cx xref: BTO:0000233 xref: EFO:0000328 xref: EHDAA2:0000234 xref: EHDAA:5464 xref: EMAPA:17544 xref: EV:0100166 xref: FMA:61830 xref: GAID:629 xref: MA:0000185 xref: MAT:0000108 xref: MESH:A08.186.211.730.885.213 xref: MIAA:0000108 xref: NIF_GrossAnatomy:birnlex_1494 xref: SCTID:362880003 xref: UMLS:C0007776 xref: VHOG:0000722 xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Brainmaps-macaque-hippocampus.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7b/Cerebral_Cortex_location.jpg/200px-Cerebral_Cortex_location.jpg xref: ncithesaurus:Cortex is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: has_developmental_contribution_from UBERON:0004035 ! subplate relationship: has_developmental_contribution_from UBERON:0005343 ! cortical plate relationship: has_function_in GO:0007613 ! memory relationship: part_of UBERON:0000203 ! pallium relationship: part_of UBERON:0001869 ! cerebral hemisphere property_value: homology_notes "Migration of neurons from the basal or striatal portions of the anterior part of the neural tube occurs to varying degrees in different vertebrate classes, but a true cerebral cortex is generally acknowledged to have made its first appearance in reptiles. The definition can be unambiguous, since 'cortex' simply implies the existence of a surface neuronal layer with an overlying 'zonal lamina' or 'molecular' layer containing dendrites and axons, which is separated from the underlying basal 'matrix' by white matter. Although reptilian cerebral cortex does indeed fulfill these conditions in certain locations, the separation from striatal structures is often indistinct, so that it may even be argued that some primitive dipnoans possess a pallium or cortex. Nevertheless, an extensive laminated layer separated by underlying white matter is well represented only in reptiles and mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0000957 name: lamina namespace: uberon def: "Any thin layer or plate." [Wikipedia:Lamina_of_the_vertebral_arch] comment: TODO - merge with cell layer? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: http://upload.wikimedia.org/wikipedia/commons/8/80/Laminaarcusvertebrae.png is_a: UBERON:0000479 ! tissue property_value: has_relational_adjective "laminal" xsd:string [Term] id: UBERON:0000958 name: medulla namespace: uberon def: "Middle part of an organ (as opposed to the cortex)[WP]." [Wikipedia:Bone_marrow_of_ovary] comment: This class is used in a very general sense subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: BM:Me xref: FMA:61108 xref: galen:Medulla is_a: UBERON:0000471 ! compound organ component relationship: surrounded_by UBERON:0001851 ! cortex property_value: has_relational_adjective "medullary" xsd:string [Term] id: UBERON:0000959 name: optic chiasma namespace: uberon def: "Nerve trunk which is continuous with right and left optic nerves and right and left optic tracts.[FMA]" [FMA:FMA, Wikipedia:Optic_chiasm, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chiasma opticum" EXACT LATIN [FMA:62045, FMA:TA, Wikipedia:Optic_chiasm] synonym: "decussation of optic nerve fibers" EXACT [] synonym: "optic chiasm" EXACT [Wikipedia:Optic_chiasm] xref: AAO:0010622 xref: BM:Tel-OCX xref: EHDAA2:0001302 xref: EHDAA:10227 xref: EMAPA:17603 xref: FMA:62045 xref: GAID:832 xref: MA:0001098 xref: MESH:A08.800.800.120.680.600 xref: NIF_GrossAnatomy:birnlex_1416 xref: SCTID:244453006 xref: TAO:0000556 xref: UMLS:C0029126 xref: VHOG:0000190 xref: XAO:0004071 xref: ZFA:0000556 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/1543%2CVisalius%27OpticChiasma.jpg/200px-1543%2CVisalius%27OpticChiasma.jpg xref: ncithesaurus:Optic_Chiasm is_a: UBERON:0002464 ! nerve trunk relationship: continuous_with UBERON:0000941 ! cranial nerve II relationship: part_of UBERON:0001894 ! diencephalon property_value: external_definition "The point at which fibers of the optic nerves cross.[AAO]" xsd:string property_value: homology_notes "The chiasm has been studied in great detail in some animals, while in others relatively little or nothing is known. Although there are some gross architectural features that are conserved within some animals, such as birds and fish, the general picture is one of diversity. This review will attempt to consider the key features of such diversity of chiasmatic organisation in vertebrates and the mechanisms that sculpt them from the limited literature that is available. However, as so much research has been undertaken on the structure and development of the chiasm in laboratory animals, any review must consider the information that has been gleaned from them and hope that future studies will determine whether the features revealed in these animals, and the underlying mechanisms that generate them, have a common vertebrate plan.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0000960 name: obsolete pharyngeal nerve namespace: uberon def: "OBSOLETE. Original definition: The pharyngeal nerve (pterygopalatine nerve) is a small branch arising from the posterior part of the pterygopalatine ganglion. It passes through the pharyngeal canal with the pharyngeal branch of the maxillary artery, and is distributed to the mucous membrane of the nasal part of the pharynx, behind the auditory tube. [WP,unvetted]." [Wikipedia:Pharyngeal_nerve] is_obsolete: true consider: FBbt:00004021 consider: FMA:77524 consider: WBbt:0005441 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray780.png/200px-Gray780.png [Term] id: UBERON:0000961 name: thoracic ganglion namespace: uberon def: "The thoracic ganglia are paravertebral ganglia. The thoracic portion of the sympathetic trunk typically has 12 thoracic ganglia. Emerging from the ganglia are thoracic splancic nerves (the cardiopulmonary, the greater, lesser, and least splanchic nerves) that help provide sympathetic innervation to abdominal structures. Also, the ganglia of the thoracic sympathetic trunk have both white and gray rami communicantes. The white rami carry sympathetic fibers arising in the spinal cord into the sympathetic trunk. [WP,unvetted]." [Wikipedia:Thoracic_ganglion] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ganglion of thorax" EXACT [OBOL:automatic] synonym: "ganglion thoracicum splanchnicum" EXACT LATIN [FMA:6471, FMA:TA] synonym: "thoracic paravertebral ganglion" EXACT [] synonym: "thoracic splanchnic ganglion" EXACT [] synonym: "thoracic sympathetic ganglion" EXACT [] synonym: "thorax ganglion" EXACT [OBOL:automatic] xref: BTO:0001831 xref: EHDAA:4664 xref: EMAPA:17158 xref: FMA:6471 xref: MA:0001159 xref: RETIRED_EHDAA2:0002012 xref: SCTID:181102004 xref: UMLS:C0229010 xref: VHOG:0000515 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3e/Gray849.png/200px-Gray849.png xref: ncithesaurus:Thoracic_Ganglion is_a: UBERON:0001807 ! paravertebral ganglion [Term] id: UBERON:0000962 name: nerve of cervical vertebra namespace: uberon def: "The cervical nerves are the spinal nerves from the cervical vertebrae. Although there are seven cervical vertebrae (C1-C7), there are eight cervical nerves (C1-C8). All nerves except C8 emerge above their corresponding vertebrae, while the C8 nerve emerges below the C7 vertebra. (In the other portions of the spine, the nerve emerges below the vertebra with the same name. Dorsal (posterior) distribution includes the greater occipital (C2) and third occipital (C3). Ventral (anterior) distribution includes the cervical plexus (C1-C4) and brachial plexus (C5-C8) [WP,unvetted]." [Wikipedia:Cervical_nerves] comment: Innervates: sternohyoid muscle, sternothyroid muscle, omohyoid muscle[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cervical nerve" EXACT [FMA:5859] synonym: "cervical nerve tree" EXACT [] synonym: "cervical spinal nerve" EXACT [] xref: FMA:5859 xref: NIF_GrossAnatomy:nlx_anat_20090207 xref: SCTID:360497008 xref: UMLS:C0228815 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e6/Gray795.png/200px-Gray795.png xref: ncithesaurus:Cervical_Nerve is_a: UBERON:0001780 ! spinal nerve [Term] id: UBERON:0000963 name: head sensillum namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FBbt:00004114 xref: MAT:0000204 xref: MIAA:0000204 is_a: UBERON:0002536 ! arthropod sensillum [Term] id: UBERON:0000964 name: cornea namespace: uberon def: "transparent front part of the eye that covers the iris, pupil, and anterior chamber. Together with the lens, the cornea refracts light, accounting for approximately two-thirds of the eye's total optical power." [Wikipedia:Cornea] comment: Taxon notes: Compared to terrestial animals, the cornea [of zebrafish] is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowmanbs membrane in mammals subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cornea of camera-type eye" EXACT [GO:0061303] synonym: "tunica cornea" RELATED [] xref: AAO:0010344 xref: BTO:0000286 xref: EFO:0000377 xref: EHDAA2:0000316 xref: EHDAA:10199 xref: EMAPA:17161 xref: EV:0100341 xref: FMA:58238 xref: GAID:892 xref: MA:0000266 xref: MESH:A09.371.060.217 xref: OpenCyc:Mx4rvViBa5wpEbGdrcN5Y29ycA xref: SCTID:181162001 xref: TAO:0000640 xref: UMLS:C0010031 xref: VHOG:0000164 xref: XAO:0000180 xref: ZFA:0000640 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Cornea is_a: UBERON:0003102 ! surface structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: continuous_with UBERON:0001773 ! sclera relationship: develops_from UBERON:0004348 ! optic eminence relationship: develops_from UBERON:0005427 ! corneal primordium relationship: induced_by UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0001801 ! anterior segment of eyeball relationship: part_of UBERON:0010409 ! eye surface relationship: part_of UBERON:0012430 ! tunica fibrosa of eyeball property_value: has_relational_adjective "corneal" xsd:string [Term] id: UBERON:0000965 name: lens of camera-type eye namespace: uberon def: "Transparent part of camera-type eye that helps to refract light to be focused on the retina." [Wikipedia:Lens_(anatomy)] comment: Taxon notes: This class excludes compound eye corneal lenses. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "camera-type eye lens" EXACT [GO:0002088] synonym: "crystalline lens" RELATED [BTO:0000723] synonym: "eye lens" EXACT SENSU [] synonym: "lens" EXACT SENSU [] synonym: "lens crystallina" EXACT [Wikipedia:Lens_%28anatomy%29] synonym: "ocular lens" RELATED [BTO:0000723] xref: AAO:0010348 xref: BTO:0000723 xref: EHDAA:9057 xref: EMAPA:17838 xref: EV:0100343 xref: FMA:58241 xref: MA:0000275 xref: MAT:0000141 xref: MESH:A09.371.509 xref: MIAA:0000141 xref: OpenCyc:Mx4rvVj0fZwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0000975 xref: SCTID:181169005 xref: TAO:0000035 xref: UMLS:C0023317 xref: VHOG:0000169 xref: XAO:0000008 xref: ZFA:0000035 xref: ncithesaurus:Crystalline_Lens is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005389 ! transparent eye structure relationship: develops_from UBERON:0003073 ! lens placode relationship: develops_from UBERON:0005426 ! lens vesicle relationship: induced_by UBERON:0003902 ! retinal neural layer relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0000966 name: retina namespace: uberon def: "The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [Wikipedia:Retina, ZFIN:curator] comment: Currently this class encompasses only verteberate AOs but could in theory also include cephalopod - we may want to make a more specific class for vertebrate retina. note that this class excludes ommatidial retinas, as the retina must be part of an eyeball. Use the parent class photoreceptor array / light-sensitive tissue for arthropods subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Netzhaut" RELATED [BTO:0001175] synonym: "inner layer of eyeball" EXACT [] synonym: "retina of camera-type eye" EXACT [GO:0060041] synonym: "tunica interna of eyeball" EXACT [] xref: AAO:0010352 xref: BTO:0001175 xref: EFO:0000832 xref: EHDAA2:0001627 xref: EHDAA:4757 xref: EMAPA:17168 xref: EV:0100348 xref: FMA:58301 xref: GAID:755 xref: MA:0000276 xref: MAT:0000142 xref: MESH:A09.371.729 xref: MIAA:0000142 xref: NIF_GrossAnatomy:birnlex_1153 xref: NIF_GrossAnatomy:birnlex_1156 xref: OpenCyc:Mx4rvViTfpwpEbGdrcN5Y29ycA xref: SCTID:181171005 xref: TAO:0000152 xref: UMLS:C0035298 xref: VHOG:0000229 xref: XAO:0000009 xref: ZFA:0000152 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ed/Human_eye_cross-sectional_view_grayscale.png/200px-Human_eye_cross-sectional_view_grayscale.png xref: ncithesaurus:Retina is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005388 ! photoreceptor array relationship: develops_from UBERON:0003072 ! optic cup relationship: has_part CL:0000573 ! retinal cone cell relationship: has_part CL:0000604 ! retinal rod cell relationship: has_part CL:0000740 ! retinal ganglion cell relationship: part_of UBERON:0001802 ! posterior segment of eyeball property_value: never_in_taxon NCBITaxon:6656 property_value: external_definition "The portion of the eye developing from the optic primordium and including the neural retina and the retinal pigment layer. Kimmel et al, 1995.[TAO]" xsd:string property_value: has_relational_adjective "retinal" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0000967 name: obsolete adult thoracic sensillum namespace: uberon is_obsolete: true consider: FBbt:00004245 consider: MAT:0000205 consider: MIAA:0000205 synonym: "arthropod sensillum of thorax" EXACT [OBOL:automatic] synonym: "sensillum of thorax" EXACT [OBOL:automatic] synonym: "thoracic sensillum" EXACT [] synonym: "thorax arthropod sensillum" EXACT [OBOL:automatic] synonym: "thorax sensillum" EXACT [OBOL:automatic] [Term] id: UBERON:0000968 name: obsolete adult abdominal sensillum namespace: uberon is_obsolete: true consider: FBbt:00004461 consider: MAT:0000206 consider: MIAA:0000206 synonym: "abdomen arthropod sensillum" EXACT [OBOL:automatic] synonym: "abdomen sensillum" EXACT [OBOL:automatic] synonym: "abdominal sensillum" EXACT [] synonym: "arthropod sensillum of abdomen" EXACT [OBOL:automatic] synonym: "sensillum of abdomen" EXACT [OBOL:automatic] [Term] id: UBERON:0000969 name: obsolete joint connecting hardened body parts namespace: uberon is_obsolete: true [Term] id: UBERON:0000970 name: eye namespace: uberon def: "An organ that detects light." [UBERON:cjm, Wikipedia:Eye, http://en.wikipedia.org/wiki/Eye] comment: Usage notes: This class encompasses a variety of light-detecting structures from different phyla with no implication of homology, from the compound insect eye to the vertebrate camera-type eye (distinct classes are provided for each). Structure notes: Note that whilst this is classified as an organ, it is in fact more of a unit composed of different structures: in Drosophila, it includes the interommatidial bristle as a part; we consider here the vertebrate eye to include the eyeball/eye proper as a part, with the eye having as parts (when present): eyelids, conjuctiva, subset: functional_classification ! functional_classification subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "light-detecting organ" RELATED [] synonym: "photoreceptor" BROAD [] synonym: "visual apparatus" RELATED [EV:0100336] xref: BILA:0000017 xref: BTO:0000439 xref: EFO:0000827 xref: EV:0100336 xref: FBbt:00005162 xref: GAID:69 xref: MAT:0000140 xref: MESH:A01.456.505.420 xref: MIAA:0000140 xref: OpenCyc:Mx4rvViTvpwpEbGdrcN5Y29ycA is_a: UBERON:0000020 ! sense organ relationship: capable_of GO:0009584 ! detection of visible light relationship: part_of UBERON:0002104 ! visual system property_value: has_relational_adjective "optic" xsd:string [Term] id: UBERON:0000971 name: ommatidium namespace: uberon def: "One of the small facets of the compound eye." [ISBN:3110148986, Wikipedia:Ommatidium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "omatidium" EXACT [] xref: BTO:0001922 xref: FBbt:00004510 xref: HAO:0000666 xref: MAT:0000143 xref: MIAA:0000143 is_a: UBERON:0002536 ! arthropod sensillum relationship: part_of UBERON:0000018 ! compound eye property_value: has_relational_adjective "ommatidial" xsd:string [Term] id: UBERON:0000972 name: antenna namespace: uberon def: "The paired, usually multiple jointed, sensory organs articulating on the procephalic region of the head capsule; its highly versatile sensory structures are capable to detect the various environmental stimuli. In the context of Drosophila refers to they are the most anterior segmented sensory appendage of the head." [FB:gg, ISBN:3110148986, Wikipedia:Antenna_(biology)] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "feeler" RELATED [BTO:0000074] xref: AEO:0000198 xref: BTO:0000074 xref: EFO:0000874 xref: FBbt:00004511 xref: HAO:0000101 xref: MAT:0000086 xref: MIAA:0000086 xref: OpenCyc:Mx4rvVjSAZwpEbGdrcN5Y29ycA xref: TGMA:0000007 is_a: UBERON:0000026 ! appendage relationship: in_lateral_side_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: has_relational_adjective "antennal" xsd:string property_value: has_relational_adjective "antenno" xsd:string [Term] id: UBERON:0000973 name: obsolete labrum namespace: uberon is_obsolete: true [Term] id: UBERON:0000974 name: neck namespace: uberon def: "Subdivision of body proper, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the cervical vertebral coumn, it is partially surrounded by skin of neck. Examples: There is only one neck[FMA]." [Wikipedia:Neck] comment: Usage notes: true necks are considered to be present when the pectoral girdle is separate from the skull - Tiktaalik is the earliest known fish to have a true neck. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "collum" RELATED LATIN [Wikipedia:Neck] synonym: "neck (volume)" RELATED [FMA:7155] xref: AEO:0000108 xref: BTO:0000420 xref: EFO:0000967 xref: EHDAA2:0003108 xref: FMA:7155 xref: GAID:86 xref: MA:0000024 xref: MAT:0000297 xref: MESH:A01.598 xref: MIAA:0000297 xref: OpenCyc:Mx4rvVjLF5wpEbGdrcN5Y29ycA xref: SCTID:302550007 xref: UMLS:C0027530 xref: galen:Neck xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Female_neck.jpg/200px-Female_neck.jpg xref: ncithesaurus:Neck is_a: UBERON:0000475 ! organism subdivision relationship: anteriorly_connected_to UBERON:0000033 ! head relationship: part_of UBERON:0000153 ! anterior region of body relationship: part_of UBERON:0007811 ! craniocervical region relationship: posteriorly_connected_to UBERON:0002100 ! trunk property_value: dubious_for_taxon NCBITaxon:32443 property_value: has_relational_adjective "cervical" xsd:string [Term] id: UBERON:0000975 name: sternum namespace: uberon def: "A midventral endochondral skeletal element which represents the origin site of the pectoral muscles[PHENOSCAPE:ad]." [PHENOSCAPE:ad, Wikipedia:Sternum] comment: Development notes: While its developmental origins are similar to the ribs (from the myospetum and septum of the trunk region), it is often associated with the pectoral skeleton, due to both function and physical connections (i.e. the coracoid of archosaurs). It may be a single element or a series of smaller structure (sternebrae). Based on Kardong 2012. [ad]. Editor note: in EMAPA and EHDAA2 this is part of the skeleton of pectoral girdle; the classic def of pectoral girdle (see WP) excludes the rib cage and sternum. Taxon notes: It probably first evolved in early tetrapods as an extension of the pectoral girdle; it is not found in fish. In amphibians and reptiles it is typically a shield-shaped structure, often composed entirely of cartilage. It is absent in both turtles and snakes. In birds it is a relatively large bone and typically bears an enormous projecting keel to which the flight muscles are attached. Only in mammals does the sternum take on the elongated, segmented form seen in humans. In some mammals, such as opossums, the individual segments never fuse and remain separated by cartilagenous plates throughout life[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "breastbone" RELATED [BTO:0001302] synonym: "vertebrate sternum" EXACT [] xref: AAO:0000765 xref: BTO:0001302 xref: EHDAA2:0001914 xref: EHDAA:9561 xref: EMAPA:18344 xref: FMA:7485 xref: GAID:246 xref: MA:0001331 xref: MESH:A02.835.232.904.766 xref: OpenCyc:Mx4rvVjO6JwpEbGdrcN5Y29ycA xref: SCTID:302522007 xref: UMLS:C0038293 xref: VHOG:0000856 xref: galen:Sternum xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/12/Illu_thoracic_cage.jpg/200px-Illu_thoracic_cage.jpg xref: ncithesaurus:Sternum is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0010363 ! endochondral element relationship: connected_to UBERON:0002228 ! rib relationship: connected_to UBERON:0007831 ! pectoral girdle skeleton relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0003252 ! rib cage property_value: never_in_taxon NCBITaxon:8570 property_value: axiom_lost_from_external_ontology "relationship loss: part_of postzonal element (AAO:0000938)[AAO]" xsd:string property_value: external_definition "Single element that constitutes the postzonal area of the pectoral girdle.[AAO]" xsd:string property_value: has_relational_adjective "sternal" xsd:string property_value: homology_notes "Fishes lack a sternum. (...) A sternum is absent in the first fossil tetrapods, but it is present in modern amphibians. (...) Thus, a sternum occurs in some modern amphibians, birds, mammals and archosaurs. However, its absence in the common ancestors to these groups means that it has arisen independently several times within the field of the midventral connective tissue.[well established][VHOG]" xsd:string [Term] id: UBERON:0000976 name: humerus namespace: uberon def: "Paired endochondral long bone that extends between the pectoral girdle and the skeletal parts of the forelimb. [PHENOSCAPE:mah]" [AAO:0000679, PHENOSCAPE:mah, Wikipedia:Humerus] comment: homologous to proximal metapterygial mesomere of pectoral appendage [Hall 2007] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "humeri" EXACT PLURAL [PHENOSCAPE:ad] synonym: "humerus bone" EXACT [] xref: AAO:0000679 xref: EFO:0001398 xref: EMAPA:18468 xref: EMAPA:19106 xref: FMA:13303 xref: GAID:183 xref: MA:0001356 xref: MESH:A02.835.232.087.412 xref: SCTID:181923006 xref: UMLS:C0020164 xref: VHOG:0001158 xref: XAO:0003210 xref: galen:Humerus xref: http://upload.wikimedia.org/wikipedia/commons/6/67/Illu_upper_extremity.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/67/Illu_upper_extremity.jpg/200px-Illu_upper_extremity.jpg xref: ncithesaurus:Humerus is_a: UBERON:0002495 ! long bone is_a: UBERON:0003607 ! forelimb long bone is_a: UBERON:0004250 ! upper arm bone relationship: develops_from UBERON:0006245 ! humerus cartilage condensation relationship: part_of UBERON:0001440 ! forelimb skeleton relationship: part_of UBERON:0003822 ! forelimb stylopod relationship: proximally_connected_to UBERON:0007831 ! pectoral girdle skeleton property_value: external_definition "Paired, elongate, cylindrical bones of endochondral origin that extend from the pectoral girdle to the elbows.[AAO]" xsd:string property_value: has_relational_adjective "humeral" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0000977 name: pleura namespace: uberon def: "The delicate serous membrane that lines each half of the thorax of mammals and is folded back over the surface of the lung of the same side[BTO]." [Wikipedia:Pleura] comment: In mouse, is_a cavity lining. In FMA, is_a (viscous) serous membrane (which includes mesothelium plus connective tissue). Note the MA structure should probably be associated with the mesothelium of pleura in FMA. JB/EHDAA2 argues the term 'pleura' is best used for the mesothelial lining (thus excluding connective tissue). See http://purl.obolibrary.org/obo/uberon/tracker/86 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pleura" RELATED [] synonym: "pleural tissue" RELATED [BTO:0001791] synonym: "wall of pleural sac" EXACT [] xref: BTO:0001791 xref: EFO:0001980 xref: EV:0100044 xref: FMA:9583 xref: GAID:360 xref: MA:0000433 xref: MESH:A04.716 xref: OpenCyc:Mx4rv3zwLZwpEbGdrcN5Y29ycA xref: SCTID:181609007 xref: UMLS:C0032225 xref: VHOG:0000394 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ab/Gray965.png/200px-Gray965.png xref: ncithesaurus:Pleural_Tissue is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0009778 ! pleural sac relationship: surrounds UBERON:0002402 ! pleural cavity intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0009778 ! pleural sac property_value: external_definition "The serous membrane that covers the lungs and lines the pleural cavity. [Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.264][VHOG]" xsd:string property_value: has_relational_adjective "pleural" xsd:string [Term] id: UBERON:0000978 name: leg namespace: uberon def: "The portion of the hindlimb that contains both the stylopod and zeugopod." [Wikipedia:Leg#Limb] comment: The term leg can mean: [1] an appendage on which an animal walks [2] the entire hindlimb of a tetrapod [3] the segment of a human leg between knee and ankle (cf FMA) [4] the region of a hindlimb include the stylopod and zeugopod, but excluding the autopod. We define this class as [4], and thus 'leg' is compltely analagous to 'arm'. For [1], see the class 'locomotive weight-bearing appendage'. For [2] we use 'hindlimb'. For [3] we use the less open to misinterpretation 'hindlimb zeugopod'. Editor note: currently declared as overlapping foot, as AOs disagree over whether some ankle parts are in the leg or foot subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lower extremity" RELATED [MESH:A01.378.610] synonym: "tetrapod leg" EXACT [] xref: BTO:0000721 xref: EFO:0001411 xref: EHDAA2:0000972 xref: EHDAA:5151 xref: EHDAA:6176 xref: EHDAA:8289 xref: EMAPA:17489 xref: GAID:49 xref: MA:0000047 xref: MESH:A01.378.610 xref: OpenCyc:Mx4rvViYzZwpEbGdrcN5Y29ycA xref: VHOG:0000345 is_a: UBERON:0006058 ! multi-limb segment region relationship: distally_connected_to UBERON:0002387 ! pes relationship: part_of UBERON:0002103 ! hindlimb relationship: proximally_connected_to UBERON:0001464 ! hip property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0000979 name: tibia namespace: uberon def: "The major preaxial endochondral bone in the posterior zeugopod[Phenoscape]." [PHENOSCAPE:mah, Wikipedia:Tibia] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "shankbone" EXACT [Wikipedia:Tibia] synonym: "shinbone" EXACT [Wikipedia:Tibia] xref: AAO:0000890 xref: BTO:0001252 xref: EFO:0003054 xref: EMAPA:19142 xref: FMA:24476 xref: GAID:204 xref: MA:0001361 xref: MESH:A02.835.232.500.883 xref: OpenCyc:Mx4rvtq3-ZwpEbGdrcN5Y29ycA xref: SCTID:182061009 xref: UMLS:C0040184 xref: galen:Tibia xref: http://upload.wikimedia.org/wikipedia/commons/2/2a/Gray260.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2a/Gray260.png/200px-Gray260.png xref: ncithesaurus:Tibia is_a: UBERON:0002495 ! long bone is_a: UBERON:0003608 ! hindlimb long bone is_a: UBERON:0004251 ! hindlimb zeugopod bone relationship: develops_from UBERON:0010849 ! tibia cartilaginous condensation relationship: part_of UBERON:0010720 ! hindlimb zeugopod skeleton relationship: preaxial_part_of UBERON:0010720 ! hindlimb zeugopod skeleton property_value: external_definition "One of the two long bones of endochondral origin of the hind-epipodium; it is a straight, simple bone whose section is more or less rectangular at the ends and circular at its central portion.[AAO]" xsd:string [Term] id: UBERON:0000980 name: trochanter namespace: uberon def: "bony prominences near the upper extremity of the femur; there are two in human (greater and lesser trochanters) and three in many other mammalian species (greater, lesser and third); these normally serve as attachment points for hip and thigh muscles[MP]" [Wikipedia:Trochanter] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "femoral trochanter" EXACT [AAO:0000897] synonym: "trochanter of femur" EXACT [] xref: AAO:0000897 xref: FMA:82513 xref: MA:0002821 xref: SCTID:182047004 xref: UMLS:C0162370 xref: ncithesaurus:Trochanter is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0000981 ! femur property_value: external_definition "Process on the ventral surface of the shaft of the femur.[AAO]" xsd:string [Term] id: UBERON:0000981 name: femur namespace: uberon def: "Endochondral longbone connecting the pelvic girdle with posterior zeugopodium skeleton.[VSAO, modified]." [VSAO:0000186, Wikipedia:Femur] comment: homologous to proximal metapterygial mesomere of pelvic appendage [Hall 2007]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "femoral bone" RELATED [BTO:0001284] synonym: "os femorale" RELATED [BTO:0001284] synonym: "os femoris" RELATED [BTO:0001284] synonym: "os femoris, os longissimum" RELATED LATIN [Wikipedia:Femur] synonym: "thigh bone" EXACT [] xref: AAO:0000889 xref: BTO:0001284 xref: EFO:0001396 xref: EMAPA:18514 xref: EMAPA:19143 xref: FMA:9611 xref: GAID:199 xref: MA:0001359 xref: MESH:A02.835.232.500.247 xref: OpenCyc:Mx4rvVjOJJwpEbGdrcN5Y29ycA xref: SCTID:182046008 xref: UMLS:C0015811 xref: VHOG:0001159 xref: VSAO:0000186 xref: XAO:0003214 xref: galen:Femur xref: http://upload.wikimedia.org/wikipedia/commons/7/73/Gray252.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/73/Gray252.png/200px-Gray252.png xref: ncithesaurus:Femur is_a: UBERON:0002495 ! long bone is_a: UBERON:0003608 ! hindlimb long bone is_a: UBERON:0003826 ! upper leg bone is_a: UBERON:0008202 ! bone of hip region relationship: develops_from UBERON:0010129 ! femur cartilage condensation relationship: part_of UBERON:0000376 ! hindlimb stylopod relationship: part_of UBERON:0001441 ! hindlimb skeleton relationship: proximally_connected_to UBERON:0007832 ! pelvic girdle skeleton property_value: external_definition "Endochondral longbone connecting the pelvic girdle with posterior zeugopodium.[VSAO]" xsd:string property_value: external_definition "Paired, elongate, cylindrical bones of endochondral origin that form the thighs, extending from the pelvic girdles to the knees.[AAO]" xsd:string property_value: has_relational_adjective "femoral" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0000982 name: skeletal joint namespace: uberon def: "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [VSAO:0000101, Wikipedia:Joint] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "articular joint" RELATED [BTO:0001686] synonym: "articulation" BROAD [VSAO:0000101] synonym: "joint" BROAD [FMA:7490, VSAO:0000101] xref: AEO:0000182 xref: BTO:0001686 xref: EFO:0000948 xref: FMA:7490 xref: GAID:102 xref: MA:0000319 xref: MAT:0000188 xref: MESH:A02.835.583 xref: MIAA:0000188 xref: OpenCyc:Mx4rvVjjdpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0003182 xref: SCTID:302536002 xref: TAO:0000367 xref: UMLS:C0022417 xref: VHOG:0001276 xref: VSAO:0000101 xref: XAO:0000171 xref: ZFA:0001596 xref: galen:Joint xref: ncithesaurus:Joint is_a: UBERON:0004905 ! articulation relationship: connects UBERON:0004765 ! skeletal element relationship: part_of UBERON:0004770 ! articular system disjoint_from: UBERON:0001474 ! bone element union_of: UBERON:0002217 ! synovial joint union_of: UBERON:0011134 ! nonsynovial joint property_value: external_definition "Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO]" xsd:string property_value: external_definition "Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO]" xsd:string [Term] id: UBERON:0000983 name: metatarsus region namespace: uberon def: "A metapodium region that is part of a pes." [OBOL:automatic] comment: Note that mammalian and non-mammalian AOs differ in whether they consider this a part of the skeleton subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hind metapodium" EXACT [AAO:0000221, MA:th, http://en.wiktionary.org/wiki/metapodial] synonym: "metatarsal part of foot" EXACT [FMA:24997] synonym: "metatarsal region" EXACT [FMA:24997] synonym: "metatarsus" RELATED [MA:0000049] synonym: "regio metatarsalis" EXACT LATIN [FMA:24997, FMA:TA] xref: FMA:24997 xref: MA:0000049 xref: SCTID:280711000 is_a: UBERON:0008784 ! lower limb segment relationship: part_of UBERON:0012142 ! pedal digitopodium region intersection_of: UBERON:0009877 ! metapodium region intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0000984 name: imaginal disc-derived wing namespace: uberon def: "A flight organ of the adult external thorax that is derived from a dorsal mesothoracic disc." [FB:gg] comment: TODO: review. hymenoptera thorax = fusion of thorax and mesosoma/metasoma subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "adult mesothoracic wing" RELATED [] synonym: "adult metathoracic wing" RELATED [] synonym: "thoracic wing" RELATED [] synonym: "thorax wing" RELATED [OBOL:automatic] synonym: "wing" BROAD SENSU [FBbt:00004729] synonym: "wing of thorax" RELATED [OBOL:automatic] xref: FBbt:00004729 xref: HAO:0001089 xref: TGMA:0000196 is_a: UBERON:0000023 ! wing intersection_of: UBERON:0000023 ! wing intersection_of: develops_from UBERON:0000939 ! imaginal disc [Term] id: UBERON:0000985 name: axillary vein namespace: uberon def: "In human anatomy, the axillary vein is a large blood vessel that conveys blood from the lateral aspect of the thorax, axilla (armpit) and upper limb toward the heart. There is one axillary vein on each side of the body. Its origin is at the lower margin of the teres major muscle and a continuation of the brachial vein. Its tributaries include the basilic vein and cephalic vein, which are both superficial veins. It terminates at the lateral margin of the first rib, at which it becomes the subclavian vein. It is accompanied along its course by a similarly named artery, the axillary artery. [WP,unvetted]." [Wikipedia:Axillary_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "subcostal vein" RELATED [] synonym: "vena axillaris" RELATED LATIN [Wikipedia:Axillary_vein] xref: EMAPA:18758 xref: FMA:13329 xref: GAID:527 xref: MA:0002084 xref: MESH:A07.231.908.077 xref: OpenCyc:Mx4rwLSHK5wpEbGdrcN5Y29ycA xref: SCTID:181389002 xref: UMLS:C0004456 xref: galen:AxillaryVein xref: http://upload.wikimedia.org/wikipedia/commons/e/e9/Gray576.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e9/Gray576.png/200px-Gray576.png xref: ncithesaurus:Axillary_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0003233 ! epithelium of shoulder relationship: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0000987 name: haltere namespace: uberon def: "The capitate stalk on both sides of the thorax having developed from the dorsal metathoracic wing-buds, it is freely movable and capable of vibration, representing the hind wing of Diptera; used for flight balance." [FB:gg, ISBN:3110148986, Wikipedia:Haltere] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "balancer organ" RELATED [] xref: EFO:0000886 xref: FBbt:00004783 xref: MAT:0000203 xref: MIAA:0000203 xref: OpenCyc:Mx4rwL1JcJwpEbGdrcN5Y29ycA is_a: UBERON:0000026 ! appendage relationship: develops_from UBERON:0000939 ! imaginal disc relationship: part_of UBERON:0000914 ! organismal segment [Term] id: UBERON:0000988 name: pons namespace: uberon def: "Brainstrem structure that has as its parts the pontine tegmentum and basal part of pons[FMA]." [FMA:67943, Wikipedia:Pons] comment: The pons is not present in zebrafish. In this ontology we currently have some structures which are applicable to zebrafish appearing as parts of the pons. Currently we only include the weaker dubious_for_taxon relationship ubtil this is resolved subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pons Varolii" EXACT [ncithesaurus:Pons_Varolii] synonym: "pons of Varolius" EXACT [] xref: ABA:P xref: BM:Pons xref: BTO:0001101 xref: EFO:0001394 xref: EHDAA2:0004394 xref: EMAPA:17563 xref: EV:0100253 xref: FMA:67943 xref: GAID:578 xref: MA:0000204 xref: MAT:0000115 xref: MESH:A08.186.211.132.810.428.600 xref: MIAA:0000115 xref: NIF_GrossAnatomy:birnlex_733 xref: SCTID:279103004 xref: UMLS:C0032639 xref: VHOG:0001176 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Gray768.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/36/Gray768.png/200px-Gray768.png xref: ncithesaurus:Pons_Varolii is_a: UBERON:0002680 ! regional part of metencephalon relationship: part_of UBERON:0001895 ! metencephalon relationship: part_of UBERON:0002298 ! brainstem property_value: dubious_for_taxon NCBITaxon:7955 property_value: spatially_disjoint_from UBERON:0001896 property_value: external_definition "The part of the central nervous system lying between the medulla oblongata and the midbrain, ventral to the cerebellum. [TFD][VHOG]" xsd:string property_value: homology_notes "During the embryonic development of birds and mammals, neuroblasts migrate from the cerebellum into the ventral part of the rhombencephalon and differentiate into pontine and other nuclei, which relay information from between the cerebrum and cerebellum, and a conspicuous band of transverse fibers. This region is known as the pons. A pons does not differentiate in reptiles and anamniotes (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0000989 name: penis namespace: uberon def: "The penis (plural penises, penes) is an external sexual organ of certain biologically male organisms, in both vertebrates and invertebrates. The penis is a reproductive organ, technically an intromittent organ, and for placental mammals, additionally serves as the external organ of urination. The penis is generally found on mammals and reptiles. [WP,unvetted]." [Wikipedia:Penis] comment: Most male birds (e.g., roosters and turkeys) have a cloaca (also present on the female), but not a penis. Among bird species with a penis are paleognathes (tinamous and ratites), Anatidae (ducks, geese and swans), and a very few other species (such as flamingoes). A bird penis is different in structure from mammal penises, being an erectile expansion of the cloacal wall and being erected by lymph, not blood. It is usually partially feathered and in some species features spines and brush-like filaments, and in flaccid state curls up inside the cloaca[WP] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "phallus" RELATED [] xref: BTO:0000405 xref: EFO:0000987 xref: EHDAA2:0001433 xref: EHDAA:9380 xref: EMAPA:18682 xref: EMAPA:18996 xref: EV:0100107 xref: FMA:9707 xref: GAID:389 xref: MA:0000408 xref: MAT:0000186 xref: MESH:A05.360.444.492 xref: MIAA:0000186 xref: OpenCyc:Mx4rvVjkCZwpEbGdrcN5Y29ycA xref: SCTID:265793009 xref: UMLS:C0030851 xref: VHOG:0000727 xref: galen:Penis xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/87/Labelled_flaccid_penis.jpg/200px-Labelled_flaccid_penis.jpg xref: ncithesaurus:Penis is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0008811 ! intromittent organ relationship: develops_from UBERON:0004876 ! urogenital ridge relationship: develops_from UBERON:0005876 ! undifferentiated genital tubercle property_value: has_relational_adjective "penile" xsd:string property_value: has_relational_adjective "phallic" xsd:string [Term] id: UBERON:0000990 name: reproductive system namespace: uberon def: "Anatomical system that has as its parts the organs concerned with reproduction." [Wikipedia:Reproductive_system] comment: Editor notes: consider splitting genitalia from reproductive system subset: functional_classification ! functional_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Geschlechtsorgan" RELATED [BTO:0000081] synonym: "animal reproductive system" RELATED [BTO:0000081] synonym: "genital system" RELATED [] synonym: "genitalia" RELATED PLURAL [] synonym: "organa genitalia" RELATED [BTO:0000081] synonym: "reproductive tissue" RELATED [BTO:0000081] synonym: "systemata genitalia" RELATED LATIN [Wikipedia:Reproductive_system] xref: AAO:0010258 xref: BILA:0000103 xref: BTO:0000081 xref: EFO:0000809 xref: EHDAA2:0001603 xref: EHDAA:5923 xref: EMAPA:17381 xref: EV:0100100 xref: FBbt:00004857 xref: FMA:7160 xref: GAID:363 xref: HAO:0000374 xref: HAO:0000895 xref: MA:0000326 xref: MIAA:0000305 xref: OpenCyc:Mx4rvVja4ZwpEbGdrcN5Y29ycA xref: SCTID:278875001 xref: TAO:0000632 xref: UMLS:C1261210 xref: VHOG:0000182 xref: WBbt:0005747 xref: XAO:0000142 xref: ZFA:0000632 xref: http://upload.wikimedia.org/wikipedia/commons/5/52/Penis.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Penis.svg/200px-Penis.svg.png xref: ncithesaurus:Reproductive_System is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0000926 ! mesoderm intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_function_in GO:0000003 ! reproduction disjoint_from: UBERON:0001004 ! respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001008 ! excretory system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "Anatomical system which consists of organs and tissues associated with sexual reproduction of the organism.[AAO]" xsd:string property_value: homology_notes "Arguably, one of the most important aspects of urbilaterian organogenesis would have been gonadogenesis, since Urbilateria must have successfully generated gametes and developed a strategy for extrusion and fertilization, in order to be the ancestor of all living Bilateria.[well established][VHOG]" xsd:string [Term] id: UBERON:0000991 name: gonad namespace: uberon def: "Reproductive organ that produces and releases eggs (ovary) or sperm (testis)." [ISBN:0140512888, Wikipedia:Gonad, ZFA:0000413, ZFIN:curator] comment: FMA xref is a 'general anatomical term' subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "gonada" EXACT [] xref: AAO:0000213 xref: BILA:0000123 xref: BTO:0000534 xref: EMAPA:16857 xref: EMAPA:17383 xref: FBbt:00004858 xref: FMA:18250 xref: GAID:368 xref: HAO:0000379 xref: MA:0002420 xref: MESH:A05.360.576 xref: OpenCyc:Mx4rwQvdiZwpEbGdrcN5Y29ycA xref: SCTID:304623008 xref: TAO:0000413 xref: UMLS:C0018067 xref: VHOG:0000397 xref: WBbt:0005175 xref: XAO:0003146 xref: ZFA:0000413 xref: ncithesaurus:Gonad is_a: UBERON:0003133 ! reproductive organ relationship: develops_from UBERON:0005564 ! gonad primordium relationship: located_in UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0000990 ! reproductive system relationship: site_of GO:0007276 ! gamete generation intersection_of: UBERON:0003133 ! reproductive organ intersection_of: has_part CL:0000586 ! germ cell property_value: external_definition "Anatomical structure which produces gametes as well as certain sex hormones controlled by the pituitary gonadotropins.[AAO]" xsd:string property_value: external_definition "The part of the reproductive system that produces and releases eggs (ovary) or sperm (testis).[TAO]" xsd:string property_value: has_relational_adjective "gonadal" xsd:string property_value: homology_notes "Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0000992 name: female gonad namespace: uberon def: "Ovum-producing female reproductive organ." [Wikipedia:Ovary] comment: Ovaries of some kind are found in the female reproductive system of many animals that employ sexual reproduction, including invertebrates. However, they develop in a very different way in most invertebrates than they do in vertebrates, and are not truly homologous. Many of the features found in human ovaries are common to all vertebrates, including the presence of follicular cells, tunica albuginea, and so on. However, many species produce a far greater number of eggs during their lifetime than do humans, so that, in fish and amphibians, there may be hundreds, or even millions of fertile eggs present in the ovary at any given time. In these species, fresh eggs may be developing from the germinal epithelium throughout life. Corpora lutea are found only in mammals, and in some elasmobranch fish; in other species, the remnants of the follicle are quickly resorbed by the ovary. In birds, reptiles, and monotremes, the egg is relatively large, filling the follicle, and distorting the shape of the ovary at maturity. Amphibians and reptiles have no ovarian medulla; the central part of the ovary is a hollow, lymph-filled space. The ovary of teleosts is also often hollow, but in this case, the eggs are shed into the cavity, which opens into the oviduct. Although most normal female vertebrates have two ovaries, this is not the case in all species. In birds and platypuses, the right ovary never matures, so that only the left is functional. In some elasmobranchs, the reverse is true, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo[WP]. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "female organism genitalia gonad" EXACT [OBOL:automatic] synonym: "female organism genitalia gonada" EXACT [OBOL:automatic] synonym: "female organism reproductive system gonad" EXACT [OBOL:automatic] synonym: "female organism reproductive system gonada" EXACT [OBOL:automatic] synonym: "female reproductive system gonad" EXACT [OBOL:automatic] synonym: "female reproductive system gonada" EXACT [OBOL:automatic] synonym: "genitalia of female organism gonad" EXACT [OBOL:automatic] synonym: "genitalia of female organism gonada" EXACT [OBOL:automatic] synonym: "gonad of female organism genitalia" EXACT [OBOL:automatic] synonym: "gonad of female organism reproductive system" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "gonad of genitalia of female organism" EXACT [OBOL:automatic] synonym: "gonad of reproductive system of female organism" EXACT [OBOL:automatic] synonym: "gonada of female organism genitalia" EXACT [OBOL:automatic] synonym: "gonada of female organism reproductive system" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "gonada of genitalia of female organism" EXACT [OBOL:automatic] synonym: "gonada of reproductive system of female organism" EXACT [OBOL:automatic] synonym: "ovaries" RELATED PLURAL [] synonym: "ovarium" RELATED LATIN [Wikipedia:Ovary] synonym: "ovary" EXACT [] synonym: "ovum-producing ovary" EXACT SENSU [GO:0061039] synonym: "reproductive system of female organism gonad" EXACT [OBOL:automatic] synonym: "reproductive system of female organism gonada" EXACT [OBOL:automatic] xref: AAO:0000371 xref: BILA:0000125 xref: BTO:0000975 xref: EFO:0000973 xref: EHDAA2:0001360 xref: EHDAA:8124 xref: EMAPA:17962 xref: EV:0100111 xref: FBbt:00004865 xref: FMA:7209 xref: GAID:367 xref: MA:0000384 xref: MESH:A05.360.319.114.630 xref: MIAA:0000125 xref: OpenCyc:Mx4rvVi9QJwpEbGdrcN5Y29ycA xref: SCTID:181464007 xref: TAO:0000403 xref: UMLS:C0029939 xref: VHOG:0000251 xref: XAO:0000258 xref: ZFA:0000403 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Gray589.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Female_anatomy.png/200px-Female_anatomy.png xref: ncithesaurus:Ovary is_a: UBERON:0003134 ! female reproductive organ relationship: develops_from UBERON:0009117 ! indifferent gonad intersection_of: UBERON:0000991 ! gonad intersection_of: part_of UBERON:0000474 ! female reproductive system disjoint_from: UBERON:0009117 ! indifferent gonad property_value: axiom_lost_from_external_ontology "relationship type change: subclass gonad (TAO:0000413) CHANGED TO: develops_from gonad (UBERON:0000991)[TAO]" xsd:string property_value: external_definition "Either of paired female reproductive organs involved in production of ova and female sex hormones.[AAO]" xsd:string property_value: external_definition "Female reproductive organ.[TAO]" xsd:string property_value: has_relational_adjective "ovarian" xsd:string property_value: homology_notes " (...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" xsd:string [Term] id: UBERON:0000993 name: oviduct namespace: uberon def: "passage from the ovaries to the outside of the body[Wikipedia:Oviduct]." [Wikipedia:Oviduct] comment: Usage notes: sometimes oviduct is used interchangeably with follaopian tube. Here they are different - the oviduct connects the gonad to the outside in a variety of animals. The mammal-class fallopian tube is derived from the mullerian duct and connects the gonads to the uterus. Taxon notes: in birds divided into infundibulum, magnum, isthmus, uterus, and vagina subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "tuba uterina" RELATED [BTO:0000980] synonym: "tuba uterinae" RELATED [BTO:0000980] synonym: "uterine tube" EXACT [] xref: AAO:0010533 xref: BTO:0000980 xref: EFO:0000974 xref: EMAPA:18984 xref: GAID:366 xref: MAT:0000126 xref: MESH:A13.706 xref: MIAA:0000126 xref: TAO:0000560 xref: UMLS:C0029954 xref: VHOG:0001136 xref: XAO:0003052 xref: ZFA:0000560 xref: ncithesaurus:Oviduct is_a: UBERON:0000025 ! tube is_a: UBERON:0005156 ! reproductive structure relationship: connects UBERON:0000992 ! female gonad relationship: connects UBERON:0013514 ! space surrounding organism relationship: part_of UBERON:0000474 ! female reproductive system property_value: external_definition "A passage through which ova leave the maternal body or pass to an organ communicating with the exterior of the body. [TFD][VHOG]" xsd:string property_value: homology_notes "In all remaining vertebrates (i.e., coelacanths, lungfishes, amphibians, reptiles, birds, and mammals), the oviduct arises in ontogeny as a longitudinal, groovelike invagination of the coelomic epithelium on the lateral surface of the mesonephros.[well established][VHOG]" xsd:string [Term] id: UBERON:0000994 name: spermathecum namespace: uberon def: "an organ of the female reproductive tract in insects, some molluscs, oligochaeta worms and certain other invertebrates and vertebrates.[1] Its purpose is to receive and store sperm from the male, and can sometimes be the site of fertilization when the oocytes are ready.[2] Some species have multiple spermathecae, as seen in earthworms, where four pairs of spermathecae are present. One pair in 6,7,8 and 9 segments. They receive and store the spermatozoa of another earthworm during copulation.[3] They are lined with epithelium and are variable in shape; some are thin, heavily coiled tubes, others are vague outpocketings from the main reproductive tract. It is one of the many variations in sexual reproduction[WP]. an accordion-like tube that contains sperm and is the site of oocyte fertilization." [Wikipedia:Spermatheca] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "receptaculum seminis" RELATED [BTO:0001273] synonym: "seminal receptacle" RELATED [] synonym: "spermatheca" RELATED PLURAL [] xref: BTO:0001273 xref: EFO:0000977 xref: FBbt:00004921 xref: HAO:0000945 xref: MAT:0000168 xref: MIAA:0000168 xref: TGMA:0000560 xref: WBbt:0005319 is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000474 ! female reproductive system relationship: part_of UBERON:0000991 ! gonad [Term] id: UBERON:0000995 name: uterus namespace: uberon def: "a major female hormone-responsive reproductive sex organ of most mammals including humans. One end, the cervix, opens into the vagina, while the other is connected to one or both fallopian tubes, depending on the species. It is within the uterus that the fetus develops during gestation, usually developing completely in placental mammals such as humans and partially in marsupials such as kangaroos and opossums. Two uteruses usually form initially in a female fetus, and in placental mammals they may partially or completely fuse into a single uterus depending on the species. In many species with two uteruses, only one is functional. Humans and other higher primates such as chimpanzees, along with horses, usually have a single completely fused uterus, although in some individuals the uteruses may not have completely fused[WP]." [Wikipedia:Uterus] comment: Most animals that lay eggs, such as birds and reptiles, have an oviduct instead of a uterus. In monotremes, mammals which lay eggs and include the platypus, either the term uterus or oviduct is used to describe the same organ, but the egg does not develop a placenta within the mother and thus does not receive further nourishment after formation and fertilization. Marsupials have two uteruses, each of which connect to a lateral vagina and which both use a third, middle \"vagina\" which functions as the birth canal. Marsupial embryos form a choriovitelline \"placenta\" (which can be thought of as something between a monotreme egg and a \"true\" placenta), in which the egg's yolk sac supplies a large part of the embryo's nutrition but also attaches to the uterine wall and takes nutrients from the mother's bloodstream. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001424 xref: EFO:0000975 xref: EMAPA:29915 xref: EV:0100113 xref: FMA:17558 xref: GAID:172 xref: MA:0000389 xref: MAT:0000127 xref: MESH:A05.360.319.679 xref: MIAA:0000127 xref: OpenCyc:Mx4rvViojJwpEbGdrcN5Y29ycA xref: SCTID:181452004 xref: UMLS:C0042149 xref: VHOG:0001137 xref: galen:Uterus xref: http://upload.wikimedia.org/wikipedia/commons/6/6a/Female_reproductive_system_lateral_nolabel.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Female_anatomy.png/200px-Female_anatomy.png xref: ncithesaurus:Uterus is_a: UBERON:0013515 ! subdivision of uterine tube relationship: part_of UBERON:0004175 ! internal genitalia relationship: transformation_of UBERON:0005795 ! embryonic uterus property_value: external_definition "The hollow muscular organ in female mammals in which the blastocyst normally becomes embedded and in which the developing embryo and fetus is nourished. Its cavity opens into the vagina below and into a uterine tube on either side. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "uterine" xsd:string property_value: homology_notes "An infundibulum, uterine tube, uterus, and vagina also differentiate along the oviducts of eutherian mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0000996 name: vagina namespace: uberon def: "a fibromuscular tubular tract leading from the uterus to the exterior of the body in female placental mammals and marsupials, or to the cloaca in female birds, monotremes, and some reptiles[WP]." [FMA:19949, Wikipedia:Vagina] comment: Taxon notes (via vHOG): \"The distal end of the oviducts differentiates as a vagina in Metatheria and Eutheria.\" Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective, Third Edition (2001) Orlando Fla.: Harcourt College Publishers, p.688 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "distal oviductal region" RELATED [] synonym: "distal portion of oviduct" RELATED [] synonym: "vaginae" RELATED PLURAL [] xref: BTO:0000243 xref: EFO:0000976 xref: EMAPA:18986 xref: EV:0100117 xref: FMA:19949 xref: GAID:381 xref: MA:0000394 xref: MAT:0000128 xref: MESH:A05.360.319.779 xref: MIAA:0000128 xref: OpenCyc:Mx4rvVj1B5wpEbGdrcN5Y29ycA xref: SCTID:181441005 xref: UMLS:C0042232 xref: VHOG:0001138 xref: galen:Vagina xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/Illu_repdt_female.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a4/Vaginal_opening_-_english_description.jpg/200px-Vaginal_opening_-_english_description.jpg xref: ncithesaurus:Vagina is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0013515 ! subdivision of uterine tube relationship: develops_from UBERON:0000164 ! primitive urogenital sinus relationship: part_of UBERON:0003975 ! internal female genitalia property_value: external_definition "Organ with organ cavity which connects the cervical canal of uterus to the vestibule of vagina.[FMA]" xsd:string property_value: external_definition "The genital canal in the female, leading from the opening of the vulva to the cervix of the uterus. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "vaginal" xsd:string property_value: homology_notes "The distal end of the oviducts differentiates as a vagina in Metatheria and Eutheria.[well established][VHOG]" xsd:string [Term] id: UBERON:0000997 name: mammalian vulva namespace: uberon def: "external genital organs of the female mammal[WP]." [Wikipedia:Vulva] comment: editor note: todo - add pudendum subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "female pudendum" EXACT [BTO:0003101, FMA:20462] synonym: "mammalian vulva" EXACT [] synonym: "puboperineal region" EXACT [FMA:20462] synonym: "pudendum femininum" EXACT LATIN [FMA:20462, FMA:TA, Wikipedia:Vulva] synonym: "skin of female pudendum" EXACT [] synonym: "skin of vulva" EXACT [] synonym: "vulva" EXACT [MA:0000395] xref: BTO:0003101 xref: EFO:0000978 xref: EV:0100118 xref: FMA:20462 xref: GAID:383 xref: MA:0000395 xref: MAT:0000169 xref: MESH:A05.360.319.887 xref: MIAA:0000169 xref: OpenCyc:Mx4rvgAWeJwpEbGdrcN5Y29ycA xref: SCTID:265796001 xref: UMLS:C0042993 xref: VHOG:0001458 xref: galen:Vulva xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Female_unshaved_genitalia.jpg xref: ncithesaurus:Vulva is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0005056 ! external female genitalia property_value: external_definition "The external genital organs of the female, including the labia majora, labia minora, clitoris, and vestibule of the vagina. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "vulval" xsd:string [Term] id: UBERON:0000998 name: seminal vesicle namespace: uberon def: "Either of a pair of glandular pouches that lie one on either side of the male reproductive tract and in the human male secrete a sugar- and protein-containing fluid into the ejaculatory duct." [BTO:0001234, Wikipedia:Seminal_vesicle] comment: Function notes: The seminal vesicles secrete a significant proportion of the fluid that ultimately becomes semen. Lipofuscin granules from dead epithelial cells give the secretion its yellowish color. About 50-70%[2] of the seminal fluid in humans originates from the seminal vesicles, but is not expelled in the first ejaculate fractions which are dominated by spermatozoa and zinc-rich prostatic fluid. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula seminalis" RELATED [BTO:0001234] synonym: "glandula vesiculosa" RELATED [BTO:0001234] synonym: "gon_male_sves" RELATED [] synonym: "seminal gland" BROAD [] synonym: "vas efferens" RELATED [] synonym: "vesicul%c3%a6 seminales" RELATED [Wikipedia:Seminal_vesicle] synonym: "vesiculCB& seminales" RELATED LATIN [Wikipedia:Seminal_vesicle] synonym: "vesicula seminalis" RELATED [BTO:0001234, Wikipedia:Seminal_vesicle] synonym: "vesiculae seminales" RELATED [Wikipedia:Seminal_vesicle] synonym: "vesicular gland" RELATED [Wikipedia:Seminal_vesicle] synonym: "vesicular glands" RELATED [Wikipedia:Seminal_vesicle] synonym: "vesicular seminalis" RELATED [Wikipedia:Seminal_vesicle] xref: AAO:0010788 xref: BTO:0001234 xref: EFO:0000986 xref: EMAPA:19180 xref: EV:0100106 xref: FMA:19386 xref: GAID:394 xref: MA:0000410 xref: MAT:0000171 xref: MESH:A05.360.444.713 xref: MIAA:0000171 xref: OpenCyc:Mx4rwTtRpJwpEbGdrcN5Y29ycA xref: SCTID:181434004 xref: UMLS:C0036628 xref: VHOG:0001379 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Male_anatomy_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d1/Male_anatomy_en.svg/200px-Male_anatomy_en.svg.png xref: ncithesaurus:Seminal_Vesicle is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006868 ! seminal fluid secreting gland relationship: develops_from UBERON:0000080 ! mesonephros relationship: part_of UBERON:0000473 ! testis relationship: secretes UBERON:0010143 ! seminal vesicle fluid property_value: external_definition "Either of a pair of pouchlike glands situated on each side of the male urinary bladder that secrete seminal fluid and nourish and promote the movement of spermatozoa through the urethra. [TFD][VHOG]" xsd:string property_value: homology_notes " (In mammalian testis) Along the way (the sperm travel), three accessory sex glands, the seminal vesicle, prostate, and bulbourethral (Cowper's) gland, respectively, add their secretions as sperm move from the testes to the urethra.[well established][VHOG]" xsd:string [Term] id: UBERON:0000999 name: ejaculatory duct namespace: uberon def: "The Ejaculatory ducts (ductus ejaculatorii) are paired structures in male anatomy, about 2 cm in length. Each ejaculatory duct is formed by the union of the vas deferens with the duct of the seminal vesicle. They pass through the prostate, and empty into the urethra at the Colliculus seminalis. During ejaculation, semen passes through the ducts and exits the body via the penis[WP,unvetted]." [Wikipedia:Ejaculatory_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ductus ejaculatorii" EXACT PLURAL [BTO:0001580, Wikipedia:Ejaculatory_duct] synonym: "ductus ejaculatorius" EXACT [BTO:0001580] xref: BTO:0001580 xref: EFO:0000985 xref: EMAPA:19088 xref: FMA:19325 xref: GAID:388 xref: MAT:0000170 xref: MESH:A05.360.444.251 xref: MIAA:0000170 xref: OpenCyc:Mx4rwOt7MJwpEbGdrcN5Y29ycA xref: SCTID:279665005 xref: UMLS:C0013747 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Male_anatomy.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/35/Male_anatomy.png/200px-Male_anatomy.png xref: ncithesaurus:Ejaculatory_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0005904 ! duct of male reproductive system relationship: channel_for UBERON:0001968 ! semen relationship: channel_for UBERON:0010143 ! seminal vesicle fluid relationship: channels_from UBERON:0000998 ! seminal vesicle relationship: channels_from UBERON:0001000 ! vas deferens relationship: channels_into UBERON:0000057 ! urethra relationship: has_function_in GO:0042713 ! sperm ejaculation relationship: in_lateral_side_of UBERON:0000079 ! male reproductive system relationship: part_of UBERON:0000079 ! male reproductive system [Term] id: UBERON:0001000 name: vas deferens namespace: uberon def: "duct that transports sperm from the testis. In mammals this is from the epididymis." [Wikipedia:Vas_deferens] comment: Taxon notes (from WP): Most vertebrates have some form of duct to transfer the sperm from the testes to the urethra. In cartilaginous fish and amphibians, sperm is carried through the archinephric duct, which also partially helps to transport urine from the kidneys. In teleosts, there is a distinct sperm duct, separate from the ureters, and often called the vas deferens, although probably not truly homologous with that in humans. In cartilaginous fishes, the part of the archinephric duct closest to the testis is coiled up to form an epididymis. Below this are a number of small glands secreting components of the seminal fluid. The final portion of the duct also receives ducts from the kidneys in most species. In amniotes, however, the archinephric duct has become a true vas deferens, and is used only for conducting sperm, never urine. As in cartilaginous fish, the upper part of the duct forms the epididymis. In many species, the vas deferens ends in a small sac for storing sperm. The only vertebrates to lack any structure resembling a vas deferens are the primitive jawless fishes, which release sperm directly into the body cavity, and then into the surrounding water through a simple opening in the body wall. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "deferent duct" EXACT [] synonym: "ductus deferens" EXACT [Wikipedia:Vas_deferens] synonym: "sperm duct" RELATED [] synonym: "vas deferen" EXACT [] synonym: "vasa deferentia" RELATED [] xref: BTO:0001427 xref: EFO:0000981 xref: EMAPA:18681 xref: EV:0100105 xref: FMA:19234 xref: GAID:404 xref: MA:0000413 xref: MESH:A05.360.444.930 xref: MIAA:0000129 xref: OpenCyc:Mx4rvjv7bpwpEbGdrcN5Y29ycA xref: SCTID:245467009 xref: UMLS:C0042360 xref: VHOG:0001135 xref: galen:VasDeferens xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Male_anatomy_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d1/Male_anatomy_en.svg/200px-Male_anatomy_en.svg.png xref: ncithesaurus:Vas_Deferens is_a: UBERON:0000058 ! duct is_a: UBERON:0005904 ! duct of male reproductive system relationship: channel_for UBERON:0001968 ! semen relationship: channels_from UBERON:0001301 ! epididymis relationship: channels_into UBERON:0000999 ! ejaculatory duct relationship: part_of UBERON:0005352 ! spermatic cord relationship: part_of UBERON:0006947 ! male genital duct property_value: homology_notes "The continuation of the archinephric duct, now called the deferent duct, extends caudally to the cloaca or to the part of the mammalian urethra that is derived from the cloaca.[well established][VHOG]" xsd:string [Term] id: UBERON:0001001 name: chitin-based cuticle namespace: uberon alt_id: UBERON:FBbt_00004970 def: "The main structural component of arthropod cuticle is a polysaccharide, chitin, composed of N-acetylglucosamine units, together with proteins and lipids[WP]." [UBERON:cjm, Wikipedia:Cuticle#Invertebrate_zoology, https://sourceforge.net/tracker/index.php?func=detail&aid=3348965&group_id=36855&atid=440764] comment: TODO - split from exoskeleton? Also: See above sf item to see if this belongs in GO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arthropod cuticle" RELATED [] synonym: "cuticle" NARROW [FBbt:00004970] synonym: "exoskeleton" BROAD [] synonym: "insect cuticle" RELATED [] xref: EFO:0000944 xref: FBbt:00004970 xref: HAO:0000240 xref: MAT:0000150 xref: MIAA:0000150 xref: OpenCyc:Mx4rvVkBTJwpEbGdrcN5Y29ycA is_a: UBERON:0007491 ! chitin-based acellular structure relationship: develops_from UBERON:0007376 ! outer epithelial layer relationship: part_of UBERON:0002416 ! integumental system intersection_of: UBERON:0001002 ! cuticle intersection_of: composed_primarily_of CHEBI:17029 ! chitin [Term] id: UBERON:0001002 name: cuticle namespace: uberon def: "tough but flexible, non-mineral outer coverings of an organism, or parts of an organism, that provide protection. Cuticles are non-homologous, differing in their origin, structure and chemical composition[WP]." [Wikipedia:Cuticle, http://sourceforge.net/tracker/?func=detail&aid=3348965&group_id=36855&atid=440764] comment: TODO - check cuticle vs exoskeleton. Note that GO has a very generic definition of cuticle. See also arthropod-anatomy ontology. Note in ncit Cuticle is a plant part subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cuticula" RELATED [BTO:0001600] xref: BTO:0001600 is_a: UBERON:0000476 ! acellular anatomical structure disjoint_from: UBERON:0004882 ! eponychium property_value: has_relational_adjective "cuticular" xsd:string [Term] id: UBERON:0001003 name: epidermis namespace: uberon def: "The outer layer of the skin[WP]. cellular, multilayered epithelium derived from the ectoderm[ZFA]." [ISBN10:0073040584, Wikipedia:Epidermis_(skin)] comment: Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. In terrestrial vertebrates the epidermis often forms an outer keratinized or cornified layer, the stratum corneum. Interaction between the epideris and dermis gives rise to feathers (birds), hair and mammary glands (mammals), teeth and scales (placoid: chondrichthyans; cosmoids, ganoid, cycloid in bony fishes). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adult epidermis" EXACT [] synonym: "skin" BROAD [] synonym: "vertebrate epidermis" EXACT [] xref: AAO:0000143 xref: BTO:0000404 xref: EFO:0000954 xref: EV:0100153 xref: FMA:70596 xref: GAID:932 xref: MA:0000153 xref: MAT:0000154 xref: MESH:A10.272.497 xref: MIAA:0000154 xref: SCTID:361694003 xref: TAO:0000105 xref: UMLS:C0014520 xref: VHOG:0000077 xref: XAO:0000028 xref: ZFA:0000105 xref: ncithesaurus:Epidermis is_a: UBERON:0000483 ! epithelium is_a: UBERON:0007376 ! outer epithelial layer is_a: UBERON:0010371 ! ecto-epithelium relationship: adjacent_to UBERON:0002067 ! dermis relationship: developmentally_replaces UBERON:0003055 ! periderm relationship: develops_from UBERON:0007383 ! enveloping layer of ectoderm relationship: part_of UBERON:0002097 ! skin of body relationship: part_of UBERON:0002199 ! integument relationship: surrounds UBERON:0000468 ! multi-cellular organism property_value: axiom_lost_from_external_ontology "relationship loss: subclass external integument structures (AAO:0000961)[AAO]" xsd:string property_value: external_definition "A cellular, multilayered epithelium derived from the ectoderm. Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. Le Guellec et al, 2004.[TAO]" xsd:string property_value: external_definition "The outer epithelial layer of the external integument of the body that is derived from the embryonic epiblast.[AAO]" xsd:string property_value: has_relational_adjective "epidermal" xsd:string property_value: homology_notes " (...) outer epithelia in all metazoan animals are homologous. (...) The ancestor of all metazoans likely had an epidermis with a basal extracellular matrix (ECM), an apical extracellular glycocalyx, and one cilium with a striated rootlet per cell.[well established][VHOG]" xsd:string [Term] id: UBERON:0001004 name: respiratory system namespace: uberon def: "Functional system which consists of structures involved in respiration." [Wikipedia:Respiratory_system] subset: functional_classification ! functional_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Atmungssystem" RELATED [BTO:0000203] synonym: "apparatus respiratorius" EXACT [] synonym: "apparatus respiratorius " RELATED [BTO:0000203] synonym: "respiratory system" EXACT [] synonym: "systema respiratorium" RELATED LATIN [Wikipedia:Respiratory_system] xref: AAO:0000541 xref: BTO:0000203 xref: EFO:0000804 xref: EHDAA2:0001604 xref: EHDAA:2203 xref: EMAPA:16727 xref: EV:0100036 xref: FMA:7158 xref: GAID:78 xref: MA:0000327 xref: MAT:0000030 xref: MESH:A04 xref: MIAA:0000030 xref: OpenCyc:Mx4rvVjzFJwpEbGdrcN5Y29ycA xref: SCTID:278197002 xref: TAO:0000272 xref: UMLS:C0035237 xref: VHOG:0000202 xref: XAO:0000117 xref: ZFA:0000272 xref: http://upload.wikimedia.org/wikipedia/commons/5/5e/Respiratory_system_complete_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Respiratory_system_complete_en.svg/200px-Respiratory_system_complete_en.svg.png xref: ncithesaurus:Respiratory_System intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0007585 ! respiratory gaseous exchange disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001008 ! excretory system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: never_in_taxon NCBITaxon:147099 property_value: external_definition "The anatomical system in which the exchange of oxygen and carbon dioxide between the organism and its environment.[AAO]" xsd:string property_value: homology_notes "There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001005 name: respiratory airway namespace: uberon def: "An airway through which respiratory air passes in organisms." [Wikipedia:Trachea] comment: This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED) subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: SCTID:361380005 is_a: UBERON:0003103 ! compound organ relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0001006 name: obsolete spiracle namespace: uberon def: "OBSOLETE: The mostly slit-like opening on the body surface through which air is taken into the respiratory system." [ISBN:3110148986, Wikipedia:Spiracle] is_obsolete: true consider: FBbt:00005054 consider: HAO:0000950 consider: TGMA:0000578 consider: UBERON:0010019 ! spiracle comment: This class was obsoleted as it grouped together disparate classes. For the fish structure, see UBERON:0010019. The arthropod structure will presumably be added to the arthropod anatomy synonym: "open tracheal system spiracle" NARROW [GO:0035277] synonym: "spiracle of open tracheal system" NARROW [GO:0035277] synonym: "spiracular gland" RELATED [] xref: EFO:0000936 xref: MAT:0000208 xref: MIAA:0000208 [Term] id: UBERON:0001007 name: digestive system namespace: uberon def: "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." [FB:gg, NLM:alimentary+system, Wikipedia:Digestive_system,] comment: note that many anatomy ontologies consider gastrointestinal system synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "alimentary system" RELATED [] synonym: "alimentary tract" RELATED [] synonym: "gastrointestinal system" RELATED [] synonym: "gut" RELATED [] xref: AAO:0000129 xref: BILA:0000082 xref: BTO:0000058 xref: EFO:0000793 xref: EV:0100056 xref: FBbt:00005055 xref: FMA:7152 xref: GAID:278 xref: MA:0002431 xref: MAT:0000018 xref: MESH:A03 xref: MIAA:0000018 xref: SCTID:278859004 xref: TADS:0000170 xref: TAO:0000339 xref: WBbt:0005748 xref: XAO:0000125 xref: ZFA:0000339 xref: galen:DigestiveSystem xref: ncithesaurus:Digestive_System intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0007586 ! digestion disjoint_from: UBERON:0001008 ! excretory system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]" xsd:string property_value: has_relational_adjective "digestive" xsd:string [Term] id: UBERON:0001008 name: excretory system namespace: uberon def: "The excretory system is the system of an organism that mainly performs the function of excretion, the bodily process of discharging wastes. It is responsible for the elimination of wastes produced by the processes that maintain homeostasis." [BILA:0000015, Wikipedia:Excretory_system] comment: In various sources such as Encyclopedia Britannica, the excretory and urinary systems are indeed the same system (see wikipedia talk page); we merge two BTO classes here subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "renal or urinary system" RELATED [EHDAA:5901] synonym: "renal system" EXACT [GO:0001977] synonym: "renal/urinary system" RELATED [] synonym: "systema urinaria" EXACT [FMA:7159] synonym: "systema urinarium" EXACT [BTO:0003092] synonym: "urinary system" EXACT [] synonym: "urinary tract" EXACT [] xref: AAO:0010257 xref: BILA:0000015 xref: BTO:0001244 xref: BTO:0003092 xref: EFO:0000803 xref: EHDAA2:0001601 xref: EHDAA:5901 xref: EMAPA:17366 xref: EV:0100095 xref: FBbt:00005056 xref: FMA:7159 xref: GAID:391 xref: MA:0000325 xref: MAT:0000027 xref: MESH:A05.810 xref: MIAA:0000027 xref: SCTID:362204003 xref: TADS:0000162 xref: TAO:0000163 xref: UMLS:C1508753 xref: VHOG:0000723 xref: WBbt:0005736 xref: XAO:0000143 xref: ZFA:0000163 xref: galen:UrinaryTract xref: ncithesaurus:Urinary_System intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0007588 ! excretion disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: never_in_taxon NCBITaxon:110815 property_value: never_in_taxon NCBITaxon:147099 property_value: external_definition "An anatomical system which consists of organs and tissues which produce, store, and excrete urine.[AAO]" xsd:string property_value: homology_notes "Evolution of vertebrate renal anatomy appears quite conservative when compared, for example, to evolution of respiratory and cardiovascular systems in vertebrates. Major anatomical changes in vertebrates kidneys separate those of birds and mammals from kidneys of lower vertebrates. General increase in animal size from fish to mammals is reflected by an increase in total number of nephrons per kidney, rather than by constant change in tubular dimensions.[well established][VHOG]" xsd:string [Term] id: UBERON:0001009 name: circulatory system namespace: uberon def: "organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis[WP]." [Wikipedia:Circulatory_system] comment: the cardiovascular system and the lymphatic system are parts of the circulatory system subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "systema cardiovasculare" RELATED LATIN [Wikipedia:Circulatory_system] xref: AAO:0000959 xref: FBbt:00005057 xref: OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA xref: VHOG:0001248 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Circulatory_System_en.svg/200px-Circulatory_System_en.svg.png is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: never_in_taxon NCBITaxon:147099 property_value: never_in_taxon NCBITaxon:6073 property_value: never_in_taxon NCBITaxon:6157 property_value: external_definition "Anatomical system of ion binding, a pumping mechanism, and an efficient vascular system; consisting of the blood, heart, and blood and lymph vessels, respectively.[AAO]" xsd:string property_value: homology_notes "We should divest ourselves of the view that earlier vertebrate groups were 'on their way' to becoming mammals, as clearly they were not such visionaries. Neither were their systems 'imperfect' as earlier anatomists thought. Instead, their circulatory systems served them well to address the ecological demands arising from their lifestyles.[well established][VHOG]" xsd:string [Term] id: UBERON:0001010 name: diaphysis of ulna namespace: uberon def: "The body of the ulna at its upper part is prismatic in form, and curved so as to be convex behind and lateralward; its central part is straight; its lower part is rounded, smooth, and bent a little lateralward. It tapers gradually from above downward, and has three borders and three surfaces." [Wikipedia:Body_of_ulna] synonym: "body of ulna" EXACT [FMA:33760] synonym: "corpus ulnae" EXACT [FMA:33760] synonym: "shaft of ulna" EXACT [FMA:33760, Wikipedia:Body_of_ulna] synonym: "supinator crest" RELATED [Wikipedia:Body_of_ulna] synonym: "ulnar diaphysis" EXACT [FMA:33760] xref: FMA:33760 xref: SCTID:302520004 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0004769 ! diaphysis intersection_of: part_of UBERON:0001424 ! ulna [Term] id: UBERON:0001011 name: hemolymph namespace: uberon def: "Blood analogue used by all arthropods and most mollusks that have an open circulatory system. In these animals there is no distinction between blood and interstitial fluid. The liquid fills all of the interior (the hemocoel) of the body and surrounds all cells." [Wikipedia:Hemolymph] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "haemolymph" RELATED [] xref: BTO:0000572 xref: FBbt:00005061 xref: GAID:1220 xref: MAT:0000054 xref: MESH:A13.453 xref: MIAA:0000054 xref: TGMA:0000000 is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0001009 ! circulatory system [Term] id: UBERON:0001012 name: head of radius namespace: uberon def: "The head of the radius has a cylindrical form, and on its upper surface is a shallow cup or fovea for articulation with the capitulum (or capitellum) of the humerus. The circumference of the head is smooth; it is broad medially where it articulates with the radial notch of the ulna, narrow in the rest of its extent, which is embraced by the annular ligament. The deepest point in the fovea is not axi-symmetric with the long axis of the radius, creating a cam effect during pronation and supination[WP]." [Wikipedia:Head_of_radius] synonym: "caput radii" RELATED LATIN [Wikipedia:Head_of_radius] synonym: "radial head" EXACT [FMA:33773] xref: FMA:33773 xref: SCTID:181941003 xref: galen:HeadOfRadius xref: http://upload.wikimedia.org/wikipedia/commons/4/47/Gray214.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0001490 ! elbow joint relationship: part_of UBERON:0004413 ! proximal epiphysis of radius [Term] id: UBERON:0001013 name: adipose tissue namespace: uberon def: "Connective tissue composed of adipocytes." [Wikipedia:Adipose_tissue] comment: Note in FMA this is dense irregular connective tissue. Taxon notes: n humans, adipose tissue is located beneath the skin (subcutaneous fat), around internal organs (visceral fat), in bone marrow (yellow bone marrow) and in breast tissue. Adipose tissue is found in specific locations, which are referred to as adipose depots. Adipose tissue contains several cell types, with the highest percentage of cells being adipocytes, which contain fat droplets. Other cell types include fibroblasts, macrophages, and endothelial cells. Adipose tissue contains many small blood vessels.; Mice have eight major adipose depots, four of which are within the abdominal cavity. The paired gonadal depots are attached to the uterus and ovaries in females and the epididymis and testes in males; the paired retroperitoneal depots are found along the dorsal wall of the abdomen, surrounding the kidney, and, when massive, extend into the pelvis. The mesenteric depot forms a glue-like web that supports the intestines, and the omental depot, which originates near the stomach and spleen, and, when massive, extends into the ventral abdomen. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adipose" RELATED [BTO:0001487] synonym: "bodyfat" RELATED [BTO:0001487] synonym: "fat" EXACT [MA:0000009] synonym: "fat tissue" EXACT [] synonym: "fatty depot" RELATED [] synonym: "fatty tissue" EXACT [] xref: AAO:0000001 xref: AEO:000020 xref: BTO:0001487 xref: EFO:0000234 xref: EFO:0000790 xref: EHDAA2:0003120 xref: EV:0100381 xref: FMA:20110 xref: GAID:920 xref: MA:0000009 xref: MAT:0000015 xref: MESH:A10.165.114 xref: MIAA:0000015 xref: OpenCyc:Mx4rvVjc_ZwpEbGdrcN5Y29ycA xref: SCTID:55603005 xref: TAO:0002134 xref: UMLS:C0001527 xref: VHOG:0001284 xref: XAO:0003049 xref: ZFA:0005345 xref: galen:FattyTissue xref: ncithesaurus:Adipose_Tissue is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0000479 ! tissue intersection_of: composed_primarily_of CL:0000136 ! fat cell disjoint_from: UBERON:0003714 ! neural tissue property_value: axiom_lost_from_external_ontology "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" xsd:string property_value: external_definition "Connective tissue in which fat is stored.[TAO]" xsd:string property_value: external_definition "Tissue that contains adipocytes, used for cushioning, thermal insulation, lubrication (primarily in the pericardium) and energy storage.[AAO]" xsd:string property_value: has_relational_adjective "adipose" xsd:string property_value: homology_notes "Adipose tissue is unique to vertebrates. It is found in mostmammals, birds, reptiles and amphibians, and a variety is found in some species of fish. Furthermore, in insects the fat body found in larvae as well as in adults shares some homology with adipose tissue.[well established][VHOG]" xsd:string [Term] id: UBERON:0001014 name: obsolete fat body namespace: uberon is_obsolete: true consider: UBERON:0003917 ! arthropod fat body synonym: "fat pad" EXACT [] [Term] id: UBERON:0001015 name: musculature namespace: uberon def: "A subdivision of the muscular system." [UBERON:cjm, Wikipedia:Muscular_system] comment: AO notes: In FMA this is classified as a set of organs. ZFA musculature system has subtypes, so it is classified here. WBbt muscular system has subtypes so it goes here. Note that we use the MA term set of skeletal muscles here as it seems most appropriate (*not* MA:musculature). AAO is generally confused here. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "muscle group" EXACT [] synonym: "muscle system" RELATED [] synonym: "muscles" RELATED [] synonym: "muscles set" EXACT [] synonym: "musculature" EXACT [] synonym: "musculature system" RELATED [] synonym: "musculi" EXACT LATIN [FMA:32558, FMA:TA] synonym: "set of muscles" EXACT [FMA:32558] synonym: "set of skeletal muscles" EXACT [MA:0000165] xref: AAO:0011066 xref: BTO:0000887 xref: EFO:0001949 xref: FMA:32558 xref: MA:0000165 xref: OpenCyc:Mx4rvVjmr5wpEbGdrcN5Y29ycA xref: TAO:0000548 xref: UMLS:C0026845 xref: VSAO:0005038 xref: WBbt:0005737 xref: ZFA:0000548 xref: http://upload.wikimedia.org/wikipedia/commons/e/e5/Muscles_anterior_labeled.png xref: ncithesaurus:Muscle is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0000383 ! musculature of body property_value: spatially_disjoint_from UBERON:0001474 [Term] id: UBERON:0001016 name: nervous system namespace: uberon def: "a network of specialized cells that communicate information about an organism's surroundings and itself[Wikipedia]." [ISBN:0-14-051288-8, ISBN:3110148986, NLM:nervous+system, WB:rynl, Wikipedia:Nervous_system, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Nervensystem" RELATED [BTO:0001484] synonym: "nerve net" NARROW [Wikipedia:Nerve_net] synonym: "systema nervosum" RELATED LATIN [Wikipedia:Nervous_system] xref: AAO:0000324 xref: BILA:0000079 xref: BTO:0001484 xref: EFO:0000802 xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 xref: FBbt:00005093 xref: FMA:7157 xref: GAID:466 xref: MA:0000016 xref: MAT:0000026 xref: MESH:A08 xref: MIAA:0000026 xref: NIF_GrossAnatomy:birnlex_844 xref: OpenCyc:Mx4rvViT_pwpEbGdrcN5Y29ycA xref: SCTID:278196006 xref: TAO:0000396 xref: UMLS:C0027763 xref: VHOG:0000402 xref: WBbt:0005735 xref: XAO:0000177 xref: ZFA:0000396 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/ba/Nervous_system_diagram.png/200px-Nervous_system_diagram.png xref: ncithesaurus:Nervous_System is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000924 ! ectoderm disjoint_from: UBERON:0001033 ! gustatory system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from ectoderm (AAO:0000137) CHANGED TO: develops_from ectoderm (UBERON:0000924)[AAO]" xsd:string property_value: external_definition "A regulatory system of the body that consists of neurons and neuroglial cells. The nervous system is divided into two parts, the central nervous system (CNS) and the peripheral nervous system (PNS). (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string property_value: external_definition "Anatomical system consisting of nerve bodies and nerve fibers which regulate the response of the body to external and internal stimuli.[AAO]" xsd:string property_value: has_relational_adjective "nervous" xsd:string property_value: has_relational_adjective "neural" xsd:string property_value: homology_notes "Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]" xsd:string [Term] id: UBERON:0001017 name: central nervous system namespace: uberon def: "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain, spinal cord and spinal nerves. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord[GO]. The part of the nervous system which in vertebrates consists of the brain and spinal cord, to which sensory impulses are transmitted and from which motor impulses pass out, and which supervises and coordinates the activity of the entire nervous system[XAO]. Neuraxis plus retina[INCF]." [FB:gg, ISBN:3110148986, NLM:central+nervous+system, Wikipedia:Central_nervous_system, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CNS" EXACT [] synonym: "cerebrospinal axis" EXACT [FMA:55675] synonym: "neuraxis" EXACT [FMA:55675] synonym: "systema nervosum centrale" EXACT LATIN [FMA:55675, FMA:TA] xref: AAO:0000090 xref: BILA:0000080 xref: BTO:0000227 xref: EFO:0000908 xref: EHDAA2:0000225 xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 xref: FBbt:00005094 xref: FMA:55675 xref: GAID:570 xref: MA:0000167 xref: MAT:0000457 xref: MESH:A08.186 xref: NIF_GrossAnatomy:birnlex_1099 xref: OpenCyc:Mx4rvzYt3pwpEbGdrcN5Y29ycA xref: SCTID:278199004 xref: TAO:0000012 xref: UMLS:C0927232 xref: VHOG:0000293 xref: XAO:0000215 xref: ZFA:0000012 xref: ncithesaurus:Central_Nervous_System is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0001016 ! nervous system property_value: never_in_taxon NCBITaxon:147099 property_value: external_definition "Part of the nervous system which includes the brain and spinal cord.[AAO]" xsd:string property_value: external_definition "The brain and spinal cord. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2); Taken together, our data make a very strong case that the complex molecular mediolateral architecture of the developing trunk CNS (central nervous system), as shared between Platynereis and vertebrates, was already present in their last common ancestor, Urbilateria. The concept of bilaterian nervous system centralization implies that neuron types concentrate on one side of the trunk, as is the case in vertebrates and many invertebrates including Platynereis, where they segregate and become spatially organized (as opposed to a diffuse nerve net). Our data reveal that a large part of the spatial organization of the annelid and vertebrate CNS was already present in their last common ancestor, which implies that Urbilateria had already possessed a CNS (reference 3).[well established][VHOG]" xsd:string [Term] id: UBERON:0001018 name: axon tract namespace: uberon def: "A group of axons linking two or more neuropils and having a common origin, termination[FBbt]." [http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] comment: WP says this is the analog of peripheral nerves in CNS synonym: "axonal tract" EXACT [] synonym: "neuraxis tract" EXACT [FMA:83847] synonym: "tract" RELATED [] synonym: "tract of neuraxis" EXACT [FMA:83847] xref: EV:0100304 xref: FBbt:00005100 xref: FMA:83847 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0001019 name: fascicle namespace: uberon def: "A slender neuron projection bundle[FBbt]." [Wikipedia:Nervous_system_fascicle] comment: TODO - invert specific? note FBbt class not disjoint from tract. Consider merging with 'neuron projection bundle' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fasciculus" EXACT [] synonym: "nerve bundle" EXACT [FMA:12235] synonym: "nerve fasciculus" EXACT [FMA:12235] synonym: "neural fasciculus" EXACT [FMA:12235] xref: BTO:0004101 xref: FBbt:00005101 xref: FMA:12235 xref: NIF_GrossAnatomy:birnlex_872 xref: TGMA:0000088 xref: UMLS:C1185741 xref: ncithesaurus:Fascicle is_a: UBERON:0000122 ! neuron projection bundle [Term] id: UBERON:0001020 name: commissure namespace: uberon def: "White matter fiber bundle that crosses the midline of the brain or spinal cord[NIF]. In the context of Drosophila refers to a broad band of axons connecting the same neuropils each side of the brain[FBbt]." [NIF_GrossAnatomy:nlx_anat_20090513, Wikipedia:Commissure] comment: *not* the same as FMA:76741 Commissure subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "commissure of neuraxis" EXACT [FMA:83906] synonym: "neuraxis commissure" EXACT [FMA:83906] xref: FBbt:00005103 xref: FMA:83906 xref: NIF_GrossAnatomy:nlx_anat_20090513 xref: OpenCyc:Mx4rdBrmE6gOEdudWQACs5b6Bw xref: TADS:0000201 xref: UMLS:C1185742 xref: ncithesaurus:Commissure is_a: UBERON:0001018 ! axon tract property_value: has_relational_adjective "commissural" xsd:string [Term] id: UBERON:0001021 name: nerve namespace: uberon def: "an enclosed, cable-like bundle of peripheral axons [wikipedia]. A portion of tissue which is a fasiculated group of axons[ZFA]. Segment of neural tree organ which has as its parts a nerve trunk and its branches; together with other nerves of the same tree it constitutes a neural tree. Examples: chorda tympani, digastric branch of facial nerve, greater petrosal nerve, posterior cutaneous branch of posterior ramus of cervical nerve, superior lateral cutaneous nerve of arm[FMA]." [FMA:65132, Wikipedia:Nervous_system, ZFA:0007009, ZFIN:curator] comment: check nerve vs peripheral nerve vs tract. Check isa hierarchy - we include under neural tissue as well as neuron projection bundle for now. FMA also has this under organ segment subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "nerves" EXACT PLURAL [TAO:0007009] synonym: "neural subtree" RELATED [FMA:65132] xref: AAO:0011070 xref: AEO:0000137 xref: BTO:0000925 xref: EHDAA2:0003137 xref: EHDAA:2851 xref: EHDAA:3776 xref: EHDAA:4657 xref: EV:0100162 xref: FBbt:00005105 xref: FMA:65132 xref: GAID:758 xref: MA:0000217 xref: OpenCyc:Mx4rwP3lkpwpEbGdrcN5Y29ycA xref: SCTID:256864008 xref: TAO:0007009 xref: UMLS:C0027740 xref: XAO:0003047 xref: ZFA:0007009 xref: galen:Nerve xref: ncithesaurus:Nerve is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0003714 ! neural tissue relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: external_definition "A portion of tissue which is a fasiculated group of axons.[TAO]" xsd:string property_value: has_relational_adjective "nervous" xsd:string [Term] id: UBERON:0001022 name: cell body namespace: uberon def: "Cell component which consists of the plasma membrane and the cytoplasm surrounding the nucleus.[FMA]" [FMA:FMA, Wikipedia:Cell_body, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] comment: TODO - use GO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cell soma" EXACT [] synonym: "soma" RELATED [] xref: FBbt:00005107 xref: FMA:67301 xref: GO:0043025 xref: NIF_Subcellular:sao1044911821 is_a: UBERON:0000470 ! cell part relationship: part_of CL:0000540 ! neuron [Term] id: UBERON:0001023 name: obsolete dendrite namespace: uberon def: "The region of a neuron receiving inputs from other neurons, typically a slender neurite, often branched. In insect neurons, this is often not a clear designation and often presynaptic sites co-extend with postsynaptic ones." [Wikipedia:Dendrite, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] is_obsolete: true consider: FBbt:00005110 consider: FMA:67314 consider: GAID:749 consider: GO:0030425 consider: MESH:A08.663.256 consider: NIF_Subcellular:sao1211023249 consider: OpenCyc:Mx4rviIdspwpEbGdrcN5Y29ycA consider: TGMA:0001373 consider: UMLS:C0011305 consider: ncithesaurus:Dendrite comment: Made obsolete as it was equivalent to GO class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms property_value: has_relational_adjective "dendritic" xsd:string [Term] id: UBERON:0001024 name: obsolete neurite namespace: uberon def: "One of the processes or extensions of a neuron, axon or dendrite or cell body fiber. // Cell appendage of the neuron which includes the axon and the dendrite." [Wikipedia:Neurite, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] is_obsolete: true consider: FBbt:00005113 consider: FMA:61814 consider: GAID:751 consider: GO:0043005 ! neuron projection consider: MESH:A08.663.256.500 consider: NIF_Subcellular:sao-867568886 comment: Made obsolete as it was equivalent to GO class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms [Term] id: UBERON:0001025 name: obsolete synapse namespace: uberon def: "The structural contact that is the site of transmission between neurons, identified by a presynaptic ribbon and synaptic vesicles as the input element and one or (usually) more postsynaptic elements with various specializations (membrane densities, cisternae, etc.)." [Wikipedia:Synapse, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] is_obsolete: true consider: FBbt:00005114 consider: FMA:67408 consider: GAID:766 consider: GO:0045202 consider: MESH:A08.850 consider: NIF_Subcellular:sao914572699 consider: SCTID:362298009 consider: UMLS:C0039062 consider: ncithesaurus:Synapse comment: Made obsolete as it was equivalent to GO class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "synaptic junction" EXACT [] property_value: has_relational_adjective "synaptic" xsd:string [Term] id: UBERON:0001026 name: obsolete motor nerve namespace: uberon def: "General anatomical term applied to nerves in which somatic efferent nerve fibers predominate[FMA]. A motor nerve is an efferent nerve that exclusively contains the axons of somatic and branchial motoneurons, which innervate skeletal muscles (that ensure locomotion) and branchial muscles (that motorize the face and neck)[WP]." [Wikipedia:Motor_nerve] is_obsolete: true synonym: "efferent nerve" RELATED [] synonym: "nervus motorius" EXACT [] [Term] id: UBERON:0001027 name: sensory nerve namespace: uberon def: "A group of neurons that provides a nervous response from a tissue[AEO]." [AEO:0000201, Wikipedia:Sensory_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "afferent nerve" RELATED [] synonym: "nervus sensorius" EXACT LATIN [Wikipedia:Sensory_nerve] xref: AEO:0000201 xref: EHDAA2:0003200 xref: FBbt:00005136 xref: FMA:5868 xref: OpenCyc:Mx4rv0GdXpwpEbGdrcN5Y29ycA is_a: UBERON:0001021 ! nerve relationship: has_part CL:0000526 ! afferent neuron property_value: external_definition "General anatomical term applied to nerves in which somatic afferent nerve fibers predominate[FMA]. nerves that receive sensory stimuli made up of nerve fibers, called sensory fibers (mechanoreceptor fibers sense body movement and pressure placed against the body, and nociceptor fibers sense tissue injury)[WP][Wikipedia:Sensory_nerve]." xsd:string [Term] id: UBERON:0001028 name: diaphysis of radius namespace: uberon def: "A diaphysis that is part of a radius bone[Automatically generated definition]." [OBOL:automatic, Wikipedia:Body_of_radius] synonym: "body of radius" EXACT [FMA:33782] synonym: "corpus radii" EXACT [FMA:33782] synonym: "radial diaphysis" EXACT [FMA:33782] synonym: "radial shaft" RELATED [Wikipedia:Body_of_radius] synonym: "shaft of radius" EXACT [FMA:33782, Wikipedia:Body_of_radius] xref: FMA:33782 xref: SCTID:302518002 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0004769 ! diaphysis intersection_of: part_of UBERON:0001423 ! radius bone property_value: external_definition "The body of the radius (or shaft of radius) is prismoid in form, narrower above than below, and slightly curved, so as to be convex lateralward. It presents three borders and three surfaces[Wikipedia:Body_of_radius]." xsd:string [Term] id: UBERON:0001029 name: neuromuscular junction namespace: uberon def: "." [Wikipedia:Neuromuscular_junction] comment: TODO - use GO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "myoneural junction" EXACT [] synonym: "synapsis neuromuscularis; junctio neuromuscularis" RELATED LATIN [Wikipedia:Neuromuscular_junction] xref: FBbt:00005142 xref: FMA:61803 xref: GAID:809 xref: GO:0031594 xref: MESH:A08.800.550.550.550 xref: NIF_Subcellular:sao1124888485 xref: http://upload.wikimedia.org/wikipedia/commons/2/23/NMJ.jpg is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0001030 name: obsolete synaptic ribbon namespace: uberon is_obsolete: true consider: FBbt:00005143 consider: FMA:67107 consider: GO:0048788 consider: NIF_Subcellular:sao1884931180 synonym: "ribbon synapse" EXACT [] [Term] id: UBERON:0001031 name: neurilemma namespace: uberon def: "thin membranous sheath around a nerve fiber[TFD]." [Wikipedia:Neurilemma, http://www.thefreedictionary.com/neurolemma] comment: FMA def is 'Neural tissue which consists of Schwann cells' which does not fit, but we still use 'neural tissue' here. WP def specifically states Schwann cells, which would restrict it to PNS subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Schwann's membrane" RELATED [BTO:0003048] synonym: "endoneural membrane" RELATED [BTO:0003048] synonym: "neurolemma" EXACT [] synonym: "sheath of Schwann" EXACT [] xref: BTO:0003048 xref: FBbt:00005151 xref: FMA:62976 xref: GAID:730 xref: MESH:A08.561.600 xref: UMLS:C0027807 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/34/Gray631.png/200px-Gray631.png xref: ncithesaurus:Sheath_of_Schwann is_a: UBERON:0003714 ! neural tissue relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0001032 name: sensory system namespace: uberon def: "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." [Wikipedia:Sensory_system] comment: note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "organa sensuum" EXACT LATIN [FMA:75259, FMA:TA, Wikipedia:Sensory_system] synonym: "sense organ subsystem" EXACT [] synonym: "sense organs" EXACT [FMA:75259] synonym: "sense organs set" EXACT [FMA:75259] synonym: "sensory organ system" RELATED [] synonym: "sensory subsystem" EXACT [] synonym: "sensory systems" EXACT PLURAL [TAO:0000282] synonym: "set of sense organs" RELATED [FMA:75259] xref: AAO:0000555 xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: FBbt:00005827 xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 xref: MIAA:0000031 xref: NIF_GrossAnatomy:nlx_anat_090816 xref: TAO:0000282 xref: VHOG:0001674 xref: XAO:0003194 xref: ZFA:0000282 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Gray722.png/200px-Gray722.png is_a: UBERON:0000467 ! anatomical system relationship: overlaps UBERON:0001016 ! nervous system relationship: part_of UBERON:0004456 ! entire sense organ system property_value: homology_notes "An early step in the evolution of neural crest, therefore, may have been the origin of a specific dorsal neural cell population contributing to sensory processing; this would predate the divergence of the amphioxus and vertebrate lineages.[well established][VHOG]" xsd:string [Term] id: UBERON:0001033 name: gustatory system namespace: uberon def: "A subset of the sensory system for the sensing of taste." [Wikipedia:Gustatory_system] comment: in ZFA and MA this is a subtype of sensory system. we should change sensory system to disambiguate parts and wholes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "gustatory organ system" EXACT [] synonym: "taste system" EXACT [] xref: AAO:0010577 xref: BILA:0000143 xref: EFO:0000830 xref: FMA:7194 xref: MA:0002446 xref: MAT:0000275 xref: MIAA:0000275 xref: NIF_GrossAnatomy:nlx_anat_090803 xref: SCTID:423940004 xref: TAO:0001101 xref: XAO:0003197 xref: ZFA:0001101 intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_function_in GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "The sensory system used for the sense of taste.[AAO]" xsd:string property_value: has_relational_adjective "gustatory" xsd:string [Term] id: UBERON:0001034 name: obsolete photoreceptor namespace: uberon def: "Can refer to a light sensitive organ, a photoreceptor cell or a photoreceptor protein. This class was made obsolete because it was ambiguous" [Wikipedia:Photoreceptor] is_obsolete: true consider: CL:0000210 ! photoreceptor cell consider: FBbt:00005162 consider: FMA:85613 consider: GAID:778 xref: BTO:0001060 [Term] id: UBERON:0001035 name: dento-alveolar joint namespace: uberon def: "Fibrous joint in which the periodontal ligament connects a tooth to the alveolar bone of the maxilla or mandible. Examples: Dento-alveolar joint of incisor tooth.[FMA]" [FMA:FMA, Wikipedia:Gomphosis] comment: This class was created automatically from a combination of ontologies synonym: "dento-alveolar syndesmosis" EXACT [FMA:7495] synonym: "gomphosis" EXACT [MA:0001499] synonym: "peg-and-socket joint" EXACT [FMA:7495] synonym: "socket" BROAD [FMA:7495] synonym: "syndesmosis dentoalveolaris" EXACT LATIN [FMA:7495, FMA:TA] xref: FMA:7495 xref: MA:0001499 xref: OpenCyc:Mx4rveAQeZwpEbGdrcN5Y29ycA xref: SCTID:50870008 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray1003.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6c/Gray1003.png/200px-Gray1003.png is_a: UBERON:0002209 ! fibrous joint is_a: UBERON:0002213 ! cartilaginous joint is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: connects UBERON:0001091 ! calcareous tooth relationship: connects UBERON:0004103 ! alveolar ridge relationship: part_of UBERON:0001708 ! jaw skeleton [Term] id: UBERON:0001037 name: strand of hair namespace: uberon def: "A filament, mostly protein, that grows from follicles found in the dermis[WP]." [Wikipedia:Hair] comment: this class defines an individual hair. todo - consider fur / coat of fur, which has_part hair. TODO: for now we treat vibrissa/whisker as a syonym, but these have different follicles. We could introduce subclasses (see also: Pangolin scales) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "coat hair" RELATED [] synonym: "coat/ hair" RELATED [] synonym: "fur" RELATED [] synonym: "hair" EXACT [] synonym: "microchaeta" RELATED [] synonym: "quill" RELATED SENSU [] synonym: "setulae" RELATED [] synonym: "vibrissa" RELATED SENSU [] synonym: "whisker" RELATED SENSU [] xref: BTO:0001501 xref: EFO:0000958 xref: EMAPA:18769 xref: EV:0100157 xref: FMA:53667 xref: GAID:71 xref: MA:0000155 xref: MAT:0000160 xref: MESH:A17.360 xref: MIAA:0000160 xref: OpenCyc:Mx4rvVjOX5wpEbGdrcN5Y29ycA-Mp88EdaAAACgycbRww xref: SCTID:361702001 xref: UMLS:C0018494 xref: VHOG:0001191 xref: http://upload.wikimedia.org/wikipedia/commons/2/25/Gray945.png xref: ncithesaurus:Hair is_a: UBERON:0000021 ! cutaneous appendage is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0002073 ! hair follicle relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0011932 ! pilosebaceous unit [Term] id: UBERON:0001038 name: chordotonal organ namespace: uberon def: "Chordotonal organs are arthropod sensory structures consisting of special sensilla called the scolopidia, which are mechano-transducers and respond mainly to stretch or flexion. In insects, they consist of bundles of internal sensilla, each of which has a cap cell, an enveloping cell and one or more sense cells. The distal end of the organ is usually attached to the cuticle of the body wall, marked by a pit, a thickened disc or a nodule of chitin, and the base of the organ is connected with the hypodermis, often by a special ligament." [FB:FBrf0056378, Wikipedia:Chordotonal_organ] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ch" RELATED [] synonym: "scolopophorous organ" RELATED [] xref: EFO:0000940 xref: FBbt:00005215 xref: MAT:0000209 xref: MIAA:0000209 is_a: UBERON:0000020 ! sense organ [Term] id: UBERON:0001040 name: yolk sac namespace: uberon def: "Membranous sac attached to an embryo, providing early nourishment in the form of yolk in bony fishes, sharks, reptiles, birds, and primitive mammals. It functions as the developmental circulatory system of the human embryo, before internal circulation begins. In the mouse, the yolk sac is the first site of blood formation, generating primitive macrophages and erythrocytes." [Wikipedia:Yolk_sac] comment: Taxon notes: In therians, a structure homologous to the yolk sac is is present, but contains no yolk platelets. Instead it is filled with fluid [ISBN10:0073040584 \"Vertebrates, Kardong\"] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "saccus vitellinus" RELATED LATIN [Wikipedia:Yolk_sac] synonym: "vesicula umbilicalis" RELATED LATIN [Wikipedia:Yolk_sac] xref: BTO:0001471 xref: EFO:0003078 xref: EHDAA2:0002212 xref: EHDAA:164 xref: EMAPA:16085 xref: FMA:87180 xref: GAID:1301 xref: MESH:A16.254.403.981 xref: SCTID:362845002 xref: UMLS:C0043425 xref: VHOG:0000830 xref: http://upload.wikimedia.org/wikipedia/commons/1/17/Gray22.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/17/Gray22.png/200px-Gray22.png xref: ncithesaurus:Yolk_Sac is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0005631 ! extraembryonic membrane relationship: develops_from UBERON:0000925 ! endoderm relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm property_value: external_definition "One of the extraembryonic fetal membranes that balloons out from the fetal midgut. [TFD][VHOG]" xsd:string property_value: homology_notes "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" xsd:string [Term] id: UBERON:0001041 name: foregut namespace: uberon def: "Anterior subdivision of a digestive tract[CJM]. An anterior part of the alimentary canal derived from the ectoderm[WP]." [Wikipedia:Foregut] comment: Editor notes: Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. We may explicitly make this a developmental class (as it appears to be in FMA) subset: developmental_classification ! developmental_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "praeenteron" RELATED LATIN [Wikipedia:Foregut] synonym: "proenteron" RELATED LATIN [Wikipedia:Foregut] xref: AAO:0011042 xref: BILA:0000085 xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 xref: FBbt:00005379 xref: FMA:45616 xref: MA:0001526 xref: SCTID:361409009 xref: TGMA:0001014 xref: UMLS:C0231051 xref: VHOG:0000285 xref: XAO:0000232 xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Gray27.png xref: ncithesaurus:Foregut is_a: UBERON:0004921 ! subdivision of digestive tract property_value: homology_notes "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001042 name: chordate pharynx namespace: uberon def: "Funnel-shaped fibromuscular tube that conducts food to the esophagus, and air to the larynyx and lungs. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH]. Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills[ZFA]." [Wikipedia:Pharynx] comment: Note that MA/FMA pharynx not part of digestive/alimentary system, we follow their lead here subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "pharynx" BROAD SENSU [FMA:46688] xref: AAO:0000967 xref: BTO:0001049 xref: EFO:0000836 xref: EHDAA2:0001458 xref: EHDAA:2947 xref: EMAPA:16706 xref: EMAPA:18838 xref: EV:0100065 xref: FMA:46688 xref: GAID:155 xref: MA:0000432 xref: MESH:A03.867 xref: OpenCyc:Mx4rvViv7ZwpEbGdrcN5Y29ycA xref: SCTID:181211006 xref: TAO:0000056 xref: UMLS:C0031354 xref: VHOG:0000462 xref: XAO:0003227 xref: ZFA:0000056 xref: galen:Pharynx xref: ncithesaurus:Pharynx is_a: UBERON:0006562 ! pharynx relationship: continuous_with UBERON:0001043 ! esophagus relationship: develops_from UBERON:0009145 ! pharyngeal region relationship: distally_connected_to UBERON:0001043 ! esophagus relationship: part_of UBERON:0001004 ! respiratory system property_value: axiom_lost_from_external_ontology "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: develops_from respiratory system (UBERON:0001004)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: part_of respiratory system (UBERON:0001004)[AAO]" xsd:string property_value: external_definition "Anatomical cavity bounded by the derivatives of the branchial arches.[AAO]" xsd:string property_value: external_definition "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "The portion of the alimentary canal between the mouth and the oesophagus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes " (...) the earliest vertebrates possessed unjointed internal and external branchial arches, and musculature encircling the pharynx.[well established][VHOG]" xsd:string [Term] id: UBERON:0001043 name: esophagus namespace: uberon def: "Tube that connects the pharynx to the stomach. In mammals, the oesophagus connects the buccal cavity with the stomach. The stratified squamous non-keratinised epithelium lining the buccal cavity is continued through the pharynx down into the oesophagus. The lowest part of the oesophagus (ca. 2 cm) is lined with gastric mucosa and covered by peritoneum. The main body of the oesophagus is lined with small, simple mucous glands. Each gland opens into the lumen by a long duct which pierces the muscularis mucosae (Wilson and Washington, 1989). A sphincter is situated at the point where the oesophagus enters the stomach to prevent gastro-oesophageal reflux, i.e. to prevent acidic gastric contents from reaching stratified epithelia of the oesophagus, where they can cause inflammation and irritation (Wilson and Washington, 1989; Brown et al., 1993)." [Wikipedia:Esophagus, http://www.rivm.nl/interspeciesinfo/inter/oesophagus/] comment: AO notes: esophagus NOT part of gut in MA. part of gut in ZFA. part_of gut (via UGIT) in FMA. Consider splitting. Interspecies: The human oesophagus is 25 cm long and has a diameter of ca. 2 cm. Only little information was found on the oesophagus in rat, rabbit and pig. The oesophagus of rat (75 x 2 mm) and rabbit has no mucous glands and the cardia of the stomach has a well-developed sphincter, which prevents them from vomiting (Hebel and Stromberg, 1988; Manning et al., 1994). Morphologically the oesophagus is similar in man and pig; both are omnivores and have a non-keratinised epithelium, submucous glands and similar membrane enzymes. Like in humans, pigs can suffer from reflux oesophagitis and stress ulceration of the oesophagus. The pig oesophagus may therefore be a good model for investigation compared to the human oesophagus (Christie et al., 1995) subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CBsophagus" RELATED LATIN [Wikipedia:Esophagus] synonym: "gullet" EXACT [] synonym: "oesophagus" EXACT [] xref: AAO:0000145 xref: ANISEED:1235301 xref: BTO:0000959 xref: EFO:0000835 xref: EHDAA2:0001285 xref: EHDAA:2937 xref: EMAPA:16833 xref: EMAPA:18860 xref: EV:0100069 xref: FMA:7131 xref: GAID:291 xref: MA:0000352 xref: MAT:0000048 xref: MESH:A03.365 xref: MIAA:0000048 xref: OpenCyc:Mx4rvVj9Q5wpEbGdrcN5Y29ycA xref: SCTID:181245004 xref: TAO:0000204 xref: UMLS:C0014876 xref: VHOG:0000450 xref: XAO:0000127 xref: ZFA:0000204 xref: galen:Esophagus xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Illu01_head_neck.jpg xref: ncithesaurus:Esophagus is_a: UBERON:0000062 ! organ is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0005178 ! thoracic cavity organ relationship: develops_from UBERON:0009143 ! developing esophageal region relationship: located_in UBERON:0002224 ! thoracic cavity relationship: proximally_connected_to UBERON:0001042 ! chordate pharynx property_value: external_definition "Anterior end of the alimentary canal lined with smooth muscle. Bounded anteriorly by a constriction in the pharynx. Bounded posteriorly by and increase in circular and/or longitudinal smooth muscle associated with the stomach.[AAO]" xsd:string property_value: has_relational_adjective "esophageal" xsd:string property_value: homology_notes "The few structural specializations in (adult lampreys) pharynx include complex valves on the external gill openings that direct the tidal flow, and the division of the ancestral pharynx into an oesophagus and a respiratory pharynx.[well established][VHOG]" xsd:string [Term] id: UBERON:0001044 name: salivary gland namespace: uberon def: "saliva-secreting exocrine glands of the oral cavity[GO]. The salivary glands in mammals are exocrine glands, glands with ducts, that produce saliva. They also secrete amylase, an enzyme that breaks down starch into maltose. In other organisms such as insects, salivary glands are often used to produce biologically important proteins like silk or glues, and fly salivary glands contain polytene chromosomes that have been useful in genetic research[WP]." [GO:0007431, Wikipedia:Salivary_gland] comment: currently we define saliva and salivary glands very generally in functional terms but it may be more appropriate to split this class. From WP: In most vertebrates, saliva does not contain any enzymes, consisting of mucus and water only, and its primary function is to moisten food while eating. As a result, true salivary glands are rarely found in fish or aquatic tetrapods, although there are often individual mucus-secreting cells. Amphibians have a single salivary gland, the intermaxillary gland, located in the forward part of the palate. Reptiles and birds normally have only very small glands on the lips, palate, and base of the mouth, although there are some birds with large glands, which produce a sticky saliva that helps in nest-building. The distinct parotid, submandibular, and sublingual glands are only developed in mammals.[3] The salivary glands of some species, however, are modified to produce enzymes; salivary amylase is found in many, but by no means all, bird and mammal species (including humans, as noted above). Furthermore, the venom glands of poisonous snakes, Gila monsters, and some shrews, are modified salivary glands subset: functional_classification ! functional_classification subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandulae salivariae" RELATED LATIN [Wikipedia:Salivary_gland] xref: BTO:0001203 xref: EFO:0000859 xref: EHDAA2:0001775 xref: EHDAA:7987 xref: EMAPA:17751 xref: EV:0100059 xref: FBbt:00005382 xref: FMA:9597 xref: GAID:937 xref: MA:0000346 xref: MAT:0000079 xref: MESH:A10.336.779 xref: MIAA:0000079 xref: OpenCyc:Mx4rvVjl5ZwpEbGdrcN5Y29ycA xref: SCTID:181236000 xref: UMLS:C0036098 xref: VHOG:0000376 xref: galen:SalivaryGland xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Illu_quiz_hn_02.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/51/Illu_quiz_hn_02.jpg/200px-Illu_quiz_hn_02.jpg xref: ncithesaurus:Salivary_Gland is_a: UBERON:0003294 ! gland of foregut is_a: UBERON:0010047 ! oral gland relationship: located_in UBERON:0000167 ! oral cavity relationship: part_of UBERON:0001041 ! foregut intersection_of: UBERON:0002530 ! gland intersection_of: secretes UBERON:0001836 ! saliva property_value: external_definition "A gland that produces the saliva. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-25, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes "In air-feeding animals, the lack of water column to lubricate the food has been compensated for by the evolution of the salivary glands. These glands are present only in amniotes and are controlled by the parasympathetic system.[well established][VHOG]" xsd:string [Term] id: UBERON:0001045 name: midgut namespace: uberon def: "Middle subdivision of a digestive tract[CJM]. In vertebrates: The middle part of the alimentary canal from the stomach, or entrance of the bile duct, to, or including, the large intestine[GO]. In humans: originates from the foregut at the opening of the bile duct into the duodenum and continues through the small intestine and much of the large intestine until the transition to the hindgut about two-thirds of the way through the transverse colon. That part of the alimentary canal which lies between the gizzard and the hind intestine." [GO:0007494, Wikipedia:Midgut] comment: Editor notes: Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. We may explicitly make this a developmental class. AO Notes: in FMA this class has no children. subset: developmental_classification ! developmental_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "mesenteron" RELATED LATIN [Wikipedia:Midgut] xref: BILA:0000086 xref: BTO:0000863 xref: EFO:0001950 xref: EHDAA2:0001185 xref: EHDAA:983 xref: EMAPA:16255 xref: FBbt:00005383 xref: FMA:45617 xref: MA:0001564 xref: SCTID:361410004 xref: TGMA:0001036 xref: UMLS:C0231052 xref: VHOG:0000290 xref: XAO:0000103 xref: http://upload.wikimedia.org/wikipedia/commons/3/3d/Illu_small_intestine.jpg xref: ncithesaurus:Midgut is_a: UBERON:0004921 ! subdivision of digestive tract relationship: proximally_connected_to UBERON:0001041 ! foregut property_value: homology_notes "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001046 name: hindgut namespace: uberon def: "Posterior subdivision of a digestive tract[CJM]." [Wikipedia:Hindgut] comment: Editor notes: Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future (vertebrates have some contribution from NC - UBERONREF:0000002). We may explicitly make this a developmental class. AO Notes: in FMA this class has no children. subset: developmental_classification ! developmental_classification subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "metenteron" RELATED LATIN [Wikipedia:Hindgut] xref: AAO:0011052 xref: BILA:0000087 xref: BTO:0000510 xref: EHDAA2:0000779 xref: EHDAA:975 xref: EMAPA:16715 xref: FBbt:00005384 xref: FMA:45618 xref: MA:0001527 xref: SCTID:362856002 xref: TGMA:0001020 xref: UMLS:C0231053 xref: VHOG:0000459 xref: XAO:0000104 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray472.png xref: ncithesaurus:Hindgut is_a: UBERON:0004921 ! subdivision of digestive tract relationship: develops_from UBERON:0003104 ! mesenchyme relationship: proximally_connected_to UBERON:0001045 ! midgut property_value: homology_notes "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001047 name: neural glomerulus namespace: uberon alt_id: UBERON:FBbt_00005386 def: "Large synaptic bouton found in areas like olfactory bulb, cerebellar cortex and thalamus, that contacts many post-synaptic targets[NIF]." [http://ccdb.ucsd.edu/SAO/images/glomerulus_sw_512x512.jpg, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] comment: isa or partof neuropil? TODO. Add to GO-CC? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glomerulus" BROAD [FBbt:00005386, NIF_Subcellular:sao587858733] xref: FBbt:00005386 xref: NIF_Subcellular:sao587858733 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray1130.svg/200px-Gray1130.svg.png is_a: UBERON:0002606 ! neuropil [Term] id: UBERON:0001048 name: primordium namespace: uberon def: "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt]. An embryonic structure that is the rudiment or commencement of a part or organ." [BTO:0001886, FB:DJS, FB:FBrf0089570, FB:FBrf0178740, Wikipedia:Primordium] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bud" RELATED [] synonym: "placode" RELATED [FBbt:00005495] synonym: "rudiment" RELATED [] xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 xref: FBbt:00005495 xref: FMA:86589 xref: MAT:0000482 xref: UMLS:C0678727 xref: XAO:0003043 xref: ncithesaurus:Primordium is_a: UBERON:0005423 ! developing anatomical structure [Term] id: UBERON:0001049 name: neural tube namespace: uberon def: "In the developing vertebrate, the neural tube is the embryo's precursor to the central nervous system, which comprises the brain and spinal cord. The neural groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or neural canal (which strictly speaking is the center of the neural tube), the ectodermal wall of which forms the rudiment of the nervous system. [WP,unvetted]." [Wikipedia:Neural_tube] comment: The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium[GO:0021915] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "presumptive central nervous system" RELATED [] synonym: "tubus neuralis" RELATED LATIN [Wikipedia:Neural_tube] xref: AAO:0010617 xref: BTO:0001057 xref: EHDAA2:0001254 xref: EHDAA:2869 xref: EHDAA:908 xref: EMAPA:16164 xref: EMAPA:16530 xref: EMAPA:16757 xref: MAT:0000069 xref: MIAA:0000069 xref: SCTID:362852000 xref: TAO:0001135 xref: UMLS:C0231024 xref: VHOG:0000307 xref: XAO:0003204 xref: ZFA:0001135 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Neural_Tube is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0002346 ! neurectoderm relationship: develops_from UBERON:0005068 ! neural rod relationship: develops_into UBERON:0001017 ! central nervous system relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001016 ! nervous system property_value: external_definition "Hollow epithelial tube on dorsal side of the embryo that develops into the central nervous system.[AAO]" xsd:string property_value: external_definition "The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001050 name: obsolete atrium namespace: uberon def: "Anatomical chamber. Examples: right atrium of heart, atrium of middle nasal meatus, atrium of tympanic cavity, atrium of alveolus." [FMA:85574] is_obsolete: true consider: FMA:85574 consider: UBERON:0002081 ! cardiac atrium comment: obsoleted because 'atrium' as a general grouping class that encompasses the cardiac atrium and atrium of alveolus atrium is of questionable value. Furthermore, the use of the term 'atrium' in the generic sense is misleading, as this is commonly used to refer specifically to the cardiac atrium [Term] id: UBERON:0001051 name: hypopharynx namespace: uberon def: "Bottom part of the pharynx, and is the part of the throat that connects to the esophagus." [Wikipedia:Hypopharynx] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "laryngeal pharynx" EXACT [FMA:54877] synonym: "laryngopharynx" EXACT [FMA:54877] synonym: "pars laryngea pharyngis" RELATED LATIN [BTO:0001740, Wikipedia:Hypopharynx] xref: BTO:0001740 xref: EFO:0001388 xref: EHDAA2:0004574 xref: EV:0100068 xref: FMA:54880 xref: GAID:338 xref: MA:0001796 xref: MESH:A03.867.490 xref: OpenCyc:Mx4rvq5O0JwpEbGdrcN5Y29ycA xref: SCTID:281490009 xref: UMLS:C0020629 xref: VHOG:0000445 xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Illu_pharynx.jpg xref: ncithesaurus:Hypopharynx is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: continuous_with UBERON:0013472 ! upper esophagus relationship: part_of UBERON:0001042 ! chordate pharynx property_value: external_definition "The inferior portion of the pharynx, between the epiglottis and the larynx. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "hypopharyngeal" xsd:string [Term] id: UBERON:0001052 name: rectum namespace: uberon def: "The terminal portion of the intestine." [Wikipedia:Rectum] comment: Taxon notes: In the lungfish, sharks and rays the rectum opens into the cloaca which also receives wastes (urine) from the kidneys and material from the reproductive organs. In bony fish the rectum reaches the outside environment through the anus, which is normally situated just in front the urinary and reproductive openings. However in some fish the digestive tract may be curled back on itself, and in the Electric Eel (Electrophorus electricus) the anus is situated in the fish's throat. -- http://www.earthlife.net/fish/digestion.html subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intestinum rectum" RELATED [BTO:0001158] synonym: "rectal sac" RELATED [] synonym: "terminal portion of intestine" EXACT [] synonym: "terminal portion of large intestine" RELATED [] xref: AAO:0010401 xref: BTO:0001158 xref: EFO:0000848 xref: EHDAA2:0001592 xref: EHDAA:5836 xref: EMAPA:17896 xref: EMAPA:18925 xref: EV:0100081 xref: FMA:14544 xref: GAID:311 xref: MA:0000336 xref: MAT:0000050 xref: MESH:A03.492.411.495.767 xref: MIAA:0000050 xref: OpenCyc:Mx4rvVjaU5wpEbGdrcN5Y29ycA xref: SCTID:181261002 xref: UMLS:C0034896 xref: VHOG:0000427 xref: VHOG:0001751 xref: XAO:0000238 xref: galen:Rectum xref: http://upload.wikimedia.org/wikipedia/commons/7/75/Anorectum.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/75/Anorectum.gif/200px-Anorectum.gif xref: ncithesaurus:Rectum is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004921 ! subdivision of digestive tract relationship: continuous_with UBERON:0001159 ! sigmoid colon relationship: distal_part_of UBERON:0000059 ! large intestine relationship: part_of UBERON:0000059 ! large intestine relationship: part_of UBERON:0006866 ! terminal part of digestive tract relationship: part_of UBERON:0012361 ! internal anal region property_value: external_definition "The terminal portion of the large intestine between the ileo-pelvic colon and the anus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: has_relational_adjective "rectal" xsd:string [Term] id: UBERON:0001053 name: neurohemal organ namespace: uberon def: "A system of neurons that has the specialized function to produce and secrete hormones, and that constitutes, in whole or in part, an endocrine organ or system." [BTO:0002106] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "neurohaemal organ" RELATED [] xref: BTO:0002106 xref: EFO:0000864 xref: FBbt:00005757 xref: MAT:0000212 xref: MIAA:0000212 is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0001054 name: Malpighian tubule namespace: uberon def: "The most important structure of the insect's excretory organ, which may comprise cystiform or labyrinthine highly versatile tubules having their outlet into the inital section of the rectum[FBbt]. Any of a group of long blind vessels opening into the posterior part of the alimentary canal in most insects and some other arthropods and functioning primarily as excretory organs[BTO]." [ISBN:3110148986, Wikipedia:Malpighian_tubule] comment: Editor note: this will be ceded to the Arthropod Anatomy Ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Malphigian tube" RELATED [BTO:0000810] synonym: "tuba Malpighii" RELATED [BTO:0000810] xref: BTO:0000810 xref: EFO:0000243 xref: FBbt:00001896 xref: FBbt:00005786 xref: GAID:1228 xref: MAT:0000123 xref: MESH:A13.574 xref: MIAA:0000123 xref: SCTID:41055008 xref: TADS:0000163 xref: TGMA:0001038 is_a: UBERON:0009773 ! renal tubule [Term] id: UBERON:0001055 name: obsolete ureter namespace: uberon def: "the tube that conducts the urine from the renal pelvis to the bladder." [MP:0000534] is_obsolete: true consider: UBERON:0000056 ! ureter consider: UBERON:0000057 ! urethra [Term] id: UBERON:0001056 name: corpus cardiacum namespace: uberon def: "One of a pair of neurohemal organs located on the walls of the aorta just behind the brain. The corpora cardiaca release their store of PTTH only after they receive a signal from neurosecretory cells in the brain." [BTO:0000432, http://en.wikipedia.org/wiki/Corpus_cardiacum#Endocrine_system] comment: will be ceded to arthropod anatomy ontology synonym: "corpora cardiaca" RELATED PLURAL [BTO:0000432] xref: BTO:0000432 xref: EFO:0000380 xref: FBbt:00005799 xref: MAT:0000211 xref: MIAA:0000211 is_a: UBERON:0002368 ! endocrine gland relationship: part_of UBERON:0012325 ! retrocerebral complex [Term] id: UBERON:0001057 name: corpus allatum namespace: uberon def: "One of a pair of separate or fused bodies in many insects that are sometimes closely associated with the corpora cardiaca and that secrete hormones (as juvenile hormone)[BTO]." [BTO:0000291, http://en.wikipedia.org/wiki/Corpora_allata] comment: will be ceded to arthropod anatomy ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpora allata" RELATED PLURAL [BTO:0000291] xref: BTO:0000291 xref: EFO:0000379 xref: FBbt:00005800 xref: MAT:0000210 xref: MESH:A08.713.100 xref: MIAA:0000210 is_a: UBERON:0002368 ! endocrine gland relationship: capable_of GO:0045443 ! juvenile hormone secretion relationship: part_of UBERON:0012325 ! retrocerebral complex [Term] id: UBERON:0001058 name: mushroom body namespace: uberon def: "Prominent lobed neuropils found in annelids and all arthropods except crustaceans. They are thought to be involved in olfactory associative learning and memory[MESH] Mushroom body neuropils are divided into calyces, pedunculus, and its subsequent lobes. In Drosophila these are the alpha, beta, and gamma lobes." [MESH:A13.641, Wikipedia:Mushroom_body, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] comment: Taxon notes: Also in annelids. \"Comparison to the verte- brate pallium reveals that the annelid mushroom bodies develop from similar molecular coordinates within a conserved overall molecular brain topology and that their development involves conserved patterning mechanisms and produces conserved neuron types that existed already in the proto- stome-deuterostome ancestors. These data indicate deep homology of pallium and mushroom bodies and date back the origin of higher brain centers to prebilaterian times\" [PMID:20813265] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpora pedunculata" EXACT [FBbt:00005801] synonym: "mushroom bodies" EXACT PLURAL [] xref: BTO:0002675 xref: EFO:0000925 xref: FBbt:00005801 xref: GAID:1231 xref: MAT:0000336 xref: MESH:A13.641 xref: MIAA:0000336 is_a: UBERON:0000045 ! ganglion is_a: UBERON:0003339 ! ganglion of central nervous system relationship: has_function_in GO:0007613 ! memory relationship: has_function_in GO:0008355 ! olfactory learning relationship: part_of UBERON:0000955 ! brain property_value: never_in_taxon NCBITaxon:6217 property_value: present_in_taxon NCBITaxon:6340 property_value: present_in_taxon NCBITaxon:6656 [Term] id: UBERON:0001059 name: pars intercerebralis namespace: uberon def: "a neurosecretory center of the insect brain, located along the anterior midline[wiktionary]. A medial cleft or depression dividing the left and right protocerebrum and containing numerous large and small somata of neurosecretory and neuromodulatory neurons[FBbt]." [http://en.wiktionary.org/wiki/pars_intercerebralis, http://flybrain.uni-freiburg.de/Flybrain/html/terms/terms.html] comment: will be ceded to arthropod anatomy ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EFO:0000926 xref: FBbt:00005802 xref: MAT:0000337 xref: MIAA:0000337 is_a: UBERON:0005162 ! multi cell component structure is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0001062 name: anatomical entity namespace: uberon def: "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." [CARO:MAH, FMA:62955] subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: AAO:0010841 xref: AEO:0000000 xref: BILA:0000000 xref: CARO:0000000 xref: EHDAA2:0002229 xref: FBbt:10000000 xref: FBbt_root:00000000 xref: FMA:62955 xref: HAO:0000000 xref: MA:0000001 xref: NIF_GrossAnatomy:birnlex_6 xref: TAO:0100000 xref: TGMA:0001822 xref: UMLS:C1515976 xref: ZFA:0100000 xref: ncithesaurus:Anatomic_Structure_System_or_Substance [Term] id: UBERON:0001063 name: flocculus namespace: uberon alt_id: UBERON:Flocculus-MA_0000992 def: "a small lobe of the cerebellum at the posterior border of the middle cerebellar peduncle anterior to the biventer lobule[WP]." [Wikipedia:Flocculus_(cerebellar)] comment: AO Notes: flocculus is an exact label for two distinct classes in NIF. Function notes: At its base, the flocculus receives input from the middle ears vestibular system and regulates balance. Many floccular projections descend to the spinal cord and connect to the motor nuclei involved in control of eye movement.[WP]. Taxon notes: enlarged in pterosaurs[PMID:14586467] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "H X" RELATED [FMA:83881] synonym: "flocculus of cerebellum" EXACT [FMA:83881] synonym: "hemispheric lobule X" RELATED INCONSISTENT [NIF_GrossAnatomy:nlx_anat_20081213] synonym: "lobule X" RELATED [FMA:83881] synonym: "neuraxis flocculus" EXACT [FMA:83881] xref: ABA:FL xref: FMA:83881 xref: MA:0000992 xref: NIF_GrossAnatomy:birnlex_1329 xref: SCTID:30711003 is_a: UBERON:0002749 ! regional part of cerebellar cortex relationship: part_of UBERON:0002245 ! hemisphere of cerebellum relationship: part_of UBERON:0003012 ! flocculonodular lobe property_value: spatially_disjoint_from UBERON:0005347 property_value: spatially_disjoint_from UBERON:0005348 property_value: spatially_disjoint_from UBERON:0005349 property_value: spatially_disjoint_from UBERON:0005350 property_value: spatially_disjoint_from UBERON:0005351 [Term] id: UBERON:0001064 name: ventral pancreatic duct namespace: uberon alt_id: UBERON:0005627 def: "a duct joining the pancreas to the common bile duct to supply pancreatic juices which aid in digestion provided by the exocrine pancreas. The pancreatic duct joins the common bile duct just prior to the ampulla of Vater, after which both ducts perforate the medial side of the second portion of the duodenum at the major duodenal papilla." [Wikipedia:Pancreatic_duct] comment: Development notes: Upon reaching its final destination, the ventral pancreatic bud fuses with the much larger dorsal pancreatic bud. At this point of fusion, the main ducts of the ventral and dorsal pancreatic buds fuse, forming the duct of Wirsung, the main pancreatic duct.[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "canal of Wirsung" RELATED [BTO:0002362] synonym: "chief pancreatic duct" EXACT [FMA:16003] synonym: "duct of Wirsung" EXACT [Wikipedia:Pancreatic_duct] synonym: "ductus pancreatis ventralis" RELATED [] synonym: "hepaticopancreatic duct" RELATED [BTO:0002362] synonym: "main pancreatic duct" EXACT [MA:0000126] synonym: "pancreatic duct" BROAD [MESH:A03.734.667] xref: BTO:0002362 xref: EHDAA2:0001396 xref: EHDAA:6905 xref: EMAPA:18821 xref: FMA:16003 xref: GAID:337 xref: MA:0000126 xref: MESH:A03.734.667 xref: RETIRED_EHDAA2:0002177 xref: SCTID:245385001 xref: UMLS:C0030288 xref: VHOG:0000256 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/15/Gray1100.png/200px-Gray1100.png xref: ncithesaurus:Pancreatic_Duct is_a: UBERON:0002394 ! bile duct is_a: UBERON:0007329 ! pancreatic duct relationship: channel_for UBERON:0001970 ! bile relationship: channels_into UBERON:0004913 ! hepatopancreatic ampulla relationship: continuous_with UBERON:0001174 ! common bile duct relationship: develops_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0000017 ! exocrine pancreas property_value: homology_notes "These data show that ducts within the zebrafish pancreas originally arise in situ from isolated progenitor cells rather than arising from reiterative branching of the pancreatic epithelium. This process of pancreatic duct formation in zebrafish may be analogous to the mechanism of duct formation in the mammalian mammary and salivary glands. (...) A related mechanism of duct formation has also been proposed to occur within the mammalian pancreatic epithelium.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001065 name: parotid duct namespace: uberon def: "The parotid duct, also known as Stensen's duct, is the route that saliva takes from the parotid gland into the mouth. It passes through the buccal fat, buccopharyngeal fascia, and buccinator muscle then opens into the vestibule of the mouth opposite the upper second molar tooth. The buccinator acts as a valve that prevents inflation of the duct during blowing. Running along with the duct superiorly is the transverse facial artery and upper buccal nerve; running along with the duct inferiorly is the lower buccal nerve. [WP,unvetted]." [Wikipedia:Parotid_duct] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Stensen's duct" EXACT [] synonym: "Stensens's duct" EXACT [] synonym: "duct of parotid" EXACT [OBOL:automatic] synonym: "duct of parotid gland" EXACT [] synonym: "ductus parotideus" RELATED LATIN [Wikipedia:Parotid_duct] synonym: "parotid gland duct" EXACT [OBOL:automatic] synonym: "stenon duct" EXACT [] xref: BTO:0004554 xref: FMA:10420 xref: MA:0002697 xref: SCTID:362175009 xref: UMLS:C0227458 xref: http://upload.wikimedia.org/wikipedia/commons/a/a1/Gray1023.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a1/Gray1023.png/200px-Gray1023.png xref: ncithesaurus:Parotid_Duct is_a: UBERON:0001837 ! duct of salivary gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: channels_from UBERON:0001831 ! parotid gland relationship: part_of UBERON:0001831 ! parotid gland intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001831 ! parotid gland [Term] id: UBERON:0001066 name: intervertebral disk namespace: uberon def: "A pad of fibrocartilage between the articular surfaces of two successive vertebral centra which has nucleus pulposus at its core." [ISBN10:0073040584, Wikipedia:Intervertebral_disk] comment: Taxon/Terminology notes: strictly speaking the term intervertebral disk [applies to intervertebral cartilage] whose gel-like core is nucleus puloposus, by this definition only in mammals subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "discus intervertebralis" EXACT LATIN [FMA:10446, FMA:TA] synonym: "intervertebral disc" EXACT [] synonym: "intervertebral fibrocartilage" RELATED [BTO:0003625] synonym: "spinal disc" EXACT [Wikipedia:Spinal_disc] synonym: "spinal disk" RELATED [BTO:0003625] xref: BTO:0003625 xref: EFO:0001370 xref: FMA:10446 xref: GAID:105 xref: MA:0000110 xref: MESH:A02.165.410 xref: OpenCyc:Mx4rv11AcpwpEbGdrcN5Y29ycA xref: SCTID:244570000 xref: UMLS:C0021815 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/92/Gray301.png/200px-Gray301.png xref: ncithesaurus:Intervertebral_Disc intersection_of: UBERON:0011135 ! intervertebral cartilage intersection_of: has_part UBERON:0002242 ! nucleus pulposus [Term] id: UBERON:0001067 name: vertebral arch joint namespace: uberon def: "a synovial joint between the superior articular process of one vertebra and the inferior articular process of the vertebra directly above it. There are two facet joints in each spinal motion segment[WP]." [Wikipedia:Zygapophysial_joint] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "articulationes zygapophysiales" RELATED LATIN [Wikipedia:Zygapophysial_joint] synonym: "facet joint" EXACT [] synonym: "joint of vertebral arch" EXACT [] synonym: "joint of vertebral articular process" EXACT [] synonym: "spinal facet joint" EXACT [HP:0008482] synonym: "zygapophyseal joint" EXACT [] synonym: "zygapophysial joint" EXACT [] xref: FMA:10447 xref: GAID:275 xref: MA:0001513 xref: MESH:A02.835.583.979 xref: OpenCyc:Mx4rvorHEpwpEbGdrcN5Y29ycA xref: SCTID:89836005 xref: UMLS:C0224521 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray90.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Gray90.png/200px-Gray90.png xref: ncithesaurus:Facet_Joint is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0003861 ! neural arch intersection_of: UBERON:0002217 ! synovial joint intersection_of: connects UBERON:0001079 ! superior articular process of vertebra intersection_of: connects UBERON:0001080 ! inferior articular process of vertebra [Term] id: UBERON:0001068 name: skin of back namespace: uberon def: "A zone of skin that is part of a back [Automatically generated definition]." [OBOL:automatic] comment: todo - distinguish between entire skin of region and arbitrary zone of skin on region synonym: "back skin" EXACT [] synonym: "back zone of skin" EXACT [OBOL:automatic] synonym: "skin, dorsal region" EXACT [UBERON:cjm] synonym: "zone of skin of back" EXACT [OBOL:automatic] xref: FMA:10462 xref: FMA:22985 xref: MA:0000498 xref: SCTID:181492002 is_a: UBERON:0001085 ! skin of trunk relationship: part_of UBERON:0011270 ! dorsal trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0001069 name: head of pancreas namespace: uberon def: "The head of pancreas is a portion of the pancreas that is lodged within the curve of the duodenum, and is flattened anteriorly (from before). The other parts of the pancreas are the body and the tail. Its upper border is overlapped by the superior part of the duodenum and its lower overlaps the horizontal part; its right and left borders overlap in front, and insinuate themselves behind, the descending and ascending parts of the duodenum respectively. [WP,unvetted]." [Wikipedia:Head_of_pancreas] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caput pancreatis" RELATED LATIN [Wikipedia:Head_of_pancreas] synonym: "pancreas head" EXACT [] synonym: "pancreatic head" EXACT [] synonym: "right extremity of pancreas" EXACT [] xref: EHDAA2:0001374 xref: EMAPA:17507 xref: EMAPA:18820 xref: FMA:10468 xref: MA:0000122 xref: SCTID:362201006 xref: UMLS:C0227579 xref: VHOG:0000448 xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Illu_pancreas_duodenum.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Illu_pancreas_duodenum.jpg/200px-Illu_pancreas_duodenum.jpg xref: ncithesaurus:Head_of_the_Pancreas is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0001264 ! pancreas property_value: homology_notes "Hagfish and lampreys may have one or more endocrine buds - and later the vertebrate pancreas develop as independent ventral and dorsal buds that eventually fuse to become one organ.[well established][VHOG]" xsd:string [Term] id: UBERON:0001070 name: external carotid artery namespace: uberon def: "In human anatomy, the external carotid artery is a major artery of the head and neck. It arises from the common carotid artery when it bifurcates into the external and internal carotid artery." [Wikipedia:External_carotid_artery, https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722] comment: Taxon notes: not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arteria carotis externa" RELATED LATIN [Wikipedia:External_carotid_artery] xref: AAO:0010416 xref: BTO:0004696 xref: EFO:0001953 xref: EHDAA2:0000461 xref: EMAPA:18611 xref: FMA:10635 xref: GAID:480 xref: MA:0001929 xref: MESH:A07.231.114.186.200.210 xref: OpenCyc:Mx4rwVJkPZwpEbGdrcN5Y29ycA xref: SCTID:362044002 xref: UMLS:C0007275 xref: VHOG:0000265 xref: XAO:0000345 xref: http://upload.wikimedia.org/wikipedia/commons/1/13/External_carotid_a.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/13/External_carotid_a.gif/200px-External_carotid_a.gif xref: ncithesaurus:External_Carotid_Artery is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0005396 ! carotid artery segment is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0001530 ! common carotid artery plus branches relationship: develops_from UBERON:0001530 ! common carotid artery plus branches relationship: develops_from UBERON:0004363 ! aortic arch relationship: part_of UBERON:0001530 ! common carotid artery plus branches [Term] id: UBERON:0001071 name: superficial cervical artery namespace: uberon def: "It ascends beneath the anterior margin of the trapezius, distributing branches to it, and to the neighboring muscles and lymph glands in the neck, and anastomosing with the superficial branch of the descending branch of the occipital artery. ." [Wikipedia:Superficial_branch_of_transverse_cervical_artery] comment: The transverse cervical artery splits into two branches, a superficial one and a deep one[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "superficial branch of transverse cervical artery" EXACT [Wikipedia:Superficial_branch_of_transverse_cervical_artery] xref: FMA:10665 xref: MA:0002052 xref: SCTID:161746006 xref: UMLS:C0226271 xref: Wikipedia:Superficial_branch_of_transverse_cervical_artery xref: ncithesaurus:Superficial_Cervical_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0012320 ! cervical artery relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0001072 name: inferior vena cava namespace: uberon def: "Trunk of systemic vein which is formed by the union of the right common iliac vein and the left common iliac vein and terminates in the right atrium." [Wikipedia:Inferior_vena_cava] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caudal vena cava" RELATED [VHOG:0001194] synonym: "posterior vena cava" EXACT [] synonym: "vena cava inferior" RELATED LATIN [BTO:0002682, Wikipedia:Inferior_vena_cava] xref: AAO:0011083 xref: BTO:0002682 xref: EHDAA2:0000611 xref: EMAPA:18416 xref: FMA:10951 xref: GAID:548 xref: MA:0000480 xref: MESH:A07.231.908.949.648 xref: SCTID:181369003 xref: UMLS:C0042458 xref: VHOG:0001194 xref: XAO:0000388 xref: galen:InferiorVenaCava xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray577.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray577.png/200px-Gray577.png xref: ncithesaurus:Inferior_Vena_Cava is_a: UBERON:0004087 ! vena cava relationship: develops_from UBERON:0005487 ! vitelline vein property_value: homology_notes "Phylogenetic modifications within this basic pattern of arteries and veins are largely correlated with functional changes. In the transition from water to land, gills gave way to lungs, accompanied by the establishment of a pulmonary circulation. In some fishes and certainly in tetrapods, the cardinal veins become less involved in blood return. Instead, the composite, prominent postcava (posterior vena cava) arose to drain the posterior part of the body and the precava (anterior vena cava) developed to drain the anterior part of the body.[well established][VHOG]" xsd:string [Term] id: UBERON:0001073 name: ileocecal junction namespace: uberon def: "A point along the course of the gastrointestinal tract where the small intestine (ileum) ends as it opens into the cecal portion of the large intestine; occurs usually within the iliac fossa, demarcated internally as the ileocecal orifice" [http://www.medilexicon.com/medicaldictionary.php?t=46539] comment: This class was created automatically from a combination of ontologies synonym: "ileocaecal junction" EXACT [] xref: FMA:11338 xref: MA:0000332 xref: SCTID:264021000 is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0000160 ! intestine intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0000059 ! large intestine intersection_of: connects UBERON:0002108 ! small intestine [Term] id: UBERON:0001074 name: pericardial cavity namespace: uberon def: "Cavity of serous sac surrounded by serous pericardium.[FMA]" [FMA:FMA, Wikipedia:Pericardial_cavity] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cavitas pericardiaca" RELATED LATIN [Wikipedia:Pericardial_cavity] synonym: "cavity of pericardial sac" EXACT [] synonym: "pericardial space" EXACT [Wikipedia:Pericardial_cavity] xref: EHDAA2:0001434 xref: EMAPA:18447 xref: EMAPA:18448 xref: FMA:11350 xref: MA:0000053 xref: SCTID:362027001 xref: TAO:0002220 xref: UMLS:C0225972 xref: VHOG:0000556 xref: ZFA:0001655 xref: galen:PericardialSpace xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png xref: ncithesaurus:Pericardial_Cavity is_a: UBERON:0002323 ! coelemic cavity lumen relationship: develops_from UBERON:0003887 ! intraembryonic coelom relationship: part_of UBERON:0002406 ! pericardial sac intersection_of: UBERON:0002323 ! coelemic cavity lumen intersection_of: part_of UBERON:0002406 ! pericardial sac intersection_of: surrounded_by UBERON:0002357 ! serous pericardium property_value: present_in_taxon NCBITaxon:7718 property_value: external_definition "Anatomical space in which the heart is located and is surrounded by the pericardium.[TAO]" xsd:string property_value: homology_notes "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001075 name: body of vertebra namespace: uberon def: "The body is the largest part of a vertebra, and is more or less cylindrical in shape. Its upper and lower surfaces are flattened and rough, and give attachment to the intervertebral fibrocartilages, and each presents a rim around its circumference. In front, the body is convex from side to side and concave from above downward. Behind, it is flat from above downward and slightly concave from side to side. Its anterior surface presents a few small apertures, for the passage of nutrient vessels. On the posterior surface is a single large, irregular aperture, or occasionally more than one, for the exit of the basi-vertebral veins from the body of the vertebra. [WP,unvetted]." [Wikipedia:Body_of_vertebra] comment: AO notes: VSAO definition states it surrounds notochord but not applicable to post-natal. Editor notes: vertebra classes required generalization for cartilage columns // todo - add subclasses: acoelus, amphicoelus, procoelus, opsithocoelus, heterocoelus; pleurocentrum, intercentrum; todo: add developmental relationships subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "autocentrum" EXACT [ZFA:0000126] synonym: "centra" EXACT PLURAL [PHENOSCAPE:ad] synonym: "centre vertcC)bral@fr" RELATED [TAO:0000126] synonym: "centrum" EXACT [] synonym: "centrum of vertebra" EXACT [] synonym: "corpus vertebrae" RELATED LATIN [Wikipedia:Body_of_vertebra] synonym: "corpus vertebrae (vertebrale)" EXACT [FMA:11945] synonym: "pcC)richorde@fr" RELATED [TAO:0000126] synonym: "vertebral body" EXACT [FMA:11945] synonym: "vertebral centrum" EXACT [MA:0001457] xref: AAO:0000697 xref: FMA:11945 xref: MA:0001457 xref: OpenCyc:Mx4rvXU4VpwpEbGdrcN5Y29ycA xref: SCTID:361745008 xref: SCTID:362867001 xref: TAO:0000126 xref: UMLS:C0223084 xref: VSAO:0000183 xref: ZFA:0000126 xref: http://upload.wikimedia.org/wikipedia/commons/6/63/Corpusvertebrae.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/63/Corpusvertebrae.png/200px-Corpusvertebrae.png xref: ncithesaurus:Vertebral_Body is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004765 ! skeletal element relationship: part_of UBERON:0002412 ! vertebra property_value: external_comment "The vertebral centrum may be cartilaginous, develop as cartilage but be replaced by bone or mineralized, or form directly through intramembranous ossification.[VSAO]" xsd:string property_value: external_definition "Centra are represented by mineralized, calcified, or ossified portions that surround the notochord. The autocentrum, present in Danio and all other living teleosts, is formed by direct ossification outside the elastica externa of the notochord (Arratia, 1999).[TAO]" xsd:string property_value: external_definition "Cylindrical body of bone, round or oval in cross section, which functionally replaces the notochord.[AAO]" xsd:string property_value: external_definition "Skeletal element that surrounds the notochord.[VSAO]" xsd:string [Term] id: UBERON:0001076 name: spinous process of vertebra namespace: uberon def: "The spinous process of a vertebra is directed backward and downward from the junction of the laminae (in humans), and serves for the attachment of muscles and ligaments. In animals without an erect stance, the process points upward and may slant forward or backward. Spinous processes are exaggerated in some animals, such as the extinct Dimetrodon and Spinosaurus, where they form a sail- or finback." [Wikipedia:Spinous_process] comment: Editor notes: todo - reconcile AAO def: \"Small, posteriorly directed process at the posterior margin of each neural arch lamina; it is not a neural spine.\" [AAO:0000739] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cC)pine neurale@fr" RELATED [TAO:0001336] synonym: "neuracanthe@fr" RELATED [TAO:0001336] synonym: "neural spine" RELATED [] synonym: "processus spinosus" EXACT [] synonym: "processus spinosus vertebrae" EXACT [] synonym: "spinous process" BROAD [] synonym: "vertebra spinous process" EXACT [] xref: AAO:0000705 xref: AAO:0000739 xref: EMAPA:25107 xref: FMA:11948 xref: MA:0001455 xref: SCTID:264259004 xref: TAO:0001336 xref: ZFA:0001336 xref: http://upload.wikimedia.org/wikipedia/commons/4/48/Processusspinosusvertebrae.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/48/Processusspinosusvertebrae.png/200px-Processusspinosusvertebrae.png is_a: UBERON:0006061 ! process of vertebra relationship: part_of UBERON:0003861 ! neural arch property_value: axiom_lost_from_external_ontology "relationship loss: part_of mid-dorsal keel (AAO:0000735)[AAO]" xsd:string property_value: external_definition "Elaboration of the mid-dorsal keel into a posterior or posterolateral process.[AAO]" xsd:string property_value: external_definition "Neural spines are extensions of neural arches dorsal to the neural canal in the median skeletogenous septum. Neural spines are typically unpaired median structures but can be paired in some instances, e.g., in the abdominal region of basal teleosts such as Leptolepis, Elops, Megalops, and Hiodon).[TAO]" xsd:string property_value: external_definition "Small, posteriorly directed process at the posterior margin of each neural arch lamina; it is not a neural spine.[AAO]" xsd:string [Term] id: UBERON:0001077 name: transverse process of vertebra namespace: uberon def: "The transverse or costal processes of a vertebra, two in number, project one at either side from the point where the lamina joins the pedicle, between the superior and inferior articular processes. They serve for the attachment of muscles and ligaments. [WP,unvetted]." [Wikipedia:Transverse_process] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "processus transversus" EXACT [] synonym: "processus transversus vertebrae" EXACT [] synonym: "transverse process" EXACT [] synonym: "vertebra transverse process" EXACT [] xref: AAO:0000698 xref: FMA:11949 xref: MA:0001456 xref: SCTID:264238006 xref: XAO:0003102 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a1/Processustransversusvertebrae.PNG/200px-Processustransversusvertebrae.PNG is_a: UBERON:0006061 ! process of vertebra [Term] id: UBERON:0001078 name: pedicle of vertebra namespace: uberon def: "The pedicles are two short, thick processes, which project backward, one on either side, from the upper part of the body, at the junction of its posterior and lateral surfaces. They connect the body of the spinal vertebra to the arch. [WP,unvetted]." [Wikipedia:Pedicle_of_vertebral_arch] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pedicle" BROAD [] synonym: "pedicle of vertebral arch" EXACT [FMA:11950] synonym: "pediculus arcus vertebrae" EXACT LATIN [FMA:TA] synonym: "pediculus arcus vertebrae, radix arcus vertebrae" RELATED LATIN [Wikipedia:Pedicle_of_vertebral_arch] synonym: "vertebral pedicle" EXACT [FMA:11950] xref: FMA:11950 xref: MA:0001458 xref: OpenCyc:Mx4rvYdjdJwpEbGdrcN5Y29ycA xref: SCTID:277422007 xref: UMLS:C0223080 xref: http://upload.wikimedia.org/wikipedia/commons/d/d0/Pediculusarcusvertebrae.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d0/Pediculusarcusvertebrae.png/200px-Pediculusarcusvertebrae.png xref: ncithesaurus:Pedicle_of_Vertebral_Arch is_a: UBERON:0006061 ! process of vertebra relationship: part_of UBERON:0002412 ! vertebra [Term] id: UBERON:0001079 name: superior articular process of vertebra namespace: uberon def: "Paired processes at the cephalic end of the neural arch. The articular facets of the prezygapophyses face dorsomedially and articulate with the lateroventrally facing facets of the postzygapophyses of the preceding vertebra." [AAO:Pugener_and_Maglia_2008] comment: TODO - add distinct classes for hemal vs neural? subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cranial articular process of vertebra" EXACT [] synonym: "neural prezygapophyses" RELATED PLURAL [TAO:0001325] synonym: "neural prezygapophysis" EXACT [ZFA:0001325] synonym: "neural prezygopophyses" EXACT [ZFA:0001325] synonym: "prezygapophysis" EXACT [] synonym: "processus articularis superior" EXACT [] synonym: "vertebra cranial articular process" EXACT [] xref: AAO:0000703 xref: FMA:11953 xref: MA:0001452 xref: SCTID:42424006 xref: TAO:0001325 xref: ZFA:0001325 xref: http://www.informatics.jax.org/cookbook/figures/figure20.shtml is_a: UBERON:0006062 ! articular process of vertebra property_value: external_definition "Paired, anteromedially directed processes from the neural arches, ligamentously joined to the postzygapophyses of the preceding vertebra.[TAO]" xsd:string [Term] id: UBERON:0001080 name: inferior articular process of vertebra namespace: uberon def: "Paired processes at the caudal end of the neural arch. The articular facets of the postzygapophyses face lateroventrally and articulate with the dorsomedially facing facets of the prezygapophyses of the succeeding vertebra." [AAO:LAP] comment: TODO - add distinct classes for hemal vs neural? subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caudal articular process of vertebra" EXACT [] synonym: "neural postzygapophyses" RELATED PLURAL [TAO:0000681] synonym: "neural postzygapophysis" NARROW [ZFA:0000681] synonym: "neural postzygopophyses" RELATED [TAO:0000681] synonym: "neural postzygopophysis" EXACT [ZFA:0000681] synonym: "postzygapophysis" EXACT [] synonym: "processus articularis inferior" EXACT [] synonym: "processus obliquus posterior" RELATED [AAO:0000702] synonym: "vertebra caudal articular process" EXACT [] xref: AAO:0000702 xref: FMA:11954 xref: MA:0001451 xref: SCTID:30079000 xref: TAO:0000681 xref: ZFA:0000681 is_a: UBERON:0006062 ! articular process of vertebra property_value: external_definition "Paired, dorsomedially directed processes on the posterior ends of the centra, ligamentously joined to the neural prezygapophyses of the immediately posterior vertebra.[TAO]" xsd:string [Term] id: UBERON:0001081 name: endocardium of ventricle namespace: uberon def: "Endocardium that is part of the cardiac ventricle." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac ventricle endocardium" EXACT [OBOL:automatic] synonym: "endocardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "endocardium of heart ventricle" EXACT [OBOL:automatic] synonym: "endocardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "endocardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart ventricle endocardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart endocardium" EXACT [OBOL:automatic] synonym: "ventricle endocardial tissue" RELATED [VHOG:0000607] synonym: "ventricle endocardium" EXACT [] synonym: "ventricle of heart endocardium" EXACT [OBOL:automatic] synonym: "ventricular endocardium" EXACT [] xref: FMA:12148 xref: MA:0000079 xref: SCTID:192172004 xref: TAO:0002247 xref: VHOG:0000607 xref: ZFA:0001615 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: part_of UBERON:0004784 ! heart ventricle wall intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle [Term] id: UBERON:0001082 name: epicardium of ventricle namespace: uberon def: "The external layer of the ventricle bounding the ventricular myocardium. It is formed by a single layer of mesothelial cells supported by a basal lamina, and imbricated with collagen, fibroblasts, and vascular structures in the subepicardial space. Hu et al. 2001.." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac ventricle epicardium" EXACT [OBOL:automatic] synonym: "cardiac ventricle heart epicardium" EXACT [OBOL:automatic] synonym: "cardiac ventricle visceral serous pericardium of heart" EXACT [OBOL:automatic] synonym: "epicardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "epicardium of heart ventricle" EXACT [OBOL:automatic] synonym: "epicardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "epicardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart epicardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "heart epicardium of heart ventricle" EXACT [OBOL:automatic] synonym: "heart epicardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "heart epicardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart ventricle epicardium" EXACT [OBOL:automatic] synonym: "heart ventricle heart epicardium" EXACT [OBOL:automatic] synonym: "heart ventricle visceral serous pericardium of heart" EXACT [OBOL:automatic] synonym: "lower chamber of heart epicardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart heart epicardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart visceral serous pericardium of heart" EXACT [OBOL:automatic] synonym: "ventricle of heart epicardium" EXACT [OBOL:automatic] synonym: "ventricle of heart heart epicardium" EXACT [OBOL:automatic] synonym: "ventricle of heart visceral serous pericardium of heart" EXACT [OBOL:automatic] synonym: "ventricular epicardium" EXACT [] synonym: "visceral serous pericardium of heart of cardiac ventricle" EXACT [OBOL:automatic] synonym: "visceral serous pericardium of heart of heart ventricle" EXACT [OBOL:automatic] synonym: "visceral serous pericardium of heart of lower chamber of heart" EXACT [OBOL:automatic] synonym: "visceral serous pericardium of heart of ventricle of heart" EXACT [OBOL:automatic] xref: FMA:12150 xref: TAO:0005058 xref: ZFA:0005058 is_a: UBERON:0002348 ! epicardium relationship: part_of UBERON:0002082 ! cardiac ventricle intersection_of: UBERON:0002348 ! epicardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle property_value: external_definition "The external layer of the ventricle bounding the ventricular myocardium. It is formed by a single layer of mesothelial cells supported by a basal lamina, and imbricated with collagen, fibroblasts, and vascular structures in the subepicardial space. Hu et al. 2001.[TAO]" xsd:string [Term] id: UBERON:0001083 name: myocardium of ventricle namespace: uberon def: "Muscular layer of the cardiac ventricle composed of a compact myocardial layer surrounding the trabecular layer." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac muscle of cardiac ventricle" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart ventricle" EXACT [OBOL:automatic] synonym: "cardiac muscle of lower chamber of heart" EXACT [OBOL:automatic] synonym: "cardiac muscle of ventricle of heart" EXACT [OBOL:automatic] synonym: "cardiac ventricle cardiac muscle" EXACT [OBOL:automatic] synonym: "cardiac ventricle heart muscle" EXACT [OBOL:automatic] synonym: "cardiac ventricle heart myocardium" EXACT [OBOL:automatic] synonym: "cardiac ventricle muscle of heart" EXACT [OBOL:automatic] synonym: "cardiac ventricle myocardium" EXACT [OBOL:automatic] synonym: "heart muscle of cardiac ventricle" EXACT [OBOL:automatic] synonym: "heart muscle of heart ventricle" EXACT [OBOL:automatic] synonym: "heart muscle of lower chamber of heart" EXACT [OBOL:automatic] synonym: "heart muscle of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart myocardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "heart myocardium of heart ventricle" EXACT [OBOL:automatic] synonym: "heart myocardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "heart myocardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart ventricle cardiac muscle" EXACT [OBOL:automatic] synonym: "heart ventricle heart muscle" EXACT [OBOL:automatic] synonym: "heart ventricle heart myocardium" EXACT [OBOL:automatic] synonym: "heart ventricle muscle of heart" EXACT [OBOL:automatic] synonym: "heart ventricle myocardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart cardiac muscle" EXACT [OBOL:automatic] synonym: "lower chamber of heart heart muscle" EXACT [OBOL:automatic] synonym: "lower chamber of heart heart myocardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart muscle of heart" EXACT [OBOL:automatic] synonym: "lower chamber of heart myocardium" EXACT [OBOL:automatic] synonym: "muscle of heart of cardiac ventricle" EXACT [OBOL:automatic] synonym: "muscle of heart of heart ventricle" EXACT [OBOL:automatic] synonym: "muscle of heart of lower chamber of heart" EXACT [OBOL:automatic] synonym: "muscle of heart of ventricle of heart" EXACT [OBOL:automatic] synonym: "myocardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "myocardium of heart ventricle" EXACT [OBOL:automatic] synonym: "myocardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "myocardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "ventricle cardiac muscle" RELATED [VHOG:0000604] synonym: "ventricle myocardium" EXACT [] synonym: "ventricle of heart cardiac muscle" EXACT [OBOL:automatic] synonym: "ventricle of heart heart muscle" EXACT [OBOL:automatic] synonym: "ventricle of heart heart myocardium" EXACT [OBOL:automatic] synonym: "ventricle of heart muscle of heart" EXACT [OBOL:automatic] synonym: "ventricle of heart myocardium" EXACT [OBOL:automatic] synonym: "ventricular myocardium" EXACT [] xref: EFO:0003088 xref: FMA:12151 xref: MA:0000082 xref: SCTID:192084000 xref: TAO:0005061 xref: VHOG:0000604 xref: ZFA:0005061 relationship: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0004784 ! heart ventricle wall intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle property_value: external_definition "Muscular layer of the cardiac ventricle composed of a compact myocardial layer surrounding the trabecular layer Hu et al. 2001.[TAO]" xsd:string property_value: homology_notes "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001084 name: skin of head namespace: uberon def: "A zone of skin that is part of a head [Automatically generated definition]." [OBOL:automatic] comment: todo - distinguish between entire skin of region and arbitrary zone of skin on region synonym: "adult head zone of skin" EXACT [OBOL:automatic] synonym: "head skin" EXACT [] synonym: "head zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of adult head" EXACT [OBOL:automatic] synonym: "zone of skin of head" EXACT [OBOL:automatic] xref: FMA:12166 xref: FMA:24756 xref: MA:0000582 xref: SCTID:181484006 xref: UMLS:C0205029 xref: ncithesaurus:Head_Skin is_a: UBERON:0000014 ! zone of skin is_a: UBERON:0012180 ! head or neck skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0001085 name: skin of trunk namespace: uberon def: "A zone of skin that is part of a trunk [Automatically generated definition]." [OBOL:automatic] comment: todo - distinguish between entire skin of region and arbitrary zone of skin on region synonym: "torso zone of skin" EXACT [OBOL:automatic] synonym: "trunk skin" EXACT [] synonym: "trunk zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of torso" EXACT [OBOL:automatic] synonym: "zone of skin of trunk" EXACT [OBOL:automatic] xref: FMA:12167 xref: FMA:23093 xref: MA:0000517 xref: SCTID:181489001 xref: UMLS:C0205031 xref: ncithesaurus:Skin_of_the_Trunk is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0001086 name: obsolete articular cartilage namespace: uberon is_obsolete: true consider: UBERON:0010996 ! articular cartilage of joint consider: UBERON:0011002 ! articular cartilage condensation comment: obsoleted as it conflated two distinct classes [Term] id: UBERON:0001087 name: pleural fluid namespace: uberon def: "Transudate contained in the pleural cavity.[FMA]" [FMA:FMA, Wikipedia:Pleural_fluid] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0003080 xref: FMA:12273 xref: MA:0002532 xref: MAT:0000500 xref: ncithesaurus:Pleural_Fluid is_a: UBERON:0007794 ! serous fluid intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: located_in UBERON:0002402 ! pleural cavity [Term] id: UBERON:0001088 name: urine namespace: uberon def: "Excretion in liquid state processed by the kidney.[FMA]" [FMA:FMA, Wikipedia:Urine] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001419 xref: EFO:0001939 xref: ENVO:00002047 xref: FMA:12274 xref: GAID:1189 xref: MA:0002545 xref: MAT:0000058 xref: MESH:A12.207.927 xref: MIAA:0000058 xref: OpenCyc:Mx4rvVjGppwpEbGdrcN5Y29ycA xref: UMLS:C0042036 xref: galen:Urine xref: ncithesaurus:Urine is_a: UBERON:0000174 ! excreta [Term] id: UBERON:0001089 name: sweat namespace: uberon def: "Secretion produced by a sweat gland.[FMA]" [FMA:FMA, Wikipedia:Sweat] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "skin exudate" RELATED [BTO:0001254] xref: BTO:0001254 xref: ENVO:02000025 xref: FMA:12275 xref: GAID:1172 xref: MA:0002539 xref: MESH:A12.200.849 xref: OpenCyc:Mx4rvVjJtZwpEbGdrcN5Y29ycA xref: UMLS:C0038984 xref: ncithesaurus:Sweat is_a: UBERON:0000456 ! bodily secretion [Term] id: UBERON:0001090 name: synovial fluid namespace: uberon def: "Transudate contained in the synovial cavity of joints, and in the cavity of tendon sheaths and bursae.[FMA]" [FMA:FMA, Wikipedia:Synovial_fluid] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "joint fluid" EXACT [] xref: BTO:0001339 xref: ENVO:02000039 xref: FMA:12277 xref: GAID:265 xref: MA:0002544 xref: MESH:A02.835.583.443.800.800 xref: TAO:0005154 xref: UMLS:C0039097 xref: ZFA:0005154 xref: galen:SynovialFluid xref: ncithesaurus:Synovial_Fluid is_a: UBERON:0007794 ! serous fluid intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: located_in UBERON:0007617 ! synovial cavity of joint property_value: external_definition "Portion of organism substance that is a clear fluid that occupies the space in synovial joints.[TAO]" xsd:string [Term] id: UBERON:0001091 name: calcareous tooth namespace: uberon def: "Organ with a cavity which consist of dentine surrounded by enamel. Examples: incisor, molar." [FMA:12516, Wikipedia:Tooth, Wikipedia:Tooth_(animal)] comment: Editors note: we place ZFA ctb 5 tooth here for now. Consider changing name from calcaeous tooth. Note that sea cucumbers develop calcareous tooth-like structures subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dentine containing tooth" EXACT [] synonym: "tooth" EXACT [] synonym: "vertebrate tooth" EXACT [] xref: AEO:0000220 xref: BTO:0000397 xref: EFO:0000839 xref: EHDAA2:0004605 xref: EV:0100063 xref: FMA:12516 xref: GAID:1260 xref: MA:0000348 xref: MAT:0000041 xref: MESH:A14.254.860 xref: MIAA:0000041 xref: OpenCyc:Mx4rvVjUEZwpEbGdrcN5Y29ycA xref: SCTID:302214001 xref: TAO:0001625 xref: UMLS:C0040426 xref: VHOG:0000127 xref: VHOG:0001733 xref: XAO:0000431 xref: ZFA:0000694 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/14/Teeth_by_David_Shankbone.jpg/200px-Teeth_by_David_Shankbone.jpg xref: ncithesaurus:Tooth is_a: UBERON:0003913 ! tooth-like structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0005087 ! tooth placode relationship: has_developmental_contribution_from UBERON:0000930 ! stomodeum relationship: has_developmental_contribution_from UBERON:0005176 ! tooth enamel organ relationship: has_part UBERON:0001751 ! dentine property_value: never_in_taxon NCBITaxon:8782 property_value: has_relational_adjective "dental" xsd:string property_value: homology_notes "The ancestor of recent vertebrate teeth was a tooth-like structure on the outer body surface of jawless fishes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001092 name: cervical vertebra 1 namespace: uberon def: "." [Wikipedia:Atlas_(anatomy)] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "C1" BROAD [] synonym: "C1 vertebra" EXACT [] synonym: "atlas" EXACT [] synonym: "atlas (CI)" EXACT [] synonym: "atlas vertebra" EXACT [] synonym: "cervical atlas" EXACT [MP:0011576] synonym: "first cervical vertebra" EXACT [] synonym: "vertebra 1" EXACT [TAO:0001167] xref: AAO:0000709 xref: EHDAA:10606 xref: FMA:12519 xref: GAID:236 xref: MA:0001421 xref: MESH:A02.835.232.834.151.213 xref: SCTID:181818007 xref: TAO:0001167 xref: UMLS:C0004170 xref: ZFA:0001167 xref: ncithesaurus:C1_Vertebra is_a: UBERON:0002413 ! cervical vertebra relationship: anterior_to UBERON:0001093 ! cervical vertebra 2 property_value: external_definition "First postcranial vertebra, which is modified anteriorly to articulate with the skull.[AAO]" xsd:string property_value: external_definition "Vertebra that is posteriorly adjacent to the neurocranium.[TAO]" xsd:string property_value: vertebra_number "1" xsd:nonNegativeInteger [Term] id: UBERON:0001093 name: cervical vertebra 2 namespace: uberon def: "second cervical vertebra (C2) of the spine." [Wikipedia:Axis_(anatomy)] comment: note: not the same as ZFA term 'axis' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "C2" BROAD [] synonym: "C2 vertebra" EXACT [] synonym: "axis" RELATED INCONSISTENT [MA:0001422] synonym: "axis (CII)" EXACT [] synonym: "axis vertebra" EXACT [] synonym: "cervical axis" EXACT [MP:0004608] synonym: "cervical vertebra 2" EXACT [MA:0001422] synonym: "second cervical vertebra" EXACT [] synonym: "vertebra 2" EXACT [ZFA:0001168] xref: EHDAA:10608 xref: FMA:12520 xref: GAID:237 xref: MA:0001422 xref: MESH:A02.835.232.834.151.383 xref: OpenCyc:Mx4rv-zaJJwpEbGdrcN5Y29ycA xref: SCTID:181819004 xref: TAO:0001168 xref: UMLS:C0004457 xref: ZFA:0001168 xref: ncithesaurus:C2_Vertebra is_a: UBERON:0002413 ! cervical vertebra relationship: anteriorly_connected_to UBERON:0001092 ! cervical vertebra 1 property_value: external_definition "Vertebra that is posteriorly adjacent to vertebra 1.[TAO]" xsd:string property_value: vertebra_number "2" xsd:nonNegativeInteger [Term] id: UBERON:0001094 name: sacral vertebra namespace: uberon def: "A vertebra that is part of a sacral region of vertebral column." [OBOL:automatic] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sacral segment" EXACT [] synonym: "segment of sacrum" EXACT [] xref: EMAPA:18336 xref: FMA:12526 xref: MA:0000313 xref: OpenCyc:Mx4rv-ZsXpwpEbGdrcN5Y29ycA xref: SCTID:361773005 xref: UMLS:C1261045 xref: XAO:0003078 xref: galen:SacralVertebra xref: ncithesaurus:Sacral_Vertebra is_a: UBERON:0003828 ! abdominal segment bone is_a: UBERON:0004247 ! back bone is_a: UBERON:0005179 ! pelvis organ relationship: develops_from UBERON:0010745 ! sacral vertebra cartilage condensation intersection_of: UBERON:0002412 ! vertebra intersection_of: part_of UBERON:0006075 ! sacral region of vertebral column [Term] id: UBERON:0001095 name: caudal vertebra namespace: uberon def: "bones in the tails or coccyx of mammals. In zebrafish: Vertebra bearing a hemal arch and spine. The most posterior caudal vertebrae support the caudal fin and are referred to as preural vertebrae." [Wikipedia:Caudal_vertebra, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caudal vertebrae" EXACT PLURAL [] synonym: "tail vertebra" RELATED [MA:0000310] xref: EMAPA:18374 xref: MA:0000310 xref: OpenCyc:Mx4rv9IEzZwpEbGdrcN5Y29ycA xref: TAO:0000326 xref: XAO:0003079 xref: ZFA:0000326 is_a: UBERON:0004247 ! back bone intersection_of: UBERON:0002412 ! vertebra intersection_of: part_of UBERON:0006076 ! caudal region of vertebral column property_value: external_definition "Vertebrae bearing a hemal arch and spine. The most posterior caudal vertebrae support the caudal fin and are referred to as preural vertebrae.[TAO]" xsd:string [Term] id: UBERON:0001096 name: wall of esophagus namespace: uberon def: "An anatomical wall that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "anatomical wall of esophagus" EXACT [OBOL:automatic] synonym: "anatomical wall of gullet" EXACT [OBOL:automatic] synonym: "anatomical wall of oesophagus" EXACT [OBOL:automatic] synonym: "esophageal wall" EXACT [] synonym: "esophagus anatomical wall" EXACT [OBOL:automatic] synonym: "esophagus wall" EXACT [] synonym: "gullet anatomical wall" EXACT [OBOL:automatic] synonym: "gullet wall" EXACT [OBOL:automatic] synonym: "oesophagus anatomical wall" EXACT [OBOL:automatic] synonym: "oesophagus wall" EXACT [OBOL:automatic] synonym: "wall of gullet" EXACT [OBOL:automatic] synonym: "wall of oesophagus" EXACT [OBOL:automatic] xref: FMA:12611 xref: MA:0002691 is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001043 ! esophagus intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0001097 name: axillary lymph node namespace: uberon def: "The Axillary lymph nodes are of large size, vary from twenty to thirty in number, and may be arranged in the following groups: brachial lymph nodes (or 'lateral') pectoral axillary lymph nodes (or 'anterior') subscapular axillary lymph nodes (or 'posterior') central lymph nodes apical lymph nodes (or 'medial' or 'subclavicular') [WP,unvetted]." [Wikipedia:Axillary_lymph_node, Wikipedia:Axillary_lymph_nodes] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "axillary node" EXACT [] synonym: "nodi lymphoidei axillares" RELATED LATIN [Wikipedia:Axillary_lymph_nodes] xref: FMA:12771 xref: MA:0000735 xref: SCTID:181759007 xref: UMLS:C0729594 xref: http://upload.wikimedia.org/wikipedia/commons/7/73/Gray607.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/73/Gray607.png/200px-Gray607.png xref: ncithesaurus:Axillary_Lymph_Node is_a: UBERON:0003968 ! peripheral lymph node relationship: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0001098 name: incisor tooth namespace: uberon def: "Incisors are the first kind of tooth in heterodont mammals. They are located in the premaxilla above and mandible below. [WP,unvetted]." [Wikipedia:Incisor_tooth] comment: Humans normally have eight (8) incisors; Among other animals, some other primates, cats and horses have twelve. Rodents have four, while Foxes have nine. Rabbits and hares (lagomorphs) were once considered rodents, but are distinguished by having eight b one small pair, called 'peg teeth', is located directly behind the most anterior pair. Incisors are used to bite off tough foods, such as red meat subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "incisor" EXACT [MA:0000349] xref: BTO:0001741 xref: EHDAA:8011 xref: EHDAA:8047 xref: FMA:12823 xref: GAID:1263 xref: MA:0000349 xref: MESH:A14.254.860.425 xref: OpenCyc:Mx4rwP1ch5wpEbGdrcN5Y29ycA xref: SCTID:420856006 xref: UMLS:C0021156 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4c/Gray997.png/200px-Gray997.png xref: ncithesaurus:Incisor is_a: UBERON:0001091 ! calcareous tooth is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0003672 ! dentition disjoint_from: UBERON:0003655 ! molar tooth disjoint_from: UBERON:0003674 ! cuspid disjoint_from: UBERON:0007120 ! premolar tooth [Term] id: UBERON:0001099 name: subcostal vein namespace: uberon def: "The subcostal vein is a vein in the human body that runs along the bottom of the twelfth rib. It has the same essential qualities as the posterior intercostal veins, except that it cannot be considered intercostal because it is not between two ribs. Each subcostal vein gives off a posterior (dorsal) branch which has a similar distribution to the posterior ramus of an intercostal artery. [WP,unvetted]." [Wikipedia:Subcostal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "vena subcostalis" RELATED LATIN [Wikipedia:Subcostal_vein] xref: FMA:12845 xref: MA:0002222 xref: SCTID:25248001 xref: UMLS:C0226653 xref: ncithesaurus:Subcostal_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0001100 name: pectoralis minor namespace: uberon def: "The Pectoralis minor is a thin, triangular muscle, situated at the upper part of the chest, beneath the Pectoralis major. [WP,unvetted]." [Wikipedia:Pectoralis_minor_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus pectoralis minor" RELATED LATIN [Wikipedia:Pectoralis_minor_muscle] synonym: "pectoralis minor muscle" EXACT [] synonym: "supracoracoideus" NARROW SENSU [] synonym: "supracoracoideus muscle" NARROW SENSU [] xref: EHDAA2:0001425 xref: EHDAA:8313 xref: EMAPA:18180 xref: FMA:13109 xref: MA:0002355 xref: SCTID:181625002 xref: UMLS:C0224347 xref: VHOG:0000902 xref: http://upload.wikimedia.org/wikipedia/commons/5/5d/Pectoralis_minor.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Pectoralis_minor.png/200px-Pectoralis_minor.png xref: ncithesaurus:Pectoralis_Minor is_a: UBERON:0001495 ! pectoral muscle relationship: has_muscle_insertion UBERON:0007174 ! medial border of scapula relationship: has_muscle_origin UBERON:0002228 ! rib [Term] id: UBERON:0001101 name: external jugular vein namespace: uberon def: "The external jugular vein receives the greater part of the blood from the exterior of the cranium and the deep parts of the face, being formed by the junction of the posterior division of the posterior facial with the posterior auricular vein. [WP,unvetted]." [Wikipedia:External_jugular_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "external jugular" RELATED [EHDAA2:0000468] synonym: "external jugular venous tree" EXACT [] synonym: "vena jugularis externa" RELATED LATIN [Wikipedia:External_jugular_vein] xref: AAO:0010508 xref: EHDAA2:0000468 xref: EHDAA:9887 xref: EMAPA:17875 xref: FMA:13110 xref: MA:0002156 xref: OpenCyc:Mx4rvrm0c5wpEbGdrcN5Y29ycA xref: SCTID:181373000 xref: UMLS:C0226543 xref: XAO:0000379 xref: galen:ExternalJugularVein xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:External_Jugular_Vein is_a: UBERON:0004711 ! jugular vein relationship: tributary_of UBERON:0001587 ! subclavian vein property_value: external_definition "Vein which collects blood from the muscles of the head and tongue and the thyroid gland.[AAO]" xsd:string [Term] id: UBERON:0001102 name: cartilage of main bronchus namespace: uberon def: "A cartilage that is part of a main bronchus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchus principalis cartilage" EXACT [OBOL:automatic] synonym: "cartilage of bronchus principalis" EXACT [OBOL:automatic] synonym: "cartilage of primary bronchus" EXACT [OBOL:automatic] synonym: "cartilage of principal bronchus" EXACT [OBOL:automatic] synonym: "cartilaginous ring of main bronchus" EXACT [EMAPA:19092] synonym: "main bronchial cartilage" EXACT [] synonym: "main bronchus cartilage" EXACT [] synonym: "primary bronchus cartilage" EXACT [OBOL:automatic] synonym: "principal bronchus cartilage" EXACT [OBOL:automatic] xref: EMAPA:19092 xref: FMA:13117 xref: MA:0001846 is_a: UBERON:0001956 ! cartilage of bronchus is_a: UBERON:0003590 ! main bronchus connective tissue relationship: part_of UBERON:0002182 ! main bronchus intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0001103 name: diaphragm namespace: uberon def: "The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs[GO]." [GO:0060539, Wikipedia:Thoracid_diaphragm] comment: The existence of some membrane separating the pharynx from the stomach can be traced widely among the chordates. Thus amphioxus possesses an atrium by which water exits the pharynx, which has been argued (and disputed) to be homologous to structures in ascidians and hagfishes.[3] The urochordate epicardium separates digestive organs from the pharynx and heart, but the anus returns to the upper compartment to discharge wastes through an outgoing siphon (Thoracic_diaphragm#Comparative_anatomy_and_evolution) subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "diaphragm muscle" EXACT [BTO:0000341] synonym: "midriff" RELATED [BTO:0000341] synonym: "phren" RELATED [BTO:0000341] synonym: "thoracic diaphragm" EXACT [] xref: BTO:0000341 xref: EFO:0000937 xref: EHDAA2:0003495 xref: EMAPA:17701 xref: EV:0100376 xref: FMA:13295 xref: GAID:158 xref: MA:0001904 xref: MAT:0000502 xref: MESH:A02.633.567.900.300 xref: OpenCyc:Mx4rvVivz5wpEbGdrcN5Y29ycA xref: SCTID:181614006 xref: UMLS:C0011980 xref: VHOG:0000713 xref: ncithesaurus:Diaphragm is_a: UBERON:0001134 ! skeletal muscle tissue is_a: UBERON:0002426 ! chest muscle is_a: UBERON:0003831 ! respiratory system muscle is_a: UBERON:0003898 ! skeletal muscle of trunk is_a: UBERON:0004830 ! respiratory system skeletal muscle relationship: immediate_transformation_of UBERON:0010084 ! future diaphragm relationship: part_of UBERON:0001004 ! respiratory system property_value: never_in_taxon NCBITaxon:8782 property_value: external_definition "A musculomembranous partition separating the abdominal and thoraic cavities and functioning in respiration. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "phrenic" xsd:string property_value: homology_notes "The mammals are characterized by a diaphragm, which separates the thoracic portion of the body cavity from the abdominal region and assists in drawing air into the lungs and forcing it out. Modern reptiles lack a muscular diaphragm and it is reasonable to suppose that the diaphragm developed as a new device that made possible a large degree of oxygen intake for active animals. The change may have taken place during the transition from reptile to mammal (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001104 name: anterior jugular vein namespace: uberon def: "The anterior jugular vein begins near the hyoid bone by the confluence of several superficial veins from the submaxillary region. It descends between the median line and the anterior border of the Sternocleidomastoideus, and, at the lower part of the neck, passes beneath that muscle to open into the termination of the external jugular, or, in some instances, into the subclavian vein. It varies considerably in size, bearing usually an inverse proportion to the external jugular; most frequently there are two anterior jugulars, a right and left; but sometimes only one. Its tributaries are some laryngeal veins, and occasionally a small thyroid vein. Just above the sternum the two anterior jugular veins communicate by a transverse trunk, the venous jugular arch, which receive tributaries from the inferior thyroid veins; each also communicates with the internal jugular. There are no valves in this vein. [WP,unvetted]." [Wikipedia:Anterior_jugular_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior external jugular vein" EXACT [] synonym: "vena jugularis anterior" RELATED LATIN [Wikipedia:Anterior_jugular_vein] xref: FMA:13318 xref: MA:0002155 xref: SCTID:65478008 xref: UMLS:C0226545 xref: http://upload.wikimedia.org/wikipedia/commons/f/f8/Gray558.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f8/Gray558.png/200px-Gray558.png xref: ncithesaurus:Anterior_Jugular_Vein is_a: UBERON:0004711 ! jugular vein relationship: tributary_of UBERON:0001587 ! subclavian vein [Term] id: UBERON:0001105 name: clavicle namespace: uberon def: "A paired dermal or endochondral bone that is part of the pectoral girdle. The clavicle may be in contact with the interclavicle or coracoid and forms an attachment site for pectoral musculature. [PHENOSCAPE:ad]." [PHENOSCAPE:ad, Wikipedia:Clavicle] comment: Taxon notes: The clavicle first appears as part of the skeleton in primitive bony fish, where it is associated with the pectoral fin; they also have a bone called the cleithrum. In such fish, the paired clavicles run behind and below the gills on each side, and are joined by a solid symphysis on the fish's underside. They are, however, absent in cartilagenous fish and in the vast majority of living bony fish, including all of the teleosts[ISBN 0-03-910284-X] AO Notes: FMA and MA differ in whether they consider this part of the shoulder. Development notes: In most birds and mammals the clavicles are the only dermal elements in the trunk, and is the only membrane bone associated with the pectoral girdle in these taxa. However, there can be secondary cartilage, or subsequent endochondral ossification, or fusion with endochondral elements. In rodents, the lateral ends of the clavicle are endochondral but the main portion is dermal.[ISBN:978-0-12-319060-4] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "clavicle bone" EXACT [VSAO:0005031] synonym: "clavicula" EXACT [VSAO:0005031] synonym: "collar bone" EXACT [] xref: AAO:0000761 xref: EMAPA:18721 xref: FMA:13321 xref: GAID:182 xref: MA:0001329 xref: MESH:A02.835.232.087.227 xref: OpenCyc:Mx4rvVjijZwpEbGdrcN5Y29ycA xref: SCTID:181910004 xref: UMLS:C0008913 xref: VHOG:0000849 xref: VSAO:0005031 xref: galen:Clavicle xref: http://upload.wikimedia.org/wikipedia/commons/5/59/Pectoral_girdles-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/59/Pectoral_girdles-en.svg/200px-Pectoral_girdles-en.svg.png xref: ncithesaurus:Clavicle is_a: UBERON:0002495 ! long bone is_a: UBERON:0003461 ! shoulder bone is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010905 ! clavicle bone primordium relationship: has_developmental_contribution_from UBERON:0010843 ! clavicle cartilaginous condensation relationship: in_lateral_side_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0007831 ! pectoral girdle skeleton property_value: axiom_lost_from_external_ontology "relationship loss: part_of zonal element (AAO:0000936)[AAO]" xsd:string property_value: external_definition "Slender, paired bones of intramembranous origin that invest the anterior margins of the procoracoids.[AAO]" xsd:string property_value: has_relational_adjective "clavicular" xsd:string property_value: homology_notes "In early tetrapods, the connecting skull bone, the posttemporal, and adjoining shoulder bones, supracleithrum and postcleithrum (=anocleithrum), are absent, leaving a dermal shoulder girdle composed of the remaining ventral elements: the paired cleithrum and clavicle, and an unpaired midventral interclavicle that joins both halves of the girdle across the midline. (...) Several dermal elements of the shoulder persist in early synapsids. The clavicle and interclavicle are present in therapsids and monotremes, but in marsupials and placentals, the interclavicle is absent, the clavicle often is reduced in size, and the scapula becomes the predominant shoulder element.[well established][VHOG]" xsd:string [Term] id: UBERON:0001106 name: cephalic vein namespace: uberon def: "In human anatomy, the cephalic vein is a superficial vein of the upper limb. It is also called the antecubital vein. It communicates with the basilic vein via the median cubital vein at the elbow and is located in the superficial fascia along the anterolateral surface of the biceps brachii muscle. Superiorly the cephalic vein passes between the deltoid and pectoralis major muscles and through the deltopectoral triangle, where it empties into the axillary vein. It is often visible through the skin, and its location in the deltopectoral groove is fairly consistent, making this site a good candidate for cannulation. It is often referred to as the 'House-man's Friend' for this reason and is generally a good place for cannulaton when a large bore cannula needs to be sited. [WP,unvetted]." [Wikipedia:Cephalic_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cephalic vein of forearm" EXACT [] synonym: "vena cephalica" RELATED LATIN [Wikipedia:Cephalic_vein] synonym: "vena cephalica antebrachii" EXACT LATIN [FMA:13324, FMA:TA] xref: EMAPA:25075 xref: FMA:13324 xref: MA:0002092 xref: OpenCyc:Mx4rwTpbQZwpEbGdrcN5Y29ycA xref: SCTID:181391005 xref: UMLS:C0226802 xref: galen:CephalicVein xref: http://upload.wikimedia.org/wikipedia/commons/b/ba/Gray574.png xref: ncithesaurus:Cephalic_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0003507 ! arm blood vessel relationship: part_of UBERON:0001460 ! arm relationship: tributary_of UBERON:0000985 ! axillary vein relationship: tributary_of UBERON:0001587 ! subclavian vein [Term] id: UBERON:0001107 name: sternohyoid muscle namespace: uberon def: "The sternohyoid muscle is a thin, narrow muscle attaching the hyoid bone to the sternum, one of the paired strap muscles of the infrahyoid muscles serving to depress the hyoid bone. It is innervated by the ansa cervicalis. The muscle arises from the posterior border of the medial end of the clavicle, the posterior sternoclavicular ligament, and the upper and posterior part of the manubrium sterni. Passing upward and medially, it is inserted by short tendinous fibers into the lower border of the body of the hyoid bone. [WP,unvetted]." [Wikipedia:Sternohyoid_muscle] comment: AO notes: Note that as defined here, this structure attaches to the sternum, which is a tetrapod structure. TAO has class 'sternohyoid' as part of mandibular muscle, but no sternum, so excluded here. The TAO/ZFA class has no definition, but the dictionary of icthyology states: \"a large muscle originating on the ventral spine of the postcleithrum and inserting on the sides of the urohyal. It functions in rapid opening of the jaw and expanding the buccal cavity\" - a generic way of grouping these is via a hyoid - girdle connection subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "musculus sternohyoideus" RELATED LATIN [Wikipedia:Sternohyoid_muscle] synonym: "sternohyoid" EXACT [Wikipedia:Sternohyoid_muscle] synonym: "sternohyoidei" RELATED PLURAL [Wikipedia:Sternohyoid_muscle] synonym: "sternohyoideus" EXACT [Wikipedia:Sternohyoid_muscle] synonym: "sternohyoideus muscle" EXACT [Wikipedia:Sternohyoid_muscle] xref: EMAPA:19271 xref: FMA:13341 xref: MA:0002383 xref: SCTID:244830003 xref: UMLS:C0224162 xref: http://upload.wikimedia.org/wikipedia/commons/6/67/Sternohyoid_muscle.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/67/Sternohyoid_muscle.PNG/200px-Sternohyoid_muscle.PNG xref: ncithesaurus:Sternohyoid is_a: UBERON:0008523 ! infrahyoid muscle relationship: has_muscle_insertion UBERON:0001685 ! hyoid bone relationship: has_muscle_origin UBERON:0002205 ! manubrium of sternum relationship: innervated_by UBERON:0001780 ! spinal nerve relationship: innervated_by UBERON:0005430 ! ansa cervicalis property_value: external_definition "The sternohyoid is a somitic muscle that participates in oral/pharyngeal behaviors and is innervated by the cervical plexus; it attaches to the hyoid appratus and the sternum.[FEED]" xsd:string [Term] id: UBERON:0001108 name: omohyoid muscle namespace: uberon def: "The omohyoid muscle is a muscle at the front of the neck that consists of two bellies separated by an intermediate tendon. It belongs to the group of infrahyoid muscles. [WP,unvetted]." [Wikipedia:Omohyoid_muscle] comment: interior and superior belly subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus omohyoideus" RELATED LATIN [Wikipedia:Omohyoid_muscle] synonym: "omohyoid" EXACT [] synonym: "omohyoideus" EXACT [Wikipedia:Omohyoid_muscle] synonym: "omohyoideus muscle" EXACT [Wikipedia:Omohyoid_muscle] xref: FMA:13342 xref: MA:0002348 xref: SCTID:244833001 xref: UMLS:C0224163 xref: http://upload.wikimedia.org/wikipedia/commons/b/b0/Gray1210.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b0/Gray1210.png/200px-Gray1210.png xref: ncithesaurus:Omohyoid is_a: UBERON:0008523 ! infrahyoid muscle relationship: has_muscle_insertion UBERON:0001685 ! hyoid bone relationship: innervated_by UBERON:0001780 ! spinal nerve relationship: innervated_by UBERON:0005430 ! ansa cervicalis property_value: external_definition "The omohyoid is a somitic muscle that participates in oral/pharyngeal behaviors and is innervated by the cervical plexus; it attaches to the hyoid appratus and the scapula.[FEED]" xsd:string [Term] id: UBERON:0001109 name: sternothyroid muscle namespace: uberon def: "The Sternothyreoideus (or Sternothyroid muscle) is shorter and wider than the Sternohyoideus, beneath which it is situated. It arises from the posterior surface of the manubrium sterni, below the origin of the Sternohyoideus, and from the edge of the cartilage of the first rib, and sometimes that of the second rib, it is inserted into the oblique line on the lamina of the thyroid cartilage. This muscle is in close contact with its fellow at the lower part of the neck, but diverges somewhat as it ascends; it is occasionally traversed by a transverse or oblique tendinous inscription. [WP,unvetted]." [Wikipedia:Sternothyroid_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus sternothyroideus" RELATED LATIN [Wikipedia:Sternothyroid_muscle] synonym: "sterno-thyroideus" RELATED [Wikipedia:Sternothyroid_muscle] synonym: "sternothyreoidei" RELATED PLURAL [Wikipedia:Sternothyroid_muscle] synonym: "sternothyreoideus" RELATED [Wikipedia:Sternothyroid_muscle] synonym: "sternothyroid" EXACT [] synonym: "sternothyroideus" RELATED [Wikipedia:Sternothyroid_muscle] xref: EMAPA:19272 xref: FMA:13343 xref: MA:0002386 xref: SCTID:244831004 xref: UMLS:C0224166 xref: http://upload.wikimedia.org/wikipedia/commons/1/10/Sternothyroideus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/10/Sternothyroideus.png/200px-Sternothyroideus.png xref: ncithesaurus:Sternothyroid is_a: UBERON:0008523 ! infrahyoid muscle relationship: has_muscle_insertion UBERON:0001738 ! thyroid cartilage relationship: has_muscle_origin UBERON:0002205 ! manubrium of sternum relationship: innervated_by UBERON:0001780 ! spinal nerve relationship: innervated_by UBERON:0005430 ! ansa cervicalis property_value: external_definition "The sternothyroid is a somitic muscle that participates in oral/pharyngeal behaviors and is innervated by the cervical plexus; it attaches to the thyroid cartilage and the sternum.[FEED]" xsd:string [Term] id: UBERON:0001110 name: thyrohyoid muscle namespace: uberon def: "The thyrohyoid muscle is a small, quadrilateral muscle appearing like an upward continuation of the Sternothyreoideus. It belongs to the infrahyoid muscles group. It arises from the oblique line on the lamina of the thyroid cartilage, and is inserted into the lower border of the greater cornu of the hyoid bone. [WP,unvetted]." [Wikipedia:Thyrohyoid_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus thyrohyoideus" RELATED LATIN [Wikipedia:Thyrohyoid_muscle] synonym: "thyreohyoideus" RELATED [Wikipedia:Thyrohyoid_muscle] synonym: "thyreohyoideus muscle" RELATED [Wikipedia:Thyrohyoid_muscle] synonym: "thyrohyoid" EXACT [Wikipedia:Thyrohyoid_muscle] synonym: "thyrohyoideus" RELATED [Wikipedia:Thyrohyoid_muscle] xref: EMAPA:19273 xref: EMAPA:25143 xref: FMA:13344 xref: MA:0002393 xref: SCTID:244832006 xref: UMLS:C0224167 xref: http://upload.wikimedia.org/wikipedia/commons/a/aa/Thyrohyoid_muscle.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Thyrohyoid_muscle.PNG/200px-Thyrohyoid_muscle.PNG xref: ncithesaurus:Thyrohyoid is_a: UBERON:0008523 ! infrahyoid muscle relationship: has_muscle_insertion UBERON:0001685 ! hyoid bone relationship: innervated_by UBERON:0000962 ! nerve of cervical vertebra relationship: innervated_by UBERON:0001650 ! hypoglossal nerve property_value: external_definition "The thyrohyoid is a somitic muscle that participates in oral/pharyngeal behaviors and is innervated by C1 and Cranial Nerve XII ; it attaches to the thyroid cartilage and the hyoid apparatus.[FEED]" xsd:string [Term] id: UBERON:0001111 name: intercostal muscle namespace: uberon def: "Intercostal muscles are several groups of muscles that run between the ribs, and help form and move the chest wall. There are three principal layers; the external intercostal muscles, which aid in quiet and forced inhalation. They originate on ribs 1-11 and have their insertion on ribs 2-12. The external intercostals are responsible for the elevation of the ribs, and expanding the transverse dimensions of the thoracic cavity. Located around the ribs the internal intercostal muscles, which aid in forced expiration (quiet expiration is a passive process). They originate on ribs 2-12 and have their insertions on ribs 1-11. The internal intercostals are responsible for the depression of the ribs decreasing the transverse dimensions of the thoracic cavity. the innermost intercostal muscle, the deep layers of the internal intercostal muscles which are separated from them by the neurovascular bundle. Both the external and internal muscles are innervated by the intercostal nerves, and are provided by the intercostal arteries and intercostal veins. Their fibers run in opposite directions. [WP,unvetted]." [Wikipedia:Intercostal_muscle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intercostales" RELATED [] xref: BTO:0005281 xref: EFO:0001368 xref: EHDAA2:0000841 xref: EHDAA:5988 xref: FMA:13354 xref: GAID:159 xref: MA:0002324 xref: MESH:A02.633.567.900.500 xref: OpenCyc:Mx4rwQo8QJwpEbGdrcN5Y29ycA xref: SCTID:181746004 xref: UMLS:C0021724 xref: VHOG:0000903 xref: http://upload.wikimedia.org/wikipedia/commons/f/f2/Gray411.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f2/Gray411.png/200px-Gray411.png xref: ncithesaurus:Intercostal_Muscle is_a: UBERON:0002426 ! chest muscle is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010970 ! intercostal pre-muscle mass relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0002228 ! rib relationship: innervated_by UBERON:0003727 ! intercostal nerve relationship: located_in UBERON:0012198 ! intercostal space property_value: homology_notes "Inspiration by active expansion of the thorax evolved later, in the ancestor of reptiles, birds, and mammals. This was powered originally by the intercostal muscles (as in lizards or crocodilians) and later (in mammals only) by a muscular diaphragm.[well established][VHOG]" xsd:string [Term] id: UBERON:0001112 name: latissimus dorsi muscle namespace: uberon def: "The latissimus dorsi is the larger, flat, dorso-lateral muscle on the trunk, posterior to the arm, and partly covered by the trapezius on its median dorsal region. [WP,unvetted]." [Wikipedia:Latissimus_dorsi_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "latissimus dorsi" EXACT [] synonym: "musculus latissimus dorsi" EXACT LATIN [Wikipedia:Latissimus_dorsi_muscle] xref: EFO:0003067 xref: EHDAA2:0000932 xref: EHDAA:8307 xref: EMAPA:18178 xref: FMA:13357 xref: MA:0002331 xref: SCTID:181747008 xref: UMLS:C0224362 xref: VHOG:0000930 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Latissimus_dorsi.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Latissimus_dorsi.png/200px-Latissimus_dorsi.png xref: ncithesaurus:Musculus_Latissimus_Dorsi is_a: UBERON:0001482 ! muscle of shoulder is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010982 ! latissimus dorsi pre-muscle mass relationship: has_muscle_antagonist UBERON:0001476 ! deltoid relationship: has_muscle_antagonist UBERON:0002380 ! trapezius relationship: has_muscle_insertion UBERON:0000976 ! humerus relationship: has_muscle_origin UBERON:0007175 ! inferior angle of scapula relationship: part_of UBERON:0008713 ! pectoral girdle and thoracic body wall skeletal muscle [Term] id: UBERON:0001113 name: lobe of liver namespace: uberon def: "Traditional gross anatomy divided the liver into four lobes based on surface features. The falciform ligament is visible on the front (anterior side) of the liver. This divides the liver into a left anatomical lobe, and a right anatomical lobe." [Wikipedia:Liver#Lobes] comment: editor note: some work needs to be done to ensure the child terms of this class have correct isa/partof placement. in MA they are subclasses, in FMA they are parts synonym: "hepatic lobe" EXACT [] synonym: "liver lobe" EXACT [] synonym: "lobus hepatis" EXACT [] xref: EMAPA:18306 xref: FMA:13361 xref: MA:0000360 xref: SCTID:245378000 xref: UMLS:C0447541 xref: ncithesaurus:Liver_Lobe is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002107 ! liver [Term] id: UBERON:0001114 name: right lobe of liver namespace: uberon def: "The right lobe is much larger than the left; the proportion between them being as six to one. It occupies the right hypochondrium, and is separated from the left lobe on its upper surface by the falciform ligament; on its under and posterior surfaces by the left sagittal fossa; and in front by the umbilical notch. It is of a somewhat quadrilateral form, its under and posterior surfaces being marked by three fossC&: the porta and the fossC& for the gall-bladder and inferior vena cava, which separate its left part into two smaller lobes; the quadrate and caudate lobes. [WP,unvetted]." [Wikipedia:Right_lobe_of_liver] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "2nd lobe" RELATED [TAO:0005173] synonym: "gall bladder lobe" RELATED SENSU [ZFA:0005173] synonym: "liver right lobe" EXACT [] synonym: "lobus hepaticus dexter" EXACT LATIN [] synonym: "lobus hepatis dexter" RELATED LATIN [Wikipedia:Right_lobe_of_liver] synonym: "right liver lobe" EXACT [ZFA:0005173] synonym: "second lobe" RELATED [TAO:0005173] xref: EHDAA2:0001008 xref: EHDAA:4001 xref: EMAPA:18311 xref: FMA:13362 xref: MA:0000363 xref: SCTID:362182008 xref: TAO:0005173 xref: UMLS:C0227481 xref: VHOG:0001424 xref: ZFA:0005173 xref: http://upload.wikimedia.org/wikipedia/commons/a/a3/Gray1087-liver.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a3/Gray1087-liver.png/200px-Gray1087-liver.png xref: ncithesaurus:Right_Lobe_of_the_Liver is_a: UBERON:0001113 ! lobe of liver property_value: external_definition "Portion of the liver which develops on the fish's right side adjacent to the gall bladder.[TAO]" xsd:string [Term] id: UBERON:0001115 name: left lobe of liver namespace: uberon def: "The left lobe is smaller and more flattened than the right. It is situated in the epigastric and left hypochondriac regions. Its upper surface is slightly convex and is moulded on to the diaphragm; its under surface presents the gastric impression and omental tuberosity. [WP,unvetted]." [Wikipedia:Left_lobe_of_liver] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "left liver lobe" EXACT [] synonym: "liver left lobe" EXACT [] synonym: "lobus hepaticus sinister" EXACT LATIN [] synonym: "lobus hepatis sinister" RELATED LATIN [Wikipedia:Left_lobe_of_liver] xref: EHDAA2:0001000 xref: EHDAA:3995 xref: EMAPA:18307 xref: FMA:13363 xref: MA:0000361 xref: SCTID:362183003 xref: TAO:0005172 xref: UMLS:C0227486 xref: VHOG:0001423 xref: ZFA:0005172 xref: http://upload.wikimedia.org/wikipedia/commons/a/a3/Gray1087-liver.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a3/Gray1087-liver.png/200px-Gray1087-liver.png xref: ncithesaurus:Left_Lobe_of_the_Liver is_a: UBERON:0001113 ! lobe of liver property_value: external_definition "Portion of the liver which develops on the fish's left side.[TAO]" xsd:string [Term] id: UBERON:0001116 name: quadrate lobe of liver namespace: uberon def: "The quadrate lobe is an area of the liver situated on the under surface of the right lobe, bounded in front by the anterior margin of the liver; behind by the porta hepatis; on the right, by the fossa for the gall-bladder; and on the left, by the fossa for the umbilical vein. It is oblong in shape, its antero-posterior diameter being greater than its transverse. [WP,unvetted]." [Wikipedia:Quadrate_lobe_of_liver] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "liver quadrate lobe" EXACT [] synonym: "lobus quadratus" EXACT LATIN [Wikipedia:Quadrate_lobe_of_liver] xref: EHDAA2:0001012 xref: EHDAA:8082 xref: EMAPA:18318 xref: FMA:13364 xref: MA:0000365 xref: SCTID:279929003 xref: VHOG:0000509 xref: http://upload.wikimedia.org/wikipedia/commons/a/a3/Gray1087-liver.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a3/Gray1087-liver.png/200px-Gray1087-liver.png xref: ncithesaurus:Lobus_Quadratus is_a: UBERON:0001114 ! right lobe of liver property_value: external_definition "The portion of the right lobe of the liver between the gall bladder, the porta hepatis, the round ligament and the lower margin of the organ. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string [Term] id: UBERON:0001117 name: caudate lobe of liver namespace: uberon def: "The caudate lobe (posterior hepatic segment I, Spigelian lobe) is situated upon the postero-superior surface of the liver on the right lobe of the liver, opposite the tenth and eleventh thoracic vertebrae. It is bounded on the left side by the physiological division of the liver called the ligamentum venosum. It is bounded, below, by the porta; on the right, by the fossa for the inferior vena cava; and, on the left, by the fossa for the ductus venosus. It looks backward, being nearly vertical in position; it is longer from above downward than from side to side, and is somewhat concave in the transverse direction. The caudate process is a small elevation of the hepatic substance extending obliquely and laterally, from the lower extremity of the caudate lobe to the under surface of the right lobe. It is situated behind the porta, and separates the fossa for the gall-bladder from the commencement of the fossa for the inferior vena cava. Budd-Chiari syndrome, caused by occlusion of hepatic venous outflow, can lead to hypertrophy of the caudate lobe due to its own caval anastomosis that allows for continued function of this lobe of the liver. [WP,unvetted]." [Wikipedia:Caudate_lobe_of_liver] comment: Editor/taxon notes: Check left vs right in mouse and human subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "couinaud hepatic segment i" EXACT [FMA:13365] synonym: "hepatovenous segment i" EXACT [] synonym: "liver caudate lobe" EXACT [] synonym: "liver caudate process" RELATED [] synonym: "lobus caudatus" EXACT [] synonym: "pars posterior hepatis" EXACT LATIN [FMA:13365, FMA:TA] synonym: "posterior hepatic segment i" EXACT [] synonym: "posterior liver" EXACT [] synonym: "posterior part of liver" EXACT [] synonym: "segment hepatis posterius I, lobus caudatus" RELATED LATIN [Wikipedia:Caudate_lobe_of_liver] synonym: "segment i of liver" EXACT [] synonym: "segmentum hepatis i" EXACT LATIN [FMA:13365, FMA:TA] synonym: "spiegelian lobe" EXACT [] synonym: "spigel lobe" EXACT [] xref: EHDAA2:0001005 xref: EHDAA:6990 xref: EMAPA:18313 xref: FMA:13365 xref: MA:0000364 xref: SCTID:362184009 xref: UMLS:C0227489 xref: VHOG:0000508 xref: http://upload.wikimedia.org/wikipedia/commons/a/a3/Gray1087-liver.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a3/Gray1087-liver.png/200px-Gray1087-liver.png xref: ncithesaurus:Lobus_Caudatus is_a: UBERON:0001114 ! right lobe of liver relationship: part_of UBERON:0001115 ! left lobe of liver property_value: external_definition "The portion of the right lobe of the liver between the fissure of the ligamentum venosum and the bare area of the liver. It ends into the superior recess of the lesser peritoneal sac. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The caudate lobe is the only real and constant hepatic lobe of mammals (...) .[well established][VHOG]" xsd:string [Term] id: UBERON:0001118 name: lobe of thyroid gland namespace: uberon def: "The lobes of the thyroid gland are conical in shape, the apex of each being directed upward and lateralward as far as the junction of the middle with the lower third of the thyroid cartilage; the base looks downward, and is on a level with the fifth or sixth tracheal ring. Each lobe is about 5 cm. long; its greatest width is about 3 cm. , and its thickness about 2 cm. The lateral or superficial surface is convex, and covered by the skin, the superficial and deep fasciC&, the Sternocleidomastoideus, the superior belly of the Omohyoideus, the Sternohyoideus and Sternothyreoideus, and beneath the last muscle by the pretracheal layer of the deep fascia, which forms a capsule for the gland. The deep or medial surface is moulded over the underlying structures, viz. , the thyroid and cricoid cartilages, the trachea, the Constrictor pharyngis inferior and posterior part of the Cricothyreoideus, the esophagus (particularly on the left side of the neck), the superior and inferior thyroid arteries, and the recurrent nerves. The anterior border is thin, and inclines obliquely from above downward toward the middle line of the neck, while the posterior border is thick and overlaps the common carotid artery, and, as a rule, the parathyroids. [WP,unvetted]." [Wikipedia:Lobes_of_thyroid_gland] comment: This class was created automatically from a combination of ontologies synonym: "lobuli glandulae thyroideae" RELATED LATIN [Wikipedia:Lobes_of_thyroid_gland] synonym: "lobus (glandula thyroidea)" EXACT [] synonym: "thyroid gland lobe" EXACT [] synonym: "thyroid lobe" EXACT [] xref: EHDAA2:0002032 xref: EMAPA:18196 xref: EMAPA:18830 xref: FMA:13367 xref: MA:0000131 xref: SCTID:245537001 xref: UMLS:C0447647 xref: VHOG:0000732 xref: http://upload.wikimedia.org/wikipedia/commons/9/9e/Gray1174.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9e/Gray1174.png/200px-Gray1174.png xref: ncithesaurus:Thyroid_Gland_Lobe is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: in_lateral_side_of UBERON:0002046 ! thyroid gland relationship: part_of UBERON:0002046 ! thyroid gland property_value: homology_notes "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" xsd:string [Term] id: UBERON:0001119 name: right lobe of thyroid gland namespace: uberon def: "A lobe of thyroid gland that is in the right side of a thyroid gland." [OBOL:automatic] synonym: "lobus dexter (glandula thyroidea)" EXACT [] synonym: "right thyroid lobe" EXACT [] synonym: "thyroid gland right lobe" EXACT [] xref: EHDAA2:0001759 xref: EMAPA:18198 xref: FMA:13368 xref: MA:0000729 xref: SCTID:170482008 xref: UMLS:C0229581 xref: VHOG:0000733 xref: ncithesaurus:Right_Thyroid_Gland_Lobe intersection_of: UBERON:0001118 ! lobe of thyroid gland intersection_of: in_right_side_of UBERON:0002046 ! thyroid gland property_value: homology_notes "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" xsd:string [Term] id: UBERON:0001120 name: left lobe of thyroid gland namespace: uberon def: "A lobe of thyroid gland that is in the left side of a thyroid gland." [OBOL:automatic] synonym: "left thyroid lobe" EXACT [] synonym: "lobus sinister (glandula thyroidea)" EXACT [] synonym: "thyroid gland left lobe" EXACT [] xref: EHDAA2:0000965 xref: EMAPA:18197 xref: FMA:13369 xref: MA:0000728 xref: SCTID:170784008 xref: UMLS:C0229582 xref: VHOG:0000734 xref: ncithesaurus:Left_Thyroid_Gland_Lobe intersection_of: UBERON:0001118 ! lobe of thyroid gland intersection_of: in_left_side_of UBERON:0002046 ! thyroid gland property_value: homology_notes "Thus, a thyroid capable of forming iodotyrosines and iodothyronines is present in all vertebrates. (...) Certain morphologic changes occur after the biochemical evolution of the thyroid has ceased. In the adult lamprey and in most bony fishes, the gland is not encapsulated. (...) In cartilaginous fish, the thyroid is encapsulated. In the higher vertebrate forms, the thyroid is a one- or two-lobed encapsulated structure.[well established][VHOG]" xsd:string [Term] id: UBERON:0001121 name: longus colli muscle namespace: uberon def: "The Longus colli muscle is a muscle of the human body. The Longus colli is situated on the anterior surface of the vertebral column, between the atlas and the third thoracic vertebra. It is broad in the middle, narrow and pointed at either end, and consists of three portions, a superior oblique, an inferior oblique, and a vertical. The superior oblique portion arises from the anterior tubercles of the transverse processes of the third, fourth, and fifth cervical vertebrC& and, ascending obliquely with a medial inclination, is inserted by a narrow tendon into the tubercle on the anterior arch of the atlas. The inferior oblique portion, the smallest part of the muscle, arises from the front of the bodies of the first two or three thoracic vertebrC&; and, ascending obliquely in a lateral direction, is inserted into the anterior tubercles of the transverse processes of the fifth and sixth cervical vertebrC&. The vertical portion arises, below, from the front of the bodies of the upper three thoracic and lower three cervical vertebrC&, and is inserted into the front of the bodies of the second, third, and fourth cervical vertebrC&. [WP,unvetted]." [Wikipedia:Longus_colli_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "longi colli" RELATED [Wikipedia:Longus_colli_muscle] synonym: "longus colli" EXACT [MA:0002341] synonym: "longus colli muscle" EXACT [Wikipedia:Longus_colli_muscle] synonym: "musculus longus colli" RELATED LATIN [Wikipedia:Longus_colli_muscle] xref: FMA:13370 xref: MA:0002341 xref: SCTID:244836009 xref: UMLS:C0224169 xref: http://upload.wikimedia.org/wikipedia/commons/a/a6/Longus_colli.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a6/Longus_colli.png/200px-Longus_colli.png xref: ncithesaurus:Longus_Colli is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0005178 ! thoracic cavity organ relationship: has_muscle_insertion UBERON:0003996 ! arcus anterior relationship: has_muscle_origin UBERON:0001077 ! transverse process of vertebra relationship: located_in UBERON:0008818 ! superior mediastinum [Term] id: UBERON:0001122 name: scalenus medius namespace: uberon def: "The Scalenus medius, the largest and longest of the three scalene muscles, arises from the posterior tubercles of the transverse processes of the lower six cervical vertebrC&. It descendes along the side of the vertebral column to insert by a broad attachment into the upper surface of the first rib, between the tubercle and the subclavian groove. The brachial plexus and the subclavian artery pass anterior to it. Because it elevates the upper ribs, the middle scalene muscle is also one of the accessory muscles of respiration. [WP,unvetted]." [Wikipedia:Scalenus_medius] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "medial scalene muscle" EXACT [] synonym: "middle scalene" EXACT [] synonym: "musculus scalenus medius" EXACT LATIN [FMA:13386, FMA:TA, Wikipedia:Scalenus_medius] synonym: "scalenus medius muscle" EXACT [] xref: FMA:13386 xref: MA:0002370 xref: SCTID:244844009 xref: UMLS:C0224174 xref: http://upload.wikimedia.org/wikipedia/commons/f/fa/Scalenus_medius.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fa/Scalenus_medius.png/200px-Scalenus_medius.png xref: ncithesaurus:Scalenus_Medius is_a: UBERON:0002377 ! muscle of neck is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_insertion UBERON:0004601 ! rib 1 relationship: has_muscle_origin UBERON:0002413 ! cervical vertebra relationship: innervated_by UBERON:0000962 ! nerve of cervical vertebra [Term] id: UBERON:0001123 name: scalenus posterior namespace: uberon def: "The Scalenus posterior (Scalenus posticus), the smallest and most deeply seated of the three Scaleni, arises, by two or three separate tendons, from the posterior tubercles of the transverse processes of the lower two or three cervical vertebrC&, and is inserted by a thin tendon into the outer surface of the second rib, behind the attachment of the Serratus anterior. It is occasionally blended with the Scalenus medius. [WP,unvetted]." [Wikipedia:Scalenus_posterior] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus scalenus posterior" EXACT LATIN [FMA:13387, FMA:TA, Wikipedia:Scalenus_posterior] synonym: "posterior scalene" EXACT [] synonym: "posterior scalene muscle" EXACT [] synonym: "scalenus dorsalis" EXACT [] synonym: "scalenus dorsalis muscle" EXACT [] xref: FMA:13387 xref: MA:0002369 xref: UMLS:C1710019 xref: http://upload.wikimedia.org/wikipedia/commons/f/f3/Scalenus_posterior.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f3/Scalenus_posterior.png/200px-Scalenus_posterior.png xref: ncithesaurus:Scalenus_Dorsalis is_a: UBERON:0002377 ! muscle of neck relationship: has_muscle_origin UBERON:0001077 ! transverse process of vertebra [Term] id: UBERON:0001124 name: pectoral limb scapula namespace: uberon def: "In human anatomy, the scapula, omo (Medical Latin), or shoulder blade, is the bone that connects the humerus (arm bone) with the clavicle (collar bone). The scapula forms the posterior (back) located part of the shoulder girdle. In humans, it is a flat bone, roughly triangular in shape, placed on a posterolateral aspect of the thoracic cage. [WP,unvetted]." [Wikipedia:Scapula] comment: Alternate definition: A scapula that is connected to a pectoral limb. Taxon notes: present in all tetrapods with even vestiges of anterior limbs, e.g., turtles & birds & mammals. Development notes: chick scapula is of dual origin and segmentally organized[ISBN:978-0-12-319060-4] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "shoulder blade" EXACT [] synonym: "tetrapod scapula" RELATED [] xref: AAO:0000751 xref: BTO:0001218 xref: EFO:0001400 xref: EMAPA:18722 xref: FMA:13394 xref: GAID:186 xref: MA:0001330 xref: OpenCyc:Mx4rvVji0JwpEbGdrcN5Y29ycA xref: SCTID:302517007 xref: UMLS:C0036277 xref: VHOG:0001398 xref: galen:Scapula xref: http://upload.wikimedia.org/wikipedia/commons/5/59/Pectoral_girdles-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/59/Pectoral_girdles-en.svg/200px-Pectoral_girdles-en.svg.png xref: ncithesaurus:Scapula is_a: UBERON:0003461 ! shoulder bone is_a: UBERON:0006849 ! scapula relationship: develops_from UBERON:0006290 ! scapula cartilage condensation relationship: distally_connected_to UBERON:0000976 ! humerus relationship: part_of UBERON:0001467 ! shoulder property_value: axiom_lost_from_external_ontology "relationship loss: has pars glenoidalis of scapula (AAO:0000753)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of scapular area (AAO:0000935)[AAO]" xsd:string property_value: external_definition "Paired bony elements of endochondral origin. They are situated at the level of the jaw articulation, in a vertical position, with the suprascapular margin being dorsal and the glenoid end being ventral.[AAO]" xsd:string [Term] id: UBERON:0001125 name: serratus anterior namespace: uberon def: "The serratus anterior is a muscle that originates on the surface of the upper eight or nine ribs at the side of the chest and inserts along the entire anterior length of the medial border of the scapula. [WP,unvetted]." [Wikipedia:Serratus_anterior_muscle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Boxer's muscle" EXACT [] synonym: "musculus serratus anterior, serratus lateralis" RELATED LATIN [Wikipedia:Serratus_anterior_muscle] synonym: "serratus anterior muscle" EXACT [] synonym: "serratus ventralis" EXACT [] xref: EHDAA2:0001832 xref: EHDAA:9463 xref: EMAPA:18525 xref: FMA:13397 xref: MA:0002378 xref: OpenCyc:Mx4rvWn_D5wpEbGdrcN5Y29ycA xref: SCTID:181748003 xref: UMLS:C1710059 xref: VHOG:0000679 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Serratus_anterior.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c6/Serratus_anterior.png/200px-Serratus_anterior.png xref: ncithesaurus:Serratus_Ventralis is_a: UBERON:0001482 ! muscle of shoulder is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010986 ! serratus anterior pre-muscle mass relationship: has_muscle_antagonist UBERON:0002380 ! trapezius relationship: has_muscle_insertion UBERON:0006849 ! scapula relationship: has_muscle_origin UBERON:0002228 ! rib relationship: innervated_by UBERON:0003726 ! thoracic nerve [Term] id: UBERON:0001126 name: serratus posterior superior muscle namespace: uberon def: "The Serratus posterior superior is a thin, quadrilateral muscle, situated at the upper and back part of the thorax. It arises by a thin and broad aponeurosis from the lower part of the ligamentum nuchae, from the spinous processes of the seventh cervical and upper two or three thoracic vertebrC& and from the supraspinal ligament. Inclining downward and lateralward it becomes muscular, and is inserted, by four fleshy digitations, into the upper borders of the second, third, fourth, and fifth ribs, a little beyond their angles. [WP,unvetted]." [Wikipedia:Serratus_posterior_superior_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "serratus dorsalis cranialis" EXACT [MA:0002377] synonym: "serratus dorsalis cranialis muscle" EXACT [] synonym: "serratus posterior superior" EXACT [FMA:13401] synonym: "superior serratus posterior" EXACT [] xref: FMA:13401 xref: MA:0002377 xref: SCTID:244935007 xref: UMLS:C1710058 xref: ncithesaurus:Serratus_Dorsalis_Cranialis is_a: UBERON:0003830 ! thoracic segment muscle is_a: UBERON:0011217 ! serratus posterior relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0000351 ! nuchal ligament relationship: has_muscle_origin UBERON:0001076 ! spinous process of vertebra relationship: innervated_by UBERON:0003727 ! intercostal nerve relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0001127 name: serratus posterior inferior muscle namespace: uberon def: "The Serratus posterior inferior muscle (or posterior serratus) is a muscle of the human body. [WP,unvetted]." [Wikipedia:Serratus_posterior_inferior_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior serratus posterior" EXACT [] synonym: "serratus dorsalis caudalis" EXACT [] synonym: "serratus posterior inferior" EXACT [FMA:13402, MA:0002376] xref: FMA:13402 xref: MA:0002376 xref: SCTID:244936008 xref: UMLS:C1711277 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Serratus_posterior.PNG/200px-Serratus_posterior.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Serratus_posterior.PNG/250px-Serratus_posterior.PNG xref: ncithesaurus:Serratus_Dorsalis_Caudalis is_a: UBERON:0011217 ! serratus posterior relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0002412 ! vertebra relationship: innervated_by UBERON:0003727 ! intercostal nerve [Term] id: UBERON:0001128 name: sternocleidomastoid namespace: uberon def: "a paired muscle in the superficial layers of the anterior portion of the neck. It acts to flex and rotate the head. It also acts as an accessory muscle of inspiration, along with the scalene muscles of the neck. [WP,unvetted]." [Wikipedia:Sternocleidomastoid_muscle] comment: Editor notes: TODO: sternocleidomastoid = sternomastoid + Cleidomastoideus. Origin: from manubrium sterni (sterno) and clavicle (cleido) and it's insertion at the mastoid process of the temporal bone. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "SCM" BROAD ABBREVIATION [] synonym: "musculus sternocleidomastoideus" RELATED LATIN [Wikipedia:Sternocleidomastoid_muscle] synonym: "sterno-cleido-mastoid" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sterno-mastoid" EXACT [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoid" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoid muscle" EXACT [BTO:0005125] synonym: "sternocleidomastoid muscles" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoidei" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoideus" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoideus muscle" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternocleidomastoids" RELATED [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternomastoid" EXACT [Wikipedia:Sternocleidomastoid_muscle] synonym: "sternomastoid muscle" EXACT [Wikipedia:Sternocleidomastoid_muscle] synonym: "supraclavicularis muscle" RELATED [Wikipedia:Sternocleidomastoid_muscle] xref: BTO:0005125 xref: EMAPA:25137 xref: FMA:13407 xref: MA:0002384 xref: OpenCyc:Mx4rv2bMg5wpEbGdrcN5Y29ycA xref: SCTID:181741009 xref: UMLS:C0224153 xref: VHOG:0000853 xref: http://upload.wikimedia.org/wikipedia/commons/f/f9/Gray512.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/61/Gray512.png/200px-Gray512.png xref: ncithesaurus:Sternocleidomastoid_Muscle is_a: UBERON:0002377 ! muscle of neck is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0011364 ! cleidocephalicus muscle relationship: develops_from UBERON:0010987 ! sterno-mastoid pre-muscle mass relationship: has_muscle_insertion UBERON:0011220 ! mastoid process of temporal bone relationship: has_muscle_origin UBERON:0001105 ! clavicle relationship: has_muscle_origin UBERON:0002205 ! manubrium of sternum relationship: innervated_by UBERON:0003725 ! cervical plexus property_value: homology_notes "The sternomastoid and the three parts of the trapezius are branchiomeric muscles that have secondarily acquired an attachment to the pectoral girdle. They evolved from the fish cucullaris.[well established][VHOG]" xsd:string [Term] id: UBERON:0001129 name: subscapularis muscle namespace: uberon def: "The subscapularis is a large triangular muscle which fills the subscapular fossa and inserts into the lesser tubercle of the humerus and the front of the capsule of the shoulder-joint. [WP,unvetted]." [Wikipedia:Subscapularis_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus subscapularis" RELATED LATIN [Wikipedia:Subscapularis_muscle] synonym: "subcoracoscapularis" RELATED SENSU [ISBN10:0073040584] synonym: "subscapularis" EXACT [MA:0002388] xref: EHDAA2:0001943 xref: EHDAA:8317 xref: EMAPA:18181 xref: FMA:13413 xref: MA:0002388 xref: OpenCyc:Mx4rviCRIJwpEbGdrcN5Y29ycA xref: SCTID:277446000 xref: UMLS:C0584884 xref: VHOG:0000850 xref: http://upload.wikimedia.org/wikipedia/commons/f/f2/Gray411.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f2/Gray411.png/200px-Gray411.png xref: ncithesaurus:Subscapularis is_a: UBERON:0001482 ! muscle of shoulder is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0010993 ! subscapularis pre-muscle mass relationship: has_muscle_insertion UBERON:0000976 ! humerus relationship: part_of UBERON:0003683 ! rotator cuff relationship: part_of UBERON:0008713 ! pectoral girdle and thoracic body wall skeletal muscle [Term] id: UBERON:0001130 name: vertebral column namespace: uberon def: "Subdivision of skeletal system that consists of all the vertebra and associated skeletal elements and joints in the body." [UBERON:cjm, Wikipedia:Vertebral_column, https://sourceforge.net/tracker/?func=detail&aid=3530322&group_id=76834&atid=2257941] comment: Editor notes: Note that in contrast to VSAO, this is a subset of the skeletal system, and thus includes intervertebral joints, cartilage and ligaments etc. Some ontologies such as AAO seem to purely refer to the skeleton subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "backbone" NARROW [FMA:13478] synonym: "columna vertebralis" RELATED [BTO:0000818] synonym: "spinal column" RELATED [MESH:A02.835.232.834] synonym: "spine" BROAD [FMA:13478] synonym: "vertebral column skeleton" NARROW [AAO:0000699] synonym: "vertebral region" RELATED [] xref: AAO:0000699 xref: AAO:0000734 xref: BTO:0000818 xref: EFO:0001369 xref: EHDA:10119 xref: EMAPA:16666 xref: FMA:13478 xref: GAID:106 xref: MA:0002416 xref: MESH:A02.835.232.834 xref: NIF_Subcellular:sao1145756102 xref: OpenCyc:Mx4rv2j-CpwpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rv6GF55wpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rvVkFEpwpEbGdrcN5Y29ycA xref: SCTID:44300000 xref: TAO:0001559 xref: UMLS:C0037949 xref: UMLS:C1519455 xref: VHOG:0001142 xref: VSAO:0000185 xref: XAO:0003074 xref: ZFA:0001559 xref: galen:SpinalColumn xref: ncithesaurus:Spinal_Cord_Column xref: ncithesaurus:Vertebral_Column is_a: UBERON:0000075 ! subdivision of skeletal system is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0011138 ! post-cranial axial skeletal system disjoint_from: UBERON:0008260 ! spine appendage property_value: external_definition "Anatomical cluster that consists of all the vertebra in the body.[VSAO]" xsd:string property_value: external_definition "The vertebral column consists of a series of vertebrae connected by ligaments. It provides a supporting axis for the body and protects the spinal cord. [TFD][VHOG]" xsd:string property_value: homology_notes "Vertebrata is characterized by three synapomorphies. First, vertebrates have a backbone composed of vertebrae (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001131 name: vertebral foramen namespace: uberon def: "In a typical vertebra, the vertebral foramen is the foramen formed by the anterior segment, and the posterior part, the vertebral arch. The vertebral foramen begins at cervical vertebrae #1 and continues inferior to lumbar vertebrae #5. Within this foramen the spinal cord and associated meninges are housed. [WP,unvetted]." [Wikipedia:Vertebral_foramen] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "foramen vertebrale" RELATED LATIN [Wikipedia:Vertebral_foramen] synonym: "vertebra neural canal" EXACT [] xref: AAO:0000729 xref: FMA:13479 xref: MA:0001454 xref: OpenCyc:Mx4rv_EvQZwpEbGdrcN5Y29ycA xref: SCTID:280734009 xref: http://upload.wikimedia.org/wikipedia/commons/1/10/Foramenvertebrale.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/10/Foramenvertebrale.png/200px-Foramenvertebrale.png is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0010276 ! vertebral column opening relationship: part_of UBERON:0002412 ! vertebra property_value: external_definition "Opening on the vertebra for a spinal nerve as it emerges from the spinal canal.[AAO]" xsd:string [Term] id: UBERON:0001132 name: parathyroid gland namespace: uberon def: "The parathyroid gland is an organ specialised for secretion of parathyroid hormone[GO]. Parathyroid glands control the amount of calcium in the blood and within the bones[WP]." [Wikipedia:Parathyroid_gland] comment: Development notes: table 13.1 of Kardong is used to create the taxon-specific developmental relationships here, although some omissions are made for simplicity. Additional notes: Parathyroid glands are found in all adult tetrapods, although they vary in their number, and in their exact position. Mammals typically have four parathyroids, while other groups typically have six. Fish do not possess parathyroid glands, although the ultimobranchial glands, which are found close to the oesophagus, may have a similar function and could even be homologous with the tetrapod parathyroids. Even these glands are absent in the most primitive vertebrates, the jawless fish, but as these species have no bone in their skeletons, only cartilage, it may be that they have less need to regulate calcium metabolism. The conserved homology of genes and calcium-sensing receptors in fish gills with those in the parathryroid glands of birds and mammals is recognized by evolutionary developmental biology as evolution-using genes and gene networks in novel ways to generate new structures with some similar functions and novel functions[WP]. The parathryoid gland is not formed in fish, but is only found in tetrapods. In humans and chick it emerges from pouches 3 and 4, but in mice it is exclusively generated by the third pouch[PMID:16313389] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "parathyroid" EXACT [] synonym: "parathyroid secreting cell" RELATED [] xref: AAO:0010545 xref: BTO:0000997 xref: EFO:0000862 xref: EV:0100134 xref: FMA:13890 xref: GAID:452 xref: MA:0000128 xref: MAT:0000082 xref: MESH:A06.407.560 xref: MIAA:0000082 xref: SCTID:181121007 xref: UMLS:C0030518 xref: VHOG:0001188 xref: XAO:0000167 xref: ncithesaurus:Parathyroid_Gland is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0002530 ! gland relationship: capable_of GO:0035898 ! parathyroid hormone secretion relationship: has_function_in GO:0055074 ! calcium ion homeostasis relationship: part_of UBERON:0000949 ! endocrine system property_value: external_definition "Any one of several small structures, usually four, attached to the dorsal surfaces of the lateral lobes of the thyroid gland. [TFD][VHOG]" xsd:string property_value: external_definition "Either of the two pairs of small, spherical, encapsulated glands which develop from ventral growths of the third and fourth pharyngeal pouches and are closely associated with the external jugular veins. Calcitonin and parathyroid hormone are secreted by these glands.[AAO]" xsd:string property_value: homology_notes "The evolution of the tetrapods, and the shift from an aquatic to a terrestrial environment, was believed to have required new controls for regulating calcium homeostasis, and thus the evolution of parathyroid glands (...) both the tetrapod parathyroid and the gills of fish contribute to the regulation of extracellular calcium levels. It is therefore reasonable to suggest that the parathyroid gland evolved as a result of the transformation of the gills into the parathyroid glands of tetrapods and the transition from an aquatic to a terrestrial environment. This interpretation would also explain the positioning of the parathyroid gland within the pharynx in the tetrapod body. Were the parathyroid gland to have emerged de novo with the evolution of the tetrapods it could, as an endocrine organ, have been placed anywhere in the body and still exert its effect.[well established][VHOG]" xsd:string [Term] id: UBERON:0001133 name: cardiac muscle tissue namespace: uberon alt_id: UBERON:0007096 def: "Muscle composed of cardiac muscle cells that is part of the heart[ZFA]. involuntary striated muscle found in the walls of the heart, specifically the myocardium[Wikipedia]. Tissue which consists of cardiac myocytes surrounded by cardiac endomysium. Examples: Cardiac muscle tissue proper, conducting tissue of heart[FMA]." [FMA:14068] comment: check relationship with myocardium. part_of in MA - but we also have a more specific class 'cardiac muscle tissue of myocardium'. Check ncit subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac muscle" EXACT [] synonym: "cardiac muscle muscle tissue" EXACT [OBOL:automatic] synonym: "cardiac muscle textus muscularis" EXACT [OBOL:automatic] synonym: "cardiac musculature" RELATED [BILA:0000134] synonym: "heart muscle muscle tissue" EXACT [OBOL:automatic] synonym: "heart muscle textus muscularis" EXACT [OBOL:automatic] synonym: "heart myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "heart myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "muscle of heart muscle tissue" EXACT [OBOL:automatic] synonym: "muscle of heart textus muscularis" EXACT [OBOL:automatic] synonym: "muscle tissue of cardiac muscle" EXACT [OBOL:automatic] synonym: "muscle tissue of heart muscle" EXACT [OBOL:automatic] synonym: "muscle tissue of heart myocardium" EXACT [OBOL:automatic] synonym: "muscle tissue of muscle of heart" EXACT [OBOL:automatic] synonym: "muscle tissue of myocardium" EXACT [OBOL:automatic] synonym: "myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "textus muscularis of cardiac muscle" EXACT [OBOL:automatic] synonym: "textus muscularis of heart muscle" EXACT [OBOL:automatic] synonym: "textus muscularis of heart myocardium" EXACT [OBOL:automatic] synonym: "textus muscularis of muscle of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium" EXACT [OBOL:automatic] xref: AAO:0010245 xref: AEO:0000142 xref: BILA:0000134 xref: BTO:0000199 xref: EHDAA2:0003142 xref: FMA:14068 xref: TAO:0005280 xref: ZFA:0005280 xref: galen:CardiacMuscle xref: galen:CardiacMuscleTissue xref: ncithesaurus:Heart_Muscle relationship: composed_primarily_of CL:0000746 ! cardiac muscle cell relationship: part_of UBERON:0000948 ! heart intersection_of: UBERON:0002036 ! striated muscle tissue intersection_of: has_part CL:0000746 ! cardiac muscle cell disjoint_from: UBERON:0001134 ! skeletal muscle tissue [Term] id: UBERON:0001134 name: skeletal muscle tissue namespace: uberon def: "Tissue which consists of skeletal muscle fibers surrounded by endomysium. Examples: Skeletal muscle tissue of biceps, Skeletal muscle tissue of diaphragm[FMA]. Striated muscle tissue under control of the somatic nervous system. It is one of three major muscle types, the others being cardiac and smooth muscle. As its name suggests, most skeletal muscle is attached to bones by bundles of collagen fibers known as tendons. Skeletal muscle is made up of individual components known as muscle fibers. These fibers are formed from the fusion of developmental myoblasts. The myofibers are long, cylindrical, multinucleated cells composed of actin and myosin myofibrils repeated as a sarcomere, the basic functional unit of the cell and responsible for skeletal muscle's striated appearance and forming the basic machinery necessary for muscle contraction. The term muscle refers to multiple bundles of muscle fibers held together by connective tissue[WP]." [Wikipedia:Skeletal_striated_muscle] comment: TODO - add skeletal muscle organ? See GO:0060538 skeletal muscle organ development. Todo - group FBbt:00005073 - somatic muscle. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "skeletal muscle" EXACT [] synonym: "skeletal muscle organ" RELATED [] synonym: "skeletal muscle system" RELATED [BTO:0001103] synonym: "somatic muscle" RELATED [BTO:0001103] xref: AAO:0011099 xref: BTO:0001103 xref: EFO:0000888 xref: EHDAA2:0001842 xref: EHDAA:2923 xref: EHDAA:5035 xref: EHDAA:5043 xref: EHDAA:5978 xref: EHDAA:5984 xref: EHDAA:8277 xref: EHDAA:8291 xref: EHDAA:8326 xref: EHDAA:9146 xref: EV:0100377 xref: FMA:14069 xref: GAID:141 xref: MA:0002439 xref: MAT:0000302 xref: MESH:A02.633.567 xref: MIAA:0000302 xref: OpenCyc:Mx4rv2kf-5wpEbGdrcN5Y29ycA xref: SCTID:426215008 xref: TAO:0005277 xref: UMLS:C0242692 xref: VHOG:0000319 xref: XAO:0000174 xref: ZFA:0005277 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Skeletal_muscle.jpg xref: ncithesaurus:Skeletal_Muscle_Tissue relationship: composed_primarily_of CL:0000188 ! skeletal muscle cell relationship: develops_from UBERON:0003082 ! myotome intersection_of: UBERON:0002036 ! striated muscle tissue intersection_of: has_part CL:0000188 ! skeletal muscle cell property_value: external_definition "Muscle, composed of long cylindrical, multinucleated cells that attaches to the skeleton via tendons.[TAO]" xsd:string property_value: homology_notes "This result implies the following views in terms of evolutionary differentiation: (1) Arthropod striated muscle and vertebrate skeletal and cardiac muscles share a common ancestor. In other words, they did not evolve independently (...) (5) The divergence of vertebrate skeletal and cardiac muscles/vertebrate smooth muscle and nonmuscle is at least before that of vertebrates/arthropods. In other words, emergence of skeletal and cardiac musle type tissues preceded the vertebrate/arthropod divergence (ca. 700 MYA).[well established][VHOG]" xsd:string [Term] id: UBERON:0001135 name: smooth muscle tissue namespace: uberon def: "Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length[GO]. Tissue which consists of smooth muscle fibers surrounded by a reticulum of collagen and elastic fibers. Examples: Arrector muscle of hair, Muscularis mucosae." [Wikipedia:Smooth_muscle_tissue] comment: terminological note: GO uses visceral and smooth interchangeably. However visceral can also be used in the sense of the viscera. Many fly annotations to smooth muscle terms. If we want to be inclusive of insects have to have a general definition of tissue that includes cells. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "involuntary muscle" EXACT [] synonym: "non-striated muscle" EXACT [] synonym: "smooth muscle" EXACT [] synonym: "textus muscularis levis; textus muscularis nonstriatus" RELATED LATIN [Wikipedia:Smooth_muscle_tissue] synonym: "textus muscularis nonstriatus" EXACT LATIN [FMA:14070, FMA:TA] synonym: "visceral muscle" NARROW SENSU [] synonym: "visceral muscle tissue" NARROW SENSU [] xref: AAO:0010244 xref: AEO:0000141 xref: BTO:0001260 xref: EFO:0000889 xref: EHDAA2:0003141 xref: EV:0100378 xref: FBbt:00003525 xref: FMA:14070 xref: GAID:167 xref: MA:0000166 xref: MAT:0000303 xref: MESH:A02.633.570 xref: MIAA:0000303 xref: OpenCyc:Mx4rvvSS3pwpEbGdrcN5Y29ycA xref: TAO:0005274 xref: UMLS:C1267092 xref: VHOG:0001246 xref: WBbt:0005781 xref: XAO:0000175 xref: ZFA:0005274 xref: galen:SmoothMuscle xref: galen:SmoothMuscleTissue xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Glatte_Muskelzellen.jpg xref: ncithesaurus:Smooth_Muscle_Tissue relationship: composed_primarily_of CL:0000192 ! smooth muscle cell relationship: has_part GO:0071953 ! elastic fiber intersection_of: UBERON:0002385 ! muscle tissue intersection_of: has_part CL:0000192 ! smooth muscle cell disjoint_from: UBERON:0002036 ! striated muscle tissue property_value: external_definition "A non-striated muscle that is composed of spindle-shaped cells. Smooth muscle usually is organized into sheets that line cavitated organs.[TAO]" xsd:string property_value: external_definition "Involuntary muscle tissue consisting of uninucleate spindle-shaped fibers.[AAO]" xsd:string property_value: homology_notes " (...) the first bilateral animals possessed only smooth muscles with the molecular repertoire necessary to build a striated muscle. (...) it is more parsimonious to regard striated muscle cells as a sister cell type to the smooth muscle cells. In this scenario, striated and smooth muscles would have arisen in the stem lineage that led to the Nephrozoa (i.e. all Bilateria exclusive the acoelomorphs) (Hejnol et al., 2009), from an bacoel-likeb smooth muscle, by segregation and divergence of functions and through differential recruitment of additional genes[well established][VHOG]" xsd:string [Term] id: UBERON:0001136 name: mesothelium namespace: uberon def: "Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri)." [FMA:14074, Wikipedia:Mesothelium] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AEO:0000111 xref: BTO:0002422 xref: EHDAA2_RETIRED:0003111 xref: EHDAA:2331 xref: EHDAA:2349 xref: EHDAA:295 xref: EHDAA:6073 xref: EHDAA:640 xref: EHDAA:646 xref: FMA:14074 xref: MA:0000565 xref: SCTID:361918002 xref: UMLS:C0086610 xref: http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg xref: ncithesaurus:Mesothelium is_a: UBERON:0012275 ! meso-epithelium relationship: composed_primarily_of CL:0000077 ! mesothelial cell relationship: develops_from UBERON:0000926 ! mesoderm intersection_of: UBERON:0000487 ! simple squamous epithelium intersection_of: develops_from UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0000042 ! serous membrane [Term] id: UBERON:0001137 name: dorsum namespace: uberon def: "The dorsal part of an animal, which in vertebrares includes the vertebral column. [cjm]." [UBERONREF:0000006, Wikipedia:Dorsum_(anatomy)] comment: Taxon notes: In humans, called the back, a large posterior area of the human body, rising from the top of the buttocks to the back of the neck and the shoulders. It is the surface opposite to the chest, its height being defined by the vertebral column (commonly referred to as the spine or backbone) and its breadth being supported by the ribcage and shoulders. The spinal canal runs through the spine and provides nerves to the rest of the body subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "back" EXACT [FMA:14181] synonym: "back of body proper" EXACT [FMA:14181] synonym: "dorsal part of organism" EXACT [] xref: BTO:0001713 xref: EFO:0001405 xref: FMA:14181 xref: GAID:30 xref: MESH:A01.176 xref: OpenCyc:Mx4rvVkEU5wpEbGdrcN5Y29ycA xref: SCTID:123961009 xref: UMLS:C0004600 xref: galen:Back xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/432px-Gray-back.PNG/200px-432px-Gray-back.PNG xref: ncithesaurus:Back is_a: UBERON:0000475 ! organism subdivision property_value: has_relational_adjective "dorsal" xsd:string [Term] id: UBERON:0001138 name: superior mesenteric vein namespace: uberon def: "In anatomy, the superior mesenteric vein (SMV) is a blood vessel that drains blood from the small intestine. At its termination behind the neck of the pancreas, the SMV combines with the splenic vein to form the hepatic portal vein. The SMV lies to the right of the similarly named artery, the superior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]." [Wikipedia:Superior_mesenteric_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "upper mesenteric vein" RELATED [BTO:0002783] synonym: "vena mesenterica superior" RELATED LATIN [Wikipedia:Superior_mesenteric_vein] xref: BTO:0002783 xref: EHDAA2:0001951 xref: EHDAA:5414 xref: EMAPA:18643 xref: FMA:14332 xref: MA:0002179 xref: OpenCyc:Mx4rwFjmM5wpEbGdrcN5Y29ycA xref: SCTID:278031001 xref: UMLS:C0226742 xref: VHOG:0000552 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Gray591.png/200px-Gray591.png xref: ncithesaurus:Superior_Mesenteric_Vein is_a: UBERON:0005617 ! mesenteric vein relationship: develops_from UBERON:0005487 ! vitelline vein [Term] id: UBERON:0001139 name: common iliac vein namespace: uberon def: "In human anatomy, the common iliac veins are formed by the external iliac veins and internal iliac veins and together, in the abdomen at the level of the fifth lumbar vertebrae, form the inferior vena cava. They drain blood from the pelvis and lower limbs. Both common iliac veins are accompanied along their course by common iliac arteries. [WP,unvetted]." [Wikipedia:Common_iliac_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "common iliac venous tree" EXACT [] synonym: "vena iliaca communis" RELATED LATIN [Wikipedia:Common_iliac_vein] xref: EMAPA:17874 xref: FMA:14333 xref: MA:0002143 xref: OpenCyc:Mx4rv92CGZwpEbGdrcN5Y29ycA xref: SCTID:181398004 xref: UMLS:C0226758 xref: galen:CommonIliacVein xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Iliac_veins.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Iliac_veins.gif/200px-Iliac_veins.gif xref: ncithesaurus:Common_Iliac_Vein is_a: UBERON:0001638 ! vein relationship: in_lateral_side_of UBERON:0001072 ! inferior vena cava [Term] id: UBERON:0001140 name: renal vein namespace: uberon def: "The renal veins are veins that drain the kidney. They connect the kidney to the inferior vena cava. It is usually singular to each kidney, except in the condition 'multiple renal veins'. It also divides into 2 divisions upon entering the kidney: the anterior branch which receives blood from the anterior portion of the kidney and, the posterior branch which receives blood from the posterior portion. Often, each renal vein will have a branch that receives blood from the ureter. [WP,unvetted]." [Wikipedia:Renal_vein] comment: AO notes: see also MA:0002591 'kidney venous blood vessel'. in EHDAA2, the renal vein is part of the kidney subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "kidney vein" EXACT [OBOL:automatic] synonym: "kidney venous blood vessel" EXACT [MA:0002591] synonym: "renal venous tree" EXACT [] synonym: "vein of kidney" EXACT [OBOL:automatic] synonym: "venae renales" RELATED LATIN [Wikipedia:Renal_vein] xref: BTO:0002681 xref: EHDAA2:0001602 xref: EHDAA:8722 xref: EMAPA:19223 xref: EMAPA:28376 xref: FMA:14334 xref: GAID:544 xref: MA:0002210 xref: MESH:A07.231.908.752 xref: OpenCyc:Mx4rvdUXKJwpEbGdrcN5Y29ycA xref: SCTID:116358006 xref: UMLS:C0035092 xref: galen:RenalVein xref: http://upload.wikimedia.org/wikipedia/commons/7/76/Gray1122.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/76/Gray1122.png/200px-Gray1122.png xref: ncithesaurus:Renal_Vein is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0001072 ! inferior vena cava intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002113 ! kidney [Term] id: UBERON:0001141 name: right renal vein namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:14335 xref: MA:0002212 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvdUXKJwpEbGdrcN5Y29ycA xref: SCTID:116357001 xref: UMLS:C0508000 xref: ncithesaurus:Right_Renal_Vein is_a: UBERON:0001140 ! renal vein [Term] id: UBERON:0001142 name: left renal vein namespace: uberon def: "The renal veins are veins that drain the kidney. They connect the kidney to the inferior vena cava. It is usually singular to each kidney, except in the condition 'multiple renal veins'. It also divides into 2 divisions upon entering the kidney: the anterior branch which receives blood from the anterior portion of the kidney and, the posterior branch which receives blood from the posterior portion. Often, each renal vein will have a branch that receives blood from the ureter. [WP,unvetted]." [Wikipedia:Left_renal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:14336 xref: MA:0002211 xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvdUXKJwpEbGdrcN5Y29ycA xref: SCTID:116356005 xref: UMLS:C0508001 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/76/Gray1122.png/200px-Gray1122.png xref: ncithesaurus:Left_Renal_Vein is_a: UBERON:0001140 ! renal vein [Term] id: UBERON:0001143 name: hepatic vein namespace: uberon def: "Vein that carries blood away from the liver[ZFA]." [Wikipedia:Hepatic_vein, ZFA:0000670, https://sourceforge.net/tracker/?func=detail&aid=3565355&group_id=76834&atid=1205376] comment: Definition derived from ZFA but general enough for other species. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hepatic veins" RELATED PLURAL [] synonym: "liver vein" EXACT [OBOL:automatic] synonym: "vein of liver" EXACT [OBOL:automatic] synonym: "vena hepatica" EXACT LATIN [] synonym: "venae hepaticae" RELATED LATIN [Wikipedia:Hepatic_vein] xref: AAO:0010216 xref: EMAPA:19221 xref: FMA:14337 xref: GAID:534 xref: MA:0003015 xref: MESH:A07.231.908.380 xref: OpenCyc:Mx4rv5GivJwpEbGdrcN5Y29ycA xref: SCTID:278191001 xref: TAO:0000670 xref: UMLS:C0019155 xref: XAO:0000387 xref: ZFA:0000670 xref: galen:HepaticVein xref: http://upload.wikimedia.org/wikipedia/commons/6/61/Gray1121.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/61/Gray1121.png/200px-Gray1121.png xref: ncithesaurus:Hepatic_Vein is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001638 ! vein is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0013126 ! vein of abdomen relationship: develops_from UBERON:0005487 ! vitelline vein relationship: part_of UBERON:0006877 ! vasculature of liver relationship: tributary_of UBERON:0001072 ! inferior vena cava intersection_of: UBERON:0001638 ! vein intersection_of: channels_from UBERON:0002107 ! liver disjoint_from: UBERON:0001639 ! hepatic portal vein [Term] id: UBERON:0001144 name: testicular vein namespace: uberon def: "The testicular vein (or spermatic vein), the male gonadal vein, carries deoxygenated blood from its corresponding testis to the inferior vena cava or one of its tributaries. It is the male equivalent of the ovarian vein, and is the venous counterpart of the testicular artery. It is a paired vein, with one supplying each testis: the right testicular vein generally joins the inferior vena cava; the left testicular vein, unlike the right, often joins the left renal vein instead of the inferior vena cava. The veins emerge from the back of the testis, and receive tributaries from the epididymis; they unite and form a convoluted plexus, called the pampiniform plexus, which constitutes the greater mass of the spermatic cord; the vessels composing this plexus are very numerous, and ascend along the cord, in front of the ductus deferens. Below the subcutaneous inguinal ring, they unite to form three or four veins, which pass along the inguinal canal, and, entering the abdomen through the abdominal inguinal ring, coalesce to form two veins, which ascend on the Psoas major, behind the peritoneum, lying one on either side of the internal spermatic artery. These unite to form a single vein, which opens, on the right side, into the inferior vena cava (at an acute angle), on the left side into the left renal vein (at a right angle). The spermatic veins are provided with valves. The left spermatic vein passes behind the iliac colon and is thus exposed to pressure from the contents of that part of the bowel. [WP,unvetted]." [Wikipedia:Testicular_vein, https://sourceforge.net/tracker/?func=detail&aid=3220553&group_id=76834&atid=1205376] comment: Comment: todo - check testicular vs spermatic vein (MA:0002218) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "male gonadal vein" EXACT [Wikipedia:Testicular_vein] synonym: "spermatic vein" EXACT [Wikipedia:Testicular_vein] synonym: "testicle vein" EXACT [OBOL:automatic] synonym: "testicular venous tree" EXACT [Wikipedia:Testicular_vein] synonym: "vein of testicle" EXACT [OBOL:automatic] synonym: "vena tesicularis" RELATED [BTO:0002678] synonym: "vena testicularis dextra," RELATED LATIN [Wikipedia:Testicular_vein] synonym: "vena testicularis sinistra," RELATED LATIN [Wikipedia:Testicular_vein] synonym: "venae spermaticae" RELATED LATIN [Wikipedia:Testicular_vein] xref: BTO:0002678 xref: EMAPA:18647 xref: FMA:14344 xref: MA:0002218 xref: MA:0002234 xref: OpenCyc:Mx4rv1WIHpwpEbGdrcN5Y29ycA xref: SCTID:264496006 xref: UMLS:C0226718 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/Gray590.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/Gray590.png/200px-Gray590.png xref: ncithesaurus:Spermatic_Vein is_a: UBERON:0001638 ! vein relationship: connected_to UBERON:0001072 ! inferior vena cava relationship: connected_to UBERON:0001330 ! pampiniform plexus relationship: in_lateral_side_of UBERON:0000468 ! multi-cellular organism intersection_of: UBERON:0001638 ! vein intersection_of: connected_to UBERON:0000473 ! testis property_value: sexually_homologous_to UBERON:0001145 [Term] id: UBERON:0001145 name: ovarian vein namespace: uberon def: "The ovarian vein, the female gonadal vein, carries deoxygenated blood from its corresponding ovary to inferior vena cava or one of its tributaries. It is the female equivalent of the testicular vein, and is the venous counterpart of the ovarian artery. It can be found in the suspensory ligament of the ovary. It a paired vein, with one supplying each ovary. The right ovarian vein travels through the suspensatory ligament of the ovary and generally joins the inferior vena cava. The left ovarian vein, unlike the right, often joins the left renal vein instead of the inferior vena cava. [WP,unvetted]." [Wikipedia:Ovarian_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "female reproductive system gonad vein" EXACT [OBOL:automatic] synonym: "female reproductive system gonada vein" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system vein" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system vein" EXACT [OBOL:automatic] synonym: "ovary vein" EXACT [OBOL:automatic] synonym: "vein of female reproductive system gonad" EXACT [OBOL:automatic] synonym: "vein of female reproductive system gonada" EXACT [OBOL:automatic] synonym: "vein of gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "vein of gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "vein of ovary" EXACT [OBOL:automatic] synonym: "vena ovarica sinistra, vena ovarica dextra" RELATED LATIN [Wikipedia:Ovarian_vein] xref: EMAPA:18644 xref: FMA:14346 xref: MA:0002186 xref: OpenCyc:Mx4rvrST5ZwpEbGdrcN5Y29ycA xref: SCTID:278193003 xref: UMLS:C0226720 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Ovarschaf.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Ovarschaf.jpg/200px-Ovarschaf.jpg xref: ncithesaurus:Ovarian_Vein is_a: UBERON:0001638 ! vein relationship: in_lateral_side_of UBERON:0000468 ! multi-cellular organism intersection_of: UBERON:0001638 ! vein intersection_of: connected_to UBERON:0000992 ! female gonad [Term] id: UBERON:0001146 name: suprarenal vein namespace: uberon def: "The Suprarenal veins are two in number: the right ends in the inferior vena cava. the left ends in the left renal or left inferior phrenic vein. They receive blood from the adrenal glands and will sometimes form anastomoses with the inferior phrenic veins. [WP,unvetted]." [Wikipedia:Suprarenal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EHDAA2:0001966 xref: EHDAA:8731 xref: FMA:14348 xref: MA:0002229 xref: SCTID:278194009 xref: UMLS:C0226717 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/76/Gray1122.png/200px-Gray1122.png xref: ncithesaurus:Suprarenal_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0001147 name: trunk of peripheral nerve namespace: uberon comment: This class was created automatically from a combination of ontologies subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "peripheral nerve trunk" EXACT [] synonym: "peripheral neural trunk" EXACT [] xref: EMAPA:16986 xref: FMA:14383 xref: MA:0000229 is_a: UBERON:0002464 ! nerve trunk relationship: part_of UBERON:0002003 ! peripheral nerve [Term] id: UBERON:0001148 name: median nerve namespace: uberon def: "The median nerve is a nerve in humans and other animals. It is in the upper limb. It is one of the five main nerves originating from the brachial plexus. The median nerve is formed from parts of the medial and lateral cords of the brachial plexus, and continues down the arm to enter the forearm with the brachial artery. It originates from the brachial plexus with roots from C5, C6, C7, C8 & T1. The median nerve is the only nerve that passes through the carpal tunnel, where it may be compressed to cause carpal tunnel syndrome. [WP,unvetted]." [Wikipedia:Median_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nervus medianus" RELATED LATIN [Wikipedia:Median_nerve] xref: EHDAA2:0001086 xref: EHDAA:5648 xref: EMAPA:17277 xref: FMA:14385 xref: GAID:843 xref: MA:0001168 xref: MESH:A08.800.800.720.050.500 xref: OpenCyc:Mx4rwF4HF5wpEbGdrcN5Y29ycA xref: SCTID:181010001 xref: UMLS:C0025058 xref: http://upload.wikimedia.org/wikipedia/commons/a/a7/Nerves_of_the_left_upper_extremity.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a7/Nerves_of_the_left_upper_extremity.gif/200px-Nerves_of_the_left_upper_extremity.gif xref: ncithesaurus:Median_Nerve is_a: UBERON:0002003 ! peripheral nerve is_a: UBERON:0003433 ! arm nerve relationship: part_of UBERON:0001460 ! arm relationship: part_of UBERON:0001814 ! brachial nerve plexus [Term] id: UBERON:0001149 name: bare area of liver namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "area nuda (hepar)" EXACT [] synonym: "area nuda hepatis" EXACT [] synonym: "liver bare area" EXACT [] xref: EMAPA:17945 xref: EMAPA:18308 xref: EMAPA:18312 xref: FMA:14480 xref: MA:0000359 xref: SCTID:279965008 is_a: UBERON:0000466 ! immaterial anatomical entity relationship: part_of UBERON:0001114 ! right lobe of liver [Term] id: UBERON:0001150 name: body of pancreas namespace: uberon def: "The body of the pancreas is a subsection of the pancreas organ in the human body. It is somewhat prismatic in shape, and has three surfaces: anterior, posterior, and inferior. It is at the same level as the transpyloric plane. [WP,unvetted]." [Wikipedia:Body_of_pancreas] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus pancreatis" RELATED LATIN [Wikipedia:Body_of_pancreas] synonym: "pancreas body" EXACT [] synonym: "pancreas corpus" RELATED [] synonym: "pancreatic body" EXACT [] xref: EHDAA2:0001368 xref: EHDAA:9178 xref: EMAPA:17504 xref: EMAPA:18817 xref: FMA:14518 xref: MA:0000121 xref: SCTID:362202004 xref: UMLS:C0227582 xref: VHOG:0000451 xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Illu_pancreas_duodenum.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Illu_pancreas_duodenum.jpg/200px-Illu_pancreas_duodenum.jpg xref: ncithesaurus:Body_of_the_Pancreas is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0001264 ! pancreas property_value: homology_notes "Hagfish and lampreys may have one or more endocrine buds - and later the vertebrate pancreas develop as independent ventral and dorsal buds that eventually fuse to become one organ.[well established][VHOG]" xsd:string [Term] id: UBERON:0001151 name: tail of pancreas namespace: uberon def: "The tail of the pancreas, located anatomically left near the hilum of the spleen, is not simply an anatomical distinction. The tail is the only part of the pancreas which contains Pancreatic Polypeptide (PP) cells, which are responsible for secreting pancreatic polypeptide to coordinate exocrine and islet enzyme release. PP cells are found in the tail's periphery. Beta cells and delta cells are found in the central part of the tail as with the rest of the pancreas. The cells described above are located exclusively in the islet cells; their secretions reach exocrine portions of the pancreas via the capillary network surrounding the islet cell populations. [WP,unvetted]." [Wikipedia:Tail_of_pancreas] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cauda pancreatis" RELATED LATIN [Wikipedia:Tail_of_pancreas] synonym: "left extremity of pancreas" EXACT [FMA:14519] synonym: "pancreas tail" EXACT [] synonym: "pancreatic tail" EXACT [FMA:14519] xref: EHDAA2:0001390 xref: EMAPA:17511 xref: EMAPA:18824 xref: FMA:14519 xref: MA:0000123 xref: SCTID:245382003 xref: UMLS:C0227590 xref: VHOG:0000452 xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Illu_pancreas_duodenum.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Illu_pancreas_duodenum.jpg/200px-Illu_pancreas_duodenum.jpg xref: ncithesaurus:Tail_of_the_Pancreas is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0009708 ! dorsal pancreas relationship: part_of UBERON:0001264 ! pancreas property_value: homology_notes "Hagfish and lampreys may have one or more endocrine buds - and later the vertebrate pancreas develop as independent ventral and dorsal buds that eventually fuse to become one organ.[well established][VHOG]" xsd:string [Term] id: UBERON:0001152 name: cystic duct namespace: uberon def: "The cystic duct is the short duct that joins the gall bladder to the common bile duct. It usually lies next to the cystic artery. It is of variable length. It contains a 'spiral valve', which does not provide much resistance to the flow of bile. [WP,unvetted]." [Wikipedia:Cystic_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ductus cysticus" RELATED LATIN [Wikipedia:Cystic_duct] xref: EHDAA2:0000333 xref: EHDAA:3045 xref: EMAPA:16841 xref: FMA:14539 xref: GAID:290 xref: MA:0000355 xref: MESH:A03.159.183.419 xref: OpenCyc:Mx4rveBeC5wpEbGdrcN5Y29ycA xref: SCTID:245398005 xref: TAO:0005166 xref: UMLS:C0010672 xref: VHOG:0000213 xref: ZFA:0005166 xref: galen:CysticDuct xref: http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Digestive_system_showing_bile_duct.png/200px-Digestive_system_showing_bile_duct.png xref: ncithesaurus:Cystic_Duct is_a: UBERON:0003703 ! extrahepatic bile duct relationship: channel_for UBERON:0001970 ! bile relationship: channels_into UBERON:0001174 ! common bile duct relationship: continuous_with UBERON:0001174 ! common bile duct relationship: continuous_with UBERON:0002110 ! gallbladder relationship: develops_from UBERON:0005604 ! hepatic duct extrahepatic part relationship: part_of UBERON:0001173 ! biliary tree property_value: external_definition "Duct that connects the gall bladder and the common bile duct.[TAO]" xsd:string property_value: external_definition "The duct of the gallbladder which joins the common hepatic duct, thus forming the common biliary duct. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string [Term] id: UBERON:0001153 name: caecum namespace: uberon def: "Pouch, connecting the ileum with the ascending colon of the large intestine. It is separated from the ileum by the ileocecal valve, and is the beginning of the large intestine. It is also separated from the colon by the cecocolic junction." [Wikipedia:Cecum] comment: Taxon notes: A cecum is present in most amniote species, and also in lungfish, but not in any living species of amphibian. In reptiles, it is usually a single median structure, arising from the dorsal side of the large intestine. Birds typically have two paired ceca, as, unlike other mammals, do hyraxes. Most mammalian herbivores have a relatively large cecum, hosting a large number of bacteria, which aid in the enzymatic breakdown of plant materials such as cellulose; in many species, it is considerably wider than the colon. In contrast, obligatory carnivores, whose diets contain little or no plant material, have a reduced cecum, which is often partially or wholly replaced by the vermiform appendix. Many fish have a number of small outpocketings, called pyloric ceca, along their intestine; despite the name they are not homologous with the cecum of amniotes, and their purpose is to increase the overall area of the digestive epithelium.[2] Some invertebrates, such as squid,[3] may also have structures with the same name, but these have no relationship with those of vertebrates.[WP] Kardong: in some herbivorous lizards, a cecum is present between small and large intestines subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "blind intestine" RELATED [BTO:0000166] synonym: "blindgut" RELATED [BTO:0000166] synonym: "caeca" NARROW PLURAL [NCBITaxon:8782] synonym: "ceca" NARROW PLURAL [NCBITaxon:8782] synonym: "cecum" EXACT [FMA:14541] synonym: "intestinum caecum" RELATED [BTO:0000166] synonym: "intestinum crassum caecum" EXACT [] synonym: "intestinum crassum cecum" RELATED [BTO:0000166] xref: BTO:0000166 xref: EFO:0000850 xref: EHDAA2:0000206 xref: EHDAA:3913 xref: EV:0100397 xref: FMA:14541 xref: GAID:307 xref: MA:0000334 xref: MESH:A03.492.411.495.209 xref: MIAA:0000288 xref: OpenCyc:Mx4rve6u4JwpEbGdrcN5Y29ycA xref: SCTID:181256004 xref: UMLS:C0007531 xref: VHOG:0001559 xref: galen:Cecum xref: http://upload.wikimedia.org/wikipedia/commons/8/82/Stomach_colon_rectum_diagram.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/82/Stomach_colon_rectum_diagram.svg/200px-Stomach_colon_rectum_diagram.svg.png xref: ncithesaurus:Cecum is_a: UBERON:0009854 ! digestive tract diverticulum relationship: continuous_with UBERON:0001156 ! ascending colon relationship: develops_from UBERON:0001045 ! midgut relationship: part_of UBERON:0000059 ! large intestine relationship: part_of UBERON:0001155 ! colon property_value: never_in_taxon NCBITaxon:32443 property_value: has_relational_adjective "caecal" xsd:string [Term] id: UBERON:0001154 name: vermiform appendix namespace: uberon def: "a blind-ended tube connected to the cecum, from which it develops embryologically[WP]." [Wikipedia:Vermiform_appendix] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "apex of cecum" RELATED [VHOG:0001306] synonym: "appendix" EXACT [] synonym: "appendix vermiformis" EXACT LATIN [FMA:14542, FMA:TA, Wikipedia:Vermiform_appendix] synonym: "caecal appendix" EXACT [] synonym: "cecal appendix" EXACT [] synonym: "vermix" BROAD [] xref: BTO:0000084 xref: EFO:0000849 xref: EHDAA2:0000588 xref: EV:0100076 xref: EV:0100080 xref: FMA:14542 xref: GAID:308 xref: MA:0001540 xref: MAT:0000287 xref: MESH:A03.492.411.495.209.290 xref: MIAA:0000287 xref: OpenCyc:Mx4rvVjGgJwpEbGdrcN5Y29ycA xref: SCTID:181255000 xref: UMLS:C0003617 xref: VHOG:0001306 xref: galen:AppendixVermiformis xref: http://upload.wikimedia.org/wikipedia/commons/a/ad/Gray536.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ad/Gray536.png/200px-Gray536.png xref: ncithesaurus:Vermiform_Appendix is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0001045 ! midgut relationship: part_of UBERON:0001153 ! caecum relationship: part_of UBERON:0004907 ! lower digestive tract property_value: external_definition "Organ with organ cavity which is continuous proximally with the cecum and distally terminates in the tip of the appendix. Examples: There is only one appendix[FMA:14542]." xsd:string property_value: has_relational_adjective "appendiceal" xsd:string property_value: homology_notes "A comparative anatomical approach reveals three apparent morphotypes of the cecal appendix, as well as appendix-like structures in some species that lack a true cecal appendix. Cladistic analyses indicate that the appendix has evolved independently at least twice (at least once in diprotodont marsupials and at least once in Euarchontoglires), shows a highly significant (P < 0.0001) phylogenetic signal in its distribution, and has been maintained in mammalian evolution for 80 million years or longer.[well established][VHOG]" xsd:string [Term] id: UBERON:0001155 name: colon namespace: uberon def: "Last portion of the digestive system in most vertebrates; it extracts water and salt from solid wastes before they are eliminated from the body[WP] In mammals, the colon consists of four sections: the ascending colon, the transverse colon, the descending colon, and the sigmoid colon[WP]. In zebrafish, the posterior intestine has short longitudinally arranged epithelial folds which are similar to the colon of higher vertebrates. Wallace et al, 2005." [Wikipedia:Colon_(anatomy), ZFIN:curator] comment: TODO: abstract this such that it legitimately covers all vertebrates subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hindgut" RELATED [] synonym: "large bowel" EXACT [] synonym: "posterior intestine" NARROW [] synonym: "posterior intestine - zebrafish" BROAD [] xref: AAO:0010400 xref: BTO:0000269 xref: EFO:0000361 xref: EMAPA:18939 xref: EV:0100079 xref: FMA:14543 xref: GAID:309 xref: MA:0000335 xref: MAP:0000001 xref: MAT:0000526 xref: MESH:A03.492.411.495.356 xref: OpenCyc:Mx4rvgLEM5wpEbGdrcN5Y29ycA xref: SCTID:302508007 xref: TAO:0000706 xref: UMLS:C0009368 xref: VHOG:0000648 xref: XAO:0000243 xref: ZFA:0000706 xref: galen:Colon xref: ncithesaurus:Colon is_a: UBERON:0004921 ! subdivision of digestive tract relationship: part_of UBERON:0000059 ! large intestine property_value: external_definition "The last portion of the digestive system, it extracts water and salt from solid wastes before they are eliminated from the body.[AAO]" xsd:string property_value: external_definition "The posterior intestine has short longitudinally arranged epithelial folds which are similar to the colon of higher vertebrates. Wallace et al, 2005.[TAO]" xsd:string property_value: has_relational_adjective "colonic" xsd:string property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001156 name: ascending colon namespace: uberon def: "Organ part which is continuous with the cecum proximally and the transverse colon distally.[FMA]" [FMA:FMA, Wikipedia:Ascending_colon] comment: Note that in MA, this is a subclass of colon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "colon ascendens" RELATED LATIN [Wikipedia:Ascending_colon] synonym: "spiral colon" RELATED SENSU [Wikipedia:Spiral_colon] xref: BTO:0000270 xref: EFO:0000843 xref: FMA:14545 xref: MA:0001541 xref: MAT:0000311 xref: MIAA:0000311 xref: OpenCyc:Mx4rv3H0FZwpEbGdrcN5Y29ycA xref: SCTID:362162009 xref: UMLS:C0227375 xref: galen:AscendingColon xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Dickdarm-Schema.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Dickdarm-Schema.svg/200px-Dickdarm-Schema.svg.png xref: ncithesaurus:Ascending_Colon is_a: UBERON:0000168 ! segment of colon relationship: continuous_with UBERON:0001157 ! transverse colon relationship: develops_from UBERON:0001045 ! midgut [Term] id: UBERON:0001157 name: transverse colon namespace: uberon def: "The transverse colon the longest and most movable part of the colon, passes with a downward convexity from the right hypochondrium region across the abdomen, opposite the confines of the epigastric and umbilical zones, into the left hypochondrium region, where it curves sharply on itself beneath the lower end of the spleen, forming the splenic or left colic flexure. The right colic flexure is adjacent to the liver. In its course, it describes an arch, the concavity of which is directed backward and a little upward; toward its splenic end there is often an abrupt U-shaped curve which may descend lower than the main curve. It is almost completely invested by peritoneum, and is connected to the inferior border of the pancreas by a large and wide duplicature of that membrane, the transverse mesocolon. It is in relation, by its upper surface, with the liver and gall-bladder, the greater curvature of the stomach, and the lower end of the spleen; by its under surface, with the small intestine; by its anterior surface, with the anterior layers of the greater omentum and the abdominal parietes; its posterior surface is in relation from right to left with the descending portion of the duodenum, the head of the pancreas, and some of the convolutions of the jejunum and ileum. [WP,unvetted]." [Wikipedia:Transverse_colon] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "colon transversum" RELATED LATIN [Wikipedia:Transverse_colon] xref: BTO:0000272 xref: EFO:0000844 xref: FMA:14546 xref: MA:0001543 xref: MAT:0000312 xref: MIAA:0000312 xref: OpenCyc:Mx4rvg7qyJwpEbGdrcN5Y29ycA xref: SCTID:362163004 xref: UMLS:C0227386 xref: galen:TransverseColon xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Dickdarm-Schema.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Dickdarm-Schema.svg/200px-Dickdarm-Schema.svg.png xref: ncithesaurus:Transverse_Colon is_a: UBERON:0000168 ! segment of colon relationship: continuous_with UBERON:0001158 ! descending colon relationship: develops_from UBERON:0001045 ! midgut [Term] id: UBERON:0001158 name: descending colon namespace: uberon def: "The descending colon of humans passes downward through the left hypochondrium and lumbar regions, along the lateral border of the left kidney. At the lower end of the kidney it turns medialward toward the lateral border of the psoas muscle, and then descends, in the angle between psoas and quadratus lumborum, to the crest of the ilium, where it ends in the sigmoid colon. The peritoneum covers its anterior surface and sides, and therefore the descending colon is described as retroperitoneal. (The transverse colon and sigmoid colon, which are immediately proximal and distal, are intraperitoneal). Its posterior surface is connected by areolar tissue with the lower and lateral part of the left kidney, the aponeurotic origin of the transversus abdominis, and the quadratus lumborum. It is smaller in caliber and more deeply placed than the ascending colon. It has a mesentery in 33% of people, and is therefore more frequently covered with peritoneum on its posterior surface than the ascending colon (which has a mesentery in 25% of people). However, it is less likely to undergo volvulus than the ascending colon. In front of it are some coils of small intestine. [WP,unvetted]." [Wikipedia:Descending_colon] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "colon descendens" RELATED LATIN [Wikipedia:Descending_colon] xref: BTO:0000641 xref: EFO:0000845 xref: FMA:14547 xref: MA:0001542 xref: MAT:0000313 xref: MIAA:0000313 xref: OpenCyc:Mx4rwHsNhpwpEbGdrcN5Y29ycA xref: SCTID:362165006 xref: UMLS:C0227389 xref: galen:DescendingColon xref: http://upload.wikimedia.org/wikipedia/commons/c/ca/Gray1223.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/ca/Gray1223.png/200px-Gray1223.png xref: ncithesaurus:Descending_Colon is_a: UBERON:0000168 ! segment of colon relationship: continuous_with UBERON:0001159 ! sigmoid colon relationship: develops_from UBERON:0001046 ! hindgut [Term] id: UBERON:0001159 name: sigmoid colon namespace: uberon def: "the part of the large intestine that is closest to the rectum and anus. It forms a loop that averages about 40 cm. in length, and normally lies within the pelvis, but on account of its freedom of movement it is liable to be displaced into the abdominal cavity." [Wikipedia:Sigmoid_colon] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "colon sigmoideum" RELATED LATIN [Wikipedia:Sigmoid_colon] synonym: "pelvic colon" RELATED [] synonym: "sigmoid colon" RELATED [] synonym: "sigmoid flexure" RELATED [] xref: BTO:0000645 xref: EFO:0000846 xref: FMA:14548 xref: MAT:0000314 xref: MESH:A03.492.411.495.356.668 xref: MIAA:0000314 xref: OpenCyc:Mx4rwHX_-5wpEbGdrcN5Y29ycA xref: SCTID:362166007 xref: UMLS:C0227391 xref: UMLS:C0682612 xref: galen:SigmoidColon xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Dickdarm-Schema.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Dickdarm-Schema.svg/200px-Dickdarm-Schema.svg.png xref: ncithesaurus:Sigmoid_Colon xref: ncithesaurus:Sigmoid_Flexure is_a: UBERON:0000168 ! segment of colon relationship: continuous_with UBERON:0001052 ! rectum relationship: develops_from UBERON:0001046 ! hindgut [Term] id: UBERON:0001160 name: fundus of stomach namespace: uberon def: "The fundus is the portion of the stomach that lies above the cardiac notch, and contains the fundic glands[GO, Kardong]." [GO:0014825, ISBN10:0073040584, Wikipedia:Fundus_%28stomach%29] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fundus gastricus" RELATED [BTO:0000502] synonym: "fundus gastricus (ventricularis)" EXACT [] synonym: "fundus gastricus ventricularis" RELATED [BTO:0000502] synonym: "fundus ventricularis" RELATED [BTO:0000502] synonym: "fundus ventriculi" RELATED [BTO:0000502] synonym: "gastric fundus" EXACT [] synonym: "stomach fundus" EXACT [] xref: BTO:0000502 xref: EFO:0002554 xref: EHDAA2:0001919 xref: EHDAA:4844 xref: FMA:14559 xref: GAID:320 xref: MA:0001612 xref: MESH:A03.492.766.419 xref: SCTID:362139007 xref: UMLS:C0017129 xref: VHOG:0000421 xref: galen:GastricFundus xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Fundus_of_the_Stomach is_a: UBERON:0009870 ! zone of stomach relationship: has_part UBERON:0010038 ! fundic gastric gland property_value: external_definition "The greater curvature of the stomach. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001161 name: body of stomach namespace: uberon def: "The body of stomach is the part of the stomach that lies between the fundus above and the pyloric antrum below; its boundaries are poorly defined[GO]." [GO:0014845, Wikipedia:Body_of_stomach] comment: Note that we include this as zone of stomach even though it is not distinguished by gland type subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus gastricum" RELATED LATIN [BTO:0000505, Wikipedia:Body_of_stomach] synonym: "corpus gastricum (ventriculare)" EXACT [] synonym: "corpus ventriculare" RELATED [BTO:0000505] synonym: "corpus ventriculi" RELATED [BTO:0000505] synonym: "gastric body" EXACT [] synonym: "gastric corpus" RELATED [] synonym: "stomach body" EXACT [] xref: BTO:0000505 xref: FMA:14560 xref: MA:0002559 xref: SCTID:362140009 xref: UMLS:C0227230 xref: galen:GastricCorpus xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Body_of_Stomach is_a: UBERON:0009870 ! zone of stomach [Term] id: UBERON:0001162 name: cardia of stomach namespace: uberon alt_id: UBERON:0004712 def: "The part of the stomach attached to the esophagus. The cardia begins immediately distal to the z-line of the gastroeosphageal junction, where the squamous epithelium of the esophagus gives way to the columnar epithelium of the gastrointestinal tract[WP]" [BTO:0000198, Wikipedia:Cardia] comment: Editor notes: We follow Kardong in defining stomach regions by glands. Boundary notes: There were previously conflicting statements in the academic anatomy community[10][11][12] over whether the cardia is part of the stomach, part of the esophagus or a distinct entity. Modern surgical and medical textbooks have agreed that \"The gastric cardia is now clearly considered to be part of the stomach\"[13][14]. Classical anatomy textbooks, and some other resources[15], describe the cardia as the first of 4 regions of the stomach. This makes sense histologically because the mucosa of the cardia is the same as that of the stomach[WP]. synonym: "antrum cardiacum" RELATED LATIN [Wikipedia:Cardia] synonym: "cardiac antrum" RELATED [] synonym: "cardiac orifice" RELATED [Wikipedia:Cardia] synonym: "cardiac region" RELATED [Wikipedia:Cardia] synonym: "cardial orifice" RELATED [Wikipedia:Cardia] synonym: "cardial part of stomach" EXACT [] synonym: "gastric cardia" EXACT [] synonym: "pars cardiaca (gaster)" EXACT [] synonym: "pars cardiaca gastricae" EXACT LATIN [FMA:14561, FMA:TA] synonym: "stomach cardiac region" EXACT [MA:0001609] xref: BTO:0000198 xref: FMA:14561 xref: GAID:319 xref: MA:0001609 xref: MESH:A03.492.766.163 xref: SCTID:362138004 xref: UMLS:C0007144 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Illu_stomach.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Illu_stomach.jpg/200px-Illu_stomach.jpg xref: ncithesaurus:Cardia relationship: continuous_with UBERON:0001043 ! esophagus relationship: continuous_with UBERON:0001161 ! body of stomach intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0008859 ! cardiac gastric gland [Term] id: UBERON:0001163 name: lesser curvature of stomach namespace: uberon def: "The lesser curvature of the stomach, extending between the cardiac and pyloric orifices, forms the right or posterior border of the stomach. It descends as a continuation of the right margin of the esophagus in front of the fibers of the right crus of the diaphragm, and then, turning to the right, it crosses the first lumbar vertebra and ends at the pylorus. Nearer its pyloric than its cardiac end is a well-marked notch, the incisura angularis, which varies somewhat in position with the state of distension of the viscus; it serves to separate the stomach into a right and a left portion. The lesser curvature gives attachment to the two layers of the hepatogastric ligament, and between these two layers are the left gastric artery and the right gastric branch of the hepatic artery. [WP,unvetted]." [Wikipedia:Lesser_curvature_of_stomach] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "stomach lesser curvature" EXACT [] xref: FMA:14572 xref: MA:0001616 xref: SCTID:362133008 xref: UMLS:C0227221 xref: galen:LesserCurvatureOfStomach xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Lesser_Curvature is_a: UBERON:0009870 ! zone of stomach [Term] id: UBERON:0001164 name: greater curvature of stomach namespace: uberon def: "The greater curvature of the stomach is directed mainly forward, and is four or five times as long as the lesser curvature. [WP,unvetted]." [Wikipedia:Greater_curvature_of_stomach] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "stomach greater curvature" EXACT [] xref: FMA:14574 xref: MA:0001615 xref: SCTID:362134002 xref: UMLS:C0227223 xref: galen:GreaterCurvatureOfStomach xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Greater_Curvature is_a: UBERON:0009870 ! zone of stomach [Term] id: UBERON:0001165 name: pyloric antrum namespace: uberon def: "Pyloric antrum (antrum, lesser cul-de-sac) is the initial portion of the pyloric part of the stomach. It is near the bottom of the stomach on the left side of the pyloric sphincter, which separates the stomach and the duodenum. It may temporarily become partially or completely shut off from the remainder of the stomach during digestion by peristaltic contraction of the prepyloric sphincter; it is demarcated, sometimes, from the second part of the pyloric part of the stomach by a slight groove. [WP,unvetted]." [Wikipedia:Pyloric_antrum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "antrum" BROAD [] synonym: "antrum of Willis" RELATED [BTO:0001732] synonym: "antrum of stomach" EXACT [] synonym: "antrum pylori" RELATED [BTO:0001732] synonym: "antrum pyloricum" RELATED LATIN [BTO:0001732, Wikipedia:Pyloric_antrum] synonym: "gastric antrum" RELATED [BTO:0001732] synonym: "stomach antrum" RELATED [] synonym: "stomach pyloric antrum" EXACT [] xref: BTO:0001732 xref: EFO:0002555 xref: EMAPA:17891 xref: EMAPA:18919 xref: FMA:14579 xref: GAID:332 xref: MA:0001624 xref: MESH:A03.492.766.716 xref: SCTID:362142001 xref: UMLS:C0034193 xref: galen:PyloricAntrum xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Antrum_Pylori is_a: UBERON:0009870 ! zone of stomach relationship: continuous_with UBERON:0001161 ! body of stomach relationship: part_of UBERON:0001166 ! pylorus [Term] id: UBERON:0001166 name: pylorus namespace: uberon def: "The region of the stomach that connects to the duodenum. It is divided in two parts: the pyloric antrum, which connects to the body of the stomach. the pyloric canal, which connects to the duodenum. The pyloric sphincter, or valve, is a strong ring of smooth muscle at the end of the pyloric canal and lets food pass from the stomach to the duodenum. It receives sympathetic innervation from celiac ganglion. [WP,unvetted]." [Wikipedia:Pylorus] comment: Editor notes: We follow Kardong in defining stomach regions by glands subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars pylorica" EXACT LATIN [] synonym: "pars pylorica gastricae" EXACT LATIN [FMA:14581, FMA:TA] synonym: "pyloric part of stomach" EXACT [] synonym: "pyloric region" EXACT [] synonym: "stomach pyloric region" EXACT [EHDAA2:0001580] synonym: "valvula pylori" RELATED LATIN [Wikipedia:Pylorus] xref: BTO:0001146 xref: EHDAA2:0001580 xref: EHDAA:4860 xref: EMAPA:17631 xref: EMAPA:18915 xref: FMA:14581 xref: GAID:333 xref: MA:0002560 xref: MESH:A03.492.766.799 xref: SCTID:362143006 xref: UMLS:C0034196 xref: VHOG:0000420 xref: galen:Pylorus xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1046.svg/200px-Gray1046.svg.png xref: ncithesaurus:Pylorus intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0001165 ! pyloric antrum intersection_of: has_part UBERON:0008858 ! pyloric canal intersection_of: has_part UBERON:0008861 ! pyloric gastric gland property_value: external_definition "The orifice which allows the passage from the stomach into the intestine. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: has_relational_adjective "pyloric" xsd:string property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001167 name: wall of stomach namespace: uberon def: "An anatomical wall that is part of a stomach [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "gastric wall" EXACT [] synonym: "stomach anatomical wall" EXACT [OBOL:automatic] synonym: "stomach wall" EXACT [] synonym: "ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "ventriculus wall" EXACT [OBOL:automatic] synonym: "wall of ventriculus" EXACT [OBOL:automatic] xref: FMA:14582 xref: MA:0002692 xref: SCTID:279995000 xref: galen:WallOfStomach is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0000945 ! stomach intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0001168 name: wall of small intestine namespace: uberon def: "An anatomical wall that is part of a small intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "anatomical wall of small bowel" EXACT [OBOL:automatic] synonym: "anatomical wall of small intestine" EXACT [OBOL:automatic] synonym: "small bowel anatomical wall" EXACT [OBOL:automatic] synonym: "small bowel wall" EXACT [OBOL:automatic] synonym: "small intestinal wall" EXACT [] synonym: "small intestine anatomical wall" EXACT [OBOL:automatic] synonym: "small intestine wall" EXACT [] synonym: "wall of small bowel" EXACT [OBOL:automatic] xref: FMA:14615 xref: MA:0002696 xref: UMLS:C1519375 xref: ncithesaurus:Small_Intestinal_Wall_Tissue is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0001262 ! wall of intestine relationship: part_of UBERON:0002108 ! small intestine intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001169 name: wall of large intestine namespace: uberon def: "An anatomical wall that is part of a large intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "anatomical wall of large intestine" EXACT [OBOL:automatic] synonym: "large intestinal wall" EXACT [] synonym: "large intestine anatomical wall" EXACT [OBOL:automatic] synonym: "large intestine wall" EXACT [] xref: FMA:14619 xref: MA:0002695 is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0001262 ! wall of intestine relationship: part_of UBERON:0000059 ! large intestine relationship: part_of UBERON:0001262 ! wall of intestine intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001170 name: mesentery of small intestine namespace: uberon def: "the peritoneum responsible for connecting the jejunum and ileum (parts of the small intestine) to the back wall of the abdomen. Between the two sheets of peritoneum are blood vessels, lymph vessels, and nerves. This allows these parts of the small intestine to move relatively freely within the abdominopelvic cavity. The brain, however, cannot map sensation accurately, so sensation is usually referred to the midline, an example of referred pain[WP]." [Wikipedia:Mesentery#Mesentery_.28proper.29] synonym: "mesentery (proper)" EXACT [Wikipedia:Mesentery] synonym: "mesentery proper" EXACT [FMA:14643] synonym: "small intestinal mesentery" EXACT [FMA:14643] synonym: "small intestine mesentery" EXACT [OBOL:automatic] xref: FMA:14643 xref: MA:0001555 xref: SCTID:245456008 is_a: UBERON:0001206 ! serosa of small intestine is_a: UBERON:0004854 ! gastrointestinal system mesentery is_a: UBERON:0007826 ! peritoneal mesentery intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001171 name: portal lobule namespace: uberon def: "the triangular region on the periphery of the liver lobules that contain a bile duct and a terminal branch of the hepatic artery and portal vein, and may also include a lymphatic vessel." [MP:0008992] comment: This class was created automatically from a combination of ontologies xref: FMA:14653 xref: MA:0002498 xref: UMLS:C0682620 xref: ncithesaurus:Portal_Lobule is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001280 ! liver parenchyma [Term] id: UBERON:0001172 name: hepatic acinus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "liver acinus" EXACT [] synonym: "portal acinus" EXACT [] xref: FMA:14654 xref: MA:0002496 xref: SCTID:272214009 xref: UMLS:C0227519 xref: ncithesaurus:Liver_Acinus is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0009842 ! acinus is_a: UBERON:0011858 ! acinus of exocrine gland relationship: part_of UBERON:0001171 ! portal lobule relationship: part_of UBERON:0004647 ! liver lobule [Term] id: UBERON:0001173 name: biliary tree namespace: uberon def: "Hollow tree organ, the organ parts of which consists of the bile ducts[FMA]." [FMA:14665, Wikipedia:Biliary_tract] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "biliary tract" EXACT [] xref: AAO:0011020 xref: FMA:14665 xref: GAID:279 xref: MA:0001273 xref: MESH:A03.159 xref: SCTID:181267003 xref: UMLS:C0005423 xref: XAO:0000455 xref: ncithesaurus:Biliary_Tract is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0004912 ! biliary bud relationship: part_of UBERON:0002294 ! biliary system property_value: external_definition "Hollow tree organ, the organ parts of which consist of the bile ducts.[AAO]" xsd:string [Term] id: UBERON:0001174 name: common bile duct namespace: uberon def: "a tube-like anatomic structure in the human gastrointestinal tract. It is formed by the union of the common hepatic duct and the cystic duct (from the gall bladder). It is later joined by the pancreatic duct to form the ampulla of Vater. There, the two ducts are surrounded by the muscular sphincter of Oddi." [Wikipedia:Common_bile_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ductus choledochus" RELATED LATIN [Wikipedia:Common_bile_duct] synonym: "ductus choledochus (biliaris)" EXACT [] xref: EHDAA2:0000303 xref: EHDAA:3981 xref: EMAPA:17201 xref: FMA:14667 xref: GAID:282 xref: MA:0001631 xref: MESH:A03.159.183.079.300 xref: SCTID:362199009 xref: TAO:0005165 xref: UMLS:C0009437 xref: VHOG:0000214 xref: ZFA:0005165 xref: galen:CommonBileDuct xref: http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Digestive_system_showing_bile_duct.png/200px-Digestive_system_showing_bile_duct.png xref: ncithesaurus:Common_Bile_Duct is_a: UBERON:0003703 ! extrahepatic bile duct relationship: channel_for UBERON:0001970 ! bile relationship: channels_into UBERON:0001064 ! ventral pancreatic duct relationship: continuous_with UBERON:0001152 ! cystic duct relationship: continuous_with UBERON:0001175 ! common hepatic duct relationship: part_of UBERON:0001173 ! biliary tree property_value: external_definition "Digestive system duct that collects bile from the hepatic bile duct and the cystic duct.[TAO]" xsd:string property_value: external_definition "The duct formed by the union of the common hepatic and cystic ducts. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" xsd:string [Term] id: UBERON:0001175 name: common hepatic duct namespace: uberon def: "Predominantly extrahepatic bile duct which is formed by the junction of the right and left hepatic ducts, which are predominantly intrahepatic, and, in turn, joins the cystic duct to form the common bile duct[GAID]. The common hepatic duct is the duct formed by the convergence of the right hepatic duct (which drains bile from the right functional lobe of the liver) and the left hepatic duct (which drains bile from the left functional lobe of the liver). The common hepatic duct then joins the cystic duct coming from the gallbladder to form the common bile duct[WP]." [Wikipedia:Common_hepatic_duct, ZFIN:curator] comment: TODO - MA distinguishes between bile duct, hepatic duct, common bile duct and common hepatic duct. in FMA hepatic duct and common hepatic duct are the same. Common is part of extra-hepatic part subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ductus hepaticus communis" RELATED LATIN [Wikipedia:Common_hepatic_duct] synonym: "hepatic duct" RELATED [] xref: EMAPA:19101 xref: FMA:14668 xref: GAID:286 xref: MA:0002660 xref: MESH:A03.159.183.079.600 xref: SCTID:245403006 xref: UMLS:C0019149 xref: VHOG:0000220 xref: http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/48/Illu_liver_gallbladder.jpg/200px-Illu_liver_gallbladder.jpg xref: ncithesaurus:Common_Hepatic_Duct is_a: UBERON:0003703 ! extrahepatic bile duct relationship: channel_for UBERON:0001970 ! bile relationship: channels_into UBERON:0001174 ! common bile duct relationship: continuous_with UBERON:0001176 ! right hepatic duct relationship: continuous_with UBERON:0001177 ! left hepatic duct relationship: immediate_transformation_of UBERON:0010081 ! future common hepatic duct relationship: part_of UBERON:0005604 ! hepatic duct extrahepatic part property_value: external_definition "The duct which conveys the bile from the liver and unites with the cystic duct to form the common bile duct. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string [Term] id: UBERON:0001176 name: right hepatic duct namespace: uberon def: "The duct that drains bile from the right half of the liver and joins the left hepatic duct to form the common hepatic duct." [http://www.medterms.com/script/main/art.asp?articlekey=26034] comment: This class was created automatically from a combination of ontologies synonym: "ductus hepaticus dexter" RELATED LATIN [] xref: EHDAA2:0001727 xref: EHDAA:3992 xref: EMAPA:18305 xref: EMAPA:19100 xref: FMA:14669 xref: MA:0001639 xref: SCTID:245401008 xref: UMLS:C0227557 xref: VHOG:0000217 xref: ncithesaurus:Right_Hepatic_Duct relationship: part_of UBERON:0005171 ! hepatic duct intersection_of: UBERON:0003703 ! extrahepatic bile duct intersection_of: continuous_with UBERON:0001114 ! right lobe of liver property_value: external_definition "The duct which drains bile from the right half of the liver and unites with the left hepatic duct to form the common hepatic duct. [adapted_from_http://www.medterms.com/script/main/art.asp?articlekey=26032][VHOG]" xsd:string [Term] id: UBERON:0001177 name: left hepatic duct namespace: uberon def: "The duct that drains bile from the left half of the liver and joins the right hepatic duct to form the common hepatic duct." [http://www.medterms.com/script/main/art.asp?articlekey=26035] synonym: "ductus hepaticus sinister" RELATED LATIN [] xref: EHDAA2:0000941 xref: EHDAA:3990 xref: EMAPA:18304 xref: EMAPA:19099 xref: FMA:14670 xref: MA:0001638 xref: SCTID:245400009 xref: UMLS:C0227560 xref: VHOG:0000218 xref: ncithesaurus:Left_Hepatic_Duct relationship: part_of UBERON:0005171 ! hepatic duct intersection_of: UBERON:0003703 ! extrahepatic bile duct intersection_of: continuous_with UBERON:0001115 ! left lobe of liver property_value: external_definition "The duct which drains bile from the left half of the liver and unites with the right hepatic duct to form the common hepatic duct. [adapted_from_http://www.medterms.com/script/main/art.asp?articlekey=26032][VHOG]" xsd:string [Term] id: UBERON:0001178 name: visceral peritoneum namespace: uberon def: "The peritoneum that covers the external surfaces of most abdominal organs." [Wikipedia:Visceral_peritoneum, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: FMA:14703 xref: SCTID:362702003 xref: TAO:0005132 xref: VHOG:0001528 xref: ZFA:0005132 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5f/Gray1040.png/200px-Gray1040.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002358 ! peritoneum [Term] id: UBERON:0001179 name: peritoneal cavity namespace: uberon def: "Cavity of serous sac surrounded by the peritoneum.[FMA]" [FMA:FMA, Wikipedia:Peritoneal_cavity] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cavitas peritonealis" RELATED [BTO:0001782] synonym: "cavitas peritonealis; saccus serosus peritonei" RELATED LATIN [Wikipedia:Peritoneal_cavity] xref: BTO:0001782 xref: EHDAA2:0001446 xref: EMAPA:18452 xref: EMAPA:18454 xref: EMAPA:18461 xref: FMA:14704 xref: GAID:24 xref: MA:0000054 xref: MESH:A01.047.025.600.678 xref: SCTID:181616008 xref: UMLS:C1704247 xref: VHOG:0000852 xref: ncithesaurus:Peritoneal_Cavity relationship: develops_from UBERON:0003887 ! intraembryonic coelom intersection_of: UBERON:0002323 ! coelemic cavity lumen intersection_of: part_of UBERON:0005906 ! serous sac intersection_of: surrounded_by UBERON:0002358 ! peritoneum property_value: external_definition "The potential space between the parietal and visceral layers of the peritoneum, which are normally in contact. The peritoneal cavity is divided into the greater and lesser sac. The greater sac is the peritoneal cavity, and the lesser sac is the omental bursa. [TFD][VHOG]" xsd:string property_value: homology_notes "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001180 name: superior recess of lesser sac namespace: uberon alt_id: UBERON:0006299 comment: AO notes: classified as a cavity in EHDAA2, organ segment in FMA. We hedge and use a union synonym: "omental bursa superior recess" EXACT [MA:0000447] synonym: "recessus superior bursae omentalis" EXACT LATIN [FMA:14708, FMA:TA] synonym: "recessus superior omentalis" EXACT [FMA:14708] synonym: "superior omental bursa" EXACT [FMA:14708] synonym: "superior recess" EXACT [EHDAA2:0001958] synonym: "superior recess of omental bursa" EXACT [FMA:14708] xref: EHDAA2:0001958 xref: EHDAA:2343 xref: EMAPA:18049 xref: FMA:14708 xref: MA:0000447 xref: SCTID:263190002 is_a: UBERON:0004458 ! body cavity or lining relationship: develops_in UBERON:0005252 ! omental bursa cavity relationship: part_of UBERON:0001341 ! lesser sac [Term] id: UBERON:0001181 name: inferior recess of lesser sac namespace: uberon alt_id: UBERON:0006249 synonym: "inferior omental bursa" EXACT [FMA:14709] synonym: "inferior recess" EXACT [EHDAA2:0000825] synonym: "inferior recess of omental bursa" EXACT [FMA:14709] synonym: "omental bursa inferior recess" EXACT [MA:0000446] synonym: "recessus inferior bursae omentalis" EXACT LATIN [FMA:14709, FMA:TA] synonym: "recessus inferior omentalis" EXACT [FMA:14709] xref: EHDAA2:0000825 xref: EHDAA:6083 xref: EMAPA:18048 xref: FMA:14709 xref: MA:0000446 xref: SCTID:263261002 is_a: UBERON:0004458 ! body cavity or lining relationship: part_of UBERON:0001341 ! lesser sac [Term] id: UBERON:0001182 name: superior mesenteric artery namespace: uberon def: "In human anatomy, the superior mesenteric artery (SMA) arises from the anterior surface of the abdominal aorta, just inferior to the origin of the celiac trunk, and supplies the intestine from the lower part of the duodenum through two-thirds of the transverse colon, as well as the pancreas. [WP,unvetted]." [Wikipedia:Superior_mesenteric_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria mesenterica superior" RELATED LATIN [BTO:0002303, Wikipedia:Superior_mesenteric_artery] synonym: "superior mesenteric arterial tree" EXACT [] xref: BTO:0002303 xref: EHDAA2:0001949 xref: EHDAA:3358 xref: EHDAA:5313 xref: EMAPA:18619 xref: FMA:14749 xref: GAID:502 xref: MA:0002005 xref: MESH:A07.231.114.565.755 xref: OpenCyc:Mx4rwE5KipwpEbGdrcN5Y29ycA xref: SCTID:362048004 xref: UMLS:C0162861 xref: VHOG:0000754 xref: galen:SuperiorMesentericArtery xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Superior_mesenteric_a.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/68/Gray1099.png/200px-Gray1099.png xref: ncithesaurus:Superior_Mesenteric_Artery is_a: UBERON:0005616 ! mesenteric artery relationship: supplies UBERON:0000160 ! intestine [Term] id: UBERON:0001183 name: inferior mesenteric artery namespace: uberon def: "In human anatomy, the inferior mesenteric artery, often abbreviated as IMA, supplies the large intestine from the left colic (or splenic) flexure to the upper part of the rectum, which includes the descending colon, the sigmoid colon, and part of the rectum. Proximally, its territory of distribution overlaps (forms a watershed) with the middle colic artery, and therefore the superior mesenteric artery. The SMA and IMA anastomose via the marginal artery (artery of Drummond). The territory of distribution of the IMA is more or less equivalent to the embryonic hindgut. [WP,unvetted]." [Wikipedia:Inferior_mesenteric_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "IMA" BROAD ABBREVIATION [] synonym: "arteria mesenterica inferior" RELATED LATIN [BTO:0002302, Wikipedia:Inferior_mesenteric_artery] synonym: "inferior mesenteric arterial tree" EXACT [] xref: BTO:0002302 xref: EHDAA2:0000817 xref: EHDAA:4345 xref: EMAPA:18618 xref: FMA:14750 xref: GAID:501 xref: MA:0002004 xref: MESH:A07.231.114.565.510 xref: OpenCyc:Mx4rv-t-S5wpEbGdrcN5Y29ycA xref: SCTID:181341006 xref: UMLS:C0162860 xref: VHOG:0001116 xref: galen:InferiorMesentericArtery xref: http://upload.wikimedia.org/wikipedia/commons/e/e4/Gray538.png xref: ncithesaurus:Inferior_Mesenteric_Artery is_a: UBERON:0005616 ! mesenteric artery relationship: supplies UBERON:0000059 ! large intestine [Term] id: UBERON:0001184 name: renal artery namespace: uberon def: "One of two laterally paired arteries that supplies the kidneys. These are large arteries that branch from the dorsal aorta in primitive vertebrates." [ISBN10:0073040584, Wikipedia:Renal_artery] comment: Editor notes: renal arteries vary widely even in humans. Sub-structures should be checked for taxon variability. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arteria renalis" RELATED LATIN [Wikipedia:Renal_artery] synonym: "renal arterial tree" EXACT [] synonym: "renal arteries" RELATED PLURAL [] xref: AAO:0010223 xref: BTO:0001165 xref: EFO:0002552 xref: EHDAA2:0004100 xref: EHDAA:5321 xref: EHDAA:8594 xref: EMAPA:17862 xref: EMAPA:28373 xref: FMA:14751 xref: GAID:507 xref: MA:0002035 xref: MESH:A07.231.114.745 xref: OpenCyc:Mx4rveOFHpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001600 xref: SCTID:181339005 xref: TAO:0000420 xref: UMLS:C0035065 xref: ZFA:0000420 xref: galen:RenalArtery xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Gray1120.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Gray1120.png/200px-Gray1120.png xref: ncithesaurus:Renal_Artery is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0012254 ! abdominal aorta artery relationship: branch_of UBERON:0001516 ! abdominal aorta intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002113 ! kidney property_value: external_definition "Artery which supplies blood via branches to the gonads, oviducts, and kidneys.[AAO]" xsd:string property_value: external_definition "The renal arteries normally arise off the side of the abdominal aorta, immediately below the superior mesenteric artery, and supply the kidneys with blood. Each is directed across the crus of the diaphragm, so as to form nearly a right angle with the aorta. The renal arteries carry a large portion of total blood flow to the kidneys. Up to a third of total cardiac output can pass through the renal arteries to be filtered by the kidneys. The arterial supply of the kidneys is variable and there may be one or more renal arteries supplying each kidney. It is located above the renal vein. It has a radius of approximately 0.25cm, 0.26 cm at the root. The measured mean diameter can differ depending on the imaging method used. For example, the diameter was found to be 5.04 B1 0.74 mm using ultrasound, but 5.68 B1 1.19 mm using angiography. [WP,unvetted].[Wikipedia]" xsd:string [Term] id: UBERON:0001185 name: right renal artery namespace: uberon def: "Renal artery that supplies the right kidney" [UBERON:cjm] comment: The right [renal artery] passes behind the inferior vena cava, the right renal vein, the head of the pancreas, and the descending part of the duodenum[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "right renal arterial tree" EXACT [] xref: FMA:14752 xref: MA:0002037 xref: OpenCyc:Mx4rtW8I0KgEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rveOFHpwpEbGdrcN5Y29ycA xref: SCTID:36800007 xref: UMLS:C0226332 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Gray1120.png/200px-Gray1120.png xref: ncithesaurus:Right_Renal_Artery intersection_of: UBERON:0001184 ! renal artery intersection_of: supplies UBERON:0004539 ! right kidney [Term] id: UBERON:0001186 name: left renal artery namespace: uberon def: "Renal artery that supplies the left kidney" [UBERON:cjm] comment: The left [renal artery] is somewhat higher than the right; it lies behind the left renal vein, the body of the pancreas and the splenic vein, and is crossed by the inferior mesenteric vein[WP] synonym: "left renal arterial tree" EXACT [] xref: FMA:14753 xref: MA:0002036 xref: OpenCyc:Mx4rtW8I0agEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rveOFHpwpEbGdrcN5Y29ycA xref: SCTID:19215005 xref: UMLS:C0226333 xref: ncithesaurus:Left_Renal_Artery intersection_of: UBERON:0001184 ! renal artery intersection_of: supplies UBERON:0004538 ! left kidney [Term] id: UBERON:0001187 name: testicular artery namespace: uberon def: "The testicular artery (the male gonadal artery, also called the internal spermatic arteries in older texts) is a branch of the abdominal aorta that supplies blood to the testis. It is a paired artery, with one for each of the testes. It is the male equivalent of the ovarian artery. Because the testis is found in a different location than that of its female equivalent, it has a different course than the ovarian artery. They are two slender vessels of considerable length, and arise from the front of the aorta a little below the renal arteries. Each passes obliquely downward and lateralward behind the peritoneum, resting on the Psoas major, the right spermatic lying in front of the inferior vena cava and behind the middle colic and ileocolic arteries and the terminal part of the ileum, the left behind the left colic and sigmoid arteries and the iliac colon. Each crosses obliquely over the ureter and the lower part of the external iliac artery to reach the abdominal inguinal ring, through which it passes, and accompanies the other constituents of the spermatic cord along the inguinal canal to the scrotum, where it becomes tortuous, and divides into several branches. Two or three of these accompany the ductus deferens, and supply the epididymis, anastomosing with the artery of the ductus deferens; others pierce the back part of the tunica albuginea, and supply the substance of the testis. The internal spermatic artery supplies one or two small branches to the ureter, and in the inguinal canal gives one or two twigs to the Cremaster. [WP,unvetted]." [Wikipedia:Testicular_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria testicularis" RELATED LATIN [Wikipedia:Testicular_artery] synonym: "testicular arterial tree" EXACT [] xref: EMAPA:18621 xref: FMA:14758 xref: MA:0002063 xref: SCTID:244281003 xref: http://upload.wikimedia.org/wikipedia/commons/a/af/Gray531.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/af/Gray531.png/200px-Gray531.png intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0000473 ! testis [Term] id: UBERON:0001188 name: right testicular artery namespace: uberon def: "A testicular artery that supplies a right testicle." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "right spermatic artery" EXACT [] synonym: "trunk of right testicular arterial tree" EXACT [] xref: FMA:14759 xref: MA:0002042 xref: UMLS:C0734076 xref: ncithesaurus:Right_Spermatic_Artery is_a: UBERON:0003468 ! ureteric segment of renal artery is_a: UBERON:0010192 ! genital artery relationship: supplies UBERON:0001222 ! right ureter intersection_of: UBERON:0001187 ! testicular artery intersection_of: supplies UBERON:0004534 ! right testicle [Term] id: UBERON:0001189 name: left testicular artery namespace: uberon def: "A testicular artery that supplies a left testicle." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "left spermatic artery" EXACT [] synonym: "trunk of left testicular arterial tree" EXACT [] xref: FMA:14760 xref: MA:0002041 xref: UMLS:C0734077 xref: ncithesaurus:Left_Spermatic_Artery is_a: UBERON:0003468 ! ureteric segment of renal artery is_a: UBERON:0010192 ! genital artery relationship: supplies UBERON:0001223 ! left ureter intersection_of: UBERON:0001187 ! testicular artery intersection_of: supplies UBERON:0004533 ! left testicle [Term] id: UBERON:0001190 name: ovarian artery namespace: uberon def: "In human anatomy, the ovarian artery is a blood vessel that supplies oxygenated blood to the ovary. It arises from the abdominal aorta below the renal artery, and does not pass out of the abdominal cavity. It can be found in the suspensory ligament of the ovary. [WP,unvetted]." [Wikipedia:Ovarian_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria ovarica" RELATED LATIN [Wikipedia:Ovarian_artery] synonym: "ovarian arterial tree" EXACT [] xref: EMAPA:18620 xref: FMA:14761 xref: MA:0002012 xref: OpenCyc:Mx4rwOa9PZwpEbGdrcN5Y29ycA xref: SCTID:244280002 xref: UMLS:C0226411 xref: http://upload.wikimedia.org/wikipedia/commons/a/ae/Gray1170.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ae/Gray1170.png/200px-Gray1170.png xref: ncithesaurus:Ovarian_Artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0000992 ! female gonad [Term] id: UBERON:0001191 name: common iliac artery namespace: uberon def: "The common iliac arteries are two large arteries, about 4cm long in adults but more than a centimetre in diameter, that originate from the aortic bifurcation. The arteries run inferolaterally, along the medial border of the psoas muscles to the pelvic brim, where they bifurcate into the external iliac artery and internal iliac artery. The common iliac artery, and all of its branches, exist as paired structures (that is to say, there is one on the left side and one on the right). The distribution of the common iliac artery is basically the pelvis and lower limb on the corresponding side. Both common iliac arteries are accompanied along their course by common iliac veins. [WP,unvetted]." [Wikipedia:Common_iliac_artery] comment: See notes for parent class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria iliaca communis" RELATED LATIN [Wikipedia:Common_iliac_artery] synonym: "common iliac arterial tree" EXACT [] xref: EHDAA2:0000311 xref: EHDAA:2553 xref: EMAPA:17310 xref: FMA:14764 xref: MA:0001972 xref: OpenCyc:Mx4rvkZ7ZpwpEbGdrcN5Y29ycA xref: SCTID:362050007 xref: UMLS:C1261084 xref: http://upload.wikimedia.org/wikipedia/commons/6/6e/Iliac_artery_bifurcation_and_aorta.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6e/Iliac_artery_bifurcation_and_aorta.PNG/200px-Iliac_artery_bifurcation_and_aorta.PNG xref: ncithesaurus:Common_Iliac_Artery is_a: UBERON:0005609 ! iliac artery is_a: UBERON:0012254 ! abdominal aorta artery relationship: branch_of UBERON:0001516 ! abdominal aorta relationship: develops_from UBERON:0005458 ! left umbilical artery relationship: develops_from UBERON:0005470 ! right umbilical artery [Term] id: UBERON:0001192 name: left gastric artery namespace: uberon def: "In human anatomy, the left gastric artery arises from the celiac artery, and runs along the superior portion of the lesser curvature of the stomach. Branches also supply the lower esophagus. The left gastric artery anastomoses with the right gastric artery, which supplies the inferior portion. [WP,unvetted]." [Wikipedia:Left_gastric_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria gastrica sinistra" RELATED LATIN [Wikipedia:Left_gastric_artery] synonym: "gastric artery" EXACT [] xref: FMA:14768 xref: MA:0001961 xref: OpenCyc:Mx4rwMjqKZwpEbGdrcN5Y29ycA xref: SCTID:244267000 xref: UMLS:C0226299 xref: galen:LeftGastricArtery xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Gray532.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Gray532.png/200px-Gray532.png xref: ncithesaurus:Gastric_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: part_of UBERON:0001640 ! celiac artery relationship: supplies UBERON:0000945 ! stomach [Term] id: UBERON:0001193 name: hepatic artery namespace: uberon def: "An artery that supplies the liver." [UBERON:cjm, Wikipedia:Hepatic_artery_proper] comment: Usage notes: currently defined in a generic fashion. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arteria hepatica propria" EXACT LATIN [] xref: BTO:0004307 xref: EMAPA:17859 xref: FMA:14769 xref: GAID:496 xref: MA:0001963 xref: MESH:A07.231.114.407 xref: OpenCyc:Mx4rvzKtFpwpEbGdrcN5Y29ycA xref: SCTID:76015000 xref: TAO:0005161 xref: UMLS:C0019145 xref: ZFA:0005161 xref: galen:HepaticArtery xref: http://upload.wikimedia.org/wikipedia/commons/4/4c/Common_and_proper_hepatic_artery.png xref: ncithesaurus:Hepatic_Artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002107 ! liver property_value: external_definition "Artery that supplies blood to the liver.[TAO]" xsd:string [Term] id: UBERON:0001194 name: splenic artery namespace: uberon def: "In anatomy, the splenic artery (in the past called the lienal artery) is the blood vessel that supplies oxygenated blood to the spleen. It branches from the celiac artery, and follows a course superior to the pancreas. [WP,unvetted]." [Wikipedia:Splenic_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria lienalis" RELATED LATIN [Wikipedia:Splenic_artery] synonym: "arteria splenica" EXACT LATIN [Wikipedia:Splenic_artery] synonym: "lienal artery" EXACT [MA:0001991] xref: EMAPA:19216 xref: FMA:14773 xref: GAID:510 xref: MA:0001991 xref: MESH:A07.231.114.814 xref: OpenCyc:Mx4rv0cb2ZwpEbGdrcN5Y29ycA xref: SCTID:244266009 xref: UMLS:C0037996 xref: galen:SplenicArtery xref: http://upload.wikimedia.org/wikipedia/commons/a/a2/Gray1188.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a2/Gray1188.png/200px-Gray1188.png xref: ncithesaurus:Splenic_Artery is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0001640 ! celiac artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002106 ! spleen [Term] id: UBERON:0001195 name: inferior pancreaticoduodenal artery namespace: uberon def: "The inferior pancreaticoduodenal artery is a branch of the superior mesenteric artery or from its first intestinal branch, opposite the upper border of the inferior part of the duodenum. It courses to the right between the head of the pancreas and duodenum, and then ascends to anastomose with the anterior and posterior superior pancreaticoduodenal artery. It distributes branches to the head of the pancreas and to the descending and inferior parts of the duodenum. [WP,unvetted]." [Wikipedia:Inferior_pancreaticoduodenal_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteriae pancreaticoduodenales inferiores" RELATED LATIN [Wikipedia:Inferior_pancreaticoduodenal_artery] synonym: "inferior pancreatico-duodenal artery" EXACT [] xref: FMA:14805 xref: MA:0002014 xref: SCTID:244273004 xref: UMLS:C0226319 xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Gray533.png xref: ncithesaurus:Inferior_Pancreatico-duodenal_artery is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0009658 ! pancreaticoduodenal artery relationship: branch_of UBERON:0001182 ! superior mesenteric artery relationship: part_of UBERON:0001182 ! superior mesenteric artery [Term] id: UBERON:0001196 name: middle colic artery namespace: uberon def: "The middle colic artery is a branch of the superior mesenteric artery that mostly supplies the transverse colon. It arises just below the pancreas, and, passing downward and forward between the layers of the transverse mesocolon, divides into two branches: right and left. The right branch anastomoses with the right colic artery The left branch anastomoses with the left colic artery, a branch of the inferior mesenteric artery. The arches thus formed are placed about two fingersb breadth from the transverse colon, to which they distribute branches. [WP,unvetted]." [Wikipedia:Middle_colic_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria colica media" RELATED LATIN [Wikipedia:Middle_colic_artery] xref: FMA:14810 xref: MA:0002007 xref: SCTID:244276007 xref: UMLS:C0226328 xref: galen:MiddleColicArtery xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Gray537.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Gray537.png/200px-Gray537.png xref: ncithesaurus:Middle_Colic_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: part_of UBERON:0001182 ! superior mesenteric artery relationship: supplies UBERON:0000059 ! large intestine [Term] id: UBERON:0001197 name: ileocolic artery namespace: uberon def: "The Ileocolic Artery is the lowest branch arising from the concavity of the superior mesenteric artery. It passes downward and to the right behind the peritoneum toward the right iliac fossa, where it divides into a superior and an inferior branch; the inferior anastomoses with the end of the superior mesenteric artery, the superior with the right colic artery. Supplies the cecum, ileum, and appendix. [WP,unvetted]." [Wikipedia:Ileocolic_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria ileocolica" RELATED LATIN [Wikipedia:Ileocolic_artery] xref: FMA:14815 xref: MA:0001970 xref: SCTID:244279000 xref: UMLS:C0226323 xref: galen:IleocolicArtery xref: http://upload.wikimedia.org/wikipedia/commons/a/ad/Gray536.png xref: ncithesaurus:Ileo-colic_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: part_of UBERON:0001182 ! superior mesenteric artery [Term] id: UBERON:0001198 name: superior suprarenal artery namespace: uberon def: "Each (left and right) superior suprarenal artery is a branch of the inferior phrenic artery on that side of the body. The left and right phrenic arteries supply the diaphragm, and come off the aorta. [WP,unvetted]." [Wikipedia:Superior_suprarenal_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteriae suprarenales superiores" EXACT LATIN [Wikipedia:Superior_suprarenal_artery] synonym: "superior adrenal branch of inferior phrenic artery" EXACT [] synonym: "superior suprarenal branch of inferior phrenic artery" EXACT [] xref: FMA:14863 xref: MA:0002057 xref: SCTID:303424001 xref: UMLS:C0580876 xref: http://upload.wikimedia.org/wikipedia/commons/6/61/Gray1121.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/61/Gray1121.png/200px-Gray1121.png xref: ncithesaurus:Superior_Suprarenal_Artery is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005624 ! suprarenal artery relationship: branch_of UBERON:0012255 ! inferior phrenic artery [Term] id: UBERON:0001199 name: mucosa of stomach namespace: uberon def: "The gastric mucosa is the mucous membrane layer of the stomach which contains the glands and the gastric pits. In men it is about 1 mm thick and its surface is smooth, soft, and velvety. It consists of epithelium, lamina propria, and the muscularis mucosae. In its fresh state, it is of a pinkish tinge at the pyloric end and of a red or reddish-brown color over the rest of its surface. In infancy it is of a brighter hue, the vascular redness being more marked. It is thin at the cardiac extremity, but thicker toward the pylorus. During the contracted state of the organ it is thrown into numerous plaits or rugae, which, for the most part, have a longitudinal direction, and are most marked toward the pyloric end of the stomach, and along the greater curvature. These folds are entirely obliterated when the organ becomes distended. When examined with a lens, the inner surface of the mucous membrane presents a peculiar honeycomb appearance from being covered with funnel-like depressions or foveolae of a polygonal or hexagonal form, which vary from 0.12 to 0.25 mm. in diameter. These are the ducts of the gastric glands, and at the bottom of each may be seen one or more minute orifices, the openings of the gland tubes. Gastric glands are simple or branched tubular glands that emerge on the deeper part of the gastric foveola, inside the gastric areas and outlined by the folds of the mucosa. There are three types of glands: cardiac glands (in the proximal part of the stomach), oxyntic glands (the dominating type of gland), and pyloric glands. The cardiac glands mainly contain mucus producing cells. The bottom part of the oxyntic glands is dominated by zymogen (chief) cells that produce pepsinogen (an inactive precursor of the pepsin enzyme). Parietal cells, which secrete hydrochloric acid are scattered in the glands, with most of them in the middle part. The upper part of the glands consist of mucous neck cells; in this part the dividing cells are seen. The pyloric glands contain mucus-secreting cells. Several types of endocrine cells are found in all regions of the gastric mucosa. In the pyloric glands contain gastrin producing cells (G cells); this hormone stimulates acid production from the parietal cells. ECL (enterochromaffine-like) cells, found in the oxyntic glands release histamine, which also is a powerful stimulant of the acid secretion. The A cells produce glucagon, which mobilizes the hepatic glycogen, and the enterochromaffin cells that produce serotonin, which stimulates the contraction of the smooth muscles. The surface of the mucous membrane is covered by a single layer of columnar epithelium . This epithelium commences very abruptly at the cardiac orifice, where there is a sudden transition from the stratified epithelium of the esophagus. The epithelial lining of the gland ducts is of the same character and is continuous with the general epithelial lining of the stomach. [WP,unvetted]." [Wikipedia:Gastric_mucosa] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Magenschleimhaut" RELATED [BTO:0001308] synonym: "gastric mucosa" EXACT [] synonym: "gastric mucous membrane" EXACT [] synonym: "mucosa of organ of stomach" EXACT [OBOL:automatic] synonym: "mucosa of organ of ventriculus" EXACT [OBOL:automatic] synonym: "mucosa of ventriculus" EXACT [OBOL:automatic] synonym: "mucous membrane of stomach" EXACT [] synonym: "mucous membrane of ventriculus" EXACT [OBOL:automatic] synonym: "organ mucosa of stomach" EXACT [OBOL:automatic] synonym: "organ mucosa of ventriculus" EXACT [OBOL:automatic] synonym: "stomach mucosa" EXACT [] synonym: "stomach mucosa of organ" EXACT [OBOL:automatic] synonym: "stomach mucous membrane" EXACT [OBOL:automatic] synonym: "stomach organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa (gaster)" EXACT [] synonym: "tunica mucosa gastricae" EXACT LATIN [FMA:14907, FMA:TA] synonym: "tunica mucosa gastris" RELATED LATIN [BTO:0001308, Wikipedia:Gastric_mucosa] synonym: "ventriculus mucosa" EXACT [OBOL:automatic] synonym: "ventriculus mucosa of organ" EXACT [OBOL:automatic] synonym: "ventriculus mucous membrane" EXACT [OBOL:automatic] synonym: "ventriculus organ mucosa" EXACT [OBOL:automatic] xref: BTO:0001308 xref: FMA:14907 xref: GAID:321 xref: MA:0002683 xref: MESH:A03.492.766.440 xref: OpenCyc:Mx8NhB4rvcD6KJwpEbGdrcN5Y29ycB4rvmKNOpwpEbGdrcN5Y29ycB4rvVj5FpwpEbGdrcN5Y29ycB4rvVjlqpwpEbGdrcN5Y29ycA xref: SCTID:362131005 xref: UMLS:C0017136 xref: galen:GastricMucosa xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Illu_stomach2.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Illu_stomach2.jpg/200px-Illu_stomach2.jpg xref: ncithesaurus:Gastric_Mucosa is_a: UBERON:0000064 ! organ part is_a: UBERON:0004786 ! gastrointestinal system mucosa is_a: UBERON:0009034 ! stomach region relationship: capable_of GO:0001696 ! gastric acid secretion relationship: part_of UBERON:0001167 ! wall of stomach intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0001200 name: submucosa of stomach namespace: uberon def: "A submucosa that is part of a stomach [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "gastric submucosa" EXACT [] synonym: "stomach submucosa" EXACT [] synonym: "submucosa of ventriculus" EXACT [OBOL:automatic] synonym: "tela submucosa (gaster)" EXACT [] synonym: "ventriculus submucosa" EXACT [OBOL:automatic] xref: BTO:0002110 xref: FMA:14908 xref: MA:0002685 xref: SCTID:52459002 xref: UMLS:C0227211 xref: ncithesaurus:Gastric_Submucosa is_a: UBERON:0000009 ! submucosa is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0001167 ! wall of stomach intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0001201 name: serosa of stomach namespace: uberon def: "A serous membrane that is part of a wall of stomach [Automatically generated definition]." [OBOL:automatic] comment: TODO - check serosa/peritoneum synonym: "anatomical wall of stomach serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of stomach serous membrane" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus serous membrane" EXACT [OBOL:automatic] synonym: "gastric serosa" RELATED [] synonym: "gastric wall serosa" EXACT [OBOL:automatic] synonym: "gastric wall serous membrane" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "serosa of gastric wall" EXACT [OBOL:automatic] synonym: "serosa of stomach anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of stomach wall" EXACT [OBOL:automatic] synonym: "serosa of ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of ventriculus wall" EXACT [OBOL:automatic] synonym: "serosa of wall of stomach" EXACT [OBOL:automatic] synonym: "serosa of wall of ventriculus" EXACT [OBOL:automatic] synonym: "serous coat of stomach" EXACT [] synonym: "serous membrane of anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "serous membrane of anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "serous membrane of gastric wall" EXACT [OBOL:automatic] synonym: "serous membrane of stomach anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of stomach wall" EXACT [OBOL:automatic] synonym: "serous membrane of ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of ventriculus wall" EXACT [OBOL:automatic] synonym: "serous membrane of wall of stomach" EXACT [OBOL:automatic] synonym: "serous membrane of wall of ventriculus" EXACT [OBOL:automatic] synonym: "stomach anatomical wall serosa" EXACT [OBOL:automatic] synonym: "stomach anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "stomach serosa" EXACT [] synonym: "stomach wall serosa" EXACT [OBOL:automatic] synonym: "stomach wall serous membrane" EXACT [OBOL:automatic] synonym: "tunica serosa (gaster)" EXACT [] synonym: "tunica serosa gastricae" EXACT LATIN [FMA:14914, FMA:TA] synonym: "ventriculus anatomical wall serosa" EXACT [OBOL:automatic] synonym: "ventriculus anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "ventriculus wall serosa" EXACT [OBOL:automatic] synonym: "ventriculus wall serous membrane" EXACT [OBOL:automatic] synonym: "visceral peritoneum of stomach" EXACT [] synonym: "wall of stomach serosa" EXACT [OBOL:automatic] synonym: "wall of stomach serous membrane" EXACT [OBOL:automatic] synonym: "wall of ventriculus serosa" EXACT [OBOL:automatic] synonym: "wall of ventriculus serous membrane" EXACT [OBOL:automatic] xref: FMA:14914 xref: MA:0001626 xref: SCTID:1353004 xref: UMLS:C1517453 xref: ncithesaurus:Gastric_Serosal_Surface is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004782 ! gastrointestinal system serosa is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0001167 ! wall of stomach intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001167 ! wall of stomach [Term] id: UBERON:0001202 name: pyloric sphincter namespace: uberon def: "A strong ring of smooth muscle at the end of the pyloric canal which lets food pass from the stomach to the duodenum. It receives sympathetic innervation from the celiac ganglion[WP]." [UBERON:cjm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pyloric valve" EXACT [Wikipedia:Pylorus] xref: AAO:0011093 xref: EMAPA:19251 xref: FMA:14916 xref: MA:0002952 xref: OpenCyc:Mx4rvly2ZZwpEbGdrcN5Y29ycA xref: SCTID:268073008 xref: UMLS:C0227238 xref: VHOG:0001466 xref: XAO:0000457 xref: ncithesaurus:Pyloric_Sphincter is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0011185 ! gastrointestinal sphincter relationship: adjacent_to UBERON:0002114 ! duodenum relationship: continuous_with UBERON:0008858 ! pyloric canal intersection_of: UBERON:0004590 ! sphincter muscle intersection_of: part_of UBERON:0001166 ! pylorus property_value: homology_notes "(...) the adult Xenopus stomach exhibits both glandular and aglandular regions and a distinct pyloric sphincter similar to that of the amniotic vertebrates (...).[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001203 name: muscularis mucosae of stomach namespace: uberon def: "A muscularis mucosa that is part of a mucosa of stomach." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "gastric muscularis mucosa" EXACT [] synonym: "lamina muscularis mucosae (tunica mucosa)(gaster)" EXACT [] synonym: "lamina muscularis of gastric mucosa" EXACT [] synonym: "muscular coat of stomach" EXACT [] synonym: "stomach muscularis mucosa" EXACT [] synonym: "tunica muscularis gastricae" EXACT LATIN [FMA:14924, FMA:TA] xref: FMA:14924 xref: MA:0002684 xref: SCTID:64551004 xref: UMLS:C0227200 xref: ncithesaurus:Gastric_Muscularis_Mucosa is_a: UBERON:0004222 ! stomach smooth muscle intersection_of: UBERON:0006676 ! muscularis mucosa intersection_of: part_of UBERON:0001199 ! mucosa of stomach [Term] id: UBERON:0001204 name: mucosa of small intestine namespace: uberon def: "A mucosa that is part of a small intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "mucosa of organ of small bowel" EXACT [OBOL:automatic] synonym: "mucosa of organ of small intestine" EXACT [OBOL:automatic] synonym: "mucosa of small bowel" EXACT [OBOL:automatic] synonym: "mucous membrane of small bowel" EXACT [OBOL:automatic] synonym: "mucous membrane of small intestine" EXACT [] synonym: "organ mucosa of small bowel" EXACT [OBOL:automatic] synonym: "organ mucosa of small intestine" EXACT [OBOL:automatic] synonym: "small bowel mucosa" EXACT [OBOL:automatic] synonym: "small bowel mucosa of organ" EXACT [OBOL:automatic] synonym: "small bowel mucous membrane" EXACT [OBOL:automatic] synonym: "small bowel organ mucosa" EXACT [OBOL:automatic] synonym: "small intestinal mucosa" EXACT [] synonym: "small intestine mucosa" EXACT [] synonym: "small intestine mucosa of organ" EXACT [OBOL:automatic] synonym: "small intestine mucous membrane" EXACT [] synonym: "small intestine organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa (intestinum tenue)" EXACT [] synonym: "tunica mucosa intestini tenuis" EXACT LATIN [FMA:14933, FMA:TA] xref: BTO:0001259 xref: FMA:14933 xref: MA:0002686 xref: SCTID:362144000 xref: UMLS:C0227261 xref: ncithesaurus:Small_Intestinal_Mucosa is_a: UBERON:0001242 ! intestinal mucosa relationship: part_of UBERON:0001168 ! wall of small intestine relationship: part_of UBERON:0001242 ! intestinal mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001205 name: submucosa of small intestine namespace: uberon def: "submucosal tissue in the small intestines." [Wikipedia:Small_intestinal_submucosa] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "small bowel submucosa" EXACT [OBOL:automatic] synonym: "small intestinal submucosa" EXACT [] synonym: "small intestine submucosa" EXACT [] synonym: "submucosa of small bowel" EXACT [OBOL:automatic] synonym: "tela submucosa (intestinum tenue)" EXACT [] synonym: "tela submucosa intestini tenuis" EXACT LATIN [BTO:0002112] xref: BTO:0002112 xref: FMA:14934 xref: MA:0001562 xref: SCTID:691000 xref: UMLS:C0227268 xref: ncithesaurus:Small_Intestinal_Submucosa is_a: UBERON:0000009 ! submucosa is_a: UBERON:0009566 ! intestinal submucosa relationship: part_of UBERON:0001168 ! wall of small intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001206 name: serosa of small intestine namespace: uberon def: "A serous membrane that is part of a small intestine [Automatically generated definition]." [OBOL:automatic] comment: Histology notes: duodenum, 1st part serosa, 2nd - 4th adventitia synonym: "serosa of small bowel" EXACT [OBOL:automatic] synonym: "serous coat of small intestine" EXACT [] synonym: "serous membrane of small bowel" EXACT [OBOL:automatic] synonym: "serous membrane of small intestine" EXACT [OBOL:automatic] synonym: "small bowel serosa" EXACT [OBOL:automatic] synonym: "small bowel serous membrane" EXACT [OBOL:automatic] synonym: "small intestinal serosa" EXACT [] synonym: "small intestine serosa" EXACT [] synonym: "small intestine serous membrane" EXACT [OBOL:automatic] synonym: "tunica serosa (intestinum tenue)" EXACT [] synonym: "tunica serosa intestini tenuis" EXACT LATIN [FMA:14938, FMA:TA] synonym: "visceral peritoneum of small intestine" EXACT [] xref: FMA:14938 xref: MA:0001558 xref: SCTID:8266009 is_a: UBERON:0001243 ! serosa of intestine relationship: part_of UBERON:0001168 ! wall of small intestine relationship: part_of UBERON:0001243 ! serosa of intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001207 name: mucosa of large intestine namespace: uberon def: "A mucosa that is part of a large intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "large intestinal mucosa" EXACT [] synonym: "large intestine mucosa" EXACT [] synonym: "large intestine mucosa of organ" EXACT [OBOL:automatic] synonym: "large intestine mucous membrane" EXACT [OBOL:automatic] synonym: "large intestine organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of organ of large intestine" EXACT [OBOL:automatic] synonym: "mucous membrane of large intestine" EXACT [] synonym: "organ mucosa of large intestine" EXACT [OBOL:automatic] synonym: "tunica mucosa intestini crassi" EXACT LATIN [FMA:14969, FMA:TA] xref: FMA:14969 xref: MA:0002688 xref: UMLS:C0734203 xref: ncithesaurus:Large_Intestinal_Mucosa is_a: UBERON:0001242 ! intestinal mucosa relationship: part_of UBERON:0001169 ! wall of large intestine relationship: part_of UBERON:0001242 ! intestinal mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001208 name: submucosa of large intestine namespace: uberon def: "A submucosa that is part of a large intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "large intestinal submucosa" EXACT [] synonym: "large intestine submucosa" EXACT [] xref: BTO:0002111 xref: FMA:14970 xref: MA:0002690 xref: UMLS:C0734204 xref: ncithesaurus:Large_Intestinal_Submucosa is_a: UBERON:0000009 ! submucosa is_a: UBERON:0009566 ! intestinal submucosa relationship: part_of UBERON:0001169 ! wall of large intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001209 name: serosa of large intestine namespace: uberon def: "A serous membrane that is part of a large intestine [Automatically generated definition]." [OBOL:automatic] comment: TODO - check serosa/peritoneum synonym: "large intestinal serosa" EXACT [] synonym: "large intestine serosa" EXACT [] synonym: "large intestine serous membrane" EXACT [OBOL:automatic] synonym: "serous coat of large intestine" EXACT [] synonym: "serous membrane of large intestine" EXACT [OBOL:automatic] synonym: "tunica serosa intestini crassi" EXACT LATIN [FMA:14975, FMA:TA] synonym: "visceral peritoneum of large intestine" EXACT [] xref: FMA:14975 xref: MA:0001546 xref: UMLS:C1517727 xref: ncithesaurus:Large_Intestinal_Serosal_Surface is_a: UBERON:0001243 ! serosa of intestine relationship: part_of UBERON:0001169 ! wall of large intestine relationship: part_of UBERON:0001243 ! serosa of intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001210 name: muscularis mucosae of small intestine namespace: uberon def: "A muscularis mucosa that is part of a small intestine." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "lamina muscularis mucosae (tunica mucosa)(intestinum tenue)" EXACT [] synonym: "lamina muscularis of small intestine mucous membrane" EXACT [] synonym: "small intestine muscularis mucosa" EXACT [] xref: FMA:15051 xref: MA:0002687 xref: SCTID:36401004 xref: UMLS:C0227262 xref: ncithesaurus:Small_Intestinal_Muscularis_Mucosa is_a: UBERON:0001240 ! muscularis mucosae of intestine is_a: UBERON:0004239 ! small intestine smooth muscle relationship: part_of UBERON:0001204 ! mucosa of small intestine relationship: part_of UBERON:0001240 ! muscularis mucosae of intestine intersection_of: UBERON:0006676 ! muscularis mucosa intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001211 name: Peyer's patch namespace: uberon def: "aggregations of lymphoid tissue that are usually found in the lowest portion of the small intestine ileum in humans; as such, they differentiate the ileum from the duodenum and jejunum // nodular lymphoid structures on the serosal surface of the small intestine." [Wikipedia:Peyer's_patch] comment: AO notes: FMA has [set of?] [aggregated,small] lymphoid [follice,nodule] of [colon, SI, I, etc] - Pp is a syn for Aggregated lymphoid follicle of small intestine; but MA uses Pp as covering both SI and LI. MA also includes follicle as a part. WP says duodenum and jejunum lack PPs. Taxon notes: Reptiles have accumulations of lymphocytes in their guts that may be primitive Peyer's patches (Zapata and Solas). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "aggregated lymphoid follicle of intestine" RELATED [] synonym: "aggregated lymphoid nodule" RELATED [] synonym: "noduli lymphoidei aggregati intestini tenuis" EXACT LATIN [FMA:76466, FMA:TA] xref: BTO:0001784 xref: EFO:0001381 xref: EMAPA:19028 xref: GAID:950 xref: MA:0000137 xref: MESH:A10.549.598 xref: UMLS:C0031272 xref: ncithesaurus:Mouse_Peyer_s_Patches xref: ncithesaurus:Peyer_s_Patch is_a: UBERON:0001962 ! gut-associated lymphoid tissue relationship: part_of UBERON:0000030 ! lamina propria relationship: part_of UBERON:0001242 ! intestinal mucosa [Term] id: UBERON:0001212 name: duodenal gland namespace: uberon def: "compound tubular submucosal glands found in that portion of the duodenum which is above the hepatopancreatic sphincter (Sphincter of Oddi). The main function of these glands is to produce a mucus-rich alkaline secretion (containing bicarbonate)[WP]." [Wikipedia:Brunner's_glands] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Brunner's gland" EXACT [FMA:15060] synonym: "gland of Brunner" EXACT [FMA:15060] synonym: "glandula duodenales" RELATED [BTO:0002376] synonym: "glandula duodenales Brunneri" RELATED [BTO:0002376] xref: BTO:0002376 xref: FMA:15060 xref: GAID:314 xref: MA:0001551 xref: MESH:A03.492.411.620.270.322 xref: SCTID:41298001 xref: UMLS:C0006323 xref: ncithesaurus:Brunner_s_Gland is_a: UBERON:0003408 ! gland of gut is_a: UBERON:0011148 ! submucosal gland relationship: part_of UBERON:0002330 ! exocrine system relationship: part_of UBERON:0003332 ! submucosa of duodenum relationship: secretes UBERON:0000912 ! mucus [Term] id: UBERON:0001213 name: intestinal villus namespace: uberon alt_id: UBERON:0007607 def: "Tiny, finger-like projections that protrude from the epithelial lining of the intestinal wall[WP]" [Wikipedia:Intestinal_villus] comment: Editor notes: in mammals, villi are (largely?) absent from the large intestine, so we treat this as equivalent to small intestinal villus. small/large subdivision may not make sense for all speciesi for which this is present (see ZFA). Note that VHOG quotes ISBN:978-0030223693 as suggesting there are some villi in the large intestine. AO Notes: the BTO class refers to a generic villous subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "enteric villi" EXACT PLURAL [HP:0011473] synonym: "enteric villous" EXACT [HP:0011473] synonym: "enteric villus" EXACT [HP:0011473] synonym: "intestinal villi" EXACT PLURAL [ZFA:0005125] synonym: "intestinal villus layer" RELATED [] synonym: "small intestine villus" RELATED [MA:0001563] synonym: "villi intestinales" EXACT PLURAL [Wikipedia:Intestinal_villus] synonym: "villus" EXACT [BTO:0003121] synonym: "villus intestinalis (intestinum tenue)" EXACT [FMA:15072] xref: BTO:0003121 xref: FMA:15072 xref: MA:0001563 xref: SCTID:23230007 xref: TAO:0005125 xref: UMLS:C1519988 xref: ZFA:0005125 xref: http://upload.wikimedia.org/wikipedia/commons/3/38/Small_intestine_low_mag.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/38/Small_intestine_low_mag.jpg/200px-Small_intestine_low_mag.jpg xref: ncithesaurus:Villus is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004923 ! organ component layer relationship: part_of UBERON:0001277 ! intestinal epithelium property_value: external_definition "The entire digestive tract is lined by well developed villi, which are longest in the intestinal bulb and decrease progressively in size towards the caudal end of the intestine. No crypts are present, but, the regions between the villi, the intervillus pockets, have a crypt-like function. Cells are produced in the intervillus pockets and shed from the villus tips. Crosnier et al. 2005[TAO]" xsd:string [Term] id: UBERON:0001214 name: pancreatic tributary of splenic vein namespace: uberon def: "The pancreatic veins consist of several small vessels which drain the body and tail of the pancreas, and open into the trunk of the great pancreatic vein. [WP,unvetted]." [Wikipedia:Pancreatic_vein] comment: AO notes: see also MA:0002165 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pancreatic vein" EXACT [] xref: FMA:15388 xref: MA:0002189 xref: SCTID:264492008 xref: UMLS:C0226743 xref: ncithesaurus:Pancreatic_Vein is_a: UBERON:0002017 ! portal vein relationship: tributary_of UBERON:0003713 ! splenic vein [Term] id: UBERON:0001215 name: inferior mesenteric vein namespace: uberon def: "In human anatomy, the inferior mesenteric vein (IMV) is a blood vessel that drains blood from the large intestine. It usually terminates when reaching the splenic vein, which goes on to form the portal vein with the superior mesenteric vein (SMV). Anatomical variations include the IMV draining into the confluence of the SMV and splenic vein and the IMV draining in the SMV. The IMV lies to the right of the similarly name artery, the inferior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]." [Wikipedia:Inferior_mesenteric_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lower mesenteric vein" RELATED [BTO:0002782] synonym: "vena mesenterica inferior" RELATED LATIN [Wikipedia:Inferior_mesenteric_vein] xref: BTO:0002782 xref: EHDAA2:0000819 xref: EHDAA:8712 xref: EMAPA:18642 xref: FMA:15391 xref: MA:0002178 xref: OpenCyc:Mx4rvcV53ZwpEbGdrcN5Y29ycA xref: SCTID:281055007 xref: UMLS:C0226754 xref: VHOG:0001118 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Gray591.png/200px-Gray591.png xref: ncithesaurus:Inferior_Mesenteric_Vein is_a: UBERON:0005617 ! mesenteric vein relationship: tributary_of UBERON:0003713 ! splenic vein [Term] id: UBERON:0001216 name: jejunal vein namespace: uberon def: "The jejunal veins are tributaries of the superior mesenteric vein. [WP,unvetted]." [Wikipedia:Jejunal_veins] comment: This class was created automatically from a combination of ontologies synonym: "venae jejunales" RELATED LATIN [Wikipedia:Jejunal_veins] xref: FMA:15402 xref: MA:0002153 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Gray591.png/200px-Gray591.png is_a: UBERON:0002017 ! portal vein relationship: tributary_of UBERON:0001138 ! superior mesenteric vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002115 ! jejunum [Term] id: UBERON:0001217 name: ileal vein namespace: uberon xref: FMA:15405 xref: MA:0002140 xref: UMLS:C1301431 xref: ncithesaurus:Ileal_Vein is_a: UBERON:0002017 ! portal vein relationship: part_of UBERON:0001138 ! superior mesenteric vein relationship: tributary_of UBERON:0001138 ! superior mesenteric vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002116 ! ileum [Term] id: UBERON:0001218 name: middle colic vein namespace: uberon def: "The middle colic vein drains the transverse colon. It is a tributary of the superior mesenteric vein, and follows the path of its corresponding artery, the middle colic artery. [WP,unvetted]." [Wikipedia:Middle_colic_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "vena colica media" RELATED LATIN [Wikipedia:Middle_colic_vein] synonym: "vena colica media (intermedia)" EXACT [] xref: FMA:15406 xref: MA:0002181 xref: OpenCyc:Mx4rvywYIpwpEbGdrcN5Y29ycA xref: SCTID:9018004 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Gray591.png/200px-Gray591.png is_a: UBERON:0002017 ! portal vein relationship: part_of UBERON:0001138 ! superior mesenteric vein relationship: tributary_of UBERON:0001138 ! superior mesenteric vein [Term] id: UBERON:0001219 name: ileocolic vein namespace: uberon def: "The ileocolic vein is a vein which drains the ileum, colon, and cecum. [WP,unvetted]." [Wikipedia:Ileocolic_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "vena ileocolica" RELATED LATIN [Wikipedia:Ileocolic_vein] xref: FMA:15408 xref: MA:0002141 xref: SCTID:36208008 xref: UMLS:C0226744 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: ncithesaurus:Ileocolic_Vein is_a: UBERON:0002017 ! portal vein relationship: part_of UBERON:0001138 ! superior mesenteric vein relationship: tributary_of UBERON:0001138 ! superior mesenteric vein [Term] id: UBERON:0001220 name: quadratus lumborum namespace: uberon def: "The Quadratus lumborum is irregular and quadrilateral in shape, and broader below than above. [WP,unvetted]." [Wikipedia:Quadratus_lumborum_muscle] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "muscle of posterior abdominal wall" EXACT [] xref: EMAPA:18524 xref: FMA:15569 xref: MA:0002362 xref: OpenCyc:Mx4rvj1wcpwpEbGdrcN5Y29ycA xref: UMLS:C0224380 xref: http://upload.wikimedia.org/wikipedia/commons/d/de/Gray1124.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/de/Gray1124.png/200px-Gray1124.png xref: ncithesaurus:Quadratus_Lumborum is_a: UBERON:0002378 ! muscle of abdomen is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_insertion UBERON:0001077 ! transverse process of vertebra relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_insertion UBERON:0002414 ! lumbar vertebra [Term] id: UBERON:0001221 name: transversus abdominis muscle namespace: uberon def: "The transversus abdominis muscle, also known as the transversalis muscle and transverse abdominal muscle, is a muscle layer of the anterior and lateral abdominal wall which is just deep to (layered below) the internal oblique muscle. It is thought to be a major muscle of the functional core of the human body; although some argue that due to its small cross-sectional area, it cannot generate the forces required to be a prime core stabilizer. [WP,unvetted]." [Wikipedia:Transversus_abdominis_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus transversus abdominis" EXACT LATIN [FMA:15570, FMA:TA] synonym: "transversalis" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transversalis muscle" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transverse abdominal" EXACT [FMA:15570, Wikipedia:Transversus_abdominis_muscle] synonym: "transverse abdominal muscle" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transverse abdominis" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transverse abdominus" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transversis abdominus" EXACT LATIN [Wikipedia:Transversus_abdominis_muscle] synonym: "transversus" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transversus abdominis" EXACT LATIN [Wikipedia:Transversus_abdominis_muscle] synonym: "transversus abdominus" RELATED [Wikipedia:Transversus_abdominis_muscle] synonym: "transversus abdominus muscle" RELATED [Wikipedia:Transversus_abdominis_muscle] xref: EHDAA2:0002078 xref: EHDAA:8254 xref: EMAPA:18165 xref: FMA:15570 xref: MA:0002396 xref: SCTID:244949003 xref: UMLS:C0224378 xref: VHOG:0000845 xref: http://upload.wikimedia.org/wikipedia/commons/3/32/Illu_trunk_muscles.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Illu_trunk_muscles.jpg/200px-Illu_trunk_muscles.jpg xref: ncithesaurus:Transversus_Abdominis is_a: UBERON:0002461 ! anterior abdominal wall muscle relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: part_of UBERON:0006635 ! anterior abdominal wall property_value: external_definition "One of a pair of transverse abdominal muscles that is the anterolateral muscle of the abdomen, lying immediately under the internal abdominal oblique. [TFD][VHOG]" xsd:string property_value: homology_notes "Behind the thorax, the lateral group (of muscles in reptiles and mammals) remains essentially as for amphibians. (It breaks into three sheet-like layers: external oblique muscle, the internal oblique, and the transversus). More anteriorly, however, the ribs, now enlarged, penetrate and alter this group of muscles. The transversus is excluded from the thorax and the external and internal obliques become, respectively, the external and internal intercostal muscles, which contribute to the new function of ventilation of the lungs.[well established][VHOG]" xsd:string [Term] id: UBERON:0001222 name: right ureter namespace: uberon def: "An ureter that is part of a right side of organism [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies xref: FMA:15571 xref: MA:0001685 xref: SCTID:276251000 xref: UMLS:C0227682 xref: ncithesaurus:Right_Ureter intersection_of: UBERON:0000056 ! ureter intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0001223 name: left ureter namespace: uberon def: "An ureter that is part of a left side of organism [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies xref: FMA:15572 xref: MA:0001684 xref: SCTID:276340002 xref: UMLS:C0227683 xref: ncithesaurus:Left_Ureter intersection_of: UBERON:0000056 ! ureter intersection_of: in_left_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0001224 name: renal pelvis namespace: uberon def: "funnel shaped proximal portion of the ureter that is formed by convergence of the major calices [MP]." [MP:0004194, Wikipedia:Renal_pelvis] comment: In this ontology, the renal pelvis is represented as the area of part-overlap between the kidney and the ureter subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "kidney pelvis" EXACT [] synonym: "p. renallis" RELATED LATIN [Wikipedia:Renal_pelvis] synonym: "pelvis of ureter" EXACT [] synonym: "pyelum" RELATED [MP:0004194] xref: EMAPA:17948 xref: FMA:15575 xref: GAID:426 xref: MA:0000374 xref: MESH:A05.810.453.537 xref: SCTID:362221007 xref: UMLS:C0227666 xref: galen:RenalPelvis xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Illu_kidney2.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Illu_kidney2.jpg/200px-Illu_kidney2.jpg xref: ncithesaurus:Renal_Pelvis is_a: UBERON:0000063 ! organ segment is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0006554 ! urinary system structure relationship: channel_for UBERON:0001088 ! urine relationship: channels_from UBERON:0002113 ! kidney relationship: channels_into UBERON:0000056 ! ureter relationship: part_of UBERON:0000056 ! ureter relationship: part_of UBERON:0002113 ! kidney disjoint_from: UBERON:0002355 ! pelvis [Term] id: UBERON:0001225 name: cortex of kidney namespace: uberon def: "Region of parenchyma of kidney representing the outer portion.[FMA]" [FMA:FMA, Wikipedia:Renal_cortex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cortex renalis" EXACT LATIN [FMA:15581, FMA:TA] synonym: "kidney cortex" EXACT [] synonym: "renal cortex" EXACT [] xref: BTO:0001166 xref: EMAPA:17952 xref: FMA:15581 xref: GAID:424 xref: MA:0000372 xref: MESH:A05.810.453.324 xref: SCTID:362211004 xref: UMLS:C0022655 xref: galen:CortexOfKidney xref: http://upload.wikimedia.org/wikipedia/commons/6/69/Illu_kidney.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/69/Illu_kidney.jpg/200px-Illu_kidney.jpg xref: ncithesaurus:Renal_Cortex is_a: UBERON:0001851 ! cortex is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0008987 ! renal parenchyma intersection_of: UBERON:0001851 ! cortex intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0001226 name: major calyx namespace: uberon def: "The major calyx, in the kidney, surrounds the apex of the malpighian pyramids. Urine formed in the kidney passes through a papilla at the apex into a minor calyx then into major calyx before passing through the renal pelvis into the ureter. Peristalsis of the smooth muscle originating in pace-maker cells originating in the walls of the calyces propels urine through the pelvis and ureters to the bladder. [WP,unvetted]." [Wikipedia:Major_calyx] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calices renales majores" RELATED LATIN [Wikipedia:Major_calyx] synonym: "major calix" EXACT [] xref: EMAPA:18677 xref: FMA:15613 xref: MA:0001644 xref: SCTID:1106008 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Kidney_PioM.png/200px-Kidney_PioM.png is_a: UBERON:0006517 ! kidney calyx [Term] id: UBERON:0001227 name: minor calyx namespace: uberon def: "The minor calyx, in the kidney, surrounds the apex of the malpighian pyramids. Urine formed in the kidney passes through a papilla at the apex into the minor calyx then into the major calyx. Peristalsis of the smooth muscle originating in pace-maker cells originating in the walls of the calyces propels urine through the pelvis and ureters to the bladder. [WP,unvetted]." [Wikipedia:Minor_calyx] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calices renales minores" RELATED LATIN [Wikipedia:Minor_calyx] synonym: "minor calix" EXACT [] xref: EMAPA:18678 xref: FMA:15614 xref: MA:0001645 xref: SCTID:26293004 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Kidney_PioM.png/200px-Kidney_PioM.png is_a: UBERON:0006517 ! kidney calyx [Term] id: UBERON:0001228 name: renal papilla namespace: uberon def: "In the kidney, the renal papilla is the location where the Medullary pyramids empty urine into the renal pelvis. Histologically it is marked by medullary collecting ducts converging to channel the fluid. Transitional epithelium begins to be seen. [WP,unvetted]." [Wikipedia:Renal_papilla] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "kidney papilla" EXACT [MP:0011303] xref: BTO:0003925 xref: FMA:15622 xref: MA:0002730 xref: MESH:A05.810.453.466 xref: SCTID:362214007 xref: UMLS:C0022666 xref: galen:RenalPapilla xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Kidney_PioM.png/200px-Kidney_PioM.png xref: ncithesaurus:Renal_Papilla is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001224 ! renal pelvis relationship: part_of UBERON:0001294 ! inner medulla of kidney [Term] id: UBERON:0001229 name: renal corpuscle namespace: uberon def: "In the kidney, a renal corpuscle is the initial blood-filtering component of a nephron. It consists of two structures: a glomerulus and a Bowman's capsule[WP,unvetted]." [Wikipedia:Renal_corpuscle] comment: Together, the Bowmans capsule and the glomerulus comprise the definitive renal corpuscle. http://www.gudmap.org/About/Tutorial/DevMUS.html#DMK_Nephron subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Malpighian corpuscle" EXACT [ZFA:0005281] synonym: "corpusculum renale" EXACT LATIN [] synonym: "corpusculum renis" RELATED LATIN [Wikipedia:Renal_corpuscle] synonym: "cortical renal corpuscle" RELATED [MA:0000376] synonym: "kidney corpuscle" RELATED [Wikipedia:Renal_corpuscle] synonym: "malphighian corpuscle" RELATED [MA:0000376] synonym: "malphigian corpuscle" EXACT [] xref: BTO:0000333 xref: EMAPA:28236 xref: EV:0100385 xref: FMA:15625 xref: MA:0000376 xref: SCTID:361329009 xref: TAO:0005281 xref: UMLS:C0227635 xref: VHOG:0001262 xref: ZFA:0005281 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Renal_corpuscle.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/22/Renal_corpuscle.svg/200px-Renal_corpuscle.svg.png xref: ncithesaurus:Renal_Corpuscle is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001225 ! cortex of kidney relationship: part_of UBERON:0001285 ! nephron relationship: part_of UBERON:0007684 ! uriniferous tubule property_value: external_definition "A mass of arterial capillaries enveloped in a capsule and attached to a tubule in the kidney[BTO]" xsd:string property_value: external_definition "A tuft of capillaries found in a Bowman's capsule in which waste products are filtered from the blood and urine formation is initiated. Paired highly vascularized structures of the pronephros, responsible for blood filtration.[XAO]" xsd:string property_value: external_definition "The part of the nephron that filters blood.[TAO]" xsd:string [Term] id: UBERON:0001230 name: glomerular capsule namespace: uberon def: "The Bowman's capsule is a cup-like sac at the beginning of the tubular component of a nephron in the mammalian kidney. A glomerulus is enclosed in the sac. Fluids from blood in the glomerulus are collected in the Bowman's capsule and further processed along the nephron to form urine. This process is known as ultrafiltration. [WP,unvetted]." [Wikipedia:Bowman%27s_capsule] comment: One fold of the S-shaped body gives rise to Bowmanbs capsule[GUDMAP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Bowman's capsule" EXACT [http://www.gudmap.org/About/Tutorial/DevMUS.html#DMK_Nephron] synonym: "Bowmans capsule" EXACT [KUPO:0001001] synonym: "bowman's capsule " RELATED [TAO:0005254] synonym: "capsula glomerularis" EXACT LATIN [] synonym: "capsula glomeruli" RELATED LATIN [] synonym: "pronephric glomerular capsule" RELATED [TAO:0005310] synonym: "renal glomerular capsule" EXACT [TAO:0005254] xref: AAO:0010526 xref: BTO:0002297 xref: EMAPA:27973 xref: EMAPA:28257 xref: FMA:15626 xref: KUPO:0001001 xref: MA:0001660 xref: SCTID:361331000 xref: TAO:0005254 xref: TAO:0005310 xref: UMLS:C0524448 xref: ZFA:0005254 xref: ZFA:0005310 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray1130.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray1130.svg/200px-Gray1130.svg.png xref: ncithesaurus:Bowman_s_Capsule is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0004199 ! S-shaped body relationship: has_function_in GO:0003094 ! glomerular filtration relationship: part_of UBERON:0001229 ! renal corpuscle disjoint_from: UBERON:0002015 ! kidney capsule property_value: external_definition "Anatomical structure found in the kidney consisting of an expanded end of a kidney tubule surrounding a glomerulus and is the major site of filtration.[AAO]" xsd:string [Term] id: UBERON:0001231 name: nephron tubule namespace: uberon alt_id: UBERON:0004210 def: "An epithelial tube that is part of the nephron, the functional part of the kidney." [GO:0072078, Wikipedia:Renal_tubule] comment: note that in ISBN10:0073040584 \"Vertebrates, Kardong\", the uriniferous tubule contains the nephron, so we have a separate class, rather than using a synonym, as in MA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "kidney tubule" EXACT [GAID:433] synonym: "renal tubule" BROAD [] synonym: "tubulus renalis" EXACT [] synonym: "uriniferous tubule" RELATED [MA:0000377] xref: BTO:0000343 xref: EFO:0003666 xref: EMAPA:27782 xref: EV:0100387 xref: FMA:15627 xref: GAID:433 xref: MA:0000377 xref: MESH:A05.810.453.736.560 xref: SCTID:361332007 xref: TAO:0001287 xref: UMLS:C0022674 xref: ZFA:0001287 xref: ncithesaurus:Renal_Tubule is_a: UBERON:0004211 ! nephron epithelium is_a: UBERON:0009773 ! renal tubule relationship: develops_from UBERON:0003918 ! kidney mesenchyme relationship: has_part CL:0005009 ! renal principal cell intersection_of: UBERON:0003914 ! epithelial tube intersection_of: part_of UBERON:0001285 ! nephron [Term] id: UBERON:0001232 name: collecting duct of renal tubule namespace: uberon def: "The collecting duct is a portion of the nephron through which water flows, moving passively down its concentration gradient" [GO:0072044, Wikipedia:Collecting_tubule] comment: note that in ISBN10:0073040584 \"Vertebrates, Kardong\", the nephron is adjacent to the collecting tubule, consistent with FMA, but not GO. Wikipedia says: Many sources include the connecting tubule as part of the collecting duct system. However, the embryological origin is more similar to the nephron than it is to the rest of the collecting duct (which derives from the ureteric bud), and other sources therefore classify the connecting tubule with the nephron subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arcuate renal tubule" RELATED [Wikipedia:Connecting_tubule] synonym: "collecting duct" EXACT [GO:0072044] synonym: "collecting duct system" RELATED [BTO:0000761] synonym: "collecting tubule" RELATED [] synonym: "junctional tube" RELATED [Wikipedia:Connecting_tubule] synonym: "kidney collecting duct" EXACT [] synonym: "kidney collecting tubule" RELATED [] synonym: "renal collecting tubule" EXACT [FMA:15628] synonym: "tubulus renalis arcuatus" EXACT LATIN [Wikipedia:Connecting_tubule] synonym: "tubulus renalis colligens" EXACT [] xref: BTO:0000761 xref: EMAPA:28407 xref: EV:0100391 xref: FMA:15628 xref: GAID:434 xref: MA:0000371 xref: MESH:A05.810.453.736.560.510 xref: SCTID:28202009 xref: TAO:0005294 xref: ZFA:0005294 is_a: UBERON:0000058 ! duct is_a: UBERON:0006553 ! renal duct relationship: part_of UBERON:0001285 ! nephron relationship: part_of UBERON:0007684 ! uriniferous tubule property_value: external_definition "Renal duct that collects the output from renal tubules.[TAO]" xsd:string [Term] id: UBERON:0001233 name: right adrenal gland namespace: uberon def: "An adrenal gland that is in the right side of the abdomen" [OBOL:automatic] comment: in humans, the right adrenal gland is triangular shaped[WP] synonym: "glandula suprarenalis dexter" EXACT LATIN [] synonym: "right suprarenal gland" EXACT [] xref: FMA:15629 xref: MA:0000719 xref: SCTID:281625001 xref: UMLS:C0229559 xref: ncithesaurus:Right_Adrenal_Gland intersection_of: UBERON:0002369 ! adrenal gland intersection_of: in_right_side_of UBERON:0000916 ! abdomen [Term] id: UBERON:0001234 name: left adrenal gland namespace: uberon def: "An adrenal gland that is in the left side of the abdomen" [OBOL:automatic] comment: in humans, the left adrenal gland is semilunar shaped[WP] synonym: "glandula suprarenalis sinister" EXACT LATIN [] synonym: "left suprarenal gland" EXACT [] xref: FMA:15630 xref: MA:0000718 xref: SCTID:281626000 xref: UMLS:C0229560 xref: ncithesaurus:Left_Adrenal_Gland intersection_of: UBERON:0002369 ! adrenal gland intersection_of: in_left_side_of UBERON:0000916 ! abdomen [Term] id: UBERON:0001235 name: adrenal cortex namespace: uberon def: "Situated along the perimeter of the adrenal gland, the adrenal cortex mediates the stress response through the production of mineralocorticoids and glucocorticoids, including aldosterone and cortisol respectively. It is also a secondary site of androgen synthesis. [WP,unvetted]." [Wikipedia:Adrenal_cortex] comment: Taxon notes: Kardong states that mammals are the first to have distinct cortext and medulla, but this contradicts XAO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "adrenal gland cortex" EXACT [] synonym: "cortex (glandula suprarenalis)" EXACT [] synonym: "cortex glandulae suprarenalis" RELATED LATIN [BTO:0000045, Wikipedia:Adrenal_cortex] synonym: "cortex of adrenal gland" EXACT [] synonym: "cortex of suprarenal gland" EXACT [] synonym: "suprarenal" RELATED [] synonym: "suprarenal cortex" EXACT [] xref: AAO:0011009 xref: BTO:0000045 xref: EFO:0000237 xref: EMAPA:18427 xref: EV:0100136 xref: FMA:15632 xref: GAID:447 xref: MA:0000118 xref: MAT:0000494 xref: MESH:A06.407.071.140 xref: SCTID:362584002 xref: UMLS:C0001613 xref: VHOG:0001481 xref: XAO:0000165 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray1185.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5c/Gray1185.png/200px-Gray1185.png xref: ncithesaurus:Adrenal_Cortex is_a: UBERON:0001851 ! cortex is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of GO:0006704 ! glucocorticoid biosynthetic process relationship: capable_of GO:0006705 ! mineralocorticoid biosynthetic process relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0002369 ! adrenal gland intersection_of: UBERON:0001851 ! cortex intersection_of: part_of UBERON:0002369 ! adrenal gland property_value: homology_notes "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues (medulla), but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" xsd:string [Term] id: UBERON:0001236 name: adrenal medulla namespace: uberon def: "The adrenal medulla is part of the adrenal gland. It is located at the center of the gland, being surrounded by the adrenal cortex. It is the innermost part of the adrenal gland, consisting of cells that secrete epinephrine, norepinephrine, and a small amount of dopamine in response to stimulation by sympathetic preganglionic neurons. Composed mainly of hormone-producing chromaffin cells, the adrenal medulla is the principal site of the conversion of the amino acid tyrosine into the catecholamines adrenaline (epinephrine), noradrenaline (norepinephrine), and dopamine[WP,unvetted]." [Wikipedia:Adrenal_medulla] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "adrenal gland medulla" EXACT [] synonym: "chromaffin cells" RELATED [] synonym: "medulla (glandula suprarenalis)" EXACT [] synonym: "medulla glandulae suprarenalis" EXACT LATIN [FMA:15633, FMA:TA] synonym: "medulla of adrenal gland" EXACT [OBOL:automatic] synonym: "medulla of glandula suprarenalis" RELATED [BTO:0000049] synonym: "medulla of suprarenal gland" EXACT [] synonym: "suprarenal medulla" EXACT [] xref: AAO:0011010 xref: BTO:0000049 xref: EFO:0000852 xref: EMAPA:18428 xref: EV:0100137 xref: FMA:15633 xref: GAID:451 xref: MA:0000119 xref: MAT:0000495 xref: MESH:A06.224.161 xref: SCTID:362585001 xref: UMLS:C0001629 xref: VHOG:0001378 xref: XAO:0000166 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray1185.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5c/Gray1185.png/200px-Gray1185.png xref: ncithesaurus:Adrenal_Medulla is_a: UBERON:0000958 ! medulla is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest relationship: has_part CL:0002082 ! type II cell of adrenal medulla relationship: has_part CL:0002083 ! type I cell of adrenal medulla relationship: has_part CL:1000426 ! chromaffin cell of adrenal gland relationship: surrounded_by UBERON:0001235 ! adrenal cortex intersection_of: UBERON:0000958 ! medulla intersection_of: part_of UBERON:0002369 ! adrenal gland property_value: homology_notes "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues (medulla), but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" xsd:string [Term] id: UBERON:0001237 name: paraaortic body namespace: uberon def: "." [Wikipedia:Organ_of_Zuckerkandl] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "organ of zuckerkandl" EXACT [] synonym: "para-aortic body" RELATED [] synonym: "paraganglia of zuckerkandl" RELATED [] synonym: "paraganglion of Zuckerkandl" EXACT [EMAPA:18223] xref: EMAPA:18223 xref: FMA:15647 xref: GAID:444 xref: MA:0001137 xref: MESH:A06.224.636 xref: SCTID:276159005 xref: UMLS:C0442134 xref: http://upload.wikimedia.org/wikipedia/commons/a/af/Gray531.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/af/Gray531.png/200px-Gray531.png xref: ncithesaurus:Paraaortic is_a: UBERON:0000062 ! organ relationship: part_of UBERON:0000949 ! endocrine system [Term] id: UBERON:0001238 name: lamina propria of small intestine namespace: uberon def: "Lamina propria that is part_of the small intestine." [GOC:Obol] synonym: "lamina propria mucosa of small bowel" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of small intestine" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of small bowel" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of small intestine" EXACT [] synonym: "lamina propria of mucosa of small intestine" EXACT [] synonym: "lamina propria of small bowel" EXACT [OBOL:automatic] synonym: "small bowel lamina propria" EXACT [OBOL:automatic] synonym: "small bowel lamina propria mucosa" EXACT [OBOL:automatic] synonym: "small bowel lamina propria mucosae" EXACT [OBOL:automatic] synonym: "small intestine lamina propria" EXACT [] synonym: "small intestine lamina propria mucosa" EXACT [OBOL:automatic] synonym: "small intestine lamina propria mucosae" EXACT [OBOL:automatic] xref: FMA:15651 xref: MA:0001554 xref: SCTID:63588008 xref: UMLS:C1711325 xref: ncithesaurus:Small_Intestinal_Lamina_Propria is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0004780 ! gastrointestinal system lamina propria relationship: part_of UBERON:0001168 ! wall of small intestine relationship: part_of UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001239 name: muscularis mucosae of large intestine namespace: uberon def: "A muscularis mucosa that is part of a large intestine." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "lamina muscularis of large intestine mucosa" EXACT [] synonym: "lamina muscularis of large intestine mucous membrane" EXACT [] synonym: "large intestine muscularis mucosa" EXACT [] xref: FMA:15655 xref: MA:0002689 xref: UMLS:C0734776 xref: ncithesaurus:Large_Intestinal_Muscularis_Mucosa is_a: UBERON:0001240 ! muscularis mucosae of intestine is_a: UBERON:0004220 ! large intestine smooth muscle relationship: part_of UBERON:0001207 ! mucosa of large intestine relationship: part_of UBERON:0001240 ! muscularis mucosae of intestine intersection_of: UBERON:0006676 ! muscularis mucosa intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001240 name: muscularis mucosae of intestine namespace: uberon def: "A muscularis mucosa that is part of a intestine." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "intestine muscularis mucosa" EXACT [] xref: FMA:15691 xref: MA:0002694 is_a: UBERON:0004221 ! intestine smooth muscle relationship: part_of UBERON:0001242 ! intestinal mucosa intersection_of: UBERON:0006676 ! muscularis mucosa intersection_of: part_of UBERON:0000160 ! intestine [Term] id: UBERON:0001241 name: crypt of Lieberkuhn of small intestine namespace: uberon def: "A crypt of lieberkuhn that is part of a small intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "crypt of lieberkuhn of small bowel" EXACT [OBOL:automatic] synonym: "crypt of lieberkuhn of small intestine" EXACT [OBOL:automatic] synonym: "intestinal gland of small bowel" EXACT [OBOL:automatic] synonym: "intestinal gland of small intestine" EXACT [OBOL:automatic] synonym: "lieberkuhn crypt of small bowel" EXACT [OBOL:automatic] synonym: "lieberkuhn crypt of small intestine" EXACT [OBOL:automatic] synonym: "small bowel crypt of lieberkuhn" EXACT [OBOL:automatic] synonym: "small bowel intestinal gland" EXACT [OBOL:automatic] synonym: "small bowel lieberkuhn crypt" EXACT [OBOL:automatic] synonym: "small intestinal crypt of Lieberkuhn" EXACT [] synonym: "small intestine crypt of Lieberkuhn" EXACT [] synonym: "small intestine crypt of lieberkuhn" EXACT [OBOL:automatic] synonym: "small intestine intestinal gland" EXACT [OBOL:automatic] synonym: "small intestine lieberkuhn crypt" EXACT [OBOL:automatic] xref: FMA:15693 xref: MA:0001552 xref: SCTID:52688008 xref: UMLS:C0227267 xref: ncithesaurus:Small_Intestinal_Crypt_of_Lieberkuhn is_a: UBERON:0001983 ! crypt of Lieberkuhn relationship: part_of UBERON:0002108 ! small intestine intersection_of: UBERON:0001983 ! crypt of Lieberkuhn intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0001242 name: intestinal mucosa namespace: uberon def: "The innermost membrane of the four coats of the intestinal wall, the other three being the submucosa, muscular layers, and serosa. (Berk et al., Gastroenterology, 4th ed, v.3, p1479)" [MESH:A03.492.411.369] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bowel mucosa" EXACT [OBOL:automatic] synonym: "bowel mucosa of organ" EXACT [OBOL:automatic] synonym: "bowel mucous membrane" EXACT [OBOL:automatic] synonym: "bowel organ mucosa" EXACT [OBOL:automatic] synonym: "intestine mucosa" EXACT [] synonym: "intestine mucosa of organ" EXACT [OBOL:automatic] synonym: "intestine mucous membrane" EXACT [OBOL:automatic] synonym: "intestine organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of bowel" EXACT [OBOL:automatic] synonym: "mucosa of intestine" EXACT [] synonym: "mucosa of organ of bowel" EXACT [OBOL:automatic] synonym: "mucosa of organ of intestine" EXACT [OBOL:automatic] synonym: "mucous membrane of bowel" EXACT [OBOL:automatic] synonym: "mucous membrane of intestine" EXACT [OBOL:automatic] synonym: "organ mucosa of bowel" EXACT [OBOL:automatic] synonym: "organ mucosa of intestine" EXACT [OBOL:automatic] synonym: "tunica mucosa intestini" EXACT [] xref: BTO:0000642 xref: FMA:15695 xref: GAID:296 xref: MA:0001537 xref: MESH:A03.492.411.369 xref: SCTID:362080002 xref: UMLS:C0021839 xref: ncithesaurus:Intestinal_Mucosa is_a: UBERON:0004786 ! gastrointestinal system mucosa relationship: part_of UBERON:0001262 ! wall of intestine intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000160 ! intestine [Term] id: UBERON:0001243 name: serosa of intestine namespace: uberon def: "A serous membrane that is part of a wall of intestine [Automatically generated definition]." [OBOL:automatic] comment: TODO - check serosa/peritoneum synonym: "anatomical wall of bowel serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of bowel serous membrane" EXACT [OBOL:automatic] synonym: "anatomical wall of intestine serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of intestine serous membrane" EXACT [OBOL:automatic] synonym: "bowel anatomical wall serosa" EXACT [OBOL:automatic] synonym: "bowel anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "bowel wall serosa" EXACT [OBOL:automatic] synonym: "bowel wall serous membrane" EXACT [OBOL:automatic] synonym: "intestinal serosa" EXACT [] synonym: "intestinal wall serosa" EXACT [OBOL:automatic] synonym: "intestinal wall serous membrane" EXACT [OBOL:automatic] synonym: "intestine anatomical wall serosa" EXACT [OBOL:automatic] synonym: "intestine anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "intestine serosa" EXACT [] synonym: "intestine wall serosa" EXACT [OBOL:automatic] synonym: "intestine wall serous membrane" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of bowel" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of intestine" EXACT [OBOL:automatic] synonym: "serosa of bowel anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of bowel wall" EXACT [OBOL:automatic] synonym: "serosa of intestinal wall" EXACT [OBOL:automatic] synonym: "serosa of intestine anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of intestine wall" EXACT [OBOL:automatic] synonym: "serosa of wall of bowel" EXACT [OBOL:automatic] synonym: "serosa of wall of intestine" EXACT [OBOL:automatic] synonym: "serous membrane of anatomical wall of bowel" EXACT [OBOL:automatic] synonym: "serous membrane of anatomical wall of intestine" EXACT [OBOL:automatic] synonym: "serous membrane of bowel anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of bowel wall" EXACT [OBOL:automatic] synonym: "serous membrane of intestinal wall" EXACT [OBOL:automatic] synonym: "serous membrane of intestine anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of intestine wall" EXACT [OBOL:automatic] synonym: "serous membrane of wall of bowel" EXACT [OBOL:automatic] synonym: "serous membrane of wall of intestine" EXACT [OBOL:automatic] synonym: "visceral peritoneum of intestine" EXACT [] synonym: "wall of bowel serosa" EXACT [OBOL:automatic] synonym: "wall of bowel serous membrane" EXACT [OBOL:automatic] synonym: "wall of intestine serosa" EXACT [OBOL:automatic] synonym: "wall of intestine serous membrane" EXACT [OBOL:automatic] xref: FMA:15701 xref: MA:0001538 is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004782 ! gastrointestinal system serosa relationship: part_of UBERON:0001262 ! wall of intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0000160 ! intestine [Term] id: UBERON:0001244 name: internal anal sphincter namespace: uberon def: "The Sphincter ani internus (or internal anal sphincter) is a muscular ring which surrounds about 2.5 cm of the anal canal; its inferior border is in contact with, but quite separate from, the Sphincter ani externus. It is about 5 mm thick, and is formed by an aggregation of the involuntary circular fibers of the intestine. Its lower border is about 6 mm from the orifice of the anus. [WP,unvetted]." [Wikipedia:Internal_anal_sphincter] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "circular layer of anal muscularis externa" EXACT [] synonym: "circular layer of muscularis externa of anal canal" EXACT [] synonym: "circular layer of muscularis propria of anal canal" EXACT [] synonym: "circular muscle layer of anal canal" EXACT [] xref: EMAPA:18266 xref: FMA:15710 xref: MA:0001534 xref: UMLS:C0224394 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e9/Gray1079.png/200px-Gray1079.png xref: ncithesaurus:Internal_Anal_Sphincter is_a: UBERON:0004231 ! anal region smooth muscle is_a: UBERON:0004590 ! sphincter muscle is_a: UBERON:0004916 ! anal sphincter is_a: UBERON:0007521 ! smooth muscle sphincter is_a: UBERON:0012368 ! circular muscle layer relationship: part_of UBERON:0001353 ! anal region relationship: surrounds UBERON:0000159 ! anal canal [Term] id: UBERON:0001245 name: anus namespace: uberon def: "Orifice at the opposite end of an animal's digestive tract from the mouth. Its function is to expel feces, unwanted semi-solid matter produced during digestion, which, depending on the type of animal, may be one or more of: matter which the animal cannot digest, such as bones; food material after all the nutrients have been extracted, for example cellulose or lignin; ingested matter which would be toxic if it remained in the digestive tract; and dead or excess gut bacteria and other endosymbionts." [Wikipedia:Anus, ZFIN:curator] comment: Taxon notes: In the lungfish, sharks and rays the rectum opens into the cloaca which also receives wastes (urine) from the kidneys and material from the reproductive organs. In bony fish the rectum reaches the outside environment through the anus, which is normally situated just in front the urinary and reproductive openings. However in some fish the digestive tract may be curled back on itself, and in the Electric Eel (Electrophorus electricus) the anus is situated in the fish's throat. -- http://www.earthlife.net/fish/digestion.html subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anal opening" EXACT [] synonym: "anal orifice" EXACT [] synonym: "opening of terminal part of digestive tract" EXACT [] synonym: "proctodeum" RELATED [] xref: BTO:0001680 xref: EV:0100082 xref: FBbt:00001893 xref: FBbt:00003148 xref: FMA:15711 xref: GAID:312 xref: MA:0000331 xref: MESH:A03.492.411.495.767.288 xref: OpenCyc:Mx4rvVjaEZwpEbGdrcN5Y29ycA xref: SCTID:181262009 xref: TADS:0000066 xref: TGMA:0001279 xref: UMLS:C0003461 xref: WBbt:0005364 xref: galen:Anus xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Protovsdeuterostomes.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/75/Anorectum.gif/200px-Anorectum.gif xref: ncithesaurus:Anus is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000931 ! proctodeum relationship: part_of UBERON:0001555 ! digestive tract intersection_of: UBERON:0000161 ! orifice intersection_of: distal_part_of UBERON:0001555 ! digestive tract property_value: has_relational_adjective "anal" xsd:string [Term] id: UBERON:0001246 name: interlobular bile duct namespace: uberon def: "the canals that carry bile in the liver between the intralobular ducts and the biliary ductules; interlobular bile ducts are part of the interlobular portal triad." [MP:0009500] comment: This class was created automatically from a combination of ontologies xref: FMA:15767 xref: MA:0002668 xref: SCTID:83488001 xref: UMLS:C0227515 xref: ncithesaurus:Interlobular_Bile_Duct is_a: UBERON:0003704 ! intrahepatic bile duct relationship: part_of UBERON:0001279 ! portal triad [Term] id: UBERON:0001247 name: falciform ligament namespace: uberon def: "a ligament that attaches the liver to the anterior body wall. It is a broad and thin antero-posterior peritoneal fold, falciform in shape, its base being directed downward and backward and its apex upward and backward. It is a remnant of the ventral mesentery of the fetus. It is situated in an antero-posterior plane but lies obliquely, so that one surface faces forward and is in contact with the peritoneum behind the right rectus and the diaphragm, while the other is directed backward and is in contact with the left lobe of the liver. It is attached by its left margin to the under surface of the diaphragm and the posterior surface of the sheath of the right Rectus as low down as the umbilicus; by its right margin it extends from the notch on the anterior margin of the liver, as far back as the posterior surface. It is composed of two layers of peritoneum closely united together. Its base or free edge contains between its layers the round ligament and the paraumbilical veins[WP]." [Wikipedia:Falciform_ligament] comment: In FMA this is a subclass of mesentery. In MA it is a subclass of ligament, we infer and assert this is a nonskeletal ligament subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "falciform ligament of liver" EXACT [] synonym: "ligamentum falciforme (hepatis)" EXACT [] synonym: "ligamentum falciforme hepatis" EXACT LATIN [FMA:15823, FMA:TA] xref: EHDAA2:0000499 xref: EHDAA:4856 xref: EMAPA:18288 xref: EMAPA:18908 xref: FMA:15823 xref: MA:0001622 xref: SCTID:362705001 xref: UMLS:C0230240 xref: VHOG:0000355 xref: ncithesaurus:Falciform_Ligament is_a: UBERON:0002095 ! mesentery is_a: UBERON:0003281 ! mesentery of stomach is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0013139 ! ligament of liver relationship: part_of UBERON:0005626 ! ventral mesogastrium intersection_of: UBERON:0008845 ! nonskeletal ligament intersection_of: attaches_to UBERON:0000309 ! body wall intersection_of: attaches_to UBERON:0002107 ! liver [Term] id: UBERON:0001248 name: hilum of spleen namespace: uberon def: "The splenic hilum is a location on the surface of the spleen. It is the point of attachment for the gastrosplenic ligament, and the point of insertion for the splenic artery and splenic vein. [WP,unvetted]." [Wikipedia:Splenic_hilum] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hilum" BROAD [EMAPA:19303] synonym: "hilum lienale" EXACT LATIN [FMA:15841, FMA:TA] synonym: "hilum splenicum" EXACT LATIN [FMA:15841, FMA:TA, Wikipedia:Splenic_hilum] synonym: "spleen hilum" EXACT [] synonym: "splenic hilum" EXACT [] xref: EMAPA:19303 xref: FMA:15841 xref: MA:0002670 xref: SCTID:245377005 xref: UMLS:C0229685 xref: http://upload.wikimedia.org/wikipedia/commons/a/a2/Gray1188.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a2/Gray1188.png/200px-Gray1188.png xref: ncithesaurus:Splenic_Hilum is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0004885 ! hilum intersection_of: part_of UBERON:0002106 ! spleen [Term] id: UBERON:0001249 name: spleen lymphoid follicle namespace: uberon alt_id: UBERON:0003969 def: "the area of the white pulp where the affinity maturation of B cells and the generation of memory B cells and plasma cells occur" [CL:tm, MP:0008470, http://purl.obolibrary.org/obo/uberon/tracker/6] synonym: "Malpighian body" EXACT [FMA:15843] synonym: "lymphatic follicle of spleen" EXACT [FMA:15843] synonym: "lymphoid follicle of spleen" EXACT [FMA:15843] synonym: "lymphoid nodule of spleen" EXACT [FMA:15843] synonym: "spleen B cell follicle" EXACT [CL:tm] synonym: "spleen lymphoid follicle" EXACT [MA:0002672] synonym: "spleen lymphoid nodule" RELATED [MA:0002672] synonym: "splenic B cell follicle" EXACT [CL:tm] synonym: "splenic lymphatic follicle" EXACT [FMA:15843] synonym: "splenic lymphoid follicle" EXACT [] xref: MA:0002672 xref: SCTID:35845000 xref: UMLS:C1519475 xref: ncithesaurus:Splenic_Lymphoid_Follicle is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0001959 ! white pulp of spleen relationship: part_of UBERON:0006561 ! non-lymphatic part of lymphoid system relationship: part_of UBERON:1000024 ! parenchyma of spleen relationship: site_of GO:0002319 ! memory B cell differentiation intersection_of: UBERON:0000444 ! lymphoid follicle intersection_of: part_of UBERON:0002106 ! spleen [Term] id: UBERON:0001250 name: red pulp of spleen namespace: uberon def: "Red pulp of the spleen is composed of connective tissue known as the cords of Billroth and many splenic sinuses that are engorged with blood, giving it a red color. Its primary function is to filter the blood of antigens, microorganisms, and defective or worn-out red blood cells. The spleen is made of red pulp and white pulp, separated by the marginal zone; 76-79% of a normal spleen is red pulp. Unlike white pulp, which mainly contains lymphocytes such as T cells, red pulp is made up of several different types of blood cells, including platelets, granulocytes, red blood cells, and plasma." [Wikipedia:Red_pulp] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pulpa rubra" EXACT LATIN [FMA:15844, FMA:TA] synonym: "pulpa splenica" RELATED LATIN [Wikipedia:Red_pulp] synonym: "red pulp" EXACT [] synonym: "spleen red pulp" EXACT [] synonym: "splenic red pulp" EXACT [] xref: FMA:15844 xref: MA:0000756 xref: SCTID:27579002 xref: UMLS:C0229687 xref: http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1191.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/15/Gray1191.png/200px-Gray1191.png xref: ncithesaurus:Splenic_Red_Pulp is_a: UBERON:1000023 ! spleen pulp relationship: composed_primarily_of CL:0000542 ! lymphocyte property_value: present_in_taxon NCBITaxon:7955 [Term] id: UBERON:0001251 name: marginal zone of spleen namespace: uberon def: "region at the interface between the non-lymphoid red pulp and the lymphoid white-pulp of the spleen." [Wikipedia:Marginal_zone] comment: WP says - (Some sources consider it to be the part of red pulp which borders on the white pulp, while other sources consider it to be neither red pulp nor white pulp.) - we use the adjacency relation here so it overlaps neither. FMA considers this an anatomical line. Not to be confused with: Marginal zone of spleen (e.g. AAO:0010448 marginal zone) synonym: "junctional zone of spleen" EXACT [] synonym: "marginal zone" BROAD [Wikipedia:Marginal_zone] synonym: "spleen marginal zone" EXACT [] xref: FMA:15852 xref: MA:0000755 xref: UMLS:C1711368 xref: http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1191.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/15/Gray1191.png/200px-Gray1191.png xref: ncithesaurus:Marginal_Zone is_a: UBERON:0000466 ! immaterial anatomical entity relationship: adjacent_to UBERON:0001250 ! red pulp of spleen relationship: adjacent_to UBERON:0001959 ! white pulp of spleen relationship: part_of UBERON:0002106 ! spleen disjoint_from: UBERON:0004879 ! marginal zone of embryo [Term] id: UBERON:0001252 name: adventitia of ureter namespace: uberon def: "An adventitia that is part of a ureter." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "external adventitia of ureter" EXACT [] synonym: "ureter adventitia" EXACT [] synonym: "ureteral adventitia" EXACT [] xref: EMAPA:28114 xref: FMA:15892 xref: MA:0002652 xref: SCTID:392273001 xref: SCTID:47879001 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0009916 ! wall of ureter intersection_of: UBERON:0005742 ! adventitia intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0001253 name: lamina propria of ureter namespace: uberon def: "A lamina propria that is part of a ureter [Automatically generated definition]." [OBOL:automatic] synonym: "lamina propria mucosa of ureter" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of ureter" EXACT [OBOL:automatic] synonym: "ureter lamina propria" EXACT [] synonym: "ureter lamina propria mucosa" EXACT [OBOL:automatic] synonym: "ureter lamina propria mucosae" EXACT [OBOL:automatic] xref: EMAPA:28841 xref: FMA:15896 xref: MA:0002653 xref: SCTID:2771005 is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system relationship: part_of UBERON:0004980 ! mucosa of ureter relationship: part_of UBERON:0009916 ! wall of ureter intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0001254 name: urothelium of ureter namespace: uberon def: "the luminal epithelium of the tube that conducts the urine from the renal pelvis to the bladder[MP,unvetted]" [MP:0000535] comment: AO notes: MP treats ureter urothelium and ureter luminal urothelium as exact synonyms, yes MA treats these as distinct; see also: transitional epithelium vs urothelium synonym: "transitional epithelium of ureter" EXACT [] synonym: "ureter luminal urothelium" RELATED INCONSISTENT [MP:0000535] synonym: "ureter transitional epithelium" EXACT [] synonym: "ureter urothelium" EXACT [] xref: FMA:15897 xref: MA:0002655 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000365 ! urothelium intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0001255 name: urinary bladder namespace: uberon def: "distensible musculomembranous organ situated in the anterior part of the pelvic cavity in which urine collects before excretion[MP]." [MGI:anna, Wikipedia:Urinary_bladder] subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bladder" EXACT [] synonym: "urocyst" RELATED [Wikipedia:Urinary_bladder] synonym: "vesica urinaria" RELATED LATIN [Wikipedia:Urinary_bladder] xref: AAO:0000623 xref: BTO:0001418 xref: EFO:0000290 xref: EHDAA2:0000174 xref: EHDAA:9328 xref: EMAPA:18321 xref: EV:0100098 xref: FMA:15900 xref: GAID:0000004 xref: MA:0000380 xref: MAT:0000122 xref: MESH:A05.810.161 xref: MIAA:0000122 xref: OpenCyc:Mx4rvVjMmZwpEbGdrcN5Y29ycA xref: SCTID:302512001 xref: UMLS:C0005682 xref: VHOG:0000740 xref: XAO:0000154 xref: galen:UrinaryBladder xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Urinary_system.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Urinary_system.svg/200px-Urinary_system.svg.png xref: ncithesaurus:Bladder is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000489 ! cavitated compound organ is_a: UBERON:0002075 ! viscus is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0000164 ! primitive urogenital sinus relationship: located_in UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0001556 ! lower urinary tract property_value: external_definition "A saccular organ in which urine accumulates before discharge from the body. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: external_definition "Anatomical structure which consists of a membranous sac used to temporarily store urine until it is excreted from the body.[AAO]" xsd:string property_value: homology_notes "In tetrapods, the urinary bladder arises as an outpocketing of the cloaca. (...) The tetrapod urinary bladder appears first among amphibians and is present in Sphenodon, turtles, most lizards, ostriches among birds, and all mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0001256 name: wall of urinary bladder namespace: uberon def: "An anatomical wall that is part of a urinary bladder [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "anatomical wall of bladder" EXACT [OBOL:automatic] synonym: "anatomical wall of urinary bladder" EXACT [OBOL:automatic] synonym: "bladder anatomical wall" EXACT [OBOL:automatic] synonym: "bladder wall" EXACT [OBOL:automatic] synonym: "urinary bladder anatomical wall" EXACT [OBOL:automatic] synonym: "urinary bladder wall" EXACT [] synonym: "wall of bladder" EXACT [OBOL:automatic] xref: BTO:0001462 xref: FMA:15902 xref: MA:0002493 xref: SCTID:362225003 xref: UMLS:C0458421 xref: ncithesaurus:Bladder_Wall is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001255 ! urinary bladder intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0001257 name: trigone of urinary bladder namespace: uberon def: "The trigone is a smooth triangular region of the internal urinary bladder formed by the two ureteral orifices and the internal urethral orifice. The area is very sensitive to expansion and once stretched to a certain degree, the urinary bladder signals the brain of its need to empty. The signals become stronger as the bladder continues to fill. Embryologically, the trigone of the Bladder is derived from the caudal end of mesonephric ducts. In the Female the mesonephric ducts break down but, thus, the Trigone of the Bladder is less prominent but, still present. [WP,unvetted]." [Wikipedia:Trigone_of_urinary_bladder] comment: Development notes: Embryologically, the trigone of the bladder is derived from the caudal end of mesonephric ducts, which is of mesodermal origin (the rest of the bladder is endodermal). In the female the mesonephric ducts regresses, causing the trigone to be less prominent, but still present[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Lieutaud's trigone" EXACT [] synonym: "bladder trigone" EXACT [] synonym: "deep trigone" EXACT [] synonym: "musculus trigoni vesicae profundus" EXACT LATIN [FMA:15910, FMA:TA] synonym: "trigone of bladder" EXACT [] synonym: "trigonum vesicae" EXACT LATIN [FMA:15910, FMA:TA] synonym: "trigonum vesicae urinariae" RELATED LATIN [Wikipedia:Trigone_of_urinary_bladder] synonym: "urinary bladder trigone" EXACT [] synonym: "vesical trigone" EXACT [] xref: FMA:15910 xref: MA:0002492 xref: SCTID:272663002 xref: UMLS:C0447586 xref: galen:TrigoneOfUrinaryBladder xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Illu_bladder.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/57/Illu_bladder.jpg/200px-Illu_bladder.jpg xref: ncithesaurus:Bladder_Trigone is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0006082 ! fundus of urinary bladder [Term] id: UBERON:0001258 name: neck of urinary bladder namespace: uberon def: "the constricted portion of the urinary bladder, formed by the meeting of its inferolateral surfaces proximal to the opening of the urethra[MP]." [MP:anna, Wikipedia:Neck_of_urinary_bladder] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bladder neck" EXACT [] synonym: "cervix vesicae" EXACT LATIN [FMA:15912, FMA:TA] synonym: "cervix vesicae urinariae" RELATED LATIN [Wikipedia:Neck_of_urinary_bladder] synonym: "collum vesicae" EXACT LATIN [FMA:15912, FMA:TA] synonym: "neck of bladder" EXACT [] synonym: "urinary bladder neck" EXACT [] synonym: "vesical neck" EXACT [] xref: FMA:15912 xref: MA:0002491 xref: SCTID:362227006 xref: UMLS:C0227716 xref: galen:UrinaryBladderNeck xref: http://upload.wikimedia.org/wikipedia/commons/6/63/Gray1156.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/63/Gray1156.png/200px-Gray1156.png xref: ncithesaurus:Bladder_Neck is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0001560 ! neck of organ is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0001259 name: mucosa of urinary bladder namespace: uberon def: "A mucosa that is part of a urinary bladder [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bladder mucosa" EXACT [] synonym: "bladder mucosa of organ" EXACT [OBOL:automatic] synonym: "bladder mucous membrane" EXACT [OBOL:automatic] synonym: "bladder organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of bladder" EXACT [OBOL:automatic] synonym: "mucosa of organ of bladder" EXACT [OBOL:automatic] synonym: "mucosa of organ of urinary bladder" EXACT [OBOL:automatic] synonym: "mucous membrane of bladder" EXACT [] synonym: "mucous membrane of urinary bladder" EXACT [] synonym: "organ mucosa of bladder" EXACT [OBOL:automatic] synonym: "organ mucosa of urinary bladder" EXACT [OBOL:automatic] synonym: "tunica mucosa (vesica urinaria)" EXACT LATIN [FMA:15928, FMA:TA] synonym: "tunica mucosa vesicae" EXACT LATIN [FMA:15928, FMA:TA] synonym: "tunica mucosa vesicae urinariae" EXACT [MP:MP] synonym: "urinary bladder mucosa" EXACT [] synonym: "urinary bladder mucosa of organ" EXACT [OBOL:automatic] synonym: "urinary bladder mucous membrane" EXACT [OBOL:automatic] synonym: "urinary bladder organ mucosa" EXACT [OBOL:automatic] xref: EFO:0000293 xref: FMA:15928 xref: MA:0001692 xref: SCTID:362224004 xref: UMLS:C0227691 xref: galen:MucousMembraneOfUrinaryBladder xref: ncithesaurus:Bladder_Mucosa is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001256 ! wall of urinary bladder intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0001260 name: serosa of urinary bladder namespace: uberon def: "A serous membrane that is part of a urinary bladder [Automatically generated definition]." [OBOL:automatic] comment: TODO - check serosa/peritoneum synonym: "bladder serosa" EXACT [] synonym: "bladder serous membrane" EXACT [OBOL:automatic] synonym: "serosa of bladder" EXACT [] synonym: "serous coat of bladder" EXACT [] synonym: "serous coat of urinary bladder" EXACT [] synonym: "serous membrane of bladder" EXACT [OBOL:automatic] synonym: "serous membrane of urinary bladder" EXACT [OBOL:automatic] synonym: "tunica serosa (vesica urinaria)" EXACT LATIN [FMA:15932, FMA:TA] synonym: "tunica serosa vesicae" EXACT LATIN [FMA:15932, FMA:TA] synonym: "urinary bladder serosa" EXACT [] synonym: "urinary bladder serous membrane" EXACT [OBOL:automatic] synonym: "visceral peritoneum of urinary bladder" EXACT [] xref: EMAPA:28661 xref: FMA:15932 xref: MA:0001696 xref: SCTID:5868002 is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001256 ! wall of urinary bladder intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0001261 name: lamina propria of urinary bladder namespace: uberon def: "A lamina propria that is part of a urinary bladder [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bladder lamina propria" EXACT [OBOL:automatic] synonym: "bladder lamina propria mucosa" EXACT [OBOL:automatic] synonym: "bladder lamina propria mucosae" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of bladder" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of urinary bladder" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of bladder" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of urinary bladder" EXACT [OBOL:automatic] synonym: "lamina propria of bladder" EXACT [OBOL:automatic] synonym: "urinary bladder lamina propria" EXACT [] synonym: "urinary bladder lamina propria mucosa" EXACT [OBOL:automatic] synonym: "urinary bladder lamina propria mucosae" EXACT [OBOL:automatic] xref: EMAPA:30088 xref: FMA:15935 xref: MA:0001695 xref: UMLS:C1706967 xref: ncithesaurus:Bladder_Lamina_Propria is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001256 ! wall of urinary bladder relationship: part_of UBERON:0001259 ! mucosa of urinary bladder intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0001262 name: wall of intestine namespace: uberon def: "An anatomical wall that is part of a intestine [Automatically generated definition]." [OBOL:automatic] comment: Editors note: we place two MA classes here due to the official ncit2ma mapping to intestinal wall tissue; not clear how bowel and intestine are different synonym: "anatomical wall of bowel" EXACT [OBOL:automatic] synonym: "anatomical wall of intestine" EXACT [OBOL:automatic] synonym: "bowel anatomical wall" EXACT [OBOL:automatic] synonym: "bowel wall" EXACT [MA:0001525, OBOL:automatic] synonym: "intestinal wall" EXACT [] synonym: "intestine anatomical wall" EXACT [OBOL:automatic] synonym: "intestine wall" EXACT [] synonym: "wall of bowel" EXACT [OBOL:automatic] xref: BTO:0000647 xref: FMA:15949 xref: MA:0001525 xref: MA:0002693 xref: UMLS:C1708548 xref: ncithesaurus:Intestinal_Wall_Tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000160 ! intestine [Term] id: UBERON:0001263 name: pancreatic acinus namespace: uberon def: "the secretory units of the exocrine pancreas, where fluid containing digestive enzymes is produced; consists of a group of secretory cells surrounding a luminal space that connects to the pancreatic duct." [MP:0009145] comment: This class was created automatically from a combination of ontologies synonym: "acinus pancreaticus" EXACT LATIN [FMA:16011] synonym: "pancreas acinus" EXACT [] synonym: "pancreatic acinar" RELATED [TEMP:MP] synonym: "pancreatic acini" RELATED PLURAL [] xref: FMA:16011 xref: MA:0002417 xref: SCTID:247604006 xref: UMLS:C0227578 xref: ncithesaurus:Pancreatic_Acinus is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0007324 ! pancreatic lobe intersection_of: UBERON:0009842 ! acinus intersection_of: part_of UBERON:0000017 ! exocrine pancreas [Term] id: UBERON:0001264 name: pancreas namespace: uberon def: "An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating enzymes[GO]. The mature pancreas of higher vertebrates and mammals comprises two major functional units: the exocrine pancreas, which is responsible for the production of digestive enzymes to be secreted into the gut lumen, and the endocrine pancreas, which has its role in the synthesis of several hormones with key regulatory functions in food uptake and metabolism. The exocrine portion constitutes the majority of the mass of the pancreas, and contains only two different cell types, the secretory acinar cells and the ductular cells. The endocrine portion, which comprises only 1b2% of the total mass, contains five different cell types, which are organized into mixed functional assemblies referred to as the islets of Langerhans[PMID]." [GO:0031016, PMID:16417468, Wikipedia:Pancreas] comment: taxon notes: As a secretory organ serving exocrine and endocrine functions, the pancreas is specific to the vertebrates[PMID:16417468] Hagfishes and lampreys are unique in the complete separation of their endocrine pancreas (islet or- gan) and their exocrine pancreas (50). The endocrine and exocrine pancreas are coassociated in crown gnathostomes (50). In Branchiostoma and Ciona, there is no diverticulum as there is in hagfishes, lampreys, and gnathostomes, only dispersed insulin-secreting cells in the walls of the gastrointestinal tract (51, 52) [PMID:20959416]. The zebrafish does not have a discrete pancreas. Exocrine pancreatic tissue can be found scattered along the intestinal tract (Figures 16 and 17 ). The acinar structure of the exocrine pancreas is very similar to that of mammals and comprises cells with a very dark, basophilic cytoplasm subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0010112 xref: BTO:0000988 xref: EFO:0000855 xref: EHDAA2:0001367 xref: EHDAA:6893 xref: EMAPA:17503 xref: EMAPA:18816 xref: EV:0100092 xref: FMA:7198 xref: GAID:334 xref: MA:0000120 xref: MAT:0000075 xref: MESH:A03.734 xref: MIAA:0000075 xref: OpenCyc:Mx4rvVimZZwpEbGdrcN5Y29ycA xref: SCTID:181277001 xref: TAO:0000140 xref: UMLS:C0030274 xref: VHOG:0000050 xref: XAO:0000136 xref: ZFA:0000140 xref: galen:Pancreas xref: http://upload.wikimedia.org/wikipedia/commons/3/3f/Illu_pancrease.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3f/Illu_pancrease.svg/200px-Illu_pancrease.svg.png xref: ncithesaurus:Pancreas is_a: UBERON:0002075 ! viscus relationship: has_developmental_contribution_from UBERON:0003922 ! pancreatic bud relationship: has_developmental_contribution_from UBERON:0003923 ! dorsal pancreatic bud relationship: has_developmental_contribution_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0000949 ! endocrine system disjoint_from: UBERON:0010264 ! hepatopancreas property_value: external_definition "Organ which secretes a fluid containing enzymes that aid in the digestion of food.[AAO]" xsd:string property_value: has_relational_adjective "pancreatic" xsd:string property_value: homology_notes "In the hagfish and lampreys (our most primitive vertebrate species of today), the first sign of 'a new organ' is found as collections of endocrine cells around the area of the bile duct connection with the duodenum. These endocrine organs are composed of 99% beta cells and 1% somatostatin-producing delta cells. Compared to the more primitive protochordates (e.g. amphioxus), this represents a stage where all previously scattered insulin-producing cells of the intestinal tissue have now quantitatively migrated to found a new organ involved in sensing blood glucose rather than gut glucose. Only later in evolution, the beta cells are joined by exocrine tissue and alpha cells (exemplified by the rat-, rabbit- and elephant-fishes). Finally, from sharks and onwards in evolution, we have the islet PP-cell entering to complete the pancreas.[well established][VHOG]" xsd:string [Term] id: UBERON:0001265 name: trabecula of spleen namespace: uberon def: "A trabecula that is part of a spleen." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "spleen trabeculum" EXACT [] synonym: "splenic trabecula" EXACT [] xref: FMA:16027 xref: MA:0000758 xref: SCTID:61987002 xref: UMLS:C0229688 xref: ncithesaurus:Splenic_Trabecula is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:1000024 ! parenchyma of spleen intersection_of: UBERON:0000440 ! trabecula intersection_of: part_of UBERON:0002106 ! spleen [Term] id: UBERON:0001266 name: splenic cord namespace: uberon def: "A structure found in the red pulp of the spleen between the sinusoids, consisting of fibrils and connective tissue cells with a large population of monocytes and macrophages. These cords contain half of the human body's monocytes as a reserve so that after tissue injury these monocytes can move in and aid locally sourced monocytes in wound healing. Erythrocytes pass through the cords of Billroth before entering the sinusoids. The passage into the sinusoids may be seen as a bottleneck, where erythrocytes need to be flexible in order to pass through. In disorders of erythrocyte shape and/or flexibility, such as hereditary spherocytosis, erythrocytes fail to pass through and get phagocytosed, causing extravascular hemolysis." [Wikipedia:Cords_of_Billroth] synonym: "cord of Billroth" EXACT [Wikipedia:Cords_of_Billroth] synonym: "cord of Bilroth" EXACT [FMA:16031] xref: FMA:16031 xref: MA:0002671 xref: UMLS:C0735011 xref: ncithesaurus:Splenic_Cord is_a: UBERON:0000064 ! organ part is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0001250 ! red pulp of spleen [Term] id: UBERON:0001267 name: femoral nerve namespace: uberon def: "The femoral nerve, the largest branch of the lumbar plexus, arises from the ventral divisions of the second, third, and fourth lumbar nerves. It descends through the fibers of the Psoas major, emerging from the muscle at the lower part of its lateral border, and passes down between it and the Iliacus, behind the iliac fascia; it then runs beneath the inguinal ligament, into the thigh, and splits into an anterior and a posterior division. Under the inguinal ligament, it is separated from the femoral artery by a portion of the Psoas major. [WP,unvetted]." [Wikipedia:Femoral_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior crural nerve" EXACT [] synonym: "nervus femoralis" RELATED LATIN [Wikipedia:Femoral_nerve] xref: EHDAA2:0000507 xref: EHDAA:5655 xref: FMA:16486 xref: GAID:850 xref: MA:0001167 xref: MESH:A08.800.800.720.450.250 xref: OpenCyc:Mx4rwGC03JwpEbGdrcN5Y29ycA xref: SCTID:181051004 xref: UMLS:C0015808 xref: VHOG:0001411 xref: http://upload.wikimedia.org/wikipedia/commons/7/7c/Gray823.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7c/Gray823.png/200px-Gray823.png xref: ncithesaurus:Femoral_Nerve is_a: UBERON:0002003 ! peripheral nerve is_a: UBERON:0003431 ! leg nerve relationship: part_of UBERON:0000978 ! leg [Term] id: UBERON:0001268 name: peritoneal fluid namespace: uberon def: "Transudate contained in the peritoneal cavity.[FMA]" [FMA:FMA, Wikipedia:Peritoneal_fluid] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001031 xref: FMA:16515 xref: MA:0002531 xref: ncithesaurus:Peritoneal_Fluid is_a: UBERON:0007794 ! serous fluid intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: located_in UBERON:0001179 ! peritoneal cavity [Term] id: UBERON:0001269 name: acetabular part of hip bone namespace: uberon def: "The acetabulum is a concave surface of the pelvis. The head of the femur meets with the pelvis at the acetabulum, forming the hip joint. There are three bones of the os coxae (hip bone) that come together to form the acetabulum. Contributing a little more than two-fifths of the structure is the ischium, which provides lower and side boundaries to the acetabulum. The ilium forms the upper boundary, providing a little less than two-fifths of the structure of the acetabulum. The rest is formed by the pubis, near the midline. It is bounded by a prominent uneven rim, which is thick and strong above, and serves for the attachment of the acetabular labrum, which reduces its opening, and deepens the surface for formation of the hip joint. At the lower part of the acetabulum is the acetabular notch, which is continuous with a circular depression, the acetabular fossa, at the bottom of the cavity of the acetabulum. The rest of the acetabulum is formed by a curved, crescent-moon shaped surface, the lunate surface, where the joint is made with the head of the femur. Its counterpart in the pectoral girdle is the glenoid fossa.[WP,unvetted]." [Wikipedia:Acetabulum] comment: In reptiles and in birds, the acetabula are deep sockets.[WP] Note that whilst WP defines this as a surface, MA treats it as a bone. There are other FMA classes that may be better suited to representing the surface. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "acetabular region" EXACT [VHOG:0000974] synonym: "acetabulum" EXACT [MA:0001335] xref: AAO:0000770 xref: EHDAA:10661 xref: FMA:16579 xref: GAID:206 xref: MA:0001335 xref: MESH:A02.835.232.611.108 xref: OpenCyc:Mx4rwJlP9ZwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001427 xref: SCTID:182027007 xref: UMLS:C0000962 xref: VHOG:0000974 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Illu_pelvic_girdle.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Illu_pelvic_girdle.jpg/200px-Illu_pelvic_girdle.jpg xref: ncithesaurus:Acetabulum is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0001486 ! hip joint property_value: external_definition "Cavity for the articulation of the proximal bone of the hind limb.[AAO]" xsd:string property_value: homology_notes "During the transformation from the osteolepiform fins to tetrapod limbs, the appendages and girdles underwent a number of radical changes. The pelvic girdle became a weight-bearing structure by evolution of an ischium, a full mesio-ventral contact between the two sides of the girdle, an ilium, and a contact between the vertebral column and the girdle through a sacral rib. Fore- and hindlimbs shifted laterally by reorientation of the glenoid and the acetabulum.[well established][VHOG]" xsd:string [Term] id: UBERON:0001270 name: bony pelvis namespace: uberon def: "In humans, the ring of bone formed by the sacrum and the first few coccygeal vertebrae as the roof, the pubis and ischia as the floor and the ilia and the acetabular part of the ischia as the walls." [http://medical-dictionary.thefreedictionary.com/bony+pelvis] comment: in FMA, this is part of the axial skeletal system. todo: add taxon-specific part of relations connecting sub-structures to this. xref: FMA:16580 xref: SCTID:46633002 is_a: UBERON:0000075 ! subdivision of skeletal system disjoint_from: UBERON:0002355 ! pelvis [Term] id: UBERON:0001271 name: pelvic girdle region namespace: uberon def: "Subdivision of lower limb or fin which links the limb/fin to the body[FMA,modified]. Examples: There are only two instances, right and left pelvic girdle regions." [FMA:16581, http://onlinelibrary.wiley.com/doi/10.1002/dvdy.22617/full, https://groups.google.com/d/topic/obo-anatomy/h4R4xKmINrw/discussion] comment: Note that this class describes the subdivision of the limb/fin, NOT the skeleton within. See also: skeleton of pectoral girdle (UBERON:0007831). See also comments on obo-anatomy mail list subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "girdle - pelvic" RELATED [] synonym: "pelvic girdle" RELATED INCONSISTENT [] xref: FMA:16581 xref: SCTID:360010001 xref: UMLS:C0684083 xref: VSAO:0000304 xref: ncithesaurus:Pelvic_Girdle relationship: in_lateral_side_of UBERON:0002091 ! appendicular skeleton intersection_of: UBERON:0007823 ! appendage girdle region intersection_of: part_of UBERON:0010709 ! pelvic complex disjoint_from: UBERON:0007832 ! pelvic girdle skeleton property_value: external_definition "Subdivision of lower limb or fin which links the limb/fin to the body[FMA,modified]. There is only one instance of the pelvic girdle region per organism.[VSAO]" xsd:string [Term] id: UBERON:0001272 name: innominate bone namespace: uberon def: "A fused bone consisting of the ilium, ischium and and pubis. Together with the sacrum and coccyx, it comprises the pelvis. [WP,modified]." [UBERON:cjm, Wikipedia:Hip_bone] comment: AO notes: in FMA this is a paired structure. NCITA has 'pelvic bone' but this is the *superclass* of ilium/ischium/pubis. The MA class 'pelvis bone' is actually a superclass of 'pelvic girdle bone' and caudal/sacral vertebra. Taxon notes: The hip/pelvic bone/basipterygium first appears in fishes, where it consists of a simple, usually triangular bone, to which the pelvic fin articulates. The hip bones on each side usually connect with each other at the forward end, and are even solidly fused in lungfishes and sharks, but they never attach to the vertebral column[WP] Editor notes: currently this class is restricted to exclude the teleost bone as the definition mentions ilium, ischium and pubis. In future we may add a grouping class for girdle bones that supports the appendage subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "basipterygium" RELATED [] synonym: "bone of pelvic girdle" BROAD [FMA:16585] synonym: "coxal bone" EXACT [FMA:16585] synonym: "hip bone" EXACT [FMA:16585] synonym: "innominate" BROAD [] synonym: "innominate bone" EXACT [FMA:16585] synonym: "os coxae" EXACT LATIN [FMA:16585, FMA:TA] synonym: "os innominatum" RELATED LATIN [Wikipedia:Hip_bone] synonym: "pelvic bone" EXACT [FMA:16585] xref: FMA:16585 xref: GAID:205 xref: MESH:A02.835.232.611 xref: SCTID:361776002 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray341.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray341.png/200px-Gray341.png is_a: UBERON:0007830 ! pelvic girdle bone/zone is_a: UBERON:0010428 ! flat bone relationship: in_lateral_side_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0001464 ! hip relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: UBERON:0001273 name: ilium namespace: uberon def: "Paired endochondral bone that is the dorsal-most of the pelvic bones, offering attachment areas for gluteal muscles on its main surface [PHENOSCAPE:ad]." [PHENOSCAPE:ad, Wikipedia:Ilium_(bone)] comment: Note that this is_a hip bone in MA. Taxon notes: All reptiles have an ilium except snakes, although some snake species have a tiny bone which is considered to be an ilium[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ilium bone" EXACT [] synonym: "illium" RELATED [] synonym: "os iliacum" EXACT [] synonym: "os ilii" EXACT [] xref: AAO:0000772 xref: EFO:0003049 xref: FMA:16589 xref: GAID:207 xref: MA:0001336 xref: MESH:A02.835.232.611.434 xref: OpenCyc:Mx4rvhwFJ5wpEbGdrcN5Y29ycA xref: SCTID:182029005 xref: UMLS:C0020889 xref: galen:Ilium xref: ncithesaurus:Ilium is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0007830 ! pelvic girdle bone/zone is_a: UBERON:0008202 ! bone of hip region relationship: develops_from UBERON:0010714 ! iliac cartilage condensation relationship: in_lateral_side_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0001272 ! innominate bone relationship: part_of UBERON:0007832 ! pelvic girdle skeleton property_value: dubious_for_taxon NCBITaxon:8570 property_value: never_in_taxon NCBITaxon:32443 property_value: external_definition "Paired, rodlike endochondral bones that constitute the anterior pelvic girdle.[AAO]" xsd:string property_value: has_relational_adjective "iliac" xsd:string [Term] id: UBERON:0001274 name: ischium namespace: uberon def: "Endochondral bone that is paired, forming the posterior part of the pelvis, articulating with the pubis and ilium." [VSAO:0005006, VSAO:NI, Wikipedia:Ischium] comment: Note that this is_a hip bone in MA; in FMA it is a zone of bone organ. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "os ischii" RELATED LATIN [AAO:0000860, Wikipedia:Ischium] xref: AAO:0000860 xref: FMA:16592 xref: GAID:208 xref: MA:0001337 xref: MESH:A02.835.232.611.548 xref: OpenCyc:Mx4rvlzMKpwpEbGdrcN5Y29ycA xref: SCTID:182025004 xref: UMLS:C0022122 xref: VSAO:0005006 xref: galen:Ischium xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Illu_pelvic_girdle.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Illu_pelvic_girdle.jpg/200px-Illu_pelvic_girdle.jpg xref: ncithesaurus:Ischium is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0007830 ! pelvic girdle bone/zone is_a: UBERON:0008202 ! bone of hip region relationship: develops_from UBERON:0006254 ! ischial cartilage condensation relationship: in_lateral_side_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0001272 ! innominate bone relationship: part_of UBERON:0007832 ! pelvic girdle skeleton property_value: external_definition "Paired bones of endochondral origin that constitute the posterior elements of the pelvic girdle. They are synostotically fused to each other and form the posterior part of the acetabulum.[AAO]" xsd:string property_value: has_relational_adjective "ischial" xsd:string [Term] id: UBERON:0001275 name: pubis namespace: uberon def: "A paired endochondral bone making up the anteroventral region of the tripartite pelvic girdle forming part of the ventral edge of the acetabulum. The origin site of many proximal hindlimb muscles. [PHENOSCAPE:ad]." [PHENOSCAPE:ad, Wikipedia:Pubis_(bone)] comment: AO notes: isa bone zone in FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "os pubis" RELATED [Wikipedia:Pubis_%28bone%29] synonym: "pubic bone" RELATED [Wikipedia:Pubis_%28bone%29] synonym: "pubis bone" RELATED [Wikipedia:Pubis_%28bone%29] xref: AAO:0000861 xref: EMAPA:18728 xref: FMA:16595 xref: MA:0001338 xref: MESH:A02.835.232.611.781 xref: SCTID:182035005 xref: UMLS:C0034014 xref: galen:Pubis xref: ncithesaurus:Pubic_Bone is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0007830 ! pelvic girdle bone/zone is_a: UBERON:0008202 ! bone of hip region relationship: develops_from UBERON:0010718 ! pubic cartilage condensation relationship: in_lateral_side_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0001272 ! innominate bone relationship: part_of UBERON:0007832 ! pelvic girdle skeleton property_value: external_definition "Paired, cartilaginous (ocassionally calcified) elements that form the ventral portion of the pelvic girdle. Each is located ventral to the acetabulum between the anteroventral margin of the ischium and the posteroventral margin of the illium. When the element calcifies or ossifies, its articulation with adjacent elements is difficult to distinguish. Both pubes are synchondrotically fused to one another.[AAO]" xsd:string [Term] id: UBERON:0001276 name: epithelium of stomach namespace: uberon def: "the epithelial layer of the stomach ." [MP:0000471] comment: in FMA this is classified as simple columnar, MA divides this into squamous and glandular synonym: "epithelial tissue of stomach" EXACT [OBOL:automatic] synonym: "epithelial tissue of ventriculus" EXACT [OBOL:automatic] synonym: "epithelium of ventriculus" EXACT [OBOL:automatic] synonym: "gastric epithelium" RELATED [BTO:0000500] synonym: "stomach epithelial tissue" EXACT [OBOL:automatic] synonym: "stomach epithelium" EXACT [OBOL:automatic] synonym: "ventriculus epithelial tissue" EXACT [OBOL:automatic] synonym: "ventriculus epithelium" EXACT [OBOL:automatic] xref: BTO:0000500 xref: EHDAA2:0001918 xref: FMA:17091 xref: MA:0001610 xref: SCTID:64977002 xref: VHOG:0001433 is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0004808 ! gastrointestinal system epithelium relationship: part_of UBERON:0001199 ! mucosa of stomach intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0001277 name: intestinal epithelium namespace: uberon def: "The innermost membrane of the four coats of the intestinal wall, the other three being the submucosa, muscular layers, and serosa. (Berk et al., Gastroenterology, 4th ed, v.3, p1479)" [MESH:A03.492.411.369, Wikipedia:Intestinal_epithelium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bowel epithelial tissue" EXACT [OBOL:automatic] synonym: "bowel epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of bowel" EXACT [OBOL:automatic] synonym: "epithelial tissue of intestine" EXACT [OBOL:automatic] synonym: "epithelium of bowel" EXACT [OBOL:automatic] synonym: "epithelium of intestine" EXACT [OBOL:automatic] synonym: "intestine epithelial tissue" EXACT [OBOL:automatic] synonym: "intestine epithelium" RELATED [] synonym: "villous epithelium" NARROW [ZFA:0005124] xref: BTO:0000781 xref: FMA:17229 xref: MA:0001536 xref: SCTID:266135004 xref: TAO:0005124 xref: UMLS:C0226890 xref: ZFA:0005124 xref: ncithesaurus:Intestinal_Epithelium is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0004808 ! gastrointestinal system epithelium relationship: part_of UBERON:0001242 ! intestinal mucosa intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000160 ! intestine property_value: external_definition "Simple columnar epithelium that lines the intestine, sometimes pseudostratified, with absorptive brush-border cells and mucous goblet cells clearly visible. Crosnier et al. 2005[TAO]" xsd:string [Term] id: UBERON:0001278 name: epithelium of large intestine namespace: uberon def: "An epithelium that is part of a large intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "epithelial tissue of large intestine" EXACT [OBOL:automatic] synonym: "large intestinal epithelium" EXACT [] synonym: "large intestine epithelial tissue" EXACT [OBOL:automatic] synonym: "large intestine epithelium" EXACT [] xref: EMAPA:19257 xref: EMAPA:19262 xref: FMA:17301 xref: MA:0001545 is_a: UBERON:0001277 ! intestinal epithelium relationship: part_of UBERON:0001207 ! mucosa of large intestine intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0001279 name: portal triad namespace: uberon def: "a component of the hepatic lobule, that consists of: hepatic artery, hepatic portal vein, bile duct, lymphatic vessels, and the branch of the vagus nerve." [Wikipedia:Portal_triad] comment: The misnomer \"portal triad\" traditionally has included only the first three structures, and was named before lymphatic vessels were discovered in the structure. It can refer both to the largest branch of each of these vessels running inside the hepatoduodenal ligament, and to the smaller branches of these vessels inside the liver. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "trias hepatica" EXACT LATIN [Wikipedia:Portal_triad] xref: FMA:17523 xref: MA:0002499 xref: SCTID:362192000 xref: UMLS:C0227514 xref: http://upload.wikimedia.org/wikipedia/commons/6/62/Portal_triad.JPG xref: ncithesaurus:Portal_Triad is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001172 ! hepatic acinus [Term] id: UBERON:0001280 name: liver parenchyma namespace: uberon alt_id: UBERON:0003223 def: "the functional units of the liver including the lobules." [MP:0008986] comment: This class was created automatically from a combination of ontologies synonym: "hepatic parenchyma" EXACT [FMA:17540] synonym: "hepatic parenchyme" RELATED [VHOG:0000539] synonym: "liver parenchyme" EXACT [XAO:0000454] synonym: "parenchyma of liver" EXACT [FMA:17540] xref: AAO:0010405 xref: EHDAA2:0001004 xref: EHDAA:2201 xref: EMAPA:17203 xref: FMA:17540 xref: MA:0000366 xref: SCTID:363535004 xref: VHOG:0000539 xref: XAO:0000454 is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0005171 ! hepatic duct relationship: develops_from UBERON:0008835 ! hepatic diverticulum intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002107 ! liver property_value: homology_notes "the (liver) tubular structure (dual layered parenchyma) appears to be conserved among all embryonic vertebrates (...) it is not unlikely that all vertebrate livers share the same fundamental functional unit.[well established][VHOG]" xsd:string [Term] id: UBERON:0001281 name: hepatic sinusoid namespace: uberon alt_id: UBERON:0003275 def: "Wide thin-walled blood vessels in the liver. In mammals they have neither veinous or arterial markers." [Wikipedia:Hepatic_sinusoid, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hepatic sinusoids" RELATED [] synonym: "liver sinusoid" EXACT [] synonym: "liver sinusoidal blood vessel" EXACT [OBOL:automatic] synonym: "sinusoid of liver" EXACT [OBOL:automatic] synonym: "sinusoidal blood vessel of liver" EXACT [OBOL:automatic] synonym: "vas capillare sinusoideum" EXACT [] xref: EHDAA2:0000999 xref: EMAPA:17365 xref: FMA:17543 xref: MA:0000367 xref: SCTID:67435004 xref: TAO:0005091 xref: UMLS:C0227523 xref: VHOG:0000708 xref: ZFA:0005091 xref: ncithesaurus:Hepatic_Sinusoid is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003497 ! abdomen blood vessel is_a: UBERON:0003909 ! sinusoid is_a: UBERON:0005911 ! endo-epithelium relationship: develops_in UBERON:0001113 ! lobe of liver relationship: part_of UBERON:0004647 ! liver lobule relationship: part_of UBERON:0006877 ! vasculature of liver intersection_of: UBERON:0003909 ! sinusoid intersection_of: part_of UBERON:0002107 ! liver property_value: homology_notes " (...) the amphibian liver has characteristics in common with both fish and terrestrial vertebrates. (...) The histological structure of the liver is similar to that in other vertebrates, with hepatocytes arranged in clusters and cords separated by a meshwork of sinusoids and the presence of the traditional triad of portal venule, hepatic arteriole, and bile duct.[well established][VHOG]" xsd:string [Term] id: UBERON:0001282 name: intralobular bile duct namespace: uberon def: "The Canals of Hering, or intrahepatic bile ductules, are part of the outflow system of exocrine bile product from the liver." [Wikipedia:Canals_of_Hering] comment: Editor notes: Note that this is part of the intrahepatic bile duct in MA, as this class is more alike the tree in FMA. Note also that SCT has canal of Hering and Entire IBduct as the only sibling terms under 'Structure of intralobular bile duct' (i.e. the CoH is the only part of the entire IBduct) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "canal of Hering" RELATED [] synonym: "canal of Herring" EXACT [FMA:17545] synonym: "canals of Hering" RELATED PLURAL [Wikipedia:Canals_of_Hering] synonym: "cholangiole" EXACT [FMA:17545] synonym: "duct of Herring" RELATED [Wikipedia:Canals_of_Hering] synonym: "intrahepatic bile ductule" RELATED [Wikipedia:Canals_of_Hering] xref: FMA:17545 xref: MA:0002669 xref: SCTID:227002 xref: SCTID:269922006 xref: UMLS:C0227517 xref: ncithesaurus:Canal_of_Hering is_a: UBERON:0003704 ! intrahepatic bile duct relationship: part_of UBERON:0001172 ! hepatic acinus relationship: part_of UBERON:0004647 ! liver lobule [Term] id: UBERON:0001283 name: bile canaliculus namespace: uberon def: "Fine tubular canals running between liver cells, throughout the parenchyma, usually occurring singly between each adjacent pair of cells, and forming a three-dimensional network of polyhedral meshes, with a single cell in each mesh[BTO]. A thin tube that collects bile secreted by hepatocytes. The bile canaliculi merge and form bile ductules, which eventually become common hepatic duct. Hepatocytes are polyhedral in shape, therefore having no set shape or design. They have surfaces facing the sinusoids, (called sinusoidal faces) and surfaces which contact other hepatocytes, (called lateral faces). Bile canaliculi are formed by grooves on some of the lateral faces of these hepatocytes. Microvilli are present in the canaliculi but are sparse. [WP,unvetted]." [BTO:0002841, Wikipedia:Bile_canaliculus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bile canaliculi" RELATED PLURAL [Wikipedia:Bile_canaliculus] synonym: "bile capillary" RELATED [BTO:0002841] synonym: "biliary canaliculus" RELATED [BTO:0002841] xref: BTO:0002841 xref: FMA:17547 xref: MA:0002495 xref: MESH:A03.159.183.158.125 xref: SCTID:270023005 xref: TAO:0005163 xref: UMLS:C0005393 xref: ZFA:0005163 xref: http://upload.wikimedia.org/wikipedia/commons/d/d9/Gray1094.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d9/Gray1094.png/200px-Gray1094.png xref: ncithesaurus:Bile_Canaliculus is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001172 ! hepatic acinus relationship: part_of UBERON:0002394 ! bile duct relationship: part_of UBERON:0004647 ! liver lobule relationship: part_of UBERON:0005452 ! hepatic lamina [Term] id: UBERON:0001284 name: renal column namespace: uberon def: "The renal column (or Bertin column, or column of Bertin) is a medullary extension of the renal cortex in between the renal pyramids. It allows the cortex to be better anchored. Each column consists of lines of blood vessels and urinary tubes and a fibrous material. [WP,unvetted]." [Wikipedia:Renal_column] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "columnae renales" RELATED LATIN [Wikipedia:Renal_column] synonym: "kidney column" EXACT [MA:0001651] synonym: "renal column of bertini" EXACT [] xref: FMA:17633 xref: MA:0001651 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Illu_kidney2.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Illu_kidney2.jpg/200px-Illu_kidney2.jpg is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002189 ! outer cortex of kidney [Term] id: UBERON:0001285 name: nephron namespace: uberon def: "The basic functional unit of the kidney. its chief function is to regulate the concentration of water and soluble substances like sodium salts by filtering the blood, reabsorbing what is needed and excreting the rest as urine. A nephron eliminates wastes from the body, regulates blood volume and blood pressure, controls levels of electrolytes and metabolites, and regulates blood pH. Its functions are vital to life and are regulated by the endocrine system by hormones such as antidiuretic hormone, aldosterone, and parathyroid hormone.[WP]" [PMID:9268568, Wikipedia:Nephron] comment: Editor note: kidney terms require review for cross-vertebrate compatibility and developmental relationships. Taxon notes: In the avian kidney, three types of nephron are identified: mammalian-type nephrons with long and short loops of Henle, and reptilian type nephrons (Gambaryan, 1992)[GO Kidney] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mature nephron" NARROW [EMAPA:28491] synonym: "nephroneum" RELATED LATIN [Wikipedia:Nephron] synonym: "tubulus renalis" RELATED LATIN [Wikipedia:Nephron] xref: BTO:0000924 xref: EMAPA:28491 xref: EV:0100384 xref: FMA:17640 xref: GAID:428 xref: MA:0000375 xref: MESH:A05.810.453.736 xref: SCTID:361337001 xref: TAO:0002153 xref: UMLS:C0027713 xref: ZFA:0005282 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Gray1128.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray1128.png/200px-Gray1128.png xref: ncithesaurus:Nephron is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0004208 ! nephrogenic mesenchyme relationship: part_of UBERON:0007684 ! uriniferous tubule property_value: external_definition "Functional unit of the kidney that filters waste.[TAO]" xsd:string [Term] id: UBERON:0001286 name: Bowman's space namespace: uberon def: "a narrow chalice-shaped cavity between the glomerular and capsular epithelium of the glomerular capsule of the kidney[TFD]. Between the visceral and parietal layers, into which the filtrate enters after passing through the podocytes' filtration slits[WP]. luminal region between the glomerular capsule visceral and parietal layers, into which filtrate enters after passing through the filtration barrier from the glomerular capillaries[MP]" [MP:0011499, Wikipedia:Bowman's_space, http://medical-dictionary.thefreedictionary.com/bowman's+space] comment: TODO - fix ZFA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bowman's space" EXACT [] synonym: "bowmanb%s space" RELATED [TAO:0005312] synonym: "capsular space" EXACT [http://medical-dictionary.thefreedictionary.com/bowman's+space] synonym: "glomerular capsule space" EXACT [MP:0011499] synonym: "glomerular urinary space" EXACT [MP:0011499] synonym: "inter-glomerular space" EXACT [ZFA:0005283, ZFA:0005312] synonym: "pronephric capsular space" EXACT [ZFA:0005312] synonym: "renal capsular space" EXACT [ZFA:0005283] synonym: "urinary space" EXACT [] synonym: "urinary space of renal corpuscle" EXACT [EMAPA:28263] xref: EMAPA:27985 xref: EMAPA:28263 xref: FMA:17676 xref: MA:0001664 xref: SCTID:244284006 xref: TAO:0005283 xref: TAO:0005312 xref: UMLS:C0227643 xref: ZFA:0005283 xref: ZFA:0005312 xref: ncithesaurus:Urinary_Space is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001230 ! glomerular capsule property_value: external_definition "Space between the renal glomerulus and the glomerular capsule. Renal filtrate collects here then passes into the renal tubule.[TAO]" xsd:string [Term] id: UBERON:0001287 name: proximal convoluted tubule namespace: uberon def: "The proximal tubule is the portion of the duct system of the nephron of the kidney which leads from Bowman's capsule to the loop of Henle[WP]" [Wikipedia:Proximal_convoluted_tubule] comment: TODO - cleanly define difference between proximal tubule and proximal convoluted tubule. Make definition applicable across species. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "1st convoluted tubule" RELATED [] synonym: "PCT" RELATED [] synonym: "first convoluted tubule" RELATED [] synonym: "proximal convoluted renal tubule" EXACT [] synonym: "tubulus contortus proximalis" EXACT LATIN [Wikipedia:Proximal_convoluted_tubule] synonym: "tubulus convolutus proximalis" RELATED LATIN [] xref: EMAPA:28287 xref: EV:0100388 xref: FMA:17693 xref: MA:0001669 xref: SCTID:362220008 xref: TAO:0005290 xref: UMLS:C1514580 xref: ZFA:0005290 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Gray1128.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray1128.png/200px-Gray1128.png xref: ncithesaurus:Proximal_Convoluted_Tube is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0004134 ! proximal tubule is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0006534 ! renal convoluted tubule is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0003220 ! metanephric mesenchyme relationship: part_of UBERON:0001225 ! cortex of kidney property_value: external_definition "Renal tubule that connects to the renal corpuscle.[TAO]" xsd:string [Term] id: UBERON:0001288 name: loop of Henle namespace: uberon def: "Portion of the nephron that leads from the proximal convoluted tubule to the distal convoluted tubule. The loop has a hairpin bend in the renal medulla. The main function of this structure is to create a concentration gradient in the medulla of the kidney. By means of a countercurrent multiplier system, which utilizes sodium pumps, it creates an area of high sodium concentration deep in the medulla, near the collecting duct. Water present in the filtrate in the collecting duct flows through aquaporin channels out of the collecting duct, moving passively down its concentration gradient. This process reabsorbs water and creates a concentrated urine for excretion[WP]." [Wikipedia:Loop_of_Henle] comment: Note that the definitions of some kidney parts refer to Henle's loop, even in species where this may not be present. Requires review. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Henle loop" EXACT [] synonym: "ansa nephroni" EXACT [Wikipedia:Loop_of_Henle] synonym: "henle's loop" EXACT [] xref: BTO:0004608 xref: EMAPA:29665 xref: EMAPA:29679 xref: EV:0100390 xref: FMA:17698 xref: GAID:437 xref: MA:0001675 xref: MESH:A05.810.453.736.560.610 xref: SCTID:361335009 xref: UMLS:C0023986 xref: VHOG:0001270 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Gray1128.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray1128.png/200px-Gray1128.png xref: ncithesaurus:Loop_of_Henle intersection_of: UBERON:0007685 ! region of nephron tubule intersection_of: continuous_with UBERON:0001287 ! proximal convoluted tubule intersection_of: continuous_with UBERON:0001292 ! distal convoluted tubule property_value: external_definition "A highly specialized segment of the mammalian kidney tubules, that dips into the medulla. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, p.648, see_Liem_KF][VHOG]" xsd:string [Term] id: UBERON:0001289 name: descending limb of loop of Henle namespace: uberon def: "Portion of the renal tubule constituting the first part of the loop of Henle[WP]." [Wikipedia:Descending_limb_of_loop_of_henle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "descending limb" BROAD [] synonym: "descending limb of Henle's loop" EXACT [] synonym: "loop of Henle descending limb" EXACT [] xref: FMA:17705 xref: MA:0001679 xref: SCTID:245350001 xref: UMLS:C0227657 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray1128.png/200px-Gray1128.png xref: ncithesaurus:Descending_Limb_of_the_Henle_s_Loop is_a: UBERON:0007685 ! region of nephron tubule relationship: part_of UBERON:0001288 ! loop of Henle [Term] id: UBERON:0001290 name: proximal straight tubule namespace: uberon alt_id: UBERON:0005166 def: "part of the descending limb of the renal tubule, extending from the proximal convoluted tubule to the thin tubule[BTO]." [BTO:0000055, Wikipedia:Proximal_straight_tubule] comment: TODO - is S3 exactly coincident with PST? Check also relationship to DL. todo - ensure relationships work across species (loop of Henle) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "S3" EXACT [GO:0072020] synonym: "pars recta" RELATED [] synonym: "pars recta tubuli renalis" RELATED [BTO:0000055] synonym: "proximal tubule segment 3" RELATED [MA:0002614] synonym: "thick descending limb of proximal tubule" EXACT [] synonym: "tubulus rectus proximalis" EXACT [] xref: BTO:0000055 xref: EMAPA:29661 xref: FMA:17716 xref: MA:0002614 xref: TAO:0005291 xref: ZFA:0005291 is_a: UBERON:0006853 ! renal cortex tubule is_a: UBERON:0007685 ! region of nephron tubule is_a: UBERON:0008404 ! proximale tubular epithelium relationship: part_of UBERON:0001289 ! descending limb of loop of Henle relationship: part_of UBERON:0004134 ! proximal tubule relationship: part_of UBERON:0006542 ! outer medulla outer stripe loop of henle property_value: external_definition "Portion of the renal tubule which is just posterior to the proximal convoluted tubule.[TAO]" xsd:string [Term] id: UBERON:0001291 name: thick ascending limb of loop of Henle namespace: uberon def: "a segment of the nephron in the kidney. It can be divided into two parts: that in the renal medulla, and that in the renal cortex[Wikipedia:Thick_ascending_limb_of_loop_of_Henle]." [Wikipedia:Thick_ascending_limb_of_loop_of_Henle] comment: TODO: thick/thin check. Also - does the loop of Henle overlap the distal convoluted tubule? FMA divides DCT into straight and convoluted portions subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ascending thick limb" EXACT [] synonym: "distal straight tubule" EXACT [] synonym: "loop of Henle ascending limb thick segment" EXACT [MA:0001677] synonym: "straight portion of distal convoluted renal tubule" EXACT [] synonym: "straight portion of distal convoluted tubule" EXACT [FMA:17722] synonym: "thick ascending limb" EXACT [] synonym: "thick ascending limb of Henle's loop" EXACT [] synonym: "thick ascending limb of distal tubule" EXACT [FMA:17722] synonym: "tubulus rectus distalis" EXACT LATIN [FMA:17722, Wikipedia:Thick_ascending_limb_of_loop_of_Henle] xref: EMAPA:28396 xref: EMAPA:29671 xref: FMA:17722 xref: MA:0001677 xref: SCTID:244953001 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Gray1128.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray1128.png/200px-Gray1128.png is_a: UBERON:0004135 ! distal tubule is_a: UBERON:0008408 ! distal tubular epithelium relationship: part_of UBERON:0005164 ! ascending limb of loop of Henle [Term] id: UBERON:0001292 name: distal convoluted tubule namespace: uberon def: "a portion of kidney nephron between the loop of Henle and the collecting duct system." [Wikipedia:Distal_convoluted_tubule] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "distal convoluted renal tubule" EXACT [] synonym: "second convoluted tubule" RELATED [] synonym: "tubulus contortus distalis" EXACT LATIN [Wikipedia:Distal_convoluted_tubule] synonym: "tubulus convolutus distalis" RELATED LATIN [] xref: EMAPA:28393 xref: EV:0100389 xref: FMA:17721 xref: MA:0001666 xref: SCTID:361336005 xref: UMLS:C0022676 xref: http://upload.wikimedia.org/wikipedia/commons/2/21/Kidney_nephron.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/21/Kidney_nephron.png/200px-Kidney_nephron.png xref: ncithesaurus:Distal_Convoluted_Tubule is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0004135 ! distal tubule is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0006534 ! renal convoluted tubule is_a: UBERON:0006853 ! renal cortex tubule is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0003220 ! metanephric mesenchyme relationship: part_of UBERON:0001225 ! cortex of kidney relationship: part_of UBERON:0007685 ! region of nephron tubule [Term] id: UBERON:0001293 name: outer medulla of kidney namespace: uberon def: "The renal outer medulla is the region of the kidney that lies between the renal cortex and the renal inner medulla[GO]." [GOC:mtg_kidney_jan10] synonym: "kidney outer medulla" RELATED [BTO:0001746] synonym: "outer renal medulla" EXACT [] synonym: "outer zone of medulla of kidney" EXACT [] synonym: "outer zone of renal medulla" EXACT [] synonym: "renal outer medulla" EXACT [BTO:0001746] synonym: "set of outer region of renal pyramids" RELATED [FMA:17733] synonym: "zona externa (medullaris renalis)" EXACT LATIN [FMA:17733, FMA:TA] xref: BTO:0001746 xref: EMAPA:28310 xref: FMA:17733 xref: MA:0001653 is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0000362 ! renal medulla relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0001294 name: inner medulla of kidney namespace: uberon def: "Innermost region of the mammalian kidney." [GO:0072053] comment: Taxon notes: unique to mammals[GO:0072053] synonym: "inner renal medulla" EXACT [] synonym: "inner zone of medulla of kidney" EXACT [] synonym: "inner zone of renal medulla" EXACT [] synonym: "kidney inner medulla" RELATED [BTO:0001745] synonym: "renal inner medulla" EXACT [BTO:0001745] synonym: "set of inner region of renal pyramids" EXACT [] synonym: "zona interna (medullaris renalis)" EXACT LATIN [FMA:17734, FMA:TA] xref: BTO:0001745 xref: EMAPA:28349 xref: FMA:17734 xref: MA:0001652 is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0000362 ! renal medulla relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0001295 name: endometrium namespace: uberon def: "inner mucous membrane of the mammalian uterus." [Wikipedia:Endometrium] comment: Taxon notes: nimals that have estrous cycles reabsorb the endometrium if conception does not occur during that cycle. Animals that have menstrual cycles shed the endometrium through menstruation instead. AO notes: in FMA this is subdivided into basal and outer. In MA there is a single child term, endometrium epithelium subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tunica mucosa (endometrium)" EXACT [FMA:17742] synonym: "tunica mucosa uteri" EXACT LATIN [Wikipedia:Endometrium] synonym: "uterine endometrium" EXACT [BTO:0001422] xref: BTO:0001422 xref: EFO:0000980 xref: EMAPA:29917 xref: EV:0100115 xref: FMA:17742 xref: GAID:377 xref: MA:0000390 xref: MAT:0000319 xref: MESH:A05.360.319.679.490 xref: MIAA:0000319 xref: SCTID:278867007 xref: UMLS:C0014180 xref: VHOG:0001285 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Illu_cervix.jpg/200px-Illu_cervix.jpg xref: ncithesaurus:Endometrium is_a: UBERON:0004923 ! organ component layer is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000459 ! uterine wall property_value: external_definition "The mucous membrane lining the uterus. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "endometrial" xsd:string property_value: homology_notes "The maternal part of the placenta (of eutherian mammals) is the vascularized and glandular uterine lining, or endometrium.[well established][VHOG]" xsd:string [Term] id: UBERON:0001296 name: myometrium namespace: uberon def: "middle layer of the uterine wall consisting of smooth muscle cells and supporting stromal and vascular tissue." [Wikipedia:Myometrium] comment: The inner layer of the uterine wall is the endometrium or uterine lining, and the outer layer the serosa or perimetrium. The myometrium stretches (the smooth muscle cells expand in both size and number[1]) during pregnancy to allow for the harboring of the pregnancy, and contracts in a coordinated fashion during the process of labor. After delivery the myometrium contracts to expel the placenta and reduce blood loss. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tunica muscularis" RELATED LATIN [Wikipedia:Myometrium] synonym: "tunica muscularis (myometrium)" EXACT [] synonym: "uterine smooth muscle" RELATED [] xref: BTO:0000907 xref: EFO:0001970 xref: EMAPA:29923 xref: EV:0100116 xref: FMA:17743 xref: GAID:171 xref: MA:0000391 xref: MESH:A02.633.570.500 xref: MeSH:D009215 xref: SCTID:279879004 xref: UMLS:C0027088 xref: VHOG:0001281 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Illu_cervix.jpg/200px-Illu_cervix.jpg xref: ncithesaurus:Myometrium is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004923 ! organ component layer is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000459 ! uterine wall relationship: surrounded_by UBERON:0001297 ! serosa of uterus relationship: surrounds UBERON:0001295 ! endometrium property_value: external_definition "The muscular wall of the uterus. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "myometrial" xsd:string property_value: homology_notes "In all mammals, the uterus develops as a specialization of the paramesonephric or MCIsogai et al.2001." [ZFIN:curator] comment: Editor notes: review this term, check taxon scope synonym: "MsA" RELATED [] xref: FMA:50570 xref: TAO:0001068 xref: XAO:0004173 xref: ZFA:0001068 is_a: UBERON:0001637 ! artery relationship: supplies UBERON:0001891 ! midbrain property_value: axiom_lost_from_external_ontology "relationship loss: develops_from primitive mesencephalic artery (TAO:0001062)[TAO]" xsd:string property_value: external_definition "Develops from the proximal portion of the primitive mesencephalic artery. Isogai et al. 2001.[TAO]" xsd:string [Term] id: UBERON:0001635 name: superior cerebellar artery namespace: uberon def: "The superior cerebellar artery (SCA) arises near the termination of the basilar artery. It passes lateralward, immediately below the oculomotor nerve, which separates it from the posterior cerebral artery, winds around the cerebral peduncle, close to the trochlear nerve, and, arriving at the upper surface of the cerebellum, divides into branches which ramify in the pia mater and anastomose with those of the inferior cerebellar arteries. Several branches are given to the pineal body, the anterior medullary velum, and the tela chorioidea of the third ventricle. [WP,unvetted]." [Wikipedia:Superior_cerebellar_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria superior cerebelli" RELATED LATIN [Wikipedia:Superior_cerebellar_artery] xref: EHDAA2:0000681 xref: EMAPA:19309 xref: FMA:50573 xref: MA:0001934 xref: SCTID:244214000 xref: UMLS:C0149575 xref: http://upload.wikimedia.org/wikipedia/commons/e/e1/CerebellumArteries.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e1/CerebellumArteries.jpg/200px-CerebellumArteries.jpg xref: ncithesaurus:Superior_Cerebellar_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0003472 ! cerebellar artery is_a: UBERON:0004573 ! systemic artery relationship: part_of UBERON:0001633 ! basilar artery relationship: supplies UBERON:0001895 ! metencephalon relationship: supplies UBERON:0002037 ! cerebellum [Term] id: UBERON:0001636 name: posterior cerebral artery namespace: uberon def: "The posterior cerebral artery (PCA) is one of a pair of blood vessels that supplies oxygenated blood to the posterior aspect of the brain in human anatomy]. It arises near the intersection of the posterior communicating artery and the basilar artery and connects with the ipsilateral middle cerebral artery (MCA) and internal carotid artery via the posterior communicating artery (PCommA). [WP,unvetted]." [Wikipedia:Posterior_cerebral_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria cerebri posterior" RELATED LATIN [Wikipedia:Posterior_cerebral_artery] xref: EHDAA2:0000659 xref: EMAPA:17861 xref: EMAPA:18616 xref: FMA:50583 xref: GAID:488 xref: MA:0002022 xref: MESH:A07.231.114.228.700 xref: OpenCyc:Mx4rwO4qIJwpEbGdrcN5Y29ycA xref: SCTID:181313007 xref: UMLS:C0149576 xref: http://upload.wikimedia.org/wikipedia/commons/2/25/Gray517.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/25/Gray517.png/200px-Gray517.png xref: ncithesaurus:Posterior_Cerebral_Artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004449 ! cerebral artery relationship: in_lateral_side_of UBERON:0001633 ! basilar artery relationship: part_of UBERON:0001633 ! basilar artery [Term] id: UBERON:0001637 name: artery namespace: uberon def: "An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]." [AEO:JB] comment: Editor notes: Note that in FMA an artery is a tree, whereas AEO/JB defines it as a tube; FMA includes a separate class for what it calls the trunk. Classification in this ontology may currently (Jan 2012) represent a mix of both schemes, although we are gradually revising in the direction of the AEO scheme. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arterial subtree" EXACT [] synonym: "arterial system" RELATED [] synonym: "arterial tree organ part" EXACT [] synonym: "arterial vessel" RELATED [] synonym: "arteries" EXACT PLURAL [TAO:0000005] xref: AAO:0010211 xref: AEO:0000208 xref: BTO:0000573 xref: EFO:0000814 xref: EHDAA2:0000143 xref: EHDAA2:0003253 xref: EV:0100026 xref: FMA:50720 xref: GAID:468 xref: MA:0000064 xref: MAT:0000034 xref: MESH:A07.231.114 xref: MIAA:0000034 xref: OpenCyc:Mx4rvVjknZwpEbGdrcN5Y29ycA xref: SCTID:362877004 xref: TAO:0000005 xref: UMLS:C0003842 xref: VHOG:0001251 xref: XAO:0000114 xref: ZFA:0000005 xref: galen:Artery xref: ncithesaurus:Artery is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0003509 ! arterial blood vessel relationship: channels_from UBERON:0000948 ! heart relationship: part_of UBERON:0004572 ! arterial system property_value: external_definition "Part of the circulatory system composed of blood vessels which carry oxygenated blood away from the heart to the rest of the body.[AAO]" xsd:string property_value: has_relational_adjective "arterial" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string [Term] id: UBERON:0001638 name: vein namespace: uberon def: "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." [Wikipedia:Vein] comment: TODO - check with MA - vein vs venous blood vessel subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "vena" RELATED LATIN [Wikipedia:Vein] synonym: "venae" RELATED PLURAL [VHOG:0001743] synonym: "venous subtree" BROAD [] synonym: "venous tree organ part" EXACT [] synonym: "venous vessel" BROAD [] xref: AAO:0010212 xref: AEO:0000209 xref: BTO:0000234 xref: EFO:0000816 xref: EHDAA2:0003254 xref: EV:0100031 xref: FMA:50723 xref: GAID:492 xref: MA:0000067 xref: MAT:0000037 xref: MESH:A07.231.908 xref: MIAA:0000037 xref: OpenCyc:Mx4rvVjkWpwpEbGdrcN5Y29ycA xref: SCTID:181367001 xref: TAO:0000082 xref: UMLS:C0042449 xref: VHOG:0001252 xref: VHOG:0001743 xref: XAO:0000115 xref: ZFA:0000082 xref: galen:Vein xref: http://upload.wikimedia.org/wikipedia/commons/c/c2/Venous_system_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c2/Venous_system_en.svg/200px-Venous_system_en.svg.png xref: ncithesaurus:Vein is_a: UBERON:0003920 ! venous blood vessel relationship: channels_from UBERON:0001982 ! capillary property_value: external_definition "Part of the circulatory system composed of blood vessels which carry blood from other organs, tissues, and cells to the heart.[AAO]" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string [Term] id: UBERON:0001639 name: hepatic portal vein namespace: uberon def: "A portal vein that transports nutrients from the digestive tract to the liver[Kardong]. A vein in the abdominal cavity that drains blood from the gastrointestinal tract and spleen. It is usually formed by the confluence of the superior mesenteric and splenic veins, and also receives blood from the inferior mesenteric, gastric, and cystic veins. The hepatic portal vein is a major component of the hepatic portal system, one of the main portal venous systems in the body. Conditions involving the hepatic portal vein cause considerable illness and death. An important example of such a condition is elevated blood pressure in the hepatic portal vein. This condition, called portal hypertension, is a major complication of cirrhosis worldwide. [WP,unvetted]." [ISBN10:0073040584, Wikipedia:Hepatic_portal_vein, http://sourceforge.net/tracker/?func=detail&aid=3091300&group_id=76834&atid=1205376] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "HPV" RELATED [] synonym: "hepatic portal tree" EXACT [] synonym: "liver portal vein" EXACT [OBOL:automatic] synonym: "portal vein" RELATED INCONSISTENT [] synonym: "portal vein of liver" EXACT [OBOL:automatic] synonym: "primary hepatic portal vein" RELATED [ZFA:0005090] synonym: "primary hepatic portal veins" RELATED [] synonym: "vena portae hepatis" RELATED LATIN [Wikipedia:Hepatic_portal_vein] xref: AAO:0010214 xref: FMA:50735 xref: MA:0002132 xref: TAO:0005090 xref: VHOG:0000642 xref: ZFA:0005090 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Gray591.png/200px-Gray591.png is_a: UBERON:0002017 ! portal vein relationship: develops_from UBERON:0005487 ! vitelline vein relationship: overlaps UBERON:0002107 ! liver relationship: part_of UBERON:0010194 ! hepatic portal system property_value: homology_notes "Adults of all vertebrates lose the vitelline veins and establish a single large hepatic portal vein (...) by the selective retention of parts of the left and right subintestinals and of several anastomoses that occur between them within and just posterior to the liver.[well established][VHOG]" xsd:string [Term] id: UBERON:0001640 name: celiac artery namespace: uberon def: "The celiac artery, also known as the celiac trunk, is the first major branch of the abdominal aorta." [Wikipedia:Celiac_artery] comment: dorsal aorta in Kardong subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria cEliaca" RELATED LATIN [Wikipedia:Celiac_artery] synonym: "arteria coeliaca" RELATED LATIN [Wikipedia:Celiac_artery] synonym: "celiac tree" EXACT [] synonym: "coeliac artery" EXACT [Wikipedia:Celiac_artery] synonym: "coeliac axis" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunck" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunk" RELATED [Wikipedia:Celiac_artery] synonym: "truncus cEliacus" RELATED LATIN [Wikipedia:Celiac_artery] synonym: "truncus coeliacus" RELATED LATIN [Wikipedia:Celiac_artery] xref: EHDAA2:0004519 xref: FMA:50737 xref: GAID:483 xref: MA:0001931 xref: MESH:A07.231.114.207 xref: SCTID:181340007 xref: UMLS:C0007569 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Gray532.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Gray532.png/200px-Gray532.png xref: ncithesaurus:Coeliac_Artery is_a: UBERON:0001193 ! hepatic artery is_a: UBERON:0001194 ! splenic artery is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005616 ! mesenteric artery relationship: branch_of UBERON:0001516 ! abdominal aorta relationship: develops_from UBERON:0006002 ! vitelline artery relationship: supplies UBERON:0000160 ! intestine relationship: supplies UBERON:0000945 ! stomach relationship: supplies UBERON:0002106 ! spleen relationship: supplies UBERON:0002107 ! liver [Term] id: UBERON:0001641 name: transverse sinus namespace: uberon def: "The transverse sinuses (left and right lateral sinuses), within a human head, are two areas beneath the brain, which allow blood veins to span the area, from the back of the head towards the nose. They drain from the straight sinus and superior sagittal sinus (along the top and back of the brain) to the sigmoid sinuses (at the center of the head), at the internal jugular vein. See diagram (at right): labeled under the brain as '' . The transverse sinuses are of large size and begin at the internal occipital protuberance; one, generally the right, being the direct continuation of the superior sagittal sinus, the other of the straight sinus. Each transverse sinus passes lateralward and forward, describing a slight curve with its convexity upward, to the base of the petrous portion of the temporal bone, and lies, in this part of its course, in the attached margin of the tentorium cerebelli; it then leaves the tentorium and curves downward and medialward to reach the jugular foramen, where it ends in the internal jugular vein. In its course it rests upon the squama of the occipital, the mastoid angle of the parietal, the mastoid part of the temporal, and, just before its termination, the jugular process of the occipital; the portion which occupies the groove on the mastoid part of the temporal is sometimes termed the sigmoid sinus. The transverse sinuses are frequently of unequal size, with the one formed by the superior sagittal sinus being the larger; they increase in size as they proceed, from back to center. On transverse section, the horizontal portion exhibits a prismatic form, the curved portion has a semicylindrical form. They receive the blood from the superior petrosal sinuses at the base of the petrous portion of the temporal bone; they communicate with the veins of the pericranium by means of the mastoid and condyloid emissary veins; and they receive some of the inferior cerebral and inferior cerebellar veins, and some veins from the diploC+. The petrosquamous sinus, when present, runs backward along the junction of the squama and petrous portion of the temporal, and opens into the transverse sinus. [WP,unvetted]." [Wikipedia:Transverse_sinuses] comment: todo - check su subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "groove for right and left transverse sinuses" RELATED [Wikipedia:Transverse_sinuses] synonym: "lateral sinus" RELATED [FMA:50763] synonym: "sinus transversus" RELATED [Wikipedia:Transverse_sinuses] synonym: "sinus transversus durae matris" EXACT LATIN [Wikipedia:Transverse_sinuses] synonym: "transverse sinus" RELATED [Wikipedia:Transverse_sinuses] synonym: "transverse sinus vein" RELATED [Wikipedia:Transverse_sinuses] xref: EMAPA:18637 xref: FMA:50763 xref: MA:0001868 xref: OpenCyc:Mx4rwDb62ZwpEbGdrcN5Y29ycA xref: SCTID:279262004 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bd/Gray488_blue.gif/200px-Gray488_blue.gif xref: ncithesaurus:Transverse_Sinus is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0006615 ! venous sinus relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0001642 name: superior sagittal sinus namespace: uberon def: "The superior sagittal sinus (also known as the superior longitudinal sinus), within a human cranium, is an area above/behind the brain, which allows blood veins to span the area, from the top of the head towards the back. It is believed that the cerebrospinal fluid drains through the arachnoid granulations into the dural venous sinuses of the superior sagittal sinus. [WP,unvetted]." [Wikipedia:Superior_sagittal_sinus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sinus sagittalis superior" RELATED LATIN [Wikipedia:Superior_sagittal_sinus] xref: FMA:50767 xref: MA:0001867 xref: OpenCyc:Mx4rv9naEJwpEbGdrcN5Y29ycA xref: SCTID:362075006 xref: UMLS:C0226859 xref: http://upload.wikimedia.org/wikipedia/commons/b/bd/Gray488_blue.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bd/Gray488_blue.gif/200px-Gray488_blue.gif xref: ncithesaurus:Superior_Sagittal_Sinus is_a: UBERON:0006615 ! venous sinus is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0009968 ! primitive superior sagittal sinus [Term] id: UBERON:0001643 name: oculomotor nerve namespace: uberon def: "Cranial nerve which connects the midbrain to the extra-ocular and intra-ocular muscles. // Cranial nerve that runs to the eye muscles." [ISBN:0471209627, Wikipedia:Oculomotor_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-III" RELATED [] synonym: "Oculomotor nerve [III]" EXACT [] synonym: "cranial nerve III" RELATED [] synonym: "nervus oculomotorius" RELATED LATIN [Wikipedia:Oculomotor_nerve] synonym: "nervus oculomotorius [iii]" EXACT LATIN [FMA:50864, FMA:TA] synonym: "occulomotor" RELATED [] synonym: "oculomotor III" EXACT [EHDAA2:0001284] synonym: "oculomotor III nerve" EXACT [] synonym: "oculomotor nerve tree" EXACT [] synonym: "third cranial nerve" EXACT [] xref: AAO:0010468 xref: BM:MB-IIIN xref: EHDAA2:0001284 xref: EHDAA:3736 xref: EMAPA:17574 xref: FMA:50864 xref: GAID:829 xref: MA:0001095 xref: MESH:A08.800.800.120.600 xref: NIF_GrossAnatomy:birnlex_1646 xref: OpenCyc:Mx4rvj7pZpwpEbGdrcN5Y29ycA xref: SCTID:362456009 xref: TAO:0000405 xref: UMLS:C0028864 xref: VHOG:0000692 xref: XAO:0003090 xref: ZFA:0000405 xref: http://upload.wikimedia.org/wikipedia/commons/6/69/Gray776.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/69/Gray776.png/200px-Gray776.png xref: ncithesaurus:Oculomotor_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: develops_from UBERON:0010285 ! midbrain basal plate relationship: develops_from_part_of UBERON:0005073 ! preganglionic parasympathetic nervous system property_value: external_definition "Somatic efferent fibers which innervate four eye muscles.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001644 name: trochlear nerve namespace: uberon def: "Cranial nerve that runs to the eye muscles." [ISBN:0471209627, Wikipedia:Trochlear_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-IV" RELATED [] synonym: "Trochlear nerve [IV]" EXACT [] synonym: "cranial nerve IV" RELATED [] synonym: "fourth cranial nerve" EXACT [] synonym: "nervus trochlearis" RELATED LATIN [Wikipedia:Trochlear_nerve] synonym: "nervus trochlearis [iv]" EXACT LATIN [FMA:50865, FMA:TA] synonym: "pathetic nerve" RELATED [] synonym: "superior oblique nerve" EXACT [] synonym: "trochlear" RELATED [] synonym: "trochlear IV nerve" EXACT [] synonym: "trochlear nerve tree" EXACT [] xref: AAO:0010469 xref: BM:IVN xref: EHDAA2:0002090 xref: EMAPA:18218 xref: FMA:50865 xref: GAID:838 xref: MA:0001105 xref: MESH:A08.800.800.120.800 xref: NIF_GrossAnatomy:birnlex_1654 xref: OpenCyc:Mx4rvyeBQ5wpEbGdrcN5Y29ycA xref: SCTID:180939009 xref: TAO:0000600 xref: UMLS:C0041159 xref: VHOG:0000705 xref: XAO:0003091 xref: ZFA:0000600 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Trochlear_nerve.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Trochlear_nerve.png/200px-Trochlear_nerve.png xref: ncithesaurus:Trochlear_Nerve is_a: UBERON:0001785 ! cranial nerve property_value: external_definition "Somatic efferent nerve which supplies a single eye muscle, the m. obliquus superior.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001645 name: trigeminal nerve namespace: uberon def: "Cranial nerve that has three branches - the ophthalmic (supplying the skin of the nose and upper jaw), the maxillary and the mandibular (supplying the lower jaw)." [ISBN:0471209627, Wikipedia:Trigeminal_nerve] comment: Taxon notes: the ophthalmic usually usually merges with the other two. In some vertebrates, the ophthalmic emerges from the brain separately[Kardong] The trigeminal nerve has 3 branches in mammals - similar branches are present in nonmammalian vertebrates, but in some a separate profundus nerve that corresponds to opthalmic branch in mammls[ISBN10:0471888893] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-V" RELATED [] synonym: "cranial nerve V" RELATED [] synonym: "fifth cranial nerve" EXACT [] synonym: "nervus trigeminus" EXACT LATIN [BTO:0001072, Wikipedia:Trigeminal_nerve] synonym: "nervus trigeminus [v]" EXACT LATIN [FMA:50866, FMA:TA] synonym: "trigeminal V" EXACT [EHDAA2:0002084] synonym: "trigeminal nerve [V]" EXACT [] synonym: "trigeminal nerve tree" EXACT [] synonym: "trigeminal v nerve" EXACT [] synonym: "trigeminus" RELATED [BTO:0001072] xref: AAO:0010470 xref: BM:VN xref: BTO:0001072 xref: EFO:0001402 xref: EHDAA2:0002084 xref: EHDAA:3738 xref: EMAPA:17576 xref: FMA:50866 xref: GAID:726 xref: MA:0001100 xref: MESH:A08.800.800.120.760 xref: NIF_GrossAnatomy:birnlex_869 xref: OpenCyc:Mx4rwMF8CJwpEbGdrcN5Y29ycA xref: SCTID:362459002 xref: TAO:0000697 xref: UMLS:C0040996 xref: VHOG:0000704 xref: XAO:0003092 xref: ZFA:0000697 xref: http://upload.wikimedia.org/wikipedia/commons/9/99/Gray778_Trigeminal.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Gray778_Trigeminal.png/200px-Gray778_Trigeminal.png xref: ncithesaurus:Trigeminal_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0005239 ! basal plate metencephalon property_value: external_definition "Nerve consists of motor and sensory components. Ganglion cells of the sensory component form the proximal part of the trigeminal (Gasserian) ganglion. From the ganglion 3 major rami innervate jaws, snout, and buccal roof.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001646 name: abducens nerve namespace: uberon def: "Cranial nerve that runs to the eye muscles." [ISBN:0471209627, Wikipedia:Abducens_nerve] comment: Taxon notes: Homologous abducens nerves are found in all vertebrates except lampreys and hagfishes.[WP] It controls the movement of a single muscle, the lateral rectus muscle of the eye, in humans. In most other mammals it also innervates the musculus retractor bulbi, which can retract the eye for protection[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-VI" RELATED [] synonym: "abducens VI nerve" EXACT [] synonym: "abducens nerve [VI]" EXACT [] synonym: "abducens nerve tree" EXACT [] synonym: "abducent nerve" RELATED [] synonym: "abducent nerve [VI]" EXACT [] synonym: "cranial nerve VI" RELATED [] synonym: "lateral rectus nerve" EXACT [] synonym: "nervus abducens" EXACT LATIN [Wikipedia:Abducens_nerve] synonym: "nervus abducens [VI]" EXACT LATIN [FMA:50867, FMA:TA] synonym: "sixth cranial nerve" EXACT [] xref: AAO:0010471 xref: BM:Pons-VIN xref: EHDAA2:0000103 xref: FMA:50867 xref: GAID:824 xref: MA:0001087 xref: MESH:A08.800.800.120.030 xref: NIF_GrossAnatomy:birnlex_876 xref: OpenCyc:Mx4rvjl41ZwpEbGdrcN5Y29ycA xref: SCTID:180941005 xref: TAO:0000310 xref: UMLS:C0000741 xref: VHOG:0000697 xref: XAO:0003093 xref: ZFA:0000310 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Abducens_nerve1.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Abducens_nerve1.png/200px-Abducens_nerve1.png xref: ncithesaurus:Abducens_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: develops_from UBERON:0005239 ! basal plate metencephalon property_value: external_definition "Somatic motor nerve which bifurcates innervating m. rectus lateralis and m. retractor bulbi (eye muscles).[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001647 name: facial nerve namespace: uberon def: "Cranial nerve that branches into the supraorbital (supplying the skin of the eye region and the lateral line organs here), the palatine (to the roof of the buccal cavity), and the hyomandibular (dividing into the jugular and mental branches)." [ISBN:0471209627, Wikipedia:Facial_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-VII" RELATED [] synonym: "Facial nerve [VII]" EXACT [] synonym: "branchiomeric cranial nerve" EXACT [] synonym: "cranial nerve VII" RELATED [] synonym: "face nerve" EXACT [OBOL:automatic] synonym: "facial VII" EXACT [EHDAA2:0000489] synonym: "facial VII nerve" EXACT [] synonym: "facial nerve tree" EXACT [] synonym: "nerve of face" EXACT [OBOL:automatic] synonym: "nervus facialis" EXACT LATIN [Wikipedia:Facial_nerve, ZFA:0000664] synonym: "nervus facialis [vii]" EXACT LATIN [FMA:50868, FMA:TA] synonym: "seventh cranial nerve" EXACT [] xref: AAO:0010472 xref: BM:Pons-VIIN xref: EHDAA2:0000489 xref: EHDAA:3729 xref: EMAPA:17796 xref: FMA:50868 xref: GAID:719 xref: MA:0001091 xref: MESH:A08.800.800.120.250 xref: NIF_GrossAnatomy:birnlex_827 xref: OpenCyc:Mx4rvthgEpwpEbGdrcN5Y29ycA xref: SCTID:362460007 xref: TAO:0000664 xref: UMLS:C0015462 xref: VHOG:0000706 xref: XAO:0003094 xref: ZFA:0000664 xref: http://upload.wikimedia.org/wikipedia/commons/1/1f/Cranial_nerve_VII.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1f/Cranial_nerve_VII.svg/200px-Cranial_nerve_VII.svg.png xref: ncithesaurus:Facial_Nerve is_a: UBERON:0001785 ! cranial nerve is_a: UBERON:0011779 ! nerve of head region relationship: develops_from_part_of UBERON:0005073 ! preganglionic parasympathetic nervous system relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0003066 ! pharyngeal arch 2 relationship: has_developmental_contribution_from UBERON:0005239 ! basal plate metencephalon relationship: part_of UBERON:0001033 ! gustatory system intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001456 ! face property_value: external_definition "Slender nerve composed of branchiomotor and visceral efferent fibers innervating the mouth and various muscles within the jaw. Sensory components innervate the bucccal roof and somatomotor components innervate the depressor musculature and muscle interhyoideus.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001648 name: vestibulocochlear nerve namespace: uberon def: "Cranial nerve that runs to the ear." [ISBN:0471209627, Wikipedia:Vestibulocochlear_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-VIII" EXACT [] synonym: "VIII nerve" EXACT [] synonym: "VIIIth cranial nerve" EXACT [] synonym: "Vestibulocochlear nerve [VIII]" EXACT [] synonym: "acoustic VIII nerve" EXACT [] synonym: "acoustic nerve" EXACT [] synonym: "acoustic nerve (crosby)" EXACT [] synonym: "cochlear-vestibular nerve" EXACT [] synonym: "cochleovestibular nerve" EXACT [] synonym: "cranial nerve VIII" EXACT [] synonym: "eighth cranial nerve" EXACT [] synonym: "nervus vestibulocochlearis" RELATED [BTO:0003490] synonym: "nervus vestibulocochlearis [viii]" EXACT LATIN [FMA:50869, FMA:TA] synonym: "octaval nerve" RELATED [] synonym: "stato-acoustic nerve" EXACT [] synonym: "statoacoustic nerve" RELATED [] synonym: "vestibulocochlear VIII nerve" EXACT [] synonym: "vestibulocochlear nerve tree" EXACT [] xref: AAO:0010473 xref: BTO:0003490 xref: EHDAA2:0002194 xref: EMAPA:17801 xref: FMA:50869 xref: GAID:839 xref: MA:0001109 xref: MESH:A08.800.800.120.910 xref: NIF_GrossAnatomy:birnlex_890 xref: OpenCyc:Mx4rvVjMFZwpEbGdrcN5Y29ycA xref: SCTID:180945001 xref: TAO:0000247 xref: UMLS:C0001162 xref: VHOG:0000695 xref: XAO:0003095 xref: ZFA:0000247 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray789.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray789.png/200px-Gray789.png xref: ncithesaurus:Vestibulocochlear_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: continuous_with UBERON:0001844 ! cochlea relationship: develops_from UBERON:0003069 ! otic placode property_value: external_definition "Nerve primarily composed of special somatic afferent fibers innervating the inner ear, and is involved in balance, position, and hearing.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001649 name: glossopharyngeal nerve namespace: uberon def: "Cranial nerve that branches into the ramus communicans (to the skin), the pretrematic (to the walls of the pharynx and mouth, viscero-sensory fibers), and the larval post-trematic branch (lost in the adult)." [ISBN:0471209627, Wikipedia:Glossopharyngeal_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-IX" RELATED [] synonym: "Glossopharyngeal nerve [IX]" EXACT [] synonym: "cranial nerve IX" RELATED [] synonym: "glossopharyngeal IX" EXACT [EHDAA2:0000709] synonym: "glossopharyngeal IX nerve" EXACT [] synonym: "glossopharyngeal nerve tree" EXACT [] synonym: "nervus glossopharyngeus" EXACT LATIN [Wikipedia:Glossopharyngeal_nerve, ZFA:0000668] synonym: "nervus glossopharyngeus [ix]" EXACT LATIN [FMA:50870, FMA:TA] synonym: "ninth cranial nerve" EXACT [] xref: AAO:0010474 xref: BTO:0004979 xref: EHDAA2:0000709 xref: EHDAA:3733 xref: EMAPA:17268 xref: FMA:50870 xref: GAID:827 xref: MA:0001093 xref: MESH:A08.800.800.120.290 xref: NIF_GrossAnatomy:birnlex_899 xref: OpenCyc:Mx4rwIr5X5wpEbGdrcN5Y29ycA xref: SCTID:362465002 xref: TAO:0000668 xref: UMLS:C0017679 xref: VHOG:0000701 xref: XAO:0003096 xref: ZFA:0000668 xref: http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Gray791.png/200px-Gray791.png xref: ncithesaurus:Glossopharyngeal_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0005239 ! basal plate metencephalon relationship: part_of UBERON:0001033 ! gustatory system property_value: external_definition "Small nerve consisting of branchiomotor and visceral efferent and afferent fibers which innervate the m. subarculais rectus I, dorsal buccal mucosa, and the tongue.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001650 name: hypoglossal nerve namespace: uberon def: "Nerve that innervates all the intrinsic and all but one of the extrinsic muscles of the tongue." [GO:0021566, Wikipedia:Hypoglossal_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "CN-XII" RELATED [VHOG:0000693] synonym: "Hypoglossal nerve [XII]" EXACT [] synonym: "cranial nerve XII" EXACT [NIF_GrossAnatomy:birnlex_820] synonym: "hypoglossal XII" EXACT [EHDAA2:0000798] synonym: "hypoglossal XII nerve" EXACT [] synonym: "hypoglossal nerve tree" EXACT [] synonym: "nervus hypoglossus" RELATED LATIN [Wikipedia:Hypoglossal_nerve] synonym: "nervus hypoglossus [xii]" EXACT LATIN [FMA:50871, FMA:TA] synonym: "twelfth cranial nerve" EXACT [] xref: AAO:0010477 xref: BTO:0003386 xref: EHDAA2:0000798 xref: EHDAA:2859 xref: EMAPA:17269 xref: FMA:50871 xref: GAID:828 xref: MA:0001094 xref: MESH:A08.800.800.120.330 xref: NIF_GrossAnatomy:birnlex_820 xref: OpenCyc:Mx4rv9eWA5wpEbGdrcN5Y29ycA xref: SCTID:362471008 xref: UMLS:C0020614 xref: VHOG:0000693 xref: XAO:0004215 xref: http://upload.wikimedia.org/wikipedia/commons/e/ef/Gray794.png xref: ncithesaurus:Hypoglossal_Nerve is_a: UBERON:0001785 ! cranial nerve property_value: external_definition "Cranial nerve that innervates muscles in the tongue. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-14, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: external_definition "Nerve which innervates the muscles associated with the tongue including mm geniohyoideus, genioglossus, hyoglossus and rectus cervicis.[AAO]" xsd:string property_value: homology_notes "Cranial nerves XI and XII evolved in the common ancestor to amniotes (non-amphibian tetrapods) thus totalling twelve pairs.[well established][VHOG]" xsd:string [Term] id: UBERON:0001651 name: right pulmonary artery namespace: uberon def: "The pulmonary arteries carry blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood. In the human heart, the pulmonary trunk (pulmonary artery or main pulmonary artery) begins at the base of the right ventricle. It is short and wide - approximately 5 cm (2 inches) in length and 3 cm (1.2 inches) in diameter. It then branches into two pulmonary arteries (left and right), which deliver deoxygenated blood to the corresponding lung. [WP,unvetted]." [Wikipedia:Right_pulmonary_artery] comment: TODO - add class 'pulmonary artery tree organ' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria pulmonalis dextra" RELATED LATIN [Wikipedia:Right_pulmonary_artery] synonym: "right main pulmonary artery" EXACT [] synonym: "right pulmonary arterial tree" EXACT [] xref: FMA:50872 xref: MA:0002500 xref: SCTID:244235003 xref: UMLS:C0923924 xref: galen:RightPulmonaryArtery xref: http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png xref: ncithesaurus:Right_Pulmonary_Artery is_a: UBERON:0002012 ! pulmonary artery [Term] id: UBERON:0001652 name: left pulmonary artery namespace: uberon def: "The pulmonary arteries carry blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood. In the human heart, the pulmonary trunk (pulmonary artery or main pulmonary artery) begins at the base of the right ventricle. It is short and wide - approximately 5 cm (2 inches) in length and 3 cm (1.2 inches) in diameter. It then branches into two pulmonary arteries (left and right), which deliver deoxygenated blood to the corresponding lung. [WP,unvetted]." [Wikipedia:Left_pulmonary_artery] comment: TODO - add class 'pulmonary artery tree organ' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria pulmonalis sinistra" RELATED LATIN [Wikipedia:Left_pulmonary_artery] synonym: "left main pulmonary artery" EXACT [] synonym: "left pulmonary arterial tree" EXACT [] xref: FMA:50873 xref: MA:0002032 xref: SCTID:244234004 xref: UMLS:C0923925 xref: galen:LeftPulmonaryArtery xref: http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png xref: ncithesaurus:Left_Pulmonary_Artery is_a: UBERON:0002012 ! pulmonary artery [Term] id: UBERON:0001653 name: facial vein namespace: uberon def: "The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]." [Wikipedia:Facial_vein] comment: Comment note MA and NCITA also has 'anterior facial vein' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior facial vein" RELATED INCONSISTENT [Wikipedia:Facial_vein] synonym: "face vein" EXACT [OBOL:automatic] synonym: "vein of face" EXACT [OBOL:automatic] synonym: "vena facialis anterior" RELATED LATIN [Wikipedia:Facial_vein] xref: AAO:0010513 xref: EMAPA:19220 xref: FMA:50874 xref: MA:0002115 xref: OpenCyc:Mx4rvziz3JwpEbGdrcN5Y29ycA xref: SCTID:181374006 xref: UMLS:C0226532 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Facial_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0001456 ! face relationship: tributary_of UBERON:0001586 ! internal jugular vein property_value: external_definition "Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO]" xsd:string [Term] id: UBERON:0001654 name: supra-orbital vein namespace: uberon def: "The supraorbital vein begins on the forehead where it communicates with the frontal branch of the superficial temporal vein. It runs downward superficial to the Frontalis muscle, and joins the frontal vein at the medial angle of the orbit to form the angular vein. Previous to its junction with the frontal vein, it sends through the supraorbital notch into the orbit a branch which communicates with the ophthalmic vein; as this vessel passes through the notch, it receives the frontal diploic vein through a foramen at the bottom of the notch. The areas drained by this vessel are the forehead, eyebrow and upper eyelid. [WP,unvetted]." [Wikipedia:Supra-orbital_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "supraorbital vein" EXACT [] xref: FMA:50904 xref: MA:0002228 xref: SCTID:152006005 xref: UMLS:C0226535 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Supra-orbital_Vein is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0001653 ! facial vein [Term] id: UBERON:0001655 name: submental vein namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:50925 xref: MA:0002223 xref: SCTID:152309009 xref: UMLS:C0226541 xref: ncithesaurus:Submental_Vein is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0001653 ! facial vein [Term] id: UBERON:0001656 name: retromandibular vein namespace: uberon def: "The retromandibular vein (temporomaxillary vein, posterior facial vein), formed by the union of the superficial temporal and maxillary veins, descends in the substance of the parotid gland, superficial to the external carotid artery but beneath the facial nerve, between the ramus of the mandible and the sternocleidomastoideus muscle. It divides into two branches: an anterior, which passes forward and unites with the anterior facial vein to form the common facial vein. a posterior, which is joined by the posterior auricular vein and becomes the external jugular vein. [WP,unvetted]." [Wikipedia:Retromandibular_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "posterior facial vein" EXACT [] synonym: "vena facialis posterior" RELATED LATIN [Wikipedia:Retromandibular_vein] synonym: "vena retromandibularis" RELATED LATIN [Wikipedia:Retromandibular_vein] xref: FMA:50928 xref: MA:0002117 xref: OpenCyc:Mx4rv0bn95wpEbGdrcN5Y29ycA xref: SCTID:151299003 xref: UMLS:C0226520 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Temporo-maxillary_Vein is_a: UBERON:0001653 ! facial vein relationship: tributary_of UBERON:0001101 ! external jugular vein [Term] id: UBERON:0001657 name: superficial temporal vein namespace: uberon def: "The superficial temporal vein is a vein of the side of the head. [WP,unvetted]." [Wikipedia:Superficial_temporal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "venae temporales superficiales" RELATED LATIN [Wikipedia:Superficial_temporal_vein] xref: BTO:0003748 xref: EMAPA:19315 xref: FMA:50932 xref: MA:0002242 xref: OpenCyc:Mx4rvmANWZwpEbGdrcN5Y29ycA xref: SCTID:150087005 xref: UMLS:C0226521 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Superficial_Temporal_Vein is_a: UBERON:0001671 ! temporal vein relationship: tributary_of UBERON:0001101 ! external jugular vein relationship: tributary_of UBERON:0001587 ! subclavian vein relationship: tributary_of UBERON:0001656 ! retromandibular vein [Term] id: UBERON:0001658 name: middle temporal vein namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:50935 xref: MA:0002241 xref: SCTID:151400007 is_a: UBERON:0001671 ! temporal vein relationship: tributary_of UBERON:0001101 ! external jugular vein relationship: tributary_of UBERON:0001587 ! subclavian vein relationship: tributary_of UBERON:0001656 ! retromandibular vein [Term] id: UBERON:0001659 name: transverse facial vein namespace: uberon def: "The superficial temporal vein is a vein of the side of the head. [WP,unvetted]." [Wikipedia:Superficial_temporal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:50938 xref: MA:0002247 xref: SCTID:151501009 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0001101 ! external jugular vein relationship: tributary_of UBERON:0001587 ! subclavian vein relationship: tributary_of UBERON:0001656 ! retromandibular vein [Term] id: UBERON:0001660 name: maxillary vein namespace: uberon def: "The maxillary veins (internal maxillary vein in older sources) consist of a short trunk which accompanies the first part of the internal maxillary artery. It is formed by a confluence of the veins of the pterygoid plexus, and passes backward between the sphenomandibular ligament and the neck of the mandible, and unites with the superficial temporal vein to form the retromandibular vein. [WP,unvetted]." [Wikipedia:Maxillary_vein] comment: Taxon notes: in horses, a branch of the external jugular gives off the occipital and caudal auricular vein subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:50941 xref: MA:0002169 xref: OpenCyc:Mx4rvlDSc5wpEbGdrcN5Y29ycA xref: SCTID:29972009 xref: UMLS:C0226524 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Internal_Maxillary_Vein is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0001656 ! retromandibular vein [Term] id: UBERON:0001661 name: deep temporal vein namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:50954 xref: MA:0002240 xref: SCTID:798000 xref: UMLS:C0226526 xref: ncithesaurus:Deep_Temporal_Vein is_a: UBERON:0001671 ! temporal vein [Term] id: UBERON:0001662 name: anterior auricular vein namespace: uberon def: "The anterior auricular veins are veins which drain the anterior aspect of the external ear. [WP,unvetted]." [Wikipedia:Anterior_auricular_veins] comment: This class was created automatically from a combination of ontologies synonym: "venae auriculares anteriores" RELATED LATIN [Wikipedia:Anterior_auricular_veins] xref: FMA:50956 xref: MA:0002083 xref: SCTID:151602009 xref: UMLS:C0226527 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Anterior_Auricular_Vein is_a: UBERON:0006197 ! auricular vein relationship: tributary_of UBERON:0001656 ! retromandibular vein [Term] id: UBERON:0001663 name: cerebral vein namespace: uberon def: "The cerebral veins are divisible into external and internal groups according to the outer surfaces or the inner parts of the hemispheres they drain into. The external veins are the superior cerebral veins, inferior cerebral veins, and middle cerebral vein. [WP,unvetted]." [Wikipedia:Cerebral_veins] comment: This class was created automatically from a combination of ontologies synonym: "venae cerebri" RELATED LATIN [Wikipedia:Cerebral_veins] synonym: "venae encephali" RELATED LATIN [Wikipedia:Cerebral_veins] xref: FMA:50981 xref: GAID:530 xref: MA:0002096 xref: MESH:A07.231.908.155 xref: SCTID:244392000 xref: UMLS:C0007797 xref: XAO:0004160 xref: http://upload.wikimedia.org/wikipedia/commons/9/9f/Gray568.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9f/Gray568.png/200px-Gray568.png xref: ncithesaurus:Cerebral_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0001664 name: inferior cerebral vein namespace: uberon def: "The inferior cerebral veins, of small size, drain the under surfaces of the hemispheres. Those on the orbital surface of the frontal lobe join the superior cerebral veins, and through these open into the superior sagittal sinus. Those of the temporal lobe anastomose with the middle cerebral and basal veins, and join the cavernous, sphenoparietal, and superior petrosal sinuses. [WP,unvetted]." [Wikipedia:Inferior_cerebral_veins] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:50986 xref: MA:0002097 xref: SCTID:244395003 xref: http://upload.wikimedia.org/wikipedia/commons/2/25/Gray517.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/25/Gray517.png/200px-Gray517.png is_a: UBERON:0001663 ! cerebral vein [Term] id: UBERON:0001665 name: triceps surae namespace: uberon def: "The triceps surae is a pair of muscles located at the calf - the gastrocnemius and the soleus. These muscles both insert into the calcaneus, the bone of the heel of the human foot, and form the major part of the muscle of the back part of the lower leg, commonly known as the calf muscle. The triceps surae is connected to the foot through the Achilles tendon, and has 3 heads deriving from the 2 major masses of muscle. The superficial portion (the gastrocnemius) gives off 2 heads attaching to the base of the femur directly above the knee. The deep (profundis) mass of muscle (the soleus) forms the remaining head which attaches to the superior posterior area of the tibia. The triceps surae is innervated by the tibial nerve, specifically, nerve roots L5bS2. [WP,unvetted]." [Wikipedia:Triceps_surae_muscle] comment: A set of muscles in FMA, a single organ in MA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calf muscle" RELATED [Wikipedia:Triceps_surae_muscle] synonym: "gastrosoleus" RELATED [Wikipedia:Triceps_surae_muscle] synonym: "gastrosoleus complex" RELATED [Wikipedia:Triceps_surae_muscle] synonym: "musculus triceps surae" RELATED LATIN [Wikipedia:Triceps_surae_muscle] synonym: "sural triceps" RELATED [] xref: FMA:51062 xref: MA:0002400 xref: UMLS:C0224458 xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Illu_lower_extremity_muscles.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/57/Illu_lower_extremity_muscles.jpg/200px-Illu_lower_extremity_muscles.jpg xref: ncithesaurus:Triceps_Surae is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0004256 ! hindlimb zeugopod muscle relationship: has_muscle_insertion UBERON:0001450 ! calcaneus relationship: has_muscle_insertion UBERON:0003701 ! calcaneal tendon relationship: innervated_by UBERON:0001323 ! tibial nerve relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0001666 name: flexor digitorum longus namespace: uberon def: "The Flexor digitorum longus is situated on the tibial side of the leg. At its origin it is thin and pointed, but it gradually increases in size as it descends. This muscle serves to curl the second, third, fourth, and fifth toes (flexion of phalanges II-V). [WP,unvetted]." [Wikipedia:Flexor_digitorum_longus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0000466 xref: FMA:51071 xref: MA:0002299 xref: SCTID:181703002 xref: UMLS:C1261048 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/92/Gray442.png/200px-Gray442.png xref: ncithesaurus:Flexor_Digitorum_Longus is_a: UBERON:0001383 ! muscle of leg [Term] id: UBERON:0001667 name: tibialis posterior namespace: uberon def: "The Tibialis posterior is the most central of all the leg muscles, and is located in the posterior compartment of the leg. It is the key stabilizing muscle of the lower leg. [WP,unvetted]." [Wikipedia:Tibialis_posterior_muscle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ibialis posticus" RELATED [BTO:0000867] synonym: "musculus tibialis posterior" RELATED LATIN [Wikipedia:Tibialis_posterior_muscle] synonym: "posterior tibialis" RELATED [BTO:0000867] synonym: "tibialis caudalis" EXACT [] synonym: "tibialis posterior muscle" RELATED [BTO:0000867] xref: BTO:0000867 xref: FMA:51099 xref: MA:0002394 xref: SCTID:361824007 xref: UMLS:C1711425 xref: http://upload.wikimedia.org/wikipedia/commons/9/92/Gray442.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/92/Gray442.png/200px-Gray442.png xref: ncithesaurus:Tibialis_Caudalis is_a: UBERON:0008230 ! tibialis relationship: has_muscle_antagonist UBERON:0001385 ! tibialis anterior relationship: has_muscle_insertion UBERON:0001451 ! navicular bone of pes relationship: has_muscle_insertion UBERON:0001452 ! distal tarsal bone 1 relationship: has_muscle_origin UBERON:0000979 ! tibia relationship: has_muscle_origin UBERON:0001446 ! fibula relationship: innervated_by UBERON:0001323 ! tibial nerve [Term] id: UBERON:0001668 name: cerebellar vein namespace: uberon def: "Cerebellar veins are veins which drain the cerebellum. More specifically, they are: Superior cerebellar veins Inferior cerebellar veins [WP,unvetted]." [Wikipedia:Cerebellar_veins] comment: This class was created automatically from a combination of ontologies synonym: "cerebellum vein" EXACT [OBOL:automatic] synonym: "epencephalon-1 vein" EXACT [OBOL:automatic] synonym: "vein of cerebellum" EXACT [OBOL:automatic] synonym: "vein of epencephalon-1" EXACT [OBOL:automatic] xref: FMA:51227 xref: MA:0002093 xref: SCTID:40693009 xref: UMLS:C0226601 xref: ncithesaurus:Cerebellar_Vein is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002037 ! cerebellum [Term] id: UBERON:0001669 name: superior cerebellar vein namespace: uberon def: "The superior cerebellar veins pass partly forward and medialward, across the superior vermis, to end in the straight sinus and the internal cerebral veins, partly lateralward to the transverse and superior petrosal sinuses. [WP,unvetted]." [Wikipedia:Superior_cerebellar_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "vein of superior cerebellar hemisphere" EXACT [] xref: FMA:51232 xref: MA:0002095 xref: SCTID:64307009 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray704.png/200px-Gray704.png is_a: UBERON:0001668 ! cerebellar vein [Term] id: UBERON:0001670 name: inferior cerebellar vein namespace: uberon def: "The inferior cerebellar veins are of large size, end in the transverse, superior petrosal, and occipital sinuses. [WP,unvetted]." [Wikipedia:Inferior_cerebellar_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior vein of cerebellar hemisphere" EXACT [] xref: FMA:51233 xref: MA:0002094 xref: SCTID:69104006 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray704.png/200px-Gray704.png is_a: UBERON:0001668 ! cerebellar vein [Term] id: UBERON:0001671 name: temporal vein namespace: uberon def: "The superficial temporal vein is a vein of the side of the head. [WP,unvetted]." [Wikipedia:Superficial_temporal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:51302 xref: MA:0002239 xref: UMLS:C0924206 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray557.png/200px-Gray557.png xref: ncithesaurus:Temporal_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0001672 name: anterior cerebral vein namespace: uberon comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ACeV" RELATED [] synonym: "rostral cerebral vein" RELATED [] xref: FMA:51306 xref: SCTID:55155007 xref: TAO:0001067 xref: XAO:0004158 xref: ZFA:0001067 is_a: UBERON:0001663 ! cerebral vein is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0002200 ! vasculature of head [Term] id: UBERON:0001673 name: central retinal vein namespace: uberon def: "The central retinal vein (retinal vein) is a short vein that runs through the optic nerve and drains blood from the capillaries of the retina into the larger veins outside the eye. The anatomy of the veins of the orbit of the eye varies between individuals, and in some the central retinal vein drains into the superior ophthalmic vein, and in some it drains directly into the cavernous sinus. [WP,unvetted]." [Wikipedia:Central_retinal_vein] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "retinal vein" EXACT [] synonym: "vena centralis retinae" RELATED LATIN [Wikipedia:Central_retinal_vein] xref: EFO:0004271 xref: FMA:51799 xref: GAID:524 xref: MA:0002213 xref: MESH:A07.231.611.773 xref: SCTID:280913005 xref: UMLS:C0035327 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray572.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2d/Gray572.png/200px-Gray572.png xref: ncithesaurus:Retinal_Vein is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0003712 ! cavernous sinus relationship: tributary_of UBERON:0005486 ! venous dural sinus [Term] id: UBERON:0001674 name: masseteric vein namespace: uberon def: "A plexiform vein accompanying the masseteric artery that empty into the pterygoid venous plexus." [http://www.drugs.com/dict/masseteric-veins.html] synonym: "masseteric veins" RELATED PLURAL [] xref: FMA:52519 xref: MA:0002167 xref: UMLS:C0925179 xref: ncithesaurus:Masseteric_Vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001597 ! masseter muscle [Term] id: UBERON:0001675 name: trigeminal ganglion namespace: uberon def: "A prominent collection of touch-sensory neurons of the trigeminal or fifth cranial nerve, positioned beside the brain between the eye and the ear. Kimmel et al, 1995." [Wikipedia:Trigeminal_ganglion, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "5th ganglion" EXACT [ZFA:0000295] synonym: "Gasser's ganglion" RELATED [BTO:0001231] synonym: "Gasserian ganglia" RELATED PLURAL [Wikipedia:Trigeminal_ganglion] synonym: "Gasserian ganglion" EXACT [Wikipedia:Trigeminal_ganglion] synonym: "fifth ganglion" EXACT [ZFA:0000295] synonym: "gV" RELATED [] synonym: "ganglion of trigeminal nerve" RELATED [BTO:0001231] synonym: "ganglion trigeminale" RELATED [BTO:0001231] synonym: "ganglion trigeminale, ganglion semilunare" RELATED LATIN [Wikipedia:Trigeminal_ganglion] synonym: "semilunar ganglion" EXACT [ISBN10:0471888893] synonym: "trigeminal V ganglion" EXACT [MA:0001080] synonym: "trigeminal ganglia" RELATED PLURAL [] synonym: "trigeminus ganglion" RELATED [] xref: AAO:0011107 xref: BTO:0001231 xref: EFO:0000903 xref: EHDAA2:0002085 xref: EHDAA:2113 xref: EMAPA:16797 xref: FMA:52618 xref: GAID:725 xref: MA:0001080 xref: MAT:0000511 xref: MESH:A08.340.390.850 xref: SCTID:244449009 xref: TAO:0000295 xref: UMLS:C0040995 xref: VHOG:0000694 xref: XAO:0000427 xref: XAO:0000428 xref: ZFA:0000295 xref: http://upload.wikimedia.org/wikipedia/commons/6/69/Gray776.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/69/Gray776.png/200px-Gray776.png xref: ncithesaurus:Trigeminal_Ganglion is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0001800 ! sensory ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003070 ! trigeminal placode relationship: develops_from UBERON:0005563 ! trigeminal neural crest property_value: external_definition "A prominent collection of touch-sensory neurons of the trigeminal or fifth cranial nerve, positioned beside the brain between the eye and the ear. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0001676 name: occipital bone namespace: uberon def: "A saucer-shaped membrane bone situated at the back and lower part of the cranium, is trapezoid in shape and curved on itself. It is pierced by a large oval aperture, the foramen magnum, through which the cranial cavity communicates with the vertebral canal." [Wikipedia:Occipital_bone] comment: Taxon notes: fusion of basi-, exo- and supra-occipitals (and maybe tabular)[Kardong]. Development notes: formed from the sclerotome of the occipital somites[PMID:11523816]. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the an- nexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII[PMID:11523816] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "occipital complex" RELATED [http://palaeos.com/vertebrates/bones/braincase/occiput.html] synonym: "occipital squama" RELATED [] synonym: "os occipitale" RELATED LATIN [Wikipedia:Occipital_bone] xref: EMAPA:25112 xref: FMA:52735 xref: GAID:227 xref: MA:0001468 xref: MESH:A02.835.232.781.572 xref: OpenCyc:Mx4rwQtsiZwpEbGdrcN5Y29ycA xref: SCTID:181796003 xref: UMLS:C0028784 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Gray194.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Gray194.png/200px-Gray194.png xref: ncithesaurus:Occipital_Bone is_a: UBERON:0010428 ! flat bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0003089 ! sclerotome relationship: overlaps UBERON:0002241 ! chondrocranium relationship: overlaps UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0005902 ! occipital region [Term] id: UBERON:0001677 name: sphenoid bone namespace: uberon def: "an unpaired bone situated at the base of the skull in front of the temporal bone and basilar part of the occipital bone. The sphenoid bone is one of the seven bones that articulate to form the orbit. Its shape somewhat resembles that of a butterfly or bat with its wings extended." [Wikipedia:Sphenoid_bone] comment: part of viscerocranium in FMA, part of chondrocranium in MA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "butterfly bone" RELATED [Wikipedia:Sphenoid_bone] synonym: "os sphenoidale" EXACT LATIN [FMA:52736, FMA:TA, Wikipedia:Sphenoid_bone] synonym: "os sphenoidum" RELATED [Wikipedia:Sphenoid_bone] synonym: "sphenoid" EXACT [] synonym: "sphenoid complex" RELATED [] synonym: "sphenoidal bone" EXACT [] xref: EMAPA:18340 xref: FMA:52736 xref: GAID:230 xref: MA:0001472 xref: MESH:A02.835.232.781.802 xref: OpenCyc:Mx4rwAU9XpwpEbGdrcN5Y29ycA xref: SCTID:272676008 xref: UMLS:C0037884 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Illu_cranial_bones2.jpg/200px-Illu_cranial_bones2.jpg xref: ncithesaurus:Sphenoid_Bone is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0008193 ! pneumatized bone relationship: develops_from UBERON:0009193 ! sphenoid bone cartilage condensation relationship: overlaps UBERON:0002241 ! chondrocranium relationship: overlaps UBERON:0003113 ! dermatocranium relationship: overlaps UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0001678 name: temporal bone namespace: uberon def: "The temporal bones are situated at the sides and base of the skull, and lateral to the temporal lobes of the cerebrum." [Wikipedia:Temporal_bone] comment: The temporal bone consists of four parts: * Squama temporalis * Mastoid portion * Petrous portion (Petrosal ridge) * Tympanic part[WP]. AO notes: Note the Temporal bone is not explicitly categorized to a part of the cranium in FMA. Taxon notes: fusion of squamosal + angular (tympanic annulus) [derm.] + petrosal (prootic + opisthotic)[chond.] + styloid process[splanc.] // In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "os temporale" RELATED LATIN [Wikipedia:Temporal_bone] xref: EHDAA:6035 xref: EMAPA:17682 xref: EMAPA:18020 xref: FMA:52737 xref: GAID:232 xref: MA:0001476 xref: MESH:A02.835.232.781.885 xref: OpenCyc:Mx4rvbkAk5wpEbGdrcN5Y29ycA xref: SCTID:181795004 xref: UMLS:C0039484 xref: VHOG:0000800 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Illu_cranial_bones2.jpg/200px-Illu_cranial_bones2.jpg xref: ncithesaurus:Temporal_Bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008193 ! pneumatized bone relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: overlaps UBERON:0002241 ! chondrocranium relationship: overlaps UBERON:0003113 ! dermatocranium relationship: overlaps UBERON:0008895 ! splanchnocranium [Term] id: UBERON:0001679 name: ethmoid bone namespace: uberon def: "a bone in the skull that separates the nasal cavity from the brain. As such, it is located at the roof of the nose, between the two orbits. The cubical bone is lightweight due to a spongy construction. The ethmoid bone is one of the bones that makes up the orbit of the eye[WP]" [Wikipedia:Ethmoid_bone] comment: AO notes: Note the WP states the Neurocranium contains the ethmoid bone, both MA and FMA place the ethmoid as part of the viscerocranium. FMA also has it in neurocranium (via basicranium). Ideally we would have non-overlapping divisions of the skull, but for now we follow FMA. Taxon notes: todo - homology e.g. mesethmoid of teleost subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ethmoid" EXACT [FMA:52740] synonym: "ethmoidal bone" EXACT [MP:0000101] synonym: "os ethmoidale" EXACT LATIN [FMA:52740, FMA:TA, Wikipedia:Ethmoid] xref: BTO:0004140 xref: EMAPA:19018 xref: FMA:52740 xref: GAID:212 xref: MA:0001483 xref: MESH:A02.835.232.781.292 xref: OpenCyc:Mx4rvuUPh5wpEbGdrcN5Y29ycA xref: SCTID:272674006 xref: UMLS:C0015027 xref: VHOG:0001317 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg xref: ncithesaurus:Ethmoid_Bone is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0006227 ! ethmoid bone primordium relationship: part_of UBERON:0002517 ! basicranium relationship: part_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0011241 ! ethmoid region property_value: external_definition "A light spongy bone located between the eye sockets, forming part of the walls and septum of the superior nasal cavity, and containing perforations for the passage of olfactory nerve fibers. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "ethmoidal" xsd:string property_value: homology_notes "The ethmoid region of the chondrocranium and the nasal capsules, which were largely unossified in early tetrapods and ancestral amniotes, are represented in mammals by the ethmoid and turbinates bones, respectively.[well established][VHOG]" xsd:string [Term] id: UBERON:0001680 name: lacrimal bone namespace: uberon def: "the smallest and most fragile bone of the face, is situated at the front part of the medial wall of the orbit. It has two surfaces and four borders. In early lobe-finned fishes and ancestral tetrapods, the lacrimal bone is a relatively large and robust bone, running from the orbit to the nostrils. It forms part of the side of the face, between the nasal bones and the maxilla. In primitive forms, it is often accompanied by a much smaller septomaxilla bone, lying immediately behind the nasal opening, but this is lost in most modern species. The lacrimal bone is often smaller in living vertebrates, and is no longer always directly associated with the nasal opening, although it retains its connection with the orbit. The bone is entirely absent in living amphibians, as well as some reptilian species." [Wikipedia:Lacrimal_bone] comment: In early lobe-finned fishes and ancestral tetrapods, the lacrimal bone is a relatively large and robust bone, running from the orbit to the nostrils. It forms part of the side of the face, between the nasal bones and the maxilla. In primitive forms, it is often accompanied by a much smaller septomaxilla bone, lying immediately behind the nasal opening, but this is lost in most modern species. The lacrimal bone is often smaller in living vertebrates, and is no longer always directly associated with the nasal opening, although it retains its connection with the orbit. The bone is entirely absent in living amphibians, as well as some reptilian species[WP, ISBN 0-03-910284-X] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "infraorbital 1" RELATED SENSU [TODO:TODO, VHOG:0001149, ZFA:0000223] synonym: "lachrymal bone" EXACT [] synonym: "lachrymal bone - infraorbital 1" RELATED [VHOG:0001149] synonym: "lacrimal" BROAD [] synonym: "lacrimal - infraorbital 1" RELATED [VHOG:0001149] synonym: "lacrymal bone" EXACT [] synonym: "lacrymal bone - infraorbital 1" RELATED [VHOG:0001149] synonym: "os lacrimale" RELATED LATIN [Wikipedia:Lacrimal_bone] xref: FMA:52741 xref: MA:0001486 xref: SCTID:272675007 xref: UMLS:C0222733 xref: VHOG:0001149 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray164.png xref: ncithesaurus:Lacrimal_Bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: overlaps UBERON:0001697 ! orbital region relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011156 ! facial skeleton property_value: dubious_for_taxon NCBITaxon:8292 property_value: homology_notes "The infraorbital bone 1 of actinopterygians is homologous with the lacrimal bone (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001681 name: nasal bone namespace: uberon def: "One of two small oblong bones, varying in size and form in different individuals; they are placed side by side at the middle and upper part of the face, and form, by their junction, 'the bridge' of the nose[WP]. Paired dermal bones, likened to a bone tube, positioned lateral to the supraethmoid. Nasal bones are transversed by the anterior most part of the supraorbital canals and bear one neuromast foramen in zebrafish[ZFA]." [Wikipedia:Nasal_bone, ZFIN:curator] comment: Taxon notes: In primitive bony fish and tetrapods, the nasal bones are the most anterior of a set of four paired bones forming the roof of the skull, being followed in sequence by the frontals, the parietals, and the postparietals. Their form in living species is highly variable, depending on the shape of the head, but they generally form the roof of the snout or beak, running from the nostrils to a position short of the orbits. In most animals, they are generally therefore proportionally larger than in humans or great apes, because of the shortened faces of the latter. Turtles, unusually, lack nasal bones, with the prefrontal bones of the orbit reaching all the way to the nostrils (ISBN 0-03-910284-X) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adnasal@fr" RELATED [TAO:0000365] synonym: "nasal@fr" RELATED [TAO:0000365] synonym: "nasals" RELATED PLURAL [TAO:0000365] synonym: "os nasale" RELATED LATIN [Wikipedia:Nasal_bone] xref: AAO:0000312 xref: EMAPA:19202 xref: FMA:52745 xref: GAID:222 xref: MA:0001494 xref: MESH:A02.835.232.781.324.665 xref: OpenCyc:Mx4rwGOTZJwpEbGdrcN5Y29ycA xref: SCTID:181801008 xref: TAO:0000365 xref: UMLS:C0027422 xref: VHOG:0001370 xref: ZFA:0000365 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Illu_facial_bones.jpg/200px-Illu_facial_bones.jpg xref: ncithesaurus:Nasal_Bone is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0010428 ! flat bone relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011156 ! facial skeleton property_value: axiom_lost_from_external_ontology "relationship loss: overlaps mesethmoid-nasal joint (TAO:0001677)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" xsd:string property_value: external_comment "Synonym adnasal used in Weitzman 1960, and synonym discussed in Vari 1995.[TAO]" xsd:string property_value: external_definition "Paired bone of intramembranous origin that roofs the olfactory capsule.[AAO]" xsd:string property_value: external_definition "Paired dermal bones, likened to a bone tube, positioned lateral to the supraethmoid. Nasal bones are transversed by the anterior most part of the supraorbital canals and bear one neuromast foramen in zebrafish Cubbage and Mabee, 1996.[TAO]" xsd:string [Term] id: UBERON:0001682 name: palatine bone namespace: uberon def: "A paired dermal bone situated in the mid-palate[Palaeos]." [Wikipedia:Palatine_bone, http://palaeos.com/vertebrates/bones/dermal/palatal-palatines.html] comment: Fusion of dermopalatine+autopalatine. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dermopalatine" NARROW [http://palaeos.com/vertebrates/glossary/glossaryD.html] synonym: "os palatinum" RELATED LATIN [] synonym: "palate bone" RELATED [] synonym: "palatine" EXACT [] synonym: "palatum" RELATED [Wikipedia:Palatine_bone] xref: FMA:52746 xref: MA:0001495 xref: SCTID:244654005 xref: TAO:0000015 xref: UMLS:C0222734 xref: http://palaeos.com/vertebrates/bones/dermal/images/289x311xPalatine1.gif.pagespeed.ic.tglmNBrF4D.png xref: http://upload.wikimedia.org/wikipedia/commons/4/44/Gray996.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/44/Gray996.png/200px-Gray996.png xref: ncithesaurus:Palatine_Bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone is_a: UBERON:0008907 ! dermal bone is_a: UBERON:0012071 ! palate bone relationship: connected_to UBERON:0002397 ! maxilla relationship: develops_from UBERON:0000924 ! ectoderm relationship: develops_from UBERON:0002342 ! neural crest relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: in_lateral_side_of UBERON:0012072 ! palatal part of dermatocranium relationship: part_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0012072 ! palatal part of dermatocranium property_value: never_in_taxon NCBITaxon:32519 property_value: external_comment "Dermopalatine: same as palatine. The prefix is used by fish people because the palatine is a dermal replacement bone for a section of the autopalatine section of the palatoquadrate. In that context, palatine is potentially ambiguous.[Palaeos]" xsd:string property_value: external_comment "In ostariophysans, the dermopalatine is absent.[TAO]" xsd:string property_value: external_definition "Dermal bone that forms the antero-lateral region of the palate and is located ventral to the autopalatine. The dermopalatine is bilaterally paired and usually bears teeth.[TAO]" xsd:string [Term] id: UBERON:0001683 name: jugal bone namespace: uberon def: "The zygomatic bone is a paired dermal bone which articulates with the maxilla. In humans it also articulates with the temporal bone, the sphenoid bone and the frontal bone. The zygomatic is homologous to the jugal bone of other tetrapods. It is situated at the upper and lateral part of the face and forms the prominence of the cheek, part of the lateral wall and floor of the orbit, and parts of the temporal and infratemporal fossae. It presents a malar and a temporal surface; four processes, the frontosphenoidal, orbital, maxillary, and temporal; and four borders[WP,modified]." [Wikipedia:Jugal_bone, Wikipedia:Zygomatic_bone] comment: Taxon notes: vHOG says is homologous to infraorbital 3. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cheek bone" EXACT [] synonym: "jugal" RELATED [Wikipedia:Zygomatic_bone] synonym: "jugal bone" RELATED [GAID:225, Wikipedia:Zygomatic_bone] synonym: "jugale" RELATED SENSU [] synonym: "malar bone" EXACT [FMA:52747] synonym: "orbital bone" EXACT [] synonym: "os zygomaticum" EXACT LATIN [FMA:52747, FMA:TA, Wikipedia:Zygomatic_bone] synonym: "os zygomaticus" RELATED [Wikipedia:Zygomatic_bone] synonym: "zygoma" RELATED [GAID:225, Wikipedia:Zygomatic_bone] synonym: "zygomatic" RELATED [] synonym: "zygomatic bone" EXACT [MA:0001497] xref: EMAPA:25111 xref: FMA:52747 xref: GAID:225 xref: MA:0001497 xref: SCTID:272683001 xref: VHOG:0001638 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray164.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2d/Gray164.png/200px-Gray164.png is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: overlaps UBERON:0001697 ! orbital region relationship: part_of UBERON:0001567 ! cheek relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011156 ! facial skeleton property_value: external_definition "The jugal is a skull bone found in most reptiles, amphibians, and birds. In mammals, the jugal is often called the malar or Zygomatic. It is connected to the quadratojugal and maxilla, as well as other bones, which may vary by species. This bone is considered key in the determination of general traits of the skull, in the case of creatures, as with dinosaurs in paleontology, whose entire skull has not been found[Wikipedia:Jugal_bone]." xsd:string property_value: external_definition "The zygomatic bone is a paired dermal bone which articulates with the maxilla. In humans it also articulates with the temporal bone, the sphenoid bone and the frontal bone. The zygomatic is homologous to the jugal bone of other tetrapods. It is situated at the upper and lateral part of the face and forms the prominence of the cheek, part of the lateral wall and floor of the orbit, and parts of the temporal and infratemporal fossae. It presents a malar and a temporal surface; four processes, the frontosphenoidal, orbital, maxillary, and temporal; and four borders[WP,modified][Wikipedia:Zygomatic_bone]." xsd:string property_value: homology_notes " (...) and the infraorbital bone 3 of advanced actinopterygians (is homologous) with the jugal bone of sarcopterygians.[well established][VHOG]" xsd:string [Term] id: UBERON:0001684 name: mandible namespace: uberon def: "A dentary bone that is the only bone in one of the lateral halves of the lower jaw skeleton." [Wikipedia:Human_mandible, Wikipedia:Mandible] comment: Editor notes: consider merging with dentary - for now we make it a mammal-specific subclass. Terminology notes: 'mandible' also refers to either the upper OR lower part of the beak in birds. AO notes: Note in ZFA 'mandible' is a syn for the ventral mandibular arch, which is a portion of the 1st pharyngeal arch; however the term 'mandibular symphysis' refers to the dentary subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior maxillary bone" EXACT [] synonym: "lower jaw" BROAD SENSU [] synonym: "lower jaw bone" BROAD SENSU [] synonym: "lower mandibula" NARROW SENSU [Wikipedia:Mandible] synonym: "mammaliam mandible" EXACT [] synonym: "mandibula" RELATED LATIN [BTO:0001748, Wikipedia:Human_mandible] synonym: "mandibular series" RELATED [ZFA:0001273] synonym: "mandibulla" EXACT [] xref: BTO:0001748 xref: EFO:0001965 xref: EHDAA2:0001059 xref: EHDAA:8007 xref: EMAPA:18290 xref: FMA:52748 xref: GAID:68 xref: MA:0001487 xref: MESH:A02.835.232.781.324.502.632 xref: SCTID:181812008 xref: UMLS:C0024687 xref: galen:Mandible xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray176.png/200px-Gray176.png xref: ncithesaurus:Mandible is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0004742 ! dentary property_value: has_relational_adjective "mandibular" xsd:string [Term] id: UBERON:0001685 name: hyoid bone namespace: uberon def: "The hyoid bone (lingual bone) (Latin os hyoideum) is a horseshoe shaped bone situated in the anterior midline of the neck between the chin and the thyroid cartilage. At rest, it lies at the level of the base of the mandible in the front and the third cervical vertebra behind. It is the only bone in the human skeleton not articulated to any other bone. It is held in place by thyroid ligaments. The hyoid bone provides attachment to the muscles of the floor of the mouth and the tongue above, the larynx below, and the epiglottis and pharynx behind. Its name is derived from the Greek word hyoeides meaning 'shaped like the letter upsilon' (O). [WP,unvetted]." [Wikipedia:Hyoid_bone] comment: Taxon notes: The hyoid bone is derived from the lower half of the second gill arch in fish, which separates the first gill slit from the spiracle. In many animals, it also incorporates elements of other gill arches, and has a correspondingly greater number of cornua. Amphibians and reptiles may have many cornua, while mammals (including humans) have two pairs, and birds only one. In birds, and some reptiles, the body of the hyoid is greatly extended forward, creating a solid bony support for the tongue. The howler monkey Alouatta has a pneumatized hyoid bone, one of the few cases of postcranial pneumatization of bones outside Saurischia.[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hyoid" RELATED [Wikipedia:Hyoid_bone] synonym: "hyoid bone" RELATED [Wikipedia:Hyoid_bone] synonym: "hyoideum" RELATED [Wikipedia:Hyoid_bone] synonym: "lingual bone" RELATED [Wikipedia:Hyoid_bone] synonym: "os hyoideum" RELATED LATIN [Wikipedia:Hyoid_bone] xref: AAO:0000684 xref: EMAPA:18650 xref: EMAPA:18840 xref: FMA:52749 xref: GAID:197 xref: MA:0001484 xref: MESH:A02.835.232.409 xref: SCTID:263352000 xref: UMLS:C0020417 xref: VHOG:0001325 xref: http://upload.wikimedia.org/wikipedia/commons/1/1f/Gray186.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1f/Gray186.png/200px-Gray186.png xref: ncithesaurus:Hyoid_Bone is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone relationship: has_developmental_contribution_from UBERON:0003066 ! pharyngeal arch 2 relationship: has_developmental_contribution_from UBERON:0003114 ! pharyngeal arch 3 relationship: part_of UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0010272 ! hyoid apparatus property_value: axiom_lost_from_external_ontology "relationship loss: part_of hyoid plate (AAO:0000664)[AAO]" xsd:string property_value: external_definition "Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO]" xsd:string [Term] id: UBERON:0001686 name: auditory ossicle namespace: uberon def: "One of 3 small bones contained within the middle ear space and serve to transmit sounds from the air to the fluid-filled labyrinth. The absence of the auditory ossicles would constitute a moderate-to-severe hearing loss. The term 'ossicles' literally means 'tiny bones' and commonly refers to the auditory ossicles, though the term may refer to any small bone throughout the body. [WP,unvetted]." [Wikipedia:Auditory_ossicle] comment: Taxon and editor notes: This should probably be restricted to mammals - the AAO/XAO structures may group non-homologous structures [Wikipedia:Evolution_of_mammalian_auditory_ossicles] see https://github.com/seger/aao/issues/5. Development notes: Studies have shown that ear bones in mammal embryos are attached to the dentary, which is part of the jaw. These are ossified portions of cartilage -- called Meckel's cartilage -- that are attached to the jaw. As the embryo develops, the cartilage hardens to form bone. Later in development, the bone structure breaks loose from the jaw and migrates to the inner ear area. The structure is known as the middle ear, and is made up of the incus, stapes, malleus, and tympanic membrane. These correspond to the quadrate, prearticular, articular, and angular structures in the reptile jaw. For this reason, researchers believe the similarity of the results shows that mammals and reptiles have a common ancestry.[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auditory bone" EXACT [] synonym: "auditory ossicle" RELATED [MA:0000254] synonym: "ear bone" RELATED [MA:0000254] synonym: "ear ossicle" RELATED [] synonym: "ear ossicles" RELATED PLURAL [] synonym: "middle ear bone" RELATED [] synonym: "middle ear ossicle" EXACT [MP:0005105] synonym: "ossicle" BROAD [EMAPA:17824, Wikipedia:Auditory_ossicle] synonym: "ossicle of ear" RELATED [] synonym: "ossicle of inner ear" RELATED [] synonym: "ossicular chain" RELATED PLURAL [] xref: AAO:0011015 xref: EHDAA2:0001183 xref: EHDAA:5697 xref: EMAPA:17824 xref: EV:0100360 xref: FMA:52750 xref: MA:0000254 xref: SCTID:181184001 xref: UMLS:C0013450 xref: VHOG:0000461 xref: XAO:0000214 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b0/Illu_auditory_ossicles.jpg/200px-Illu_auditory_ossicles.jpg xref: ncithesaurus:Auditory_Ossicle is_a: UBERON:0003457 ! head bone is_a: UBERON:0008001 ! irregular bone is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003099 ! cranial neural crest relationship: part_of UBERON:0001756 ! middle ear relationship: part_of UBERON:0008895 ! splanchnocranium property_value: external_definition "The small bones of the middle ear: incus, malleus, and stapes. [TFD][VHOG]" xsd:string property_value: homology_notes "Additional structural analysis within a phylogenetic context has led to the remarkable discovery that in synapsids, thought to be ancestral to mammals, both the quadrate and articular have become reduced and less firmly articulated with their surrounding bones, reducing their jaw-joint-bearing role. This trend culminated with the incorporation of the quadrate, the columella (which remains articulated with the quadrate), and the articular into the expanded middle ear in mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0001687 name: stapes namespace: uberon def: "The stapes or stirrup is the stirrup-shaped small bone or ossicle in the middle ear which is attached to the incus laterally and to the fenestra ovalis, the 'oval window' medially. The oval window is adjacent to the vestibule of the inner ear. The stapes is the smallest and lightest bone in the human body. The stapes transmits the sound vibrations from the incus to the membrane of the inner ear inside the fenestra ovalis. The stapes is also stabilized by the stapedius muscle, which is innervated by the facial nerve. In non-mammalian vertebrates, the bone homologous to the stapes is usually called the columella; however, in reptiles, either term may be used[WP,unvetted]." [Wikipedia:Stapes, doi:10.1111/j.1469-7580.2005.00441.x] comment: Editor notes: Consider adding classes for homologs; we do not include a class for hyomandibula in uberon, no need to generalize the TAO/ZFA class. Taxon notes (via VHOG): \"This structure [the hyomandibular], on ontogenic grounds alone, can be considered homologous with the amphibian and reptilian columella and the mammalian stapes.\" Gerrie J, The phylogeny of the mammalian tympanic cavity and auditory ossicles. The Journal of Laryngology and Otology (1948) 62:339-357? Development notes: As the stapes first develops embryologically from the 6th to 8th week of life, it surrounds the stapedial artery, which supplies the majority of the vasculature of the embryonic head. After that period, the external carotid artery is generated and takes over for the stapedial artery, which subsequently involutes, leaving the stapes with a windowframe-like structure[WP] The stapes develops at the cranial end of the second branchial arch through an independent anlage of the cartilage of this arch. Between the stapedial anlage and the cranial end of the Reichert's cartilage there is a formation called the interhyale, the internal segment of which gives rise to the tendon of the stapedial muscle. The stapedial anlage is a unique formation with two distinct parts: the superior part that will comprise the base and the inferior part that will be crossed by the stapedial artery during embryonic development and will constitute the limbs and the head of the stapes. According to the results, the otic capsule is not involved in formation of the base of the stapes.[doi:10.1111/j.1469-7580.2005.00441.x] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "columella" RELATED SENSU [Wikipedia:Stapes] synonym: "columella auris" RELATED [AAO:0000580] synonym: "columellare" RELATED [AAO:0000580] synonym: "interstapediale" RELATED [AAO:0000580] synonym: "mediostapediale" RELATED [AAO:0000580] synonym: "mesostapediale" RELATED [AAO:0000580] synonym: "os columellare" RELATED [AAO:0000580] synonym: "os intermedium" RELATED [AAO:0000580] synonym: "stapellos" RELATED LATIN [Wikipedia:Stapes] synonym: "stapes" RELATED [AAO:0000580] synonym: "stelidium" RELATED [AAO:0000580] synonym: "stilus columellare" RELATED [AAO:0000580] synonym: "stirrup" EXACT [] xref: EMAPA:18585 xref: FMA:52751 xref: GAID:868 xref: MA:0001217 xref: MESH:A09.246.397.247.806 xref: OpenCyc:Mx4rv5UnkZwpEbGdrcN5Y29ycA xref: SCTID:264199009 xref: UMLS:C0038152 xref: VHOG:0000688 xref: http://upload.wikimedia.org/wikipedia/commons/c/c1/Gray918.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c1/Gray918.png/200px-Gray918.png xref: ncithesaurus:Stapes is_a: UBERON:0001686 ! auditory ossicle is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0004368 ! Reichert's cartilage relationship: develops_from UBERON:0010055 ! stapes cartilage condensation relationship: homologous_to UBERON:0011606 ! hyomandibular bone disjoint_from: UBERON:0008283 ! columnella property_value: homology_notes "This structure (the hyomandibular), on ontogenic grounds alone, can be considered homologous with the amphibian and reptilian columella and the mammalian stapes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001688 name: incus namespace: uberon def: "The incus or anvil is the anvil-shaped small bone or ossicle in the middle ear. It connects the malleus to the stapes. It was first described by Alessandro Achillin of Bologna. The incus transmits sound vibrations from the malleus to the stapes. The incus only exists in mammals, and is derived from a reptilian upper jaw bone, the quadrate bone. Embryologically it is derived from the first pharyngeal arch along with the rest of the bones of mastication, such as the maxilla and mandible. [WP,unvetted]." [Wikipedia:Incus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "quadrate - incus" BROAD [VHOG:0000689] xref: EMAPA:18583 xref: FMA:52752 xref: GAID:866 xref: MA:0001215 xref: MESH:A09.246.397.247.362 xref: SCTID:272649008 xref: UMLS:C0021181 xref: VHOG:0000689 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Gray917.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Gray917.png/200px-Gray917.png xref: ncithesaurus:Incus is_a: UBERON:0001686 ! auditory ossicle is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: develops_from UBERON:0007374 ! incus cartilage condensation relationship: homologous_to UBERON:0006597 ! quadrate bone property_value: homology_notes "According to this theory (Reichert-Gaupp theory), the mammalian stapes is derived from the reptilian columella, the incus from the quadrate and the malleus from the articular (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001689 name: malleus namespace: uberon def: "The malleus or hammer is a hammer-shaped small bone or ossicle of the middle ear which connects with the incus and is attached to the inner surface of the eardrum. The word is Latin for hammer. It transmits the sound vibrations from the eardrum to the incus. The malleus is unique to mammals, and evolved from a lower jaw bone in basal amniotes called the articular, which still forms part of the jaw joint in reptiles. Embryologically it is derived from the first pharyngeal arch along with the rest of the bones of mastication, such as the maxilla and mandible. [WP,unvetted]." [Wikipedia:Malleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Malleus" RELATED LATIN [Wikipedia:Malleus] xref: EMAPA:18584 xref: FMA:52753 xref: GAID:867 xref: MA:0001216 xref: MESH:A09.246.397.247.524 xref: SCTID:264090005 xref: UMLS:C0024631 xref: VHOG:0000690 xref: http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray916.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Gray916.png/200px-Gray916.png xref: ncithesaurus:Malleus is_a: UBERON:0001686 ! auditory ossicle is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0003107 ! Meckel's cartilage relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: develops_from UBERON:0010054 ! malleus cartilage condensation property_value: homology_notes "According to this theory (Reichert-Gaupp theory), the mammalian stapes is derived from the reptilian columella, the incus from the quadrate and the malleus from the articular (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001690 name: ear namespace: uberon def: "Sense organ in vertebrates that is specialized for the detection of sound, and the maintenance of balance. Includes the outer ear and middle ear, which collect and transmit sound waves; and the inner ear, which contains the organs of balance and (except in fish) hearing. Also includes the pinna, the visible part of the outer ear, present in some mammals." [GO:0042471, Wikipedia:Ear] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auditory apparatus" RELATED [] synonym: "auris" RELATED [BTO:0000368] xref: AAO:0011014 xref: BTO:0000368 xref: EFO:0000826 xref: EHDAA2:0000423 xref: EHDAA:502 xref: EMAPA:16193 xref: EV:0100353 xref: FMA:52780 xref: GAID:62 xref: MA:0000236 xref: MAT:0000138 xref: MESH:A01.456.313 xref: MIAA:0000138 xref: NIF_GrossAnatomy:birnlex_1062 xref: OpenCyc:Mx4rvViXS5wpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rvVjL05wpEbGdrcN5Y29ycA xref: SCTID:1910005 xref: UMLS:C0013443 xref: VHOG:0000330 xref: XAO:0000189 xref: galen:Ear xref: http://upload.wikimedia.org/wikipedia/commons/b/b8/Ear.jpg xref: ncithesaurus:Ear is_a: UBERON:0000020 ! sense organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: capable_of GO:0050910 ! detection of mechanical stimulus involved in sensory perception of sound relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0002105 ! vestibulo-auditory system property_value: external_definition "The organ of hearing and of equilibrium. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "auricular" xsd:string property_value: homology_notes "Both vertebrate and invertebrate auditory organs are thought to have evolved from primitive mechanosensors, but the nature of the ancestral structure and the evolutionary trajectories followed in distinct animal lineages remain unknown. In particular, we do not know how many types of mechanosensor existed in the protostome-deuterostome ancestor from which insects and vertebrates evolved or whether the PDA had an auditory organ.[well established][VHOG]" xsd:string [Term] id: UBERON:0001691 name: external ear namespace: uberon def: "Part of the ear external to the tympanum (eardrum). It consists of a tube (the external auditory meatus) that directs sound waves on to the tympanum, and may also include the external pinna, which extends beyond the skull[GO]." [GO:0042473, Wikipedia:External_ear] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auricular region" BROAD [] synonym: "auricular region of head" EXACT [] synonym: "auris externa" RELATED [BTO:0002100] synonym: "outer ear" EXACT [] xref: AAO:0011037 xref: BTO:0002100 xref: EFO:0004221 xref: EHDAA2:0000462 xref: EHDAA:3786 xref: EMAPA:16991 xref: EV:0100354 xref: FMA:52781 xref: GAID:104 xref: MA:0000258 xref: MAT:0000147 xref: MESH:A09.246.272 xref: MIAA:0000147 xref: NIF_GrossAnatomy:birnlex_1705 xref: OpenCyc:Mx4rwOHtXJwpEbGdrcN5Y29ycA xref: SCTID:181176000 xref: UMLS:C0013453 xref: VHOG:0000311 xref: XAO:0000190 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Gray907.png/200px-Gray907.png xref: ncithesaurus:External_Ear is_a: UBERON:0001444 ! subdivision of head relationship: in_lateral_side_of UBERON:0000033 ! head relationship: part_of UBERON:0001690 ! ear disjoint_from: UBERON:0006618 ! atrium auricular region property_value: never_in_taxon NCBITaxon:9709 property_value: external_definition "The external part of the organ, which consists of an outer portion (external auditory meatus) which leads to the tympanum. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "Some species, like Amolops tormotus (Feng etB al. 2006), have a cavity in front of the tympanic membrane which is considered to be an ear canal and thus an outer ear. (...) The ancestral lineage of amphibians separated from the mammalian lineage, approximately 350 million years ago, in the paleozoic era. Many of the important developments in the auditory systems emerged after the ancestral paths separated (Manley and Clack 2003). This implies that shared features, like the tympanic middle ear, developed independently in different vertebrate lineages.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001692 name: basioccipital bone namespace: uberon def: "One of the bones of the occiput, the part of the skull which articulates with the spine. The basioccipital is located (if present) ventral to the foramen magnum. It often rests on or articulates with the basisphenoid, as well as meeting the exoccipitals. The basioccipital usually forms most (sometimes all) of the occipital condyle(s) and the ventral margin of the foramen magnum." [Wikipedia:Basilar_part_of_occipital_bone, http://palaeos.com/vertebrates/glossary/glossaryB.html] comment: TODO - check FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "basi-occipital" EXACT [] synonym: "basilar part of occipital bone" EXACT [] synonym: "basinial@fr" RELATED [TAO:0000472] synonym: "basinioste@fr" RELATED [TAO:0000472] synonym: "basioccipital" EXACT [] synonym: "basioccipital bone" EXACT [] synonym: "basioccipital@fr" RELATED [TAO:0000472] synonym: "pars basilaris ossis occipitalis" RELATED LATIN [Wikipedia:Basilar_part_of_occipital_bone] xref: AAO:0000039 xref: EMAPA:18705 xref: FMA:52858 xref: MA:0001462 xref: SCTID:138976007 xref: TAO:0000472 xref: VHOG:0001152 xref: ZFA:0000472 xref: http://upload.wikimedia.org/wikipedia/commons/c/c4/Parsbasilaris%28young%29.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c4/Parsbasilaris%28young%29.PNG/200px-Parsbasilaris%28young%29.PNG is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0006209 ! basioccipital cartilage condensation relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0002517 ! basicranium relationship: part_of UBERON:0005902 ! occipital region property_value: axiom_lost_from_external_ontology "relationship loss: overlaps basioccipital-exoccipital joint (TAO:0002038)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps parasphenoid-basioccipital joint (TAO:0001832)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: part_of neurocranium (UBERON:0001703)[TAO]" xsd:string property_value: external_comment "In some teleosts the anterior vertebral centra fuse to the basioccipital forming a monopartite occipital condyle.[TAO]" xsd:string property_value: external_definition "An unpaired medial bone contributing to the ventral margin of the foramen magnum that extends into the floor of the brain cavity. It can contribute to the centromedial portion of the occipital condyle.[AAO]" xsd:string property_value: external_definition "Chondral bone that articulates with the exoccipitals dorsally, the prootics anteriorly, the parasphenoid ventrally, and the first free vertebra posteriorly. The basioccipital forms the floor of the foramen magnum. The basioccipital is an unpaired medial bone.[TAO]" xsd:string [Term] id: UBERON:0001693 name: exoccipital bone namespace: uberon def: "Paired cartilage bone that bears a large foramen (lateral occipital foramen). Contacts the supraoccipital dorsally, the epiotic laterally and the basioccipital ventrally. Forms the posterior hind margin of the cranium and borders the lateral and posterior margins of the forum (foramen) magnum." [Wikipedia:Lateral_parts_of_occipital_bone, ZFIN:curator] comment: TODO - check FMA - currently we place this as both of a zone of bone organ and an (endochondral) bone. Removed endochondral bone classification for now, violates disjointness axiom subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "exoccipital" EXACT [FMA:52859] synonym: "exoccipital@fr" RELATED [TAO:0000661] synonym: "exoccipitals" EXACT PLURAL [TAO:0000661] synonym: "lateral part of occipital bone" EXACT [FMA:52859] synonym: "occipital latcC)ral@fr" RELATED [TAO:0000661] synonym: "pars lateralis" RELATED LATIN [Wikipedia:Lateral_parts_of_occipital_bone] synonym: "pleurinial@fr" RELATED [TAO:0000661] synonym: "pleurinioste@fr" RELATED [TAO:0000661] xref: AAO:0000147 xref: EMAPA:18708 xref: FMA:52859 xref: MA:0001464 xref: SCTID:139279001 xref: TAO:0000661 xref: VHOG:0001151 xref: ZFA:0000661 xref: http://upload.wikimedia.org/wikipedia/commons/b/bf/Gray131.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bf/Gray131.png/200px-Gray131.png is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0009635 ! parachordal cartilage relationship: develops_from UBERON:0010752 ! exoccipital cartilage condensation relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0005902 ! occipital region property_value: axiom_lost_from_external_ontology "relationship loss: develops_from occipital arch cartilage (TAO:0001504)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps basioccipital-exoccipital joint (TAO:0002038)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps prootic-exoccipital joint (TAO:0002034)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: part_of neurocranium (UBERON:0001703)[TAO]" xsd:string property_value: external_comment "In some teleosts the exoccipital dorsally contacts the supraoccipital directly or through connective tissue.[TAO]" xsd:string property_value: external_definition "Endochondral bone that articulates with the epiotic dorsally, the pterotic and intercalar laterally and the basioccipital medio-ventrally. The exoccipitals form the lateral borders of the foramen magnum and houses the foramina for the passage of the vagus and glossopharyngeal nerves, X and IX respectively. The exoccipital is a paired bone.[TAO]" xsd:string property_value: external_definition "Endochondral bone that forms the posterior end of the neurocranium and the margin of the foramen magnum. In addition, this bone forms either part of or all or the occipital condyle.[AAO]" xsd:string [Term] id: UBERON:0001694 name: petrous part of temporal bone namespace: uberon def: "The petrous portion of the temporal bone or pyramid is pyramidal and is wedged in at the base of the skull between the sphenoid and occipital bones. Directed medially, forward, and a little upward, it presents for examination a base, an apex, three surfaces, and three angles, and contains, in its interior, the essential parts of the organ of hearing. The petrous portion is among the most basal elements of the skull and forms part of the endocranium.[WP,unvetted]." [Wikipedia:Petrous_part_of_the_temporal_bone] comment: derivative of prootic and opisthotic subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars petrosa (os temporale)" EXACT [FMA:52871] synonym: "pars petrosa ossis temporalis" EXACT [] synonym: "petromastoid part of temporal bone" EXACT [FMA:52871] synonym: "petrosal" BROAD [VHOG:0001553] synonym: "petrosal bone" EXACT [FMA:52871] synonym: "petrous bone" EXACT [FMA:52871] synonym: "temporal bone petrous part" EXACT [] xref: EHDAA2:0001452 xref: EMAPA:17683 xref: FMA:52871 xref: GAID:234 xref: MA:0001477 xref: MESH:A02.835.232.781.885.681 xref: SCTID:361733004 xref: UMLS:C1261761 xref: VHOG:0001553 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/96/Gray137.png/200px-Gray137.png xref: ncithesaurus:Ciliary_Process is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001678 ! temporal bone relationship: part_of UBERON:0002517 ! basicranium property_value: external_definition "The petrosal bone arises from the two otic bones on the lateral wall of the chondrocranium and encases the inner ear of mammals. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, p.258, see_Liem_KF][VHOG]" xsd:string [Term] id: UBERON:0001695 name: squamous part of temporal bone namespace: uberon def: "A bone which is fused with the temporal bone in many mammals and forms part of the cheek region articulating with quadrate and pterygoid in other vertebrates." [MP:0004423, Wikipedia:Squama_temporalis, Wikipedia:Squamosal_bone] comment: Taxon notes: The squamosal bone, which is homologous with the squama, and forms the side of the cranium in many bony fish and tetrapods. Primitively, it is a flattened plate-like bone, but in many animals it is narrower in form, for example, where it forms the boundary between the two temporal fenestrae of diapsid reptiles. Editor notes: consider separate class for squamosal OR making squamosal the primary label synonym: "pars squamosa (os temporale)" EXACT [] synonym: "squama" RELATED [] synonym: "squama temporalis" EXACT LATIN [Wikipedia:Squama_temporalis] synonym: "squamosal" EXACT [AAO:0000574] synonym: "squamosal bone" EXACT [MA:0001473] synonym: "squamous bone" EXACT [] synonym: "temporal bone squamous part" EXACT [VHOG:0001561] xref: AAO:0000574 xref: EMAPA:18021 xref: FMA:52883 xref: MA:0001473 xref: SCTID:138672006 xref: VHOG:0001561 xref: http://upload.wikimedia.org/wikipedia/commons/e/eb/Skull_synapsida_1.png xref: http://upload.wikimedia.org/wikipedia/commons/f/fd/Gray144.png is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0010751 ! squamous part of temporal bone primordium relationship: part_of UBERON:0001678 ! temporal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0004339 ! vault of skull property_value: external_definition "Paired, intramembranous bones that lie at the posterolateral margins of the skull. Lateral and dorsal to the quadrate.[AAO]" xsd:string property_value: external_definition "The squamosal bone is part of the dermatocranium in early tetrapods and becomes part of the mammalian occipital and temporal bones. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Grande_L, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF, p.246, see_Liem_KF][VHOG]" xsd:string [Term] id: UBERON:0001697 name: orbital region namespace: uberon def: "Anatomical cluster that is a anterolateral part of the cranium and structurally supports the eye. Includes bones formed and located in sclerotic layer of eyeball." [TAO:0001410, Wikipedia:Orbit_(anatomy)] comment: AO notes: in FMA, this overlaps with bones such as the maxilla and sphenoid; in ZFA, individual bones are part of the orbit subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bony orbit" EXACT [] synonym: "eye socket" EXACT [] synonym: "orbit" RELATED [ZFA:0001410] synonym: "orbit of skull" EXACT [FMA:53074] xref: BTO:0004687 xref: FMA:53074 xref: GAID:223 xref: MA:0002482 xref: MESH:A02.835.232.781.324.690 xref: OpenCyc:Mx4rvW8EgZwpEbGdrcN5Y29ycA xref: TAO:0001410 xref: UMLS:C0029180 xref: XAO:0003171 xref: ZFA:0001410 xref: galen:Orbit xref: ncithesaurus:Orbit is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0010313 ! neural crest-derived structure relationship: encloses UBERON:0000019 ! camera-type eye relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0011156 ! facial skeleton property_value: external_definition "Anatomical cluster that is a anterolateral part of the cranium and structurally supports the eye.[TAO]" xsd:string [Term] id: UBERON:0001698 name: foramen ovale of skull namespace: uberon def: "one of the larger of the several holes at the base of the skull that transmit nerves through the skull. The foramen ovale is situated in the anterior part of the sphenoid bone, posteriolateral to the foramen rotundum.." [Wikipedia:Foramen_ovale_(skull)] synonym: "foramen ovale" NARROW [AAO:0000169, FMA:53155] synonym: "foramen ovale (skull)" EXACT [FMA:53155] synonym: "foramen ovale basis cranii" EXACT [galen:ForamenOvaleBasisCranii] synonym: "foramen ovale of chondrocranium" EXACT [EMAPA:18711] xref: AAO:0000169 xref: EHDAA2:0000551 xref: EHDAA:10627 xref: EMAPA:18711 xref: FMA:53155 xref: VHOG:0001189 xref: galen:ForamenOvaleBasisCranii is_a: UBERON:0005744 ! cranial conduit relationship: located_in UBERON:0001677 ! sphenoid bone relationship: part_of UBERON:0003129 ! skull disjoint_from: UBERON:0004754 ! foramen ovale of heart property_value: external_definition "An aperture in the great wing of the sphenoid for vessels and nerves. [TFD][VHOG]" xsd:string [Term] id: UBERON:0001699 name: sensory root of facial nerve namespace: uberon def: "The nervus intermedius, or intermediate nerve, is the part of the facial nerve (cranial nerve VII) located between the motor component of the facial nerve and the vestibulocochlear nerve (cranial nerve VIII). It contains the sensory and parasympathetic fibers of the facial nerve. Upon reaching the facial canal, it joins with the motor root of the facial nerve at the geniculate ganglion. [WP,unvetted]." [Wikipedia:Intermediate_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Wrisberg's nerve" EXACT [] synonym: "intermediate nerve" EXACT [] synonym: "nervus intermedius" EXACT LATIN [FMA:53410, FMA:TA] xref: FMA:53410 xref: SCTID:279927001 xref: TAO:0000679 xref: ZFA:0000679 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Gray788.png/200px-Gray788.png is_a: UBERON:0004674 ! facial nerve root is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0001700 name: geniculate ganglion namespace: uberon def: "The geniculate ganglion is an L-shaped collection of fibers and sensory neurons of the facial nerve located in the facial canal of the head. It receives fibers from the motor, sensory, and parasympathetic components of the facial nerve and sends fibers that will innervate the lacrimal glands, submandibular glands, sublingual glands, tongue, palate, pharynx, external auditory meatus, stapedius, posterior belly of the digastric muscle, stylohyoid muscle, and muscles of facial expression. Sensory and parasympathetic inputs are carried into the geniculate ganglion via the nervus intermedius. Motor fibers are carried via the facial nerve proper. The greater petrosal nerve, which carries sensory fibers as well as preganglionic parasympathetic fibers, emerges from the anterior aspect of the ganglion. The geniculate ganglion is one of several ganglia of the head and neck. Like the others, it is a bilaterally distributed structure, with each side of the face having a geniculate ganglion. [WP,unvetted]." [Wikipedia:Geniculate_ganglion] comment: Editor notes: resolve facial VII vs geniculate (see EHDAA2) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "facial VII ganglion" EXACT [MA:0001076] synonym: "facial ganglion" RELATED [ZFA:0001291] synonym: "gVII" EXACT [ZFA:0001291] synonym: "ganglion genicularum" EXACT [FMA:53414] synonym: "ganglion geniculi" RELATED [Wikipedia:Geniculate_ganglion] synonym: "ganglion geniculi nervi facialis" RELATED LATIN [Wikipedia:Geniculate_ganglion] synonym: "genicular ganglion" EXACT [FMA:53414, Wikipedia:Geniculate_ganglion] synonym: "geniculate" BROAD [Wikipedia:Geniculate_ganglion] synonym: "geniculate ganglion" RELATED [MA:0001076] synonym: "internal genu" RELATED [Wikipedia:Geniculate_ganglion] xref: EFO:0003669 xref: EHDAA2:0000491 xref: EHDAA2:0004623 xref: EHDAA:5567 xref: EHDAA:6644 xref: EMAPA:16983 xref: EMAPA:17569 xref: FMA:53414 xref: GAID:718 xref: MA:0001076 xref: MESH:A08.340.390.380 xref: SCTID:279076005 xref: TAO:0001291 xref: UMLS:C0017406 xref: VHOG:0000707 xref: ZFA:0001291 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray789.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray789.png/200px-Gray789.png xref: ncithesaurus:Geniculate_Ganglion is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0001800 ! sensory ganglion is_a: UBERON:0009127 ! epibranchial ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0005565 ! facio-acoustic neural crest relationship: develops_from UBERON:0009124 ! geniculate placode relationship: develops_from UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: develops_from UBERON:0012175 ! acoustico-facial VII-VIII ganglion complex property_value: homology_notes "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0001701 name: glossopharyngeal ganglion namespace: uberon def: "the group of neuron cell bodies associated with the ninth cranial nerve." [MP:0001096] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "gIX" RELATED [] synonym: "ganglion of glosspharyngeal nerve" EXACT [] synonym: "glossopharyngeal IX ganglion" EXACT [MA:0001077] synonym: "petrosal ganglion" NARROW [ZFA:0001301] xref: EHDAA2:0000710 xref: EHDAA:2838 xref: EMAPA:16795 xref: FMA:53471 xref: MA:0001077 xref: SCTID:244451008 xref: TAO:0001301 xref: VHOG:0000702 xref: ZFA:0001301 is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0009127 ! epibranchial ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0005491 ! glossopharyngeal neural crest relationship: develops_from UBERON:0009125 ! petrosal placode property_value: homology_notes "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0001702 name: eyelash namespace: uberon def: "An eyelash or simply lash is one of the hairs that grow at the edge of the eyelid. Eyelashes protect the eye from debris and perform some of the same function as whiskers do on a cat or a mouse in the sense that they are sensitive to being touched, thus providing a warning that an object is near the eye (which is then closed reflexively). The greek word for eyelash is \"blepharis\". This word is often used as a root in biological terms" [Wikipedia:Eyelash] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cilia" RELATED LATIN [Wikipedia:Eyelash] synonym: "hair of eyelid" RELATED [] xref: FMA:53669 xref: GAID:73 xref: MA:0002702 xref: MESH:A01.456.505.420.504.421 xref: OpenCyc:Mx4rvVi41pwpEbGdrcN5Y29ycA xref: SCTID:244201001 xref: UMLS:C0015422 xref: http://upload.wikimedia.org/wikipedia/commons/9/96/N2_Human_eye.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/96/N2_Human_eye.jpg/200px-N2_Human_eye.jpg xref: ncithesaurus:Eyelash is_a: UBERON:0001037 ! strand of hair relationship: attaches_to UBERON:0001711 ! eyelid [Term] id: UBERON:0001703 name: neurocranium namespace: uberon def: "Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof." [PMID:11523816, TAO:MAH, Wikipedia:Neuroranium, ZFA:0001580] comment: Development notes: The cartilaginous parts of the neurocranium undergo endochondral ossification in most species; ossification has been lost in cartilaginous fishes, but the cartilaginous condition of the skull of lampreys is considered to be primitive (Kardong, 1995)[PMID:11523816]. The neurocranium arises from paraxial mesoderm in the head (first five somites and the unsegmented somitomeres rostral to the first somite) and from ectoderm via the neural crest. In Chondrichthyes and other cartilaginous vertebrates this portion of the cranium does not ossify; it is not replaced via endochondral ossification[WP]. Composition notes: It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton[WP] AO notes: It seems MA uses 'neurocranium' as a synonym for chondrocranium. Note there are currently some structures part of both viscero and neurocranium - ethmoid, zyogomatic, ... subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "brain box" EXACT [] synonym: "brain case" RELATED [ZFA:0001580] synonym: "brain pan" RELATED [http://www.thefreedictionary.com/braincase] synonym: "braincase" RELATED [ZFA:0001580] xref: AAO:0010153 xref: EHDAA2:0000243 xref: FMA:53672 xref: MA:0000317 xref: SCTID:361731002 xref: TAO:0001580 xref: XAO:0003170 xref: ZFA:0001580 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0011158 ! primary subdivision of skull relationship: develops_from UBERON:0004761 ! cartilaginous neurocranium relationship: encloses UBERON:0000955 ! brain relationship: part_of UBERON:0003128 ! cranium property_value: external_definition "Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO]" xsd:string property_value: has_relational_adjective "neurocranial" xsd:string [Term] id: UBERON:0001704 name: obsolete viscerocranium namespace: uberon def: "." [Wikipedia:Facial_skeleton] is_obsolete: true consider: UBERON:0008895 ! splanchnocranium consider: UBERON:0011156 ! facial skeleton comment: This class was made obsolete as it conflated the facial skeleton with the splanchnocranium. The facial skeleton includes: * Inferior nasal concha * Lacrimal bone * Mandible * Maxilla * Nasal bone * Palatine bone * Vomer * Zygomatic bone. The hyoid is sometimes included, and sometimes excluded (FMA includes it) (See also notes for ethmoid bone). The splanchoncranium is the endoskeleton derived from pharyngeal arches. [Term] id: UBERON:0001705 name: nail namespace: uberon def: "a horn-like keratin structure covering the dorsal aspect of the terminal phalanges of fingers and toes[WP]." [Wikipedia:Nail_(anatomy)] comment: TODO: check claw vs nail. A primate's nail consists of the unguis alone; the subunguis has disappeared. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "claw" NARROW SENSU [Wikipedia:Claw] synonym: "talon" RELATED [] xref: BTO:0001719 xref: EFO:0000956 xref: EV:0100159 xref: FMA:54326 xref: GAID:1320 xref: MA:0002703 xref: MAT:0000158 xref: MESH:A17.600 xref: MIAA:0000158 xref: OpenCyc:Mx4rvVjJv5wpEbGdrcN5Y29ycA xref: SCTID:72651009 xref: UMLS:C0027342 xref: VHOG:0001361 xref: XAO:0003103 xref: galen:Nail xref: ncithesaurus:Nail is_a: UBERON:0009564 ! distal limb integumentary appendage relationship: develops_from UBERON:0011272 ! embryonic skin basal layer relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0002097 ! skin of body [Term] id: UBERON:0001706 name: nasal septum namespace: uberon def: "The nasal septum separates the left and right airways in the nose, dividing the two nostrils. It is depressed by the Depressor septi nasi muscle. [WP,unvetted]." [Wikipedia:Nasal_septum] comment: We follow AAO in making this part of the nasal skeleton subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "columella nasi" RELATED [Wikipedia:Nasal_septum] synonym: "nasi columella" RELATED [Wikipedia:Nasal_septum] synonym: "septal cartilage" RELATED [Wikipedia:Nasal_septum] synonym: "septum mobile nasi" RELATED [Wikipedia:Nasal_septum] synonym: "septum nasi" RELATED LATIN [Wikipedia:Nasal_septum] synonym: "septum of the nose" RELATED [Wikipedia:Nasal_septum] xref: AAO:0000559 xref: AAO:0010135 xref: EHDAA2:0001234 xref: EHDAA2:0004104 xref: EHDAA:6809 xref: EMAPA:17608 xref: FMA:54375 xref: GAID:115 xref: MA:0000285 xref: MESH:A02.165.639 xref: OpenCyc:Mx4rv7e-k5wpEbGdrcN5Y29ycA xref: SCTID:181197004 xref: UMLS:C0027432 xref: VHOG:0000017 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Gray854.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Gray854.png/200px-Gray854.png xref: ncithesaurus:Nasal_Septum is_a: UBERON:0003037 ! septum is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0009714 ! intermaxillary process relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0006813 ! nasal skeleton relationship: part_of UBERON:0011241 ! ethmoid region property_value: external_definition "A median dividing wall, sagitally directed, which divides the nasal cavity into the right and the left nasal fossae. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: external_definition "Medial vertical wall between nasal capsules.[AAO]" xsd:string property_value: external_definition "Medial, vertical plate that separates the nasal capsules.[AAO]" xsd:string property_value: homology_notes "Whatever the common ancestor of the lamprey and gnathostomes may have looked like, it most likely possessed a neural-crest-derived premandibular ectomesenchyme closely associated with the NHP. Invention of the jaw subsequently required a space for the nasal septum and maxillary process to develop, which might have been provided by subdivision of the NHP into the nasal placode and the hypophysis (diplorhiny, the state of bilaterally separated nasal openings, would also have been a prerequisite for this).[well established][VHOG]" xsd:string [Term] id: UBERON:0001707 name: nasal cavity namespace: uberon def: "a large air filled space above and behind the nose in the middle of the face[WP]." [Wikipedia:Nasal_cavity] comment: the cavity includes and starts at the nares and reaches all the way through to the and includes the choanae, the posterior nasal apertures[HP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cavitas nasalis" RELATED [BTO:0002096] synonym: "cavitas nasi" RELATED [BTO:0002096] synonym: "cavity of nose" EXACT [] synonym: "cavum nasi; cavitas nasi" RELATED LATIN [Wikipedia:Nasal_cavity] synonym: "nasal canal" EXACT [ZFA:0000130] synonym: "nasal fossa" EXACT [Wikipedia:Nasal_cavity] synonym: "nasal pit" RELATED [] synonym: "olfactory cavity" RELATED [] synonym: "olfactory pit" RELATED INCONSISTENT [ZFA:0000130] xref: AAO:0000314 xref: BTO:0002096 xref: EHDAA2:0001226 xref: EHDAA:6801 xref: EMAPA:17604 xref: FMA:54378 xref: GAID:350 xref: MA:0000284 xref: MESH:A04.531.449 xref: SCTID:263481003 xref: TAO:0000130 xref: UMLS:C0027423 xref: VHOG:0000271 xref: ZFA:0000130 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Illu01_head_neck.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d4/Illu01_head_neck.jpg/200px-Illu01_head_neck.jpg xref: ncithesaurus:Nasal_Cavity is_a: UBERON:0002553 ! anatomical cavity relationship: develops_from UBERON:0005870 ! olfactory pit relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0001557 ! upper respiratory tract property_value: external_definition "Saclike space internal to the nasal capsule lined by respiratory and sensory epithelium and glandular tissue.[AAO]" xsd:string property_value: homology_notes "Despite significant modification to the nasal cavity within Archosauria and its extreme hypertrophy and supraorbital development in Lambeosaurinae, the neural olfactory system and the olfactory region of the nasal cavity proper retain their plesiomorphic positions and associations, suggesting that this system is highly conserved in vertebrate evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0001708 name: jaw skeleton namespace: uberon def: "Subdivision of skeleton which includes upper and lower jaw skeletons." [UBERON:cjm, Wikipedia:Jaw] comment: TODO: move ZFA:0001227 (it is the entire jaw skeleton). Editor notes: in FMA, the jaw is an organism subdivision cluster, and includes mucosal tissue such as the gingiva as parts. It appears to be skeletal in MA (and has teeth as parts). It is reasonable to assume that ZFA and XAO consider the upper and lower jaws to be skeletal elements or clusters. EHDAA2 also considers these clusters. TODO - follow EHDAA2 model. These arbitrary differences in terminology and classification have to be reconciled with the genuine well-known biological differences in the skeletal elements across vertebrates. Development notes: There are cellular contributions from all three embryonic germ layers: pharyngeal mesoderm, endoderm and neural crest that migrates out of the ectoderm (Noden, 1983). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior splanchnocranium" RELATED [] synonym: "jaw" EXACT [MA:0001905] synonym: "jaw cartilage" EXACT [ZFA:0001227] synonym: "jaws" RELATED [] synonym: "mandibular arch" RELATED [TAO:0001227] synonym: "mandibular arch skeleton" EXACT [ZFA:0001227] synonym: "oral jaw skeleton" RELATED [] synonym: "pharyngeal arch 1 skeleton" RELATED [] synonym: "visceral arch 1" RELATED [] xref: AAO:0000988 xref: BTO:0001749 xref: FMA:54396 xref: GAID:214 xref: MA:0001905 xref: MESH:A02.835.232.781.324.502 xref: OpenCyc:Mx4rvVjjEZwpEbGdrcN5Y29ycA xref: SCTID:181811001 xref: TAO:0001227 xref: UMLS:C0022359 xref: ZFA:0001227 xref: galen:Jaw xref: ncithesaurus:Jaw is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010912 ! subdivision of skeleton relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: overlaps UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0011595 ! jaw region property_value: external_definition "Skeletal and cartilage elements of the first pharyngeal arch.[TAO]" xsd:string [Term] id: UBERON:0001709 name: upper jaw region namespace: uberon def: "Subdivision of head that consists of the upper jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." [Wikipedia:Upper_jaw] comment: AO notes: Note isa/partof difference MA/FMA. See notes for jaw w.r.t skeletal element vs subdivision of head. See also subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal mandibular arch" RELATED [] synonym: "dorsal pharyngeal arch 1" RELATED INCONSISTENT [] synonym: "maxillary part of mouth" EXACT [FMA:59399] synonym: "palatoquadrate arch" RELATED INCONSISTENT [] synonym: "upper pharyngeal jaws" RELATED [] xref: AAO:0000620 xref: EHDAA2:0002118 xref: EHDAA2:0004607 xref: EHDAA:8025 xref: EMAPA:17924 xref: SCTID:362636001 xref: VHOG:0000454 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a7/Gray189.png/200px-Gray189.png xref: ncithesaurus:Upper_Jaw is_a: UBERON:0011595 ! jaw region relationship: part_of UBERON:0004089 ! midface property_value: spatially_disjoint_from UBERON:0001710 property_value: external_definition "Superior maxillary arch located on the anterior and lateral sides of the skull.[AAO]" xsd:string property_value: homology_notes "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string [Term] id: UBERON:0001710 name: lower jaw region namespace: uberon def: "Subdivision of head that consists of the lower jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." [Wikipedia:Lower_jaw] comment: AO notes: Note isa/partof difference MA/FMA. See notes for jaw w.r.t skeletal element vs subdivision of head subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mandibular part of mouth" EXACT [FMA:59398] synonym: "mandibular series" RELATED [] xref: AAO:0000272 xref: EFO:0003660 xref: EHDAA2:0001018 xref: EHDAA:7995 xref: EMAPA:17906 xref: FMA:59398 xref: MESH:A02.835.232.781.324.502.632 xref: SCTID:362637005 xref: VHOG:0000453 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray176.png/200px-Gray176.png xref: ncithesaurus:Lower_Jaw is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011595 ! jaw region relationship: develops_from UBERON:0005867 ! mandibular prominence property_value: external_definition "Inferior mandibular arch located on the anterior and lateral sides of the skull.[AAO]" xsd:string property_value: homology_notes "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string [Term] id: UBERON:0001711 name: eyelid namespace: uberon def: "An eyelid is a thin fold of skin that covers and protects an eyeball. With the exception of the prepuce and the labia minora, it has the thinnest skin of the whole body. The levator palpebrae superioris muscle retracts the eyelid to 'open' the eye. This can be either voluntarily or involuntarily. The human eyelid features a row of eyelashes which serve to heighten the protection of the eye from dust and foreign debris, as well as from perspiration. 'Palpebral' (and 'blepharo') means relating to the eyelids. Its key function is to regularly spread the tears and other secretion on the eye surface to keep it moist, since the cornea must be continuously moist. They keep the eyes from drying out when asleep. Moreover, the blink reflex protects the eye from foreign bodies. [WP,unvetted]." [Wikipedia:Eyelid] comment: Each eyelid consists of the following layers, starting anteriorly: (1) skin, (2) a layer of subcutaneous connective tissue, (3) a layer of striated muscle fibres of the orbicularis muscle, (4) a layer of submuscular connective tissue, (5) a fibrous layer, including the tarsal plates, (6) a layer of smooth muscle, (7) the palpebral conjunctiva. AO notes: FMA divides this into skin, fascia, conjunctiva. Consider adding 'eye surface', like MA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "blephara" RELATED PLURAL [] synonym: "blepharon" EXACT [] synonym: "palpebra" EXACT [] synonym: "palpebrae" RELATED PLURAL [] xref: BTO:0002241 xref: EHDAA2:0000487 xref: EHDAA:9037 xref: EMAPA:17829 xref: EV:0100338 xref: FMA:54437 xref: GAID:72 xref: MA:0000268 xref: MESH:A01.456.505.420.504 xref: OpenCyc:Mx4rvVi4m5wpEbGdrcN5Y29ycA xref: SCTID:265782007 xref: UMLS:C0015426 xref: VHOG:0000016 xref: http://upload.wikimedia.org/wikipedia/commons/8/84/Eye_makeup.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Eye_makeup.jpg/200px-Eye_makeup.jpg xref: ncithesaurus:Eyelid is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: capable_of GO:0060082 ! eye blink reflex relationship: part_of UBERON:0000019 ! camera-type eye property_value: has_relational_adjective "palpebral" xsd:string [Term] id: UBERON:0001712 name: upper eyelid namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "palpebra superior" EXACT LATIN [FMA:54439, FMA:TA] synonym: "superior eyelid" EXACT [] xref: EHDAA2:0002115 xref: EHDAA:9047 xref: EMAPA:17834 xref: FMA:54439 xref: MA:0001267 xref: OpenCyc:Mx4rvg4ohJwpEbGdrcN5Y29ycA xref: SCTID:244499008 xref: UMLS:C0585636 xref: VHOG:0000389 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Eye_makeup.jpg/200px-Eye_makeup.jpg xref: ncithesaurus:Upper_Eyelid is_a: UBERON:0001711 ! eyelid property_value: homology_notes "A tetrapod's eye usually has one or more eyelids that can move across its surface and protect and cleanse it. The eye of lissamphibians has a stationary upper eyelid but a movable and transparent lower one.[well established][VHOG]" xsd:string [Term] id: UBERON:0001713 name: lower eyelid namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior eyelid" EXACT [] synonym: "palpebra inferior" EXACT LATIN [FMA:54442, FMA:TA] xref: AAO:0010349 xref: EHDAA2:0001015 xref: EHDAA:9041 xref: EMAPA:17831 xref: FMA:54442 xref: MA:0001263 xref: OpenCyc:Mx4rvW6GtJwpEbGdrcN5Y29ycA xref: SCTID:362528002 xref: UMLS:C0229258 xref: VHOG:0000388 xref: XAO:0000007 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Eye_makeup.jpg/200px-Eye_makeup.jpg xref: ncithesaurus:Lower_Eyelid is_a: UBERON:0001711 ! eyelid property_value: homology_notes "A tetrapod's eye usually has one or more eyelids that can move across its surface and protect and cleanse it. The eye of lissamphibians has a stationary upper eyelid but a movable and transparent lower one.[well established][VHOG]" xsd:string [Term] id: UBERON:0001714 name: cranial ganglion namespace: uberon alt_id: UBERON:0003213 def: "Ganglion of a cranial nerve[cjm]." [Wikipedia:Cranial_nerve_ganglion] comment: Editor note: split out MA ter,. Note the MA term is part of the CNS. This needs to be checked w.r.t relationship between ganglia and the PNS, as the PNS and CNS are spatially disjoint. also meaning of MA term is not clear (appears to be union of nerve and ganglion, but MA 'cranial nerve' is unconnected) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cranial ganglia" RELATED [] synonym: "cranial ganglion" EXACT [] synonym: "cranial ganglion/nerve" EXACT [] synonym: "cranial nerve ganglion" EXACT [] synonym: "cranial neural ganglion" EXACT [] synonym: "cranial neural tree organ ganglion" EXACT [OBOL:automatic] synonym: "ganglion of cranial nerve" EXACT [FMA:54502] synonym: "ganglion of cranial neural tree organ" EXACT [OBOL:automatic] synonym: "head ganglion" RELATED [] synonym: "presumptive cranial ganglia" RELATED [ZFA:0000013] xref: BTO:0000106 xref: EFO:0000902 xref: EMAPA:16659 xref: FMA:54502 xref: MA:0000213 xref: MA:0000214 xref: MAT:0000200 xref: MIAA:0000200 xref: SCTID:244448001 xref: TAO:0000013 xref: VHOG:0000076 xref: XAO:0000027 xref: ZFA:0000013 is_a: UBERON:0000045 ! ganglion is_a: UBERON:0003338 ! ganglion of peripheral nervous system relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0001785 ! cranial nerve property_value: external_definition "Ganglion which is located in the head.[TAO]" xsd:string [Term] id: UBERON:0001715 name: oculomotor nuclear complex namespace: uberon def: "The fibers of the oculomotor nerve arise from a nucleus in the midbrain, which lies in the gray substance of the floor of the cerebral aqueduct and extends in front of the aqueduct for a short distance into the floor of the third ventricle. From this nucleus the fibers pass forward through the tegmentum, the red nucleus, and the medial part of the substantia nigra, forming a series of curves with a lateral convexity, and emerge from the oculomotor sulcus on the medial side of the cerebral peduncle. The nucleus of the oculomotor nerve does not consist of a continuous column of cells, but is broken up into a number of smaller nuclei, which are arranged in two groups, anterior and posterior. Those of the posterior group are six in number, five of which are symmetrical on the two sides of the middle line, while the sixth is centrally placed and is common to the nerves of both sides. The anterior group consists of two nuclei, an antero-medial and an antero-lateral . The nucleus of the oculomotor nerve, considered from a physiological standpoint, can be subdivided into several smaller groups of cells, each group controlling a particular muscle. A nearby nucleus, the Edinger-Westphal nucleus, is responsible for the autonomic functions of the oculomotor nerve, including pupillary constriction and lens accommodation. [WP,unvetted]." [Wikipedia:Nucleus_of_oculomotor_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "motor nucleus III" RELATED [] synonym: "nIII" RELATED [] synonym: "nucleus nervi oculomotorii" EXACT LATIN [FMA:54510, FMA:TA] synonym: "nucleus of oculomotor nerve" EXACT [] synonym: "nucleus of third cranial nerve" EXACT [] synonym: "oculomotor III nucleus" EXACT [MA:0001073] synonym: "oculomotor nucleus" EXACT [] synonym: "third cranial nerve nucleus" EXACT [] xref: ABA:III xref: BM:MB-III xref: EFO:0002468 xref: EHDAA2:0004211 xref: EV:0100250 xref: FMA:54510 xref: MA:0001073 xref: NIF_GrossAnatomy:birnlex_1240 xref: SCTID:362457000 xref: TAO:0000553 xref: UMLS:C0228686 xref: VHOG:0001389 xref: ZFA:0000553 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png xref: ncithesaurus:Oculomotor_Nucleus is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0001716 name: secondary palate namespace: uberon def: "The part of the palate formed from the fusion of the two palatine shelves, extensions of the maxillary prominences." [Wikipedia:Secondary_palate, http://www.indiana.edu/~anat550/hnanim/face/face.html] comment: Function notes: separates respiratory and oral passages. Taxon notes: present in mammals and some reptiles. A similar structure is found in crocodilians, but, in most other tetrapods, the oral and nasal cavities are not truly separate. The secondary palate is formed by bilateral medial extensions of maxillary processes. The extensions (palatine processes) meet at the midline, merging dorsally with nasal septum and rostrally with primary palate. The secondary palate (hard palate) separates nasal and oral cavities. Caudal extension of the secondary palate into the pharynx, forms a soft palate which divides the rostral pharynx into dorsal (nasopharynx) and ventral (oropharynx) chamber. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "definitive palate" EXACT [EMAPA:18948] synonym: "oral roof" EXACT [] synonym: "palate" BROAD SENSU [EMAPA:18948, GO:0060021, MA:0002476] synonym: "palatum" BROAD LATIN [Wikipedia:Palate] synonym: "palatum secundarium; palatum definitivum" RELATED LATIN [Wikipedia:Secondary_palate] synonym: "roof of mouth" RELATED [] xref: BTO:0001779 xref: EMAPA:18948 xref: FMA:54549 xref: GAID:152 xref: MA:0002476 xref: MESH:A14.521.658 xref: SCTID:181227004 xref: UMLS:C0700374 xref: UMLS:C1519217 xref: galen:Palate xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Pig_snout_sagittal_cut.jpg xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Illu01_head_neck.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d4/Illu01_head_neck.jpg/200px-Illu01_head_neck.jpg xref: ncithesaurus:Palate xref: ncithesaurus:Secondary_Palate is_a: UBERON:0004906 ! ectodermal gut is_a: UBERON:0007375 ! roof of mouth is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: adjacent_to UBERON:0000167 ! oral cavity relationship: adjacent_to UBERON:0001707 ! nasal cavity relationship: develops_from UBERON:0005619 ! secondary palatal shelf relationship: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0001717 name: spinal nucleus of trigeminal nerve namespace: uberon def: "The spinal trigeminal nucleus is a nucleus in the medulla that receives information about deep/crude touch, pain, and temperature from the ipsilateral face. The facial, glossopharyngeal, and vagus nerves also convey pain information from their areas to the spinal trigeminal nucleus. [WP,unvetted]." [Wikipedia:Spinal_trigeminal_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus spinalis nervi trigemini" RELATED LATIN [Wikipedia:Spinal_trigeminal_nucleus] synonym: "spinal nucleus of cranial nerve v" EXACT [] synonym: "spinal trigeminal nucleus" EXACT [GO:0021741] synonym: "trigeminal nerve spinal tract nucleus" EXACT [] synonym: "trigeminal spinal nucleus" EXACT [] synonym: "trigeminal v spinal sensory nucleus" EXACT [] xref: BM:VSp xref: FMA:54565 xref: GAID:605 xref: MA:0001053 xref: MESH:A08.186.211.132.931.920 xref: SCTID:369033006 xref: UMLS:C0041000 xref: VHOG:0001357 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png xref: ncithesaurus:Nucleus_of_the_Spinal_Tract_of_the_Trigeminal_Nerve is_a: UBERON:0004132 ! trigeminal sensory nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0001718 name: mesencephalic nucleus of trigeminal nerve namespace: uberon def: "The mesencephalic nucleus is involved with proprioception of the face, that is, the feeling of position of the muscles. Unlike many nuclei within the CNS, the mesencephalic nucleus contains no chemical synapses but are electrically coupled. Instead, neurons of this nucleus are pseudounipolar cells receiving proprioceptive information from the jaw, and sending projections to the motor trigeminal nucleus to mediate monosynaptic jaw reflexes. It is also the only structure in the CNS to contain the cell bodies of a primary afferent, which are usually contained within ganglia. [WP,unvetted]." [Wikipedia:Mesencephalic_nucleus_of_trigeminal_nerve] comment: Development notes: develops from NC in some species[UBERONREF:0000002] Not of NC origin[doi:10.1002/dvdy.1197]. AO notes: part of midbrain tegmentum in NIF and MA. the neurons of the mesencephalic trigeminal nucleus are the only centrally located primary sensory neurons in amniotes; all others are extramedullary[PMID:11747082] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Me5" BROAD [NIF_GrossAnatomy:birnlex_1010] synonym: "mesencephalic nucleus" BROAD [Wikipedia:Mesencephalic_nucleus_of_trigeminal_nerve] synonym: "mesencephalic trigeminal V nucleus" EXACT [] synonym: "mesencephalic trigeminal nucleus" EXACT [GO:0021739] synonym: "nucleus mesencephalicus nervi trigemini" RELATED LATIN [Wikipedia:Mesencephalic_nucleus_of_trigeminal_nerve] synonym: "nucleus of mesencephalic root of v" EXACT [] synonym: "trigeminal V mesencephalic nucleus" EXACT [MA:0001057] synonym: "trigeminal mesencephalic nucleus" EXACT [] synonym: "trigeminal nerve mesencepahlic nucleus" EXACT [] xref: BM:Pons-5ME xref: EV:0100252 xref: FMA:54568 xref: MA:0001057 xref: NIF_GrossAnatomy:birnlex_1010 xref: SCTID:369032001 xref: TAO:0000312 xref: VHOG:0001354 xref: ZFA:0000312 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png is_a: UBERON:0004132 ! trigeminal sensory nucleus is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0001719 name: nucleus ambiguus namespace: uberon def: "The nucleus ambiguus (literally 'ambiguous nucleus') is a region of histologically disparate cells located just dorsal to the inferior olivary nucleus in the lateral portion of the upper medulla. It receives upper motor neuron innervation directly via the corticobulbar tract This nucleus gives rise to the efferent motor fibers of the vagus nerve terminating in the laryngeal and pharyngeal muscles, as well as to the efferent motor fibers of the glossopharyngeal nerve (CN IX) terminating in the stylopharyngeus. [WP,unvetted]." [Wikipedia:Nucleus_ambiguus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ambiguus nucleus" EXACT [] xref: ABA:AMB xref: BM:Me-AMB xref: EHDAA2:0004305 xref: EV:0100292 xref: FMA:54588 xref: MA:0001050 xref: NIF_GrossAnatomy:birnlex_2650 xref: SCTID:280184006 xref: UMLS:C0152400 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray695.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Gray695.png/200px-Gray695.png xref: ncithesaurus:Nucleus_Ambiguus is_a: UBERON:0007635 ! nucleus of medulla oblongata is_a: UBERON:0011775 ! vagus nerve nucleus relationship: immediate_transformation_of UBERON:0010126 ! future nucleus ambiguus relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0001720 name: cochlear nucleus namespace: uberon def: "The cochlear nuclei consist of: (a) the dorsal cochlear nucleus, corresponding to the tuberculum acusticum on the dorso-lateral surface of the inferior peduncle; and (b) the ventral or accessory cochlear nucleus, placed between the two divisions of the nerve, on the ventral aspect of the inferior peduncle. [WP,unvetted]." [Wikipedia:Cochlear_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cochlear VIII nucleus" EXACT [MA:0001012] synonym: "cochlear nucleus of acoustic nerve" EXACT [] synonym: "cochlear nucleus of eighth cranial nerve" EXACT [] synonym: "nucleus of cochlear nerve" EXACT [] synonym: "statoacoustic (VIII) nucleus" EXACT [] synonym: "vestibulocochlear nucleus" RELATED [] xref: FMA:54603 xref: GAID:601 xref: MA:0001012 xref: MESH:A08.186.211.132.810.428.600.135 xref: SCTID:362463009 xref: TAO:0002243 xref: ZFA:0001638 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Gray691.png/200px-Gray691.png xref: ncithesaurus:Cochlear_Nucleus is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons [Term] id: UBERON:0001721 name: inferior vestibular nucleus namespace: uberon def: "The inferior vestibular nucleus is the vestibular nucleus which lies near the fourth ventricle. [WP,unvetted]." [Wikipedia:Inferior_vestibular_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "descending vestibular nucleus" EXACT [FMA:54608] synonym: "nucleus vestibularis inferior" RELATED LATIN [Wikipedia:Inferior_vestibular_nucleus] synonym: "spinal vestibular nucleus" EXACT [FMA:54608] xref: ABA:SPIV xref: BM:Me-VS-VSI xref: BTO:0004369 xref: EV:0100258 xref: FMA:54608 xref: MA:0001054 xref: SCTID:280175006 xref: UMLS:C0175498 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Gray700.png xref: ncithesaurus:Spinal_Vestibular_Nucleus is_a: UBERON:0007228 ! vestibular nucleus property_value: spatially_disjoint_from UBERON:0001722 property_value: spatially_disjoint_from UBERON:0007227 property_value: spatially_disjoint_from UBERON:0007230 [Term] id: UBERON:0001722 name: medial vestibular nucleus namespace: uberon def: "The medial vestibular nucleus is one of the vestibular nuclei. It is located in the medulla oblongata. Lateral vestibulo-spinal tract (lateral vestibular nucleus bDeitersb)- via ventrolateral medulla and spinal cord to ventral funiculus (lumbo-sacral segments). Ipsilaterally for posture Medial vestibulo-spinal tract (medial, lateral, inferior, vestibular nuclei), bilateral projection via descending medial longitudinal fasciculus to cervical segments. DESCENDING MLF. Bilaterally for head/neck/eye movements [WP,unvetted]." [Wikipedia:Medial_vestibular_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chief vestibular nucleus" EXACT [FMA:54611] synonym: "dorsal vestibular nucleus" EXACT [FMA:54611] synonym: "medial nucleus" RELATED [Wikipedia:Medial_vestibular_nucleus] synonym: "nucleus of schwalbe" EXACT [FMA:54611] synonym: "nucleus triangularis" EXACT LATIN [FMA:54611, FMA:TA] synonym: "nucleus vestibularis medialis" RELATED LATIN [Wikipedia:Medial_vestibular_nucleus] synonym: "principal vestibular nucleus" EXACT [FMA:54611] synonym: "schwalbe's nucleus" EXACT [FMA:54611] synonym: "triangular nucleus" EXACT [FMA:54611] xref: ABA:MV xref: BM:Me-VS-VSM xref: BTO:0004371 xref: FMA:54611 xref: MA:0001048 xref: SCTID:280174005 xref: UMLS:C0036385 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Lower_pons_horizontal_KB.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Gray700.png/200px-Gray700.png xref: ncithesaurus:Medial_Vestibular_Nucleus is_a: UBERON:0007228 ! vestibular nucleus property_value: spatially_disjoint_from UBERON:0001721 property_value: spatially_disjoint_from UBERON:0007227 property_value: spatially_disjoint_from UBERON:0007230 [Term] id: UBERON:0001723 name: tongue namespace: uberon def: "The tongue is the movable, muscular organ on the floor of the mouth of most vertebrates, in many other mammals is the principal organ of taste, aids in the prehension of food, in swallowing, and in modifying the voice as in speech[GO]." [GO:0043586, Wikipedia:Tongue] comment: editor notes - in MA the tongue is part of the oral region, which in uberon is treated as the oral opening. consider revising oral opening - oral region equivalence. Taxon notes: Many species of fish have small folds at the base of their mouths that might informally be called tongues, but they lack a muscular structure like the true tongues found in most tetrapods. Development notes: The tongue has contributions from all pharyngeal arches which changes with time. The tongue initially begins as swelling rostral to foramen cecum, the median tongue bud.. tongue muscles derive from the somites - http://php.med.unsw.edu.au/embryology/index.php?title=Tongue_Development#Pharyngeal_Arch_Contributions subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "glossus" RELATED [Wikipedia:Tongue] xref: AAO:0010360 xref: BTO:0001385 xref: EFO:0000833 xref: EHDAA2:0002062 xref: EHDAA:9144 xref: EMAPA:17185 xref: EMAPA:18870 xref: EV:0100058 xref: FMA:54640 xref: GAID:816 xref: MA:0000347 xref: MAT:0000040 xref: MESH:A14.549.885 xref: MIAA:0000040 xref: OpenCyc:Mx4rvVjmJ5wpEbGdrcN5Y29ycA_53KXLq9EdqAAAACs6hnmQ xref: SCTID:181226008 xref: TAO:0005333 xref: UMLS:C0040408 xref: VHOG:0000419 xref: XAO:0000446 xref: ZFA:0005333 xref: http://upload.wikimedia.org/wikipedia/commons/a/a6/Tongue.agr.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a6/Tongue.agr.jpg/200px-Tongue.agr.jpg xref: ncithesaurus:Tongue is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: adjacent_to UBERON:0000166 ! oral opening relationship: develops_from UBERON:0008814 ! pharyngeal system relationship: has_developmental_contribution_from UBERON:0006260 ! lingual swellings relationship: has_developmental_contribution_from UBERON:0006756 ! median lingual swelling relationship: has_developmental_contribution_from UBERON:0006757 ! lateral lingual swelling relationship: immediate_transformation_of UBERON:0010056 ! future tongue relationship: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0001033 ! gustatory system property_value: external_definition "A mobile mass of muscular tissue that is covered with mucous membrane, occupies much of the cavity of the mouth, forms part of its floor, bears the organ of taste, and assists in chewing and swallowing. [TFD][VHOG]" xsd:string property_value: external_definition "Muscular organ in the floor of the mouth.[FEED]" xsd:string property_value: has_relational_adjective "glossal" xsd:string property_value: has_relational_adjective "lingual" xsd:string property_value: homology_notes "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" xsd:string [Term] id: UBERON:0001724 name: sphenoidal sinus namespace: uberon def: "One of the paired paranasal sinuses, located in the body of the sphenoid bone and communicating with the highest meatus of the nasal cavity on the same side[MESH]. The sphenoidal sinuses (or sphenoid) contained within the body of the sphenoid vary in size and shape; owing to the lateral displacement of the intervening septum they are rarely symmetrical. The following are their average measurements: vertical height, 2.2 cm. ; transverse breadth, 2 cm. ; antero-posterior depth, 2.2 cm. [WP,unvetted]." [MESH:A04.531.621.827, Wikipedia:Sphenoidal_sinus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sinus sphenoidalis" RELATED LATIN [Wikipedia:Sphenoidal_sinus] synonym: "sphenoid sinus" EXACT [] xref: FMA:54683 xref: GAID:359 xref: MA:0001795 xref: MESH:A04.531.621.827 xref: OpenCyc:Mx4rwEIoz5wpEbGdrcN5Y29ycA xref: SCTID:181207000 xref: UMLS:C0037885 xref: http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray856.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e3/Gray856.png/200px-Gray856.png xref: ncithesaurus:Sphenoid_Sinus is_a: UBERON:0001825 ! paranasal sinus relationship: in_lateral_side_of UBERON:0003129 ! skull relationship: in_lateral_side_of UBERON:0009639 ! body of sphenoid relationship: part_of UBERON:0009639 ! body of sphenoid [Term] id: UBERON:0001725 name: cranial synchondrosis namespace: uberon def: "the cartilaginous joints of the skull; these include sphenoethmoidal synchondrosis, sphenooccipital synchondrosis, sphenopetrosal synchondrosis, petrooccipital synchondrosis, anterior intraoccipital synchondrosis and posterior intraoccipital synchondrosis." [http://www.medilexicon.com/medicaldictionary.php?t=87514] xref: FMA:54816 xref: MA:0001502 xref: SCTID:314228003 is_a: UBERON:0002215 ! synchondrosis intersection_of: UBERON:0002215 ! synchondrosis intersection_of: part_of UBERON:0003129 ! skull [Term] id: UBERON:0001726 name: papilla of tongue namespace: uberon synonym: "lingual papilla" EXACT [] synonym: "tongue papilla" EXACT [] xref: FMA:54819 xref: MA:0001593 xref: NIF_GrossAnatomy:birnlex_4102 xref: SCTID:368728006 xref: UMLS:C0226964 xref: ncithesaurus:Papilla_of_the_Tongue is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001723 ! tongue relationship: part_of UBERON:0009471 ! dorsum of tongue [Term] id: UBERON:0001727 name: taste bud namespace: uberon def: "Taste buds are small structures on the upper surface of the tongue, soft palate, upper esophagus and epiglottis that provide information about the taste of food being eaten. These structures are involved in detecting the five elements of taste perception: salty, sour, bitter, sweet, and umami (or savory). Via small openings in the tongue epithelium, called taste pores, parts of the food dissolved in saliva come into contact with the taste receptors. These are located on top of the taste receptor cells that constitute the taste buds. The taste receptor cells send information detected by clusters of various receptors and ion channels to the gustatory areas of the brain via the seventh, ninth and tenth cranial nerves. The human tongue has about 10,000 taste buds. [WP,unvetted]." [Wikipedia:Taste_bud] comment: Editor notes: todo - account for non-tongue taste buds. Development notes: arise by inductive interactions between epithelial cells and invading gustatory cells from chorda tympani (facial), glossophrayngeal and vagues nerves ISBN10:1607950324 (todo - request cell terms from CL) Taste buds form in greatest concentration on the dorsal surface of the tongue subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caliculus gustatorius" RELATED PLURAL [Wikipedia:Taste_bud] synonym: "taste buds" RELATED PLURAL [Wikipedia:Taste_bud] synonym: "taste-bud" RELATED [Wikipedia:Taste_bud] synonym: "tastebud" EXACT [Wikipedia:Taste_bud] synonym: "tastebuds" RELATED PLURAL [Wikipedia:Taste_bud] xref: AAO:0010573 xref: BTO:0000989 xref: FMA:54825 xref: GAID:815 xref: MA:0001591 xref: MESH:A08.800.550.700.120.800 xref: NIF_GrossAnatomy:birnlex_4101 xref: OpenCyc:Mx4rvVjan5wpEbGdrcN5Y29ycA xref: SCTID:362099006 xref: TAO:0001074 xref: UMLS:C0039337 xref: VHOG:0000130 xref: XAO:0000445 xref: ZFA:0001074 xref: http://upload.wikimedia.org/wikipedia/commons/5/5a/Gray1018.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5a/Gray1018.png/200px-Gray1018.png xref: ncithesaurus:Taste_Bud is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004906 ! ectodermal gut relationship: capable_of GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: has_part CL:0000209 ! taste receptor cell relationship: has_part GO:0008527 ! taste receptor activity relationship: part_of UBERON:0001033 ! gustatory system relationship: part_of UBERON:0001726 ! papilla of tongue relationship: part_of UBERON:0002926 ! gustatory epithelium property_value: external_definition "A chemoreceptive organ.[AAO]" xsd:string property_value: external_definition "One of a number of receptor cell nests located in the epithelium of the papillae of the tongue and in the soft palate, epiglottis, and pharynx that mediate the sense of taste. [TFD][VHOG]" xsd:string property_value: homology_notes "Experients in amphibia have shown that an intrinsic feature of the pharyngeal endoderm is its ability to generate taste buds and this capacity must have been acquired by the endoderm at the origin of the vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0001728 name: nasopharynx namespace: uberon def: "uppermost part of the pharynx. It extends from the base of the skull to the upper surface of the soft palate; it differs from the oral and laryngeal parts of the pharynx in that its cavity always remains patent (open)[WP]. In front it communicates through the choanae with the nasal cavities. On its lateral wall is the pharyngeal ostium of the auditory tube, somewhat triangular in shape, and bounded behind by a firm prominence, the torus tubarius or cushion, caused by the medial end of the cartilage of the tube which elevates the mucous membrane." [Wikipedia:Nasopharynx] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Nasenrachenraum" RELATED [BTO:0000662] synonym: "epipharynx" RELATED [Wikipedia:Pharynx] synonym: "nasal part of pharynx" EXACT [] synonym: "pars nasalis pharyngis" RELATED LATIN [Wikipedia:Nasopharynx] synonym: "rhinopharynx" EXACT [] xref: BTO:0000662 xref: EHDAA2:0001239 xref: EHDAA:7086 xref: EMAPA:17670 xref: EMAPA:25092 xref: EV:0100066 xref: FMA:54878 xref: GAID:339 xref: MA:0000443 xref: MAT:0000447 xref: MESH:A03.867.557 xref: OpenCyc:Mx4rwUPoDJwpEbGdrcN5Y29ycA xref: SCTID:181200003 xref: UMLS:C0027442 xref: VHOG:0000375 xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Illu_pharynx.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4a/Illu_pharynx.jpg/200px-Illu_pharynx.jpg xref: ncithesaurus:Nasopharynx is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001557 ! upper respiratory tract property_value: external_definition "The uppermost of the three regions of the throat (pharynx), situated behind the nasal cavity and extending from the posterior nares to the level above the soft palate. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "nasopharyngeal" xsd:string [Term] id: UBERON:0001729 name: oropharynx namespace: uberon def: "The Oropharynx (oral part of the pharynx) reaches from the Uvula to the level of the hyoid bone. It opens anteriorly, through the isthmus faucium, into the mouth, while in its lateral wall, between the two palatine arches, is the palatine tonsil. [WP,unvetted]." [Wikipedia:Oropharynx] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "mesopharynx" RELATED [Wikipedia:Pharynx] synonym: "oral part of pharynx" EXACT [] synonym: "pars oralis pharyngis" RELATED LATIN [Wikipedia:Oropharynx] xref: EFO:0001976 xref: EHDAA2:0004082 xref: EMAPA:25094 xref: EV:0100067 xref: FMA:54879 xref: GAID:340 xref: MA:0000351 xref: MAT:0000446 xref: MESH:A03.867.603 xref: OpenCyc:Mx4rwACoxpwpEbGdrcN5Y29ycA xref: SCTID:263376008 xref: UMLS:C0521367 xref: VHOG:0000457 xref: VSAO:0000034 xref: XAO:0004048 xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Illu_pharynx.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4a/Illu_pharynx.jpg/200px-Illu_pharynx.jpg xref: ncithesaurus:Oropharynx is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0010023 ! dorsal part of pharyngeal pouch 2 relationship: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0005409 ! gastrointestinal system property_value: external_definition "One of the three anatomic divisions of the pharynx that lies posterior to the mouth and is continuous above with the nasopharynx and below with the laryngopharynx. It extends behind the mouth from the soft palate above to the level of the hyoid bone below and contains the palatine and lingual tonsils. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "oropharyngeal" xsd:string [Term] id: UBERON:0001730 name: extrinsic ligament of larynx namespace: uberon synonym: "laryngeal extrinsic ligament" EXACT [] xref: FMA:54921 xref: MA:0001756 xref: SCTID:279550004 is_a: UBERON:0001743 ! ligament of larynx [Term] id: UBERON:0001731 name: cavity of pharynx namespace: uberon comment: Taxon notes: See notes for pharynx - as a grouping class this is probably too bad. We exclude WBbt:0005790 (pharyngeal lumen) because of the developmental relationship. Development notes: TOODO check synonym: "cavitas pharyngealis" RELATED LATIN [] synonym: "cavitas pharyngis" RELATED [BTO:0002097] synonym: "lumen of pharynx" EXACT [] synonym: "pharyngeal cavity" EXACT [] xref: AAO:0010435 xref: BTO:0002097 xref: EMAPA:18381 xref: EMAPA:18869 xref: FMA:54935 xref: SCTID:180543003 xref: XAO:0000105 relationship: develops_from UBERON:0001041 ! foregut relationship: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0006562 ! pharynx intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0006562 ! pharynx [Term] id: UBERON:0001732 name: pharyngeal tonsil namespace: uberon def: "Adenoids (or pharyngeal tonsils, or nasopharyngeal tonsils) are a mass of lymphoid tissue situated at the very back of the nose, in the roof of the nasopharynx, where the nose blends into the mouth. Normally, in children, they make a soft mound in the roof and posterior wall of the nasopharynx, just above and behind the uvula. [WP,unvetted]." [Wikipedia:Pharyngeal_tonsil] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Rachenmandel" RELATED [BTO:0000777] synonym: "adenoid" EXACT [] synonym: "nasopharyngeal tonsil" EXACT [] synonym: "tonsil of luschka" EXACT [] synonym: "tonsilla pharyngea" RELATED LATIN [Wikipedia:Pharyngeal_tonsil] xref: BTO:0000777 xref: EV:0100054 xref: FMA:54970 xref: GAID:1288 xref: MA:0000774 xref: MESH:A15.382.520.604.084 xref: SCTID:181199001 xref: UMLS:C0001428 xref: http://upload.wikimedia.org/wikipedia/commons/b/be/Gray994-adenoid.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/be/Gray994-adenoid.png/200px-Gray994-adenoid.png xref: ncithesaurus:Pharyngeal_Tonsil is_a: UBERON:0002372 ! tonsil is_a: UBERON:0012330 ! nasal-associated lymphoid tissue relationship: part_of UBERON:0001728 ! nasopharynx [Term] id: UBERON:0001733 name: soft palate namespace: uberon def: "soft tissue constituting the back of the roof of the mouth. The soft palate is distinguished from the hard palate at the front of the mouth in that it does not contain bone[WP]. The soft palate is the posterior portion of the palate extending from the posterior edge of the hard palate[GO]." [GO:0060023, Wikipedia:Soft_palate] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "muscular palate" RELATED [Wikipedia:Soft_palate] synonym: "palatum molle, velum palatinum" RELATED LATIN [Wikipedia:Soft_palate] synonym: "velum" RELATED [Wikipedia:Soft_palate] xref: EMAPA:18949 xref: FMA:55021 xref: GAID:1284 xref: MA:0002412 xref: MAT:0000039 xref: MESH:A14.549.617.780 xref: MIAA:0000039 xref: SCTID:245784004 xref: UMLS:C0030219 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Tonsils_diagram.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Tonsils_diagram.jpg/200px-Tonsils_diagram.jpg xref: ncithesaurus:Soft_Palate is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0001716 ! secondary palate property_value: external_definition "A muscular arch-shaped structure [is this an 'anatomical clustero?=?] that is composed of the musculus uvuli and parts of tensor veli palatini, levator veli palatini, palatoglossus and palatopharyngeus and attaches to the hard palate and modulates the connections between the oral cavity and pharynx soft tissue arch .[FEED]" xsd:string [Term] id: UBERON:0001734 name: uvula namespace: uberon def: "Conic projection from the posterior edge of the middle of the soft palate, composed of connective tissue containing a number of racemose glands, and some muscular fibers. The uvula, hanging from the end of the soft palate, is responsible for the sound of snoring. Touching the uvula or the end of the soft palate evokes a strong gag reflex in most people." [Wikipedia:Palatine_uvula] comment: seeAlso - bifid uvula and cleft palate subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "palatine uvula" EXACT [] synonym: "uvula of palate" EXACT [] synonym: "uvula palatina" EXACT LATIN [FMA:55022, FMA:TA, Wikipedia:Palatine_uvula] xref: EFO:0001386 xref: FMA:55022 xref: GAID:1285 xref: MESH:A14.549.617.780.729 xref: SCTID:362082005 xref: UMLS:C0042173 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Tonsils_diagram.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Tonsils_diagram.jpg/200px-Tonsils_diagram.jpg xref: ncithesaurus:Uvula is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001733 ! soft palate [Term] id: UBERON:0001735 name: tonsillar ring namespace: uberon def: "lymphoid tissue ring located in the pharynx and to the back of the oral cavity. The ring consists of (from superior to inferior): Pharyngeal tonsil (also known as 'adenoids' when infected) Tubal tonsil (where Eustachian tube opens in the nasopharynx) Palatine tonsils (commonly called 'the tonsils' in the vernacular, less commonly termed 'faucial tonsils') Lingual tonsils Some animals, but not humans, have one or two additional tonsils: Soft palate tonsil Paraepiglottic tonsil[WP]." [Wikipedia:Waldeyer's_ring] comment: see also FMA:79771 naso-pharyngeal lymphoid tissue subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Waldeyer's ring" EXACT [] synonym: "Waldeyer's tonsillar ring" EXACT [] synonym: "anulus lymphoideus pharyngis" EXACT LATIN [FMA:55070, FMA:TA] synonym: "oropharyngeal lymphoid tissue" EXACT [] synonym: "pharyngeal lymphatic ring" EXACT [] synonym: "pharyngeal lymphoid ring" EXACT [] xref: FMA:55070 xref: MA:0000752 xref: SCTID:56411004 xref: UMLS:C0459892 xref: ncithesaurus:Waldeyers_Tonsillar_Ring is_a: UBERON:0001961 ! mucosa-associated lymphoid tissue is_a: UBERON:0001962 ! gut-associated lymphoid tissue relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0001736 name: submandibular gland namespace: uberon def: "The paired submandibular glands (submaxillary glands) are salivary glands located beneath the floor of the mouth. In humans, they account for 70% of the salivary volume and weigh about 15 grams. [WP,unvetted]." [Wikipedia:Submandibular_gland] comment: lobular, sexually dimorphic in mouse subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula submandibularis" RELATED LATIN [Wikipedia:Submandibular_gland] synonym: "submandibular salivary gland" EXACT [] synonym: "submaxillary gland" RELATED [] xref: BTO:0001316 xref: EFO:0001387 xref: EMAPA:18812 xref: EV:0100061 xref: FMA:55093 xref: GAID:942 xref: MA:0001589 xref: MESH:A10.336.779.812 xref: SCTID:181235001 xref: UMLS:C0038556 xref: VHOG:0000364 xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Illu_quiz_hn_02.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/51/Illu_quiz_hn_02.jpg/200px-Illu_quiz_hn_02.jpg xref: ncithesaurus:Submandibular_Gland is_a: UBERON:0001829 ! major salivary gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0006298 ! submandibular gland primordium relationship: in_lateral_side_of UBERON:0000165 ! mouth relationship: in_lateral_side_of UBERON:0001710 ! lower jaw region property_value: external_definition "Either of two major salivary glands situated in the neck near the lower edge of each side of the mandible and emptying into the submandibular duct. [TFD][VHOG]" xsd:string property_value: homology_notes "The most common oral glands in mammals are the salivary glands. There are usually three primary pairs of salivary glands, named for their approximate positions: mandibular (submandibular or submaxillary), sublingual, and parotid.[well established][VHOG]" xsd:string [Term] id: UBERON:0001737 name: larynx namespace: uberon def: "Heterogeneous cluster that connects the pharynx to the tracheobronchial tree[FMA]." [FMA:55097, Wikipedia:Larynx] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AAO:0000268 xref: BTO:0001208 xref: EFO:0000838 xref: EHDAA2:0004063 xref: EMAPA:18333 xref: EV:0100039 xref: FMA:55097 xref: GAID:108 xref: MA:0000414 xref: MAT:0000187 xref: MESH:A04.329 xref: MIAA:0000187 xref: OpenCyc:Mx4rvViOnZwpEbGdrcN5Y29ycA xref: SCTID:181212004 xref: UMLS:C0023078 xref: VHOG:0001279 xref: XAO:0003081 xref: galen:Larynx xref: http://upload.wikimedia.org/wikipedia/commons/8/8a/Larynx_external_en.svg xref: ncithesaurus:Larynx is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0008947 ! respiratory primordium relationship: part_of UBERON:0001557 ! upper respiratory tract property_value: external_definition "An anatomical cluster consisting of the epiglottus, the arytenoid cartilages, the thyroid cartilage, the cricoid cartilage and the muscles, membranes, and ligaments connecting them, and also of the mucosal covering these structures.[FEED]" xsd:string property_value: external_definition "Anatomical structure consisting of a narrowly triangular chamber supported by a series of semicircular cartilages in which part of the sound-production system is located.[AAO]" xsd:string property_value: has_relational_adjective "laryngeal" xsd:string property_value: homology_notes " (In anura) a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) (In mammals) Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" xsd:string [Term] id: UBERON:0001738 name: thyroid cartilage namespace: uberon def: "The thyroid cartilage is the largest of the nine cartilages that make up the laryngeal skeleton, the cartilage structure in and around the trachea that contains the larynx. It is composed of two plate-like laminae that fuse on the anterior side of the cartilage to form a peak, called the laryngeal prominence. This prominence is often referred to as the 'pomus Adamus' or 'Adam's apple'. The laryngeal prominence is more prominent in adult male than female because of the difference in the size of the angle: 90B0 in male and 120B0 in female. The lip of the thyroid cartilage just superior to the laryngeal prominence is called the superior thyroid notch, while the notch inferior to the thyroid angle is called the inferior thyroid notch. Its posterior border is elongated both inferiorly and superiorly to form the superior horn of thyroid cartilage and inferior horn of thyroid cartilage. [WP,unvetted]." [Wikipedia:Thyroid_cartilage] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilago thyroidea" RELATED LATIN [Wikipedia:Thyroid_cartilage] synonym: "laryngeal prominence" RELATED [Wikipedia:Thyroid_cartilage] synonym: "pomus" RELATED [Wikipedia:Thyroid_cartilage] synonym: "pomus adamus" RELATED [Wikipedia:Thyroid_cartilage] xref: BTO:0003655 xref: EHDAA2:0002030 xref: EHDAA:9395 xref: EMAPA:18698 xref: FMA:55099 xref: GAID:112 xref: MA:0001764 xref: MESH:A02.165.507.870 xref: SCTID:263483000 xref: UMLS:C0040126 xref: VHOG:0001365 xref: http://upload.wikimedia.org/wikipedia/commons/8/8a/Larynx_external_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8a/Larynx_external_en.svg/200px-Larynx_external_en.svg.png xref: ncithesaurus:Thyroid_Cartilage is_a: UBERON:0001739 ! laryngeal cartilage relationship: develops_from UBERON:0010219 ! thyroid pre-cartilage condensation relationship: part_of UBERON:0010212 ! laryngeal apparatus property_value: external_definition "The largest cartilage of the larynx, having two broad processes that join anteriorly to form the Adam's apple. [TFD][VHOG]" xsd:string property_value: homology_notes "[In anura] a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) [In mammals] Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" xsd:string [Term] id: UBERON:0001739 name: laryngeal cartilage namespace: uberon def: "the cartilaginous structures that support the larynx." [MP:0002256] synonym: "cartilage of larynx" EXACT [FMA:55108] synonym: "cartilagines laryngeales" EXACT PLURAL [] synonym: "larynx cartilage" EXACT [VHOG:0001550] xref: BTO:0003660 xref: EHDAA:8157 xref: EMAPA:18697 xref: FMA:55108 xref: GAID:107 xref: MA:0001758 xref: MESH:A02.165.507 xref: SCTID:263482005 xref: UMLS:C0023050 xref: VHOG:0001550 xref: ncithesaurus:Laryngeal_Cartilage is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007844 ! cartilage element is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: develops_from UBERON:0010213 ! laryngeal pre-cartilage condensation relationship: part_of UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0010212 ! laryngeal apparatus intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0001737 ! larynx property_value: homology_notes " (In anura) a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) (In mammals) Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" xsd:string [Term] id: UBERON:0001740 name: arytenoid cartilage namespace: uberon def: "The arytenoid cartilages are a pair of small three-sided pyramids which form part of the larynx, to which the vocal cords are attached. Each is pyramidal in form, and has three surfaces, a base, and an apex. [WP,unvetted]." [Wikipedia:Arytenoid_cartilage] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arytenoid" EXACT [EMAPA:18695] synonym: "arytenoids" RELATED [Wikipedia:Arytenoid_cartilage] synonym: "cartilagines arytenoidea" RELATED LATIN [Wikipedia:Arytenoid_cartilage] synonym: "cartilago arytaenoidea" RELATED [AAO:0000674] synonym: "cartilago arytenoidea" RELATED [] xref: AAO:0000674 xref: EMAPA:17977 xref: EMAPA:18695 xref: FMA:55109 xref: GAID:109 xref: MA:0001759 xref: MESH:A02.165.507.083 xref: SCTID:264446005 xref: UMLS:C0003943 xref: http://upload.wikimedia.org/wikipedia/commons/f/fa/Gray950.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fa/Gray950.png/200px-Gray950.png xref: ncithesaurus:Arytenoid_Cartilage is_a: UBERON:0001739 ! laryngeal cartilage relationship: develops_from UBERON:0010220 ! arytenoid pre-cartilage condensation relationship: in_lateral_side_of UBERON:0001737 ! larynx property_value: external_definition "Paired, anteroposteriorly elongated cartilages that are associated with the vocal cords. These cartilages are medially separated and hemispherical, and their concave side faces ventromedially.[AAO]" xsd:string [Term] id: UBERON:0001741 name: corniculate cartilage namespace: uberon def: "The corniculate cartilages (cartilages of Santorini) are two small conical nodules consisting of yellow elastic cartilage, which articulate with the summits of the arytenoid cartilages and serve to prolong them posteriorly and medially. They are situated in the posterior parts of the aryepiglottic folds of mucous membrane, and are sometimes fused with the arytenoid cartilages. [WP,unvetted]." [Wikipedia:Corniculate_cartilages] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Santorini's cartilage" EXACT [] synonym: "cartilage of Santorini" EXACT [] synonym: "cartilagines corniculata" EXACT LATIN [Wikipedia:Corniculate_cartilage] xref: FMA:55110 xref: MA:0001885 xref: SCTID:278989005 xref: UMLS:C0225556 xref: http://upload.wikimedia.org/wikipedia/commons/5/56/Gray952.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/56/Gray952.png/200px-Gray952.png xref: ncithesaurus:Corniculate_Cartilage is_a: UBERON:0001996 ! elastic cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003583 ! larynx connective tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0001737 ! larynx relationship: part_of UBERON:0008895 ! splanchnocranium [Term] id: UBERON:0001742 name: epiglottic cartilage namespace: uberon def: "the most superior of the laryngeal cartilages, which is found at the root of the tongue and folds back over the entrance to the larynx during swallowing." [MP:0002259] comment: AO notes: laryngeal cartilage in MP subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:55112 xref: MA:0001763 xref: SCTID:278990001 xref: UMLS:C0458526 xref: ncithesaurus:Epiglottic_Cartilage is_a: UBERON:0001739 ! laryngeal cartilage is_a: UBERON:0001996 ! elastic cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003583 ! larynx connective tissue relationship: part_of UBERON:0000388 ! epiglottis [Term] id: UBERON:0001743 name: ligament of larynx namespace: uberon def: "A ligament that is part of a larynx and connexts the cartilages of the larynx" [http://education.yahoo.com/reference/gray/subjects/subject/236] synonym: "laryngeal ligament" EXACT [] synonym: "larynx ligament" EXACT [MA:0001755] xref: FMA:55131 xref: MA:0001755 xref: SCTID:279508004 xref: UMLS:C0458519 xref: ncithesaurus:Laryngeal_Ligament is_a: UBERON:0003583 ! larynx connective tissue is_a: UBERON:0008845 ! nonskeletal ligament intersection_of: UBERON:0000211 ! ligament intersection_of: part_of UBERON:0001737 ! larynx [Term] id: UBERON:0001744 name: lymphoid tissue namespace: uberon def: "Portion of connective tissue with various types of white blood cells enmeshed in it, most numerous being the lymphocytes[WP]." [Wikipedia:Lymphoid_tissue] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lymphatic tissue" EXACT [] synonym: "lymphocytic tissue" EXACT [] xref: BTO:0000753 xref: FMA:55220 xref: GAID:342 xref: MA:0002436 xref: MESH:A10.549 xref: SCTID:181768009 xref: UMLS:C0024296 xref: galen:LymphoidTissue xref: ncithesaurus:Lymphoid_Tissue is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002193 ! hemolymphoid system relationship: part_of UBERON:0002465 ! lymphoid system property_value: dubious_for_taxon NCBITaxon:7776 [Term] id: UBERON:0001745 name: secondary nodular lymphoid tissue namespace: uberon def: "A lymphoid follicle that contains a germinal center." [CL:tm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "peripheral lymphoid tissue" EXACT [] synonym: "secondary lymphoid nodule" EXACT [] synonym: "secondary lymphoid tissue" EXACT [] xref: FMA:55224 xref: GAID:946 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2f/Keimzentrum.jpg/200px-Keimzentrum.jpg relationship: develops_from UBERON:0010422 ! primary nodular lymphoid tissue relationship: site_of GO:0042100 ! B cell proliferation intersection_of: UBERON:0000444 ! lymphoid follicle intersection_of: has_part UBERON:0010754 ! germinal center [Term] id: UBERON:0001746 name: fibrous capsule of thyroid gland namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "thyroid capsule" EXACT [] synonym: "thyroid gland capsule" EXACT [] xref: FMA:55513 xref: MA:0002675 xref: SCTID:176859009 xref: UMLS:C0229575 xref: ncithesaurus:Thyroid_Gland_Capsule is_a: UBERON:0003893 ! capsule is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002046 ! thyroid gland [Term] id: UBERON:0001747 name: parenchyma of thyroid gland namespace: uberon def: "A parenchyma that is part of a thyroid follicle [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "parenchyma of thyroid" EXACT [OBOL:accepted] synonym: "parenchyma of thyroid follicle" EXACT [OBOL:automatic] synonym: "parenchyma of thyroid gland follicle" EXACT [OBOL:automatic] synonym: "thyroid follicle parenchyma" EXACT [OBOL:automatic] synonym: "thyroid gland follicle parenchyma" EXACT [OBOL:automatic] synonym: "thyroid gland parenchyma" EXACT [] synonym: "thyroid parenchyma" EXACT [OBOL:accepted] xref: BTO:0004579 xref: FMA:55515 xref: MA:0000730 xref: SCTID:371402001 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part CL:0000570 ! parafollicular cell relationship: has_part CL:0002258 ! thyroid follicular cell relationship: part_of UBERON:0002046 ! thyroid gland intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002046 ! thyroid gland [Term] id: UBERON:0001748 name: capsule of parathyroid gland namespace: uberon def: "A capsule that surrounds a parathyroid gland." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "parathyroid gland capsule" EXACT [] xref: FMA:55566 xref: MA:0002676 xref: UMLS:C0927176 xref: ncithesaurus:Parathyroid_Gland_Capsule is_a: UBERON:0003893 ! capsule relationship: surrounds UBERON:0001132 ! parathyroid gland intersection_of: UBERON:0003893 ! capsule intersection_of: surrounds UBERON:0001132 ! parathyroid gland [Term] id: UBERON:0001749 name: parenchyma of parathyroid gland namespace: uberon def: "A parenchyma that is part of a parathyroid gland [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "parathyroid gland parenchyma" EXACT [] synonym: "parathyroid parenchyma" EXACT [OBOL:automatic] synonym: "parenchyma of parathyroid" EXACT [OBOL:automatic] xref: FMA:55569 xref: MA:0002677 is_a: UBERON:0000064 ! organ part relationship: has_part CL:0000446 ! chief cell of parathyroid gland relationship: has_part CL:0002199 ! oxyphil cell of parathyroid gland relationship: part_of UBERON:0001132 ! parathyroid gland intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0001132 ! parathyroid gland [Term] id: UBERON:0001750 name: lacrimal apparatus namespace: uberon def: "The lacrimal apparatus is the physiologic system containing the orbital structures for tear production and drainage. It consists of: (a) the lacrimal gland, which secretes the tears, and its excretory ducts, which convey the fluid to the surface of the eye; (b) the lacrimal canaliculi, the lacrimal sac, and the nasolacrimal duct, by which the fluid is conveyed into the cavity of the nose. [WP,unvetted]." [Wikipedia:Lacrimal_apparatus] comment: todo - resolve canaliculus vs tear duct vs lacrimal vs nasolacrimal. AO notes: this is an eye appendage in ncit, along with eyelid and eyebrow. in MA, part of eye surface part_of eye subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "apparatus lacrimalis" RELATED LATIN [Wikipedia:Lacrimal_apparatus] synonym: "nasolacrimal drainage system" RELATED [UBERON:cjm] xref: FMA:55605 xref: GAID:901 xref: MA:0000274 xref: MESH:A09.371.463 xref: UMLS:C0022903 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Gray896.png xref: ncithesaurus:Lacrimal_Apparatus is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0010409 ! eye surface [Term] id: UBERON:0001751 name: dentine namespace: uberon def: "Collagen-rich odontogenic tissue characteristic of teeth and tooth-like skeletal elements (e.g., odontodes); mature dentine is mineralized and develops from predentine tissue; often (but not always) tubular and acellular[VSAO]." [VSAO:0000069, Wikipedia:Dentin] comment: Dentine is found in the fossil record as early as the late Cambrian, in fish, where it may have had a role in electrochemical sensing of the environment as well as assisting in defense[WP]. Editors note: note the asserted dual is_a parentage, as dentine is both skeletal tissue and a substance subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dentin" EXACT [MA:0002542] synonym: "dentine of tooth" EXACT [] synonym: "predentin" NARROW [GO:0070468] xref: BTO:0003453 xref: FMA:55628 xref: GAID:1272 xref: MA:0002542 xref: MESH:A14.254.900.280 xref: SCTID:362112004 xref: TAO:0005143 xref: UMLS:C0011429 xref: VHOG:0001589 xref: VSAO:0000069 xref: XAO:0004051 xref: ZFA:0005143 xref: ncithesaurus:Dentin is_a: UBERON:0001973 ! substance of tooth is_a: UBERON:0010365 ! odontoid tissue relationship: develops_from UBERON:0011587 ! pre-dentine property_value: external_definition "Mineralized collagen containing substance that forms the tooth structure.[TAO]" xsd:string property_value: has_relational_adjective "dentinal" xsd:string property_value: homology_notes "Dentine is a bona fide vertebrate novelty, and dentine-secreting odontoblasts represent a cell type that is exclusively derived from the neural crest.[well established][VHOG]" xsd:string [Term] id: UBERON:0001752 name: enamel namespace: uberon def: "A dentine-like hypermineralized substance that covers the tooth tip. Enamel's primary mineral is hydroxylapatite, which is a crystalline calcium phosphate. Unlike dentin and bone, enamel does not contain collagen. Instead, it has two unique classes of proteins called amelogenins and enamelins[WP]." [Wikipedia:Enamel_organ, ZFIN:curator] comment: AO notes: part_of tooth enamel organ in MA. Editor notes: current classification under substance of tooth may be turned into taxon GCI (e.g. sharks have enamel in dermal denticles) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "enamel of tooth" EXACT [] synonym: "enamel tissue" EXACT [VSAO:curator] synonym: "enameloid" RELATED [] synonym: "tooth enamel" EXACT [] xref: BTO:0001844 xref: FMA:55629 xref: MA:0002543 xref: MESH:A14.254.900.255 xref: SCTID:362113009 xref: UMLS:C0011350 xref: VSAO:0000065 xref: XAO:0004198 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Enamelorgan11-17-05.jpg xref: ncithesaurus:Enamel is_a: UBERON:0001973 ! substance of tooth is_a: UBERON:0010365 ! odontoid tissue relationship: composed_primarily_of CHEBI:52255 ! hydroxylapatite relationship: develops_from UBERON:0011588 ! pre-enamel property_value: never_in_taxon NCBITaxon:9359 property_value: never_in_taxon NCBITaxon:9816 property_value: external_definition "Skeletal tissue that consists of an avascular, noncollagenous, hypermineralized matrix that is deposited by ameloblasts that are excluded from the matrix. Enamel develops from organic pre-enamel tissue that is replaced by a largely inorganic matrix.[VSAO]" xsd:string [Term] id: UBERON:0001753 name: cementum namespace: uberon def: "A bone-like mineralized tissue secreted by cementoblasts on the surface of root dentine or, in some animals, crown enamel[Diekwisch 2001]. Substance of tooth produced by cementoblasts; surrounds the dentine of the root of the tooth[FMA]. a specialized calcified substance covering the root of a tooth. Cementum is excreted by cells called cementoblasts within the root of the tooth and is thickest at the root apex. Its coloration is yellowish and it is softer than enamel and dentin due to being less mineralized[WP]." [Wikipedia:Cementum] comment: Cementum, the supporting tissue that anchors mammalian and crocodylian teeth into their sockets, differs among species and can have features of dentine, of bone, and of calcified cartilage, as well as unique features. Cementum is deposited by cementoblasts onto existing dentine. As in bone and dentine, cementoblasts produce an organic matrix, the main constituent of which is collagen type I (Bosshardt, 2005), but cementum, dentine, and bone also share a number of important noncollagenous matrix components such as osteopontin, osteocalcin, bone sialoprotein, a2-HS- glycoprotein, dentine matrix protein, dentine sialoprotein, and den- tine phosphoprotein (McKee et al., 1996; Bosshardt, 2005). it has been argued that in all rodents and ruminants, cementum is a form of calcified cartilage[H&W] synonym: "bone of attachment" RELATED [VSAO:0000062] synonym: "cement" EXACT [] synonym: "cement of tooth" EXACT [] synonym: "cementum" EXACT [] synonym: "cementum of tooth" EXACT [] xref: BTO:0002525 xref: FMA:55630 xref: MA:0002541 xref: MESH:A14.254.646.267 xref: SCTID:362114003 xref: UMLS:C0011343 xref: VSAO:0000062 xref: XAO:0004196 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/The_Periodontium.jpg xref: ncithesaurus:Cementum is_a: UBERON:0001973 ! substance of tooth is_a: UBERON:0010365 ! odontoid tissue relationship: has_developmental_contribution_from UBERON:0008969 ! dental follicle property_value: external_definition "Odontoid tissue that is deposited by cementoblasts onto dentine tissue and functions to attach teeth, odontodes and other odontogenic derivatives to bone tissue and the integument.[VSAO]" xsd:string [Term] id: UBERON:0001754 name: dental pulp namespace: uberon def: "the part in the center of a tooth made up of living soft tissue and cells called odontoblasts[WP]." [Wikipedia:Dental_pulp] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dental pulp cell" RELATED [BTO:0000339] synonym: "pulp of tooth" EXACT [] synonym: "tooth pulp" EXACT [ZFA:0005141] xref: BTO:0000339 xref: FMA:55631 xref: GAID:1270 xref: MA:0001599 xref: MESH:A14.254.900.260 xref: SCTID:362110007 xref: TAO:0005141 xref: UMLS:C0011399 xref: VHOG:0001469 xref: ZFA:0005141 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2e/Tooth_Section.svg/200px-Tooth_Section.svg.png xref: ncithesaurus:Dental_Pulp is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011825 ! loose connective tissue relationship: develops_from UBERON:0001763 ! odontogenic papilla relationship: has_part CL:0000060 ! odontoblast relationship: part_of UBERON:0001091 ! calcareous tooth property_value: external_definition "Material in the center of the dentine of the mature tooth. In secondary teeth the pulp contains blood vessels and odontoblast.[TAO]" xsd:string property_value: homology_notes "The oral cavity of vertebrates is generally thought to arise as an ectodermal invagination. Consistent with this, oral teeth are proposed to arise exclusively from ectoderm, contributing to tooth enamel epithelium, and from neural crest derived mesenchyme, contributing to dentin and pulp (reference 1); Teeth and tooth-like structures, together named odontodes, are repeated organs thought to share a common evolutionary origin. These structures can be found in gnathostomes at different locations along the body: oral teeth in the jaws, teeth and denticles in the oral-pharyngeal cavity, and dermal denticles on elasmobranch skin (reference 2).[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001755 name: distal part of styloid process of temporal bone namespace: uberon def: "A segment in the hyoidean arch between the epihyal and tympanohyal[biology-online]. The interhyal is a small rod-like element that connects the ventral and dorsal parts of the hyoid arch. It articulates laterally with the posterior end of the epihyal and medially at the cartilaginous junction between the hyomandibula and the symplectic. It remains cartilaginous in adult zebrafish and other cypriniforms[ZFA]." [http://www.biology-online.org/dictionary/Stylohyal] comment: TODO - check subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "distal part of styloid process" EXACT [FMA:56472] synonym: "stylohyal" BROAD [FMA:56472] xref: FMA:56472 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0003960 ! styloid process of temporal bone [Term] id: UBERON:0001756 name: middle ear namespace: uberon def: "The middle ear is the air-filled cavity within the skull of vertebrates that lies between the outer ear and the inner ear. It is linked to the pharynx (and therefore to outside air) via the Eustachian tube and in mammals contains the three ear ossicles, which transmit auditory vibrations from the outer ear (via the tympanum) to the inner ear (via the oval window)[GO]." [GO:0042474, Wikipedia:Middle_ear] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auris media" RELATED LATIN [BTO:0002099, Wikipedia:Middle_ear] xref: AAO:0011065 xref: BTO:0002099 xref: EHDAA2:0001181 xref: EHDAA:5693 xref: EMAPA:17000 xref: EV:0100357 xref: FMA:56513 xref: GAID:165 xref: MA:0000253 xref: MAT:0000146 xref: MESH:A09.246.397 xref: MIAA:0000146 xref: NIF_GrossAnatomy:birnlex_1695 xref: OpenCyc:Mx4rvbw1j5wpEbGdrcN5Y29ycA xref: SCTID:181185000 xref: UMLS:C0013455 xref: VHOG:0000312 xref: XAO:0000191 xref: ncithesaurus:Middle_Ear is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001690 ! ear property_value: external_definition "The intermediate portion of the ear which consists of a small air-filled and membrane-lined chamber. It is lodged in the temporal bone and continues with the nasopharynx through the Eustachian tube. It is separated from the external ear by the tympanic membrane and from the inner ear by the fenestrae. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The tympanic cavity and auditory tube of an amniote develop from the first embryonic pharyngeal pouch, so they are homologous to the first gill pouch, or spiracle, of a fish. We are uncertain whether this homology strictly applies to the middle ear cavity and auditory tube of lissamphibians, which show certain peculiarities in their development.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001757 name: pinna namespace: uberon def: "Visible part of the ear that resides outside of the head. The purpose of the pinna is to collect sound. It does so by acting as a funnel, amplifying the sound and directing it to the ear canal. While reflecting from the pinna, sound also goes through a filtering process which adds directional information to the sound (see sound localization, head-related transfer function, pinna notch). The filtering effect of the human pinna preferentially selects sounds in the frequency range of human speech. In various species, the pinna can also signal mood and radiate heat." [Wikipedia:Pinna_(anatomy)] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auricle" EXACT [] synonym: "auricle of ear" EXACT [] synonym: "auricle of external ear" EXACT [] synonym: "auricula" EXACT [Wikipedia:Auricula] synonym: "auricula (auris externa)" EXACT [] synonym: "pinna of ear" EXACT [] synonym: "pinnae" RELATED PLURAL [] xref: EHDAA2:0001467 xref: EMAPA:17589 xref: EV:0100355 xref: FMA:56580 xref: MA:0000259 xref: OpenCyc:Mx4rvs_VC5wpEbGdrcN5Y29ycA xref: SCTID:421159007 xref: UMLS:C0928075 xref: VHOG:0000460 xref: galen:Auricle xref: ncithesaurus:Auricle is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001691 ! external ear property_value: external_definition "The external expanded part of the ear characterized by a funnel-shaped structure through which the sound vibrations are received. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "Mammals have a third type of tympanic ear. An external flap, the auricle or pinna, helps funnel sound waves down the external acoustic meatus to the tympanic membrane.[well established][VHOG]" xsd:string [Term] id: UBERON:0001758 name: periodontium namespace: uberon def: "The tissues that invest or help to invest and support the teeth, including the periodontal ligament, gingivae, cementum, and alveolar and supporting bone[BTO]." [BTO:0001021, Wikipedia:Periodontium] comment: note FMA treats periodontium and periodontal ligament as the same synonym: "paradentium" RELATED [MESH:A14.254.646] synonym: "periodontal ligament" RELATED INCONSISTENT [FMA:56665] synonym: "periodontal membrane" RELATED [MA:0002467] synonym: "tooth supporting structure" RELATED [MESH:A14.254.646] xref: BTO:0001021 xref: FMA:56665 xref: GAID:216 xref: MESH:A14.254.646 xref: UMLS:C0031093 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/The_Periodontium.jpg xref: ncithesaurus:Periodontium is_a: UBERON:0000479 ! tissue is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: adjacent_to UBERON:0001091 ! calcareous tooth relationship: has_part CL:0002166 ! epithelial cell of Malassez relationship: part_of UBERON:0003672 ! dentition [Term] id: UBERON:0001759 name: vagus nerve namespace: uberon def: "Cranial nerve that branches into the lateral (to body sense organs) and the intestino-accessorial (to the skin, muscles of shoulder, hyoid, larynx, gut, lungs, and heart)." [ISBN:0471209627, Wikipedia:Vagus_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CN-X" RELATED [] synonym: "Vagus nerve [X]" EXACT [] synonym: "cranial nerve X" RELATED [] synonym: "nervus vagus" RELATED LATIN [BTO:0003472, Wikipedia:Vagus_nerve] synonym: "nervus vagus [x]" EXACT LATIN [FMA:5731, FMA:TA] synonym: "pneuomgastric nerve" RELATED [BTO:0003472] synonym: "tenth cranial nerve" EXACT [] synonym: "vagal nerve" RELATED [] synonym: "vagus" EXACT [] synonym: "vagus X nerve" EXACT [MA:0001106] synonym: "vagus nerve tree" EXACT [] xref: AAO:0010475 xref: BTO:0003472 xref: EFO:0002549 xref: FMA:5731 xref: GAID:721 xref: MA:0001106 xref: MESH:A08.800.050.050.925 xref: NIF_GrossAnatomy:birnlex_801 xref: OpenCyc:Mx4rviHk2ZwpEbGdrcN5Y29ycA xref: SCTID:362466001 xref: TAO:0000453 xref: UMLS:C0042276 xref: VHOG:0000737 xref: XAO:0003097 xref: ZFA:0000453 xref: galen:VagusNerve xref: http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Gray791.png/200px-Gray791.png xref: ncithesaurus:Vagus_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: develops_from_part_of UBERON:0005073 ! preganglionic parasympathetic nervous system relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0005239 ! basal plate metencephalon relationship: part_of UBERON:0001033 ! gustatory system property_value: external_definition "Nerve consisting of branchiomotor and visceral efferent fibers which branch and innervate the smooth muscles and glands of the heart, lungs, esophagus, and stomach as well as some throat muscles. Sensory fibers supply mucosa of the mouth and pharynx.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001760 name: frontal sinus namespace: uberon def: "The frontal sinus occupies the dorsal part of the skull medial to the orbit. It overlaps cranial and nasal cavities and is often referred to as the conchofrontal sinus. ." [MURDOCH:753, Wikipedia:Frontal_sinus] comment: Taxon notes: A unique feature in the horse is that the frontal sinus communicates with the caudal maxillary sinus via the frontomaxillary opening[MURDOCh] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cavity of frontal bone" EXACT [FMA:57417] synonym: "sinus frontales" RELATED LATIN [Wikipedia:Frontal_sinus] xref: FMA:57417 xref: GAID:357 xref: MA:0001793 xref: MESH:A04.531.621.387 xref: OpenCyc:Mx4rvqMUR5wpEbGdrcN5Y29ycA xref: SCTID:181205008 xref: UMLS:C0016734 xref: http://upload.wikimedia.org/wikipedia/commons/f/fb/Nnh_front.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/Nnh_front.svg/200px-Nnh_front.svg.png xref: ncithesaurus:Frontal_Sinus is_a: UBERON:0001825 ! paranasal sinus [Term] id: UBERON:0001761 name: foramen caecum of thyroid namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "foramen caecum" BROAD [MA:0000725] xref: EHDAA2:0000550 xref: EHDAA:2150 xref: EHDAA:2977 xref: EMAPA:17069 xref: EMAPA:18828 xref: MA:0000725 xref: VHOG:0000826 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002046 ! thyroid gland property_value: external_definition "A thickened and indented region in the midline in the floor of the rostral part of the pharyngeal region of the foregut, located between the second and third branchial arches that is the first indication of the thyroid primordium. [Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.132][VHOG]" xsd:string [Term] id: UBERON:0001762 name: nasal concha namespace: uberon def: "In anatomy, a nasal concha (or turbinate) is a long, narrow and curled bone shelf (shaped like an elongated sea-shell) which protrudes into the breathing passage of the nose. Turbinate bone refers to any of the scrolled spongy bones of the nasal passages in vertebrates. In humans, the turbinates divide the nasal airway into three groove-like air passages band are responsible for forcing inhaled air to flow in a steady, regular pattern around the largest possible surface of cilia and climate controlling tissue. [WP,unvetted]." [Wikipedia:Nasal_concha] comment: Note that FMA considers nasal concha and nasal concha of ethmoid bone to be synonymous. We disambiguate these here // Turbinals are only ossified in birds and derived synapsids. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "concha" RELATED [EMAPA:25093] synonym: "conchae nasales" RELATED LATIN [Wikipedia:Nasal_concha] synonym: "nasal turbinate" EXACT [] synonym: "turbinal" EXACT [palaeos.com/vertebrates/bones/braincase/ethmoid.html] synonym: "turbinate" EXACT [] synonym: "turbinate bone" EXACT [EMAPA:25093] xref: EHDAA2:0004101 xref: EMAPA:25093 xref: GAID:224 xref: MA:0000286 xref: MESH:A02.835.232.781.324.948 xref: OpenCyc:Mx4rv07bVJwpEbGdrcN5Y29ycA xref: SCTID:361931007 xref: UMLS:C1266928 xref: http://upload.wikimedia.org/wikipedia/commons/e/e9/Gray153.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e9/Gray153.png/200px-Gray153.png xref: ncithesaurus:Nasal_Turbinate is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ relationship: located_in UBERON:0001707 ! nasal cavity relationship: part_of UBERON:0011241 ! ethmoid region disjoint_from: UBERON:0006203 ! conchal part of pinna [Term] id: UBERON:0001763 name: odontogenic papilla namespace: uberon def: "Tissue of the developing tooth. It is composed of pre-odontoblast and undiffentiated mesnchyme cells and connects to the basal lamina[ZFA]. The dental papilla is a condensation of ectomesenchymal cells called odontoblasts, seen in histologic sections of a developing tooth. It lies below a cellular aggregation known as the enamel organ. The dental papilla appears after 8-10 weeks intra uteral life. The dental papilla gives rise to the dentin and pulp of a tooth. The enamel organ, dental papilla, and dental follicle together forms one unit, called the tooth germ. This is of importance because all the tissues of a tooth and its supporting structures form from these distinct cellular aggregations." [Wikipedia:Dental_papilla, ZFA:0005140] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dental papilla" RELATED [MA:0001598] synonym: "dentinal papilla" RELATED [BTO:0001839] synonym: "dermal papilla" RELATED INCONSISTENT [ISBN10:0073040584] synonym: "odontogenic condensation" EXACT [VSAO:0000025] synonym: "papilla dentis" RELATED LATIN [Wikipedia:Dental_papilla] synonym: "pharyngeal tooth mesenchyme" NARROW SENSU [ZFA:0005140] synonym: "tooth mesenchyme" RELATED [ZFA:0005140] xref: BTO:0001839 xref: FMA:57662 xref: GAID:1277 xref: MA:0001598 xref: MESH:A14.254.900.720.250 xref: TAO:0005140 xref: VHOG:0001465 xref: VSAO:0000025 xref: XAO:0004045 xref: ZFA:0005140 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Gray1011.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/22/Gray1011.png/200px-Gray1011.png is_a: UBERON:0003856 ! odontogenic mesenchyme is_a: UBERON:0005856 ! developing mesenchymal condensation relationship: develops_from UBERON:0003856 ! odontogenic mesenchyme relationship: has_part CL:0000060 ! odontoblast relationship: part_of UBERON:0005176 ! tooth enamel organ property_value: external_definition "Cell condensation that is a well-defined population of densely organized mesenchymal cells that aggregates adjacent to an epithelium.[VSAO]" xsd:string property_value: external_definition "Tissue of the developing tooth. It is composed of pre-odontoblast and undiffentiated mesnchyme cells and connects to the basal lamina.[TAO]" xsd:string property_value: homology_notes "Teeth and tooth-like structures, together named odontodes, are repeated organs thought to share a common evolutionary origin. These structures can be found in gnathostomes at different locations along the body: oral teeth in the jaws, teeth and denticles in the oral-pharyngeal cavity, and dermal denticles on elasmobranch skin.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001764 name: maxillary sinus namespace: uberon def: "One of the paired paranasal sinuses, located in the body of the maxilla, communicating with the middle meatus of the nasal cavity." [MESH:A04.531.621.578, Wikipedia:Maxillary_sinus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "antrum of Highmore" EXACT [] synonym: "highmore antrum" RELATED [MESH:A04.531.621.578] synonym: "maxillary antrum" RELATED [MESH:A04.531.621.578] synonym: "sinus maxilliaris" RELATED LATIN [Wikipedia:Maxillary_sinus] xref: FMA:57715 xref: GAID:358 xref: MA:0001794 xref: MESH:A04.531.621.578 xref: OpenCyc:Mx4rvp2ZWJwpEbGdrcN5Y29ycA xref: SCTID:181204007 xref: UMLS:C0024957 xref: http://upload.wikimedia.org/wikipedia/commons/3/3d/Gray1199.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3d/Gray1199.png/200px-Gray1199.png xref: ncithesaurus:Maxillary_Sinus is_a: UBERON:0001825 ! paranasal sinus relationship: in_lateral_side_of UBERON:0000033 ! head [Term] id: UBERON:0001765 name: mammary duct namespace: uberon def: "Epithelial tube that transports milk[GO]." [GO:0060603, Wikipedia:Lactiferous_duct] comment: This structure regresses in most males subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ductus lactiferi" RELATED LATIN [BTO:0002845, Wikipedia:Lactiferous_duct] synonym: "galactophorous tubule" RELATED [BTO:0002845] synonym: "lactiferous duct" EXACT [FMA:58006] synonym: "lactiferous gland duct" EXACT [OBOL:automatic] synonym: "lactiferous tubule" RELATED [BTO:0002845] synonym: "mammary gland duct" EXACT [] xref: BTO:0002845 xref: FMA:58006 xref: MA:0000791 xref: SCTID:361719004 xref: UMLS:C0222613 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Illu_breast_anatomy.jpg xref: ncithesaurus:Lactiferous_Duct is_a: UBERON:0003244 ! epithelium of mammary gland is_a: UBERON:0003914 ! epithelial tube relationship: channel_for UBERON:0001913 ! milk relationship: channels_into UBERON:0002030 ! nipple intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0001766 name: anterior chamber of eyeball namespace: uberon def: "the fluid-filled space inside the eye between the iris and the cornea's innermost surface, the endothelium.[1] Aqueous humor is the fluid that fills the anterior chamber. Hyphema and glaucoma are two main pathologies in this area. In hyphema, blood fills the anterior chamber. In glaucoma, blockage of the canal of Schlemm prevents the normal outflow of aqueous humor, resulting in accumulation of fluid, increased intraocular pressure, and eventually blindness." [Wikipedia:Anterior_chamber_of_eyeball] comment: AO notes: space in EHDAA2 - consider adding Cavity of anterior chamber of eyeball synonym: "anterior chamber" EXACT [HP:0000593, MP:0010709] synonym: "anterior chamber of eye" EXACT [] synonym: "camera anterior" EXACT [] synonym: "camera anterior bulbi oculi" RELATED LATIN [Wikipedia:Anterior_chamber_of_eyeball] synonym: "eye anterior chamber" EXACT [] xref: BTO:0002084 xref: EHDAA2:0000129 xref: EHDAA:9033 xref: EMAPA:18231 xref: FMA:58078 xref: GAID:889 xref: MA:0000262 xref: MESH:A09.371.060.067 xref: SCTID:181160009 xref: UMLS:C0003151 xref: VHOG:0001431 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Anterior_Chamber_of_the_Eye is_a: UBERON:0006311 ! chamber of eyeball relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: external_definition "The part of the eyeball between the cornea and the iris, filled with aqueous humor. [TFD][VHOG]" xsd:string [Term] id: UBERON:0001767 name: posterior chamber of eyeball namespace: uberon def: "a narrow chink behind the peripheral part of the iris of the lens, and in front of the suspensory ligament of the lens and the ciliary processes the Posterior Chamber consists of small space directly posterior of the Iris but anterior to the lens." [Wikipedia:Posterior_chamber_of_eyeball] comment: The posterior chamber should not be confused with vitreous chamber. synonym: "c. posterior bulbi" RELATED LATIN [Wikipedia:Posterior_chamber_of_eyeball] synonym: "camera posterior" EXACT [] synonym: "eye posterior chamber" EXACT [] synonym: "posterior chamber of eye" EXACT [] xref: BTO:0002086 xref: FMA:58080 xref: MA:0002460 xref: OpenCyc:Mx4rvnYe8pwpEbGdrcN5Y29ycA xref: SCTID:362504004 xref: UMLS:C0229094 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray883.png/200px-Gray883.png xref: ncithesaurus:Posterior_Chamber_of_the_Eye is_a: UBERON:0006311 ! chamber of eyeball relationship: part_of UBERON:0001801 ! anterior segment of eyeball [Term] id: UBERON:0001768 name: uvea namespace: uberon def: "pigmented middle of the three concentric layers that make up an eye, consisting of the iris, ciliary body and choroid[WP,edited]." [Wikipedia:Uvea] comment: TODO - check child terms, isa vs partof. See also MA:0001284 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars iridica retinae" RELATED [Wikipedia:Uvea] synonym: "tunica vasculatis oculi" RELATED [Wikipedia:Uvea] synonym: "tunica vasculosa bulbi" RELATED LATIN [Wikipedia:Uvea] synonym: "tunica vasculosa of eyeball" EXACT [FMA:58103] synonym: "uvea" EXACT [FMA:58103] synonym: "uveal tract" EXACT [FMA:58103] synonym: "vascular layer of eyeball" RELATED [FMA:58103] xref: FMA:58103 xref: GAID:912 xref: MA:0002480 xref: MESH:A09.371.894 xref: SCTID:280648000 xref: UMLS:C0042160 xref: http://upload.wikimedia.org/wikipedia/commons/e/eb/Gray869.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/eb/Gray869.png/200px-Gray869.png xref: ncithesaurus:Uvea is_a: UBERON:0002049 ! vasculature is_a: UBERON:0002203 ! vasculature of eye relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: present_in_taxon NCBITaxon:7955 property_value: has_relational_adjective "uveal" xsd:string [Term] id: UBERON:0001769 name: iris namespace: uberon def: "a membrane in the eye, responsible for controlling the amount of light reaching the retina. The iris consists of pigmented fibrovascular tissue known as a stroma. It is the most forward portion of the eye and the only one seen on superficial inspection. The stroma connects a sphincter muscle (sphincter pupillae), which contracts the pupil, and a set of dilator muscles (dilator pupillae) which open it. The back surface is covered by a heavily pigmented epithelial layer two cells thick (the iris pigment epithelium), but the front surface has no epithelium. The high pigment content blocks light from passing through the iris and restricts it to the pupil. The outer edge of the iris, known as the root, is attached to the sclera and the anterior ciliary body. The iris and ciliary body together are known as the anterior uvea. Just in front of the root of the iris is the region through which the aqueous humour constantly drains out of the eye, with the result that diseases of the iris often have important effects on intraocular pressure, and indirectly on vision. Depending on the amount of light, the iris makes the pupil larger or smaller." [Wikipedia:Iris_(anatomy)] comment: Taxon notes: The avian iris and ciliary body undergoes a transition from smooth-to-striated muscle during embryonic development - dx.doi.org/10.1006/dbio.1998.9019 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior uvea" RELATED [] synonym: "irises" RELATED PLURAL [VHOG:0000101] xref: AAO:0010347 xref: BTO:0000653 xref: EFO:0004245 xref: EMAPA:19154 xref: EV:0100345 xref: FMA:58235 xref: GAID:917 xref: MA:0000273 xref: MESH:A09.371.894.513 xref: OpenCyc:Mx4rvVjbppwpEbGdrcN5Y29ycA xref: SCTID:181164000 xref: TAO:0001238 xref: UMLS:C0022077 xref: VHOG:0000101 xref: XAO:0000185 xref: ZFA:0001238 xref: ncithesaurus:Iris is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0004128 ! optic vesicle relationship: part_of UBERON:0011892 ! anterior uvea property_value: external_definition "The opaque muscular contractile diaphragm suspended in the aqueous humour in front of the lens of the eye. The organ is perforated by the pupil and continues peripherally with the ciliary body. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0001770 name: lacrimal canaliculus namespace: uberon def: "The lacrimal canaliculi, also known as the lacrimal canals or lacrimal ducts, are the small channels in each eyelid that commence at minute orifices, termed puncta lacrimalia, on the summits of the papillae lacrimales, seen on the margins of the lids at the lateral extremity of the lacus lacrimalis. The superior duct, the smaller and shorter of the two, at first ascends, and then bends at an acute angle, and passes medialward and downward to the lacrimal sac. The inferior duct at first descends, and then runs almost horizontally to the lacrimal sac. At the angles they are dilated into ampullC&. Microscopically, they are lined by nonkeratinizing stratified squamous epithelium surrounded by fibrous tissue. Outside the latter is a layer of striped muscle, continuous with the lacrimal part of the Orbicularis oculi; at the base of each lacrimal papilla the muscular fibers are circularly arranged and form a kind of sphincter. [WP,unvetted]." [Wikipedia:Lacrimal_canaliculi] comment: todo - resolve canaliculus vs tear duct vs lacrimal vs nasolacrimal subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "canaliculus lacrimalis" RELATED LATIN [Wikipedia:Lacrimal_canaliculi] xref: FMA:58245 xref: MA:0001294 xref: SCTID:263348000 xref: UMLS:C0459631 xref: ncithesaurus:Lacrimal_Canaliculus is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001850 ! lacrimal duct [Term] id: UBERON:0001771 name: pupil namespace: uberon def: "sphere that is located in the center of the iris of the eye and that controls the amount of light that enters the eye." [Wikipedia:Pupil] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0010351 xref: FMA:58252 xref: GAID:918 xref: MA:0001292 xref: MESH:A09.371.894.513.780 xref: OpenCyc:Mx4rvViBr5wpEbGdrcN5Y29ycA xref: SCTID:35146001 xref: TAO:0001283 xref: UMLS:C0034121 xref: VHOG:0000116 xref: XAO:0000283 xref: ZFA:0001283 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Eye_iris.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Eye_iris.jpg/200px-Eye_iris.jpg xref: ncithesaurus:Pupil is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001769 ! iris property_value: external_definition "The circular orifice in the centre of the iris, through which light enters into the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0001772 name: corneal epithelium namespace: uberon def: "The corneal epithelium (epithelium corneC& anterior layer) is made up of epithelial tissue and covers the front of the cornea. It consists of several layers of cells. The cells of the deepest layer are columnar; then follow two or three layers of polyhedral cells, the majority of which are prickle cells similar to those found in the stratum mucosum of the cuticle. Lastly, there are three or four layers of squamous cells, with flattened nuclei. [WP,unvetted]." [Wikipedia:Corneal_epithelium] comment: Taxon notes: In zebrafish: nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowmanbs membrane in mammals subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior corneal epithelium" EXACT [] synonym: "anterior endothelium of cornea" RELATED [BTO:0000287] synonym: "cornea epithelial tissue" EXACT [OBOL:automatic] synonym: "cornea epithelium" EXACT [OBOL:automatic] synonym: "e. anterius corneae" RELATED LATIN [Wikipedia:Corneal_epithelium] synonym: "endothelium anterius corneae" RELATED [BTO:0000287] synonym: "endothelium camerae anterioris bulbi" RELATED [BTO:0000287] synonym: "endothelium corneale" RELATED [BTO:0000287] synonym: "epithelial tissue of cornea" EXACT [OBOL:automatic] synonym: "epithelium anterius (cornea)" EXACT [] synonym: "epithelium anterius corneae" EXACT LATIN [FMA:58263, FMA:TA] synonym: "epithelium of cornea" EXACT [] synonym: "epithelium posterius corneae" RELATED [BTO:0000287] synonym: "external epithelium of cornea" EXACT [] xref: BTO:0000287 xref: EFO:0001917 xref: EHDAA2:0000319 xref: EMAPA:17162 xref: FMA:58263 xref: GAID:895 xref: MA:0001243 xref: MESH:A09.371.060.217.325 xref: SCTID:15775008 xref: TAO:0002187 xref: UMLS:C0459875 xref: ZFA:0001683 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Gray871.png/200px-Gray871.png xref: ncithesaurus:Corneal_Epithelium is_a: UBERON:0000488 ! atypical epithelium is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010371 ! ecto-epithelium relationship: part_of UBERON:0000964 ! cornea intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000964 ! cornea property_value: external_definition "Portion of tissue comprised of four to six layers of nonkeratinized, stratified squamous cells and represents approximately 60% of the thickness of the cornea.[TAO]" xsd:string [Term] id: UBERON:0001773 name: sclera namespace: uberon def: "Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]." [Wikipedia:Sclera, ZFIN:ZDB-PUB-050701-15] comment: Development notes: Majority derives from NC that surrounds optic cup of neurectoderm; a small temporal portion develops from the mesoderm that contributes to striated extra-ocular muscles and vascular endothelia[Rada&Johnson]. Taxon notes: Multi-tissue structure that composes the opaque fibrous outer layer of the eye[ZFA] Seko et al demonstrate chondrogenic potential doi:10.1371/journal.pone.0003709 and identify this as connective tissue. Disease notes: implicated in rheumatoid arthritis. Structure notes: continuous with the dura mater and the cornea; The sclera forms the posterior five-sixths of the connective tissue coat of the globe. Taxon notes: in fish, reptiles and monotremes the connective tissue of the sclera is skeletal subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "scleral capsule" RELATED [] xref: AAO:0010354 xref: BTO:0001606 xref: EMAPA:19027 xref: EV:0100342 xref: FMA:58269 xref: GAID:911 xref: MA:0000280 xref: MESH:A09.371.784 xref: OpenCyc:Mx4rv7yR55wpEbGdrcN5Y29ycA xref: SCTID:181163006 xref: UMLS:C0036410 xref: VHOG:0001274 xref: XAO:0000183 xref: ZFA:0005563 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Sclera is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_part CL:0000347 ! scleral cell relationship: part_of UBERON:0012430 ! tunica fibrosa of eyeball property_value: external_definition "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." xsd:string property_value: external_definition "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "scleral" xsd:string [Term] id: UBERON:0001774 name: muscle of trunk namespace: uberon def: "Muscle organ which is a part of the trunk. Examples: external intercostal muscle, external oblique, levator ani." [] comment: TODO - check muscle organ vs musculature subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "body musculature" EXACT [ZFA:0000473] synonym: "muscle organ of torso" EXACT [OBOL:automatic] synonym: "muscle organ of trunk" EXACT [OBOL:automatic] synonym: "torso muscle organ" EXACT [OBOL:automatic] synonym: "trunk muscle" EXACT [] synonym: "trunk muscle organ" EXACT [OBOL:automatic] synonym: "trunk musculature" EXACT [] xref: AAO:0000611 xref: EFO:0003531 xref: FMA:58274 xref: MA:0000514 xref: TAO:0000473 xref: XAO:0003230 xref: ZFA:0000473 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0005177 ! trunk organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0001775 name: ciliary body namespace: uberon def: "circumferential tissue inside the eye composed of the ciliary muscle and ciliary processes." [Wikipedia:Ciliary_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior uvea" RELATED [] synonym: "ciliary bodies" RELATED PLURAL [VHOG:0000102] synonym: "corpus ciliare" RELATED LATIN [Wikipedia:Ciliary_body] synonym: "ocular ciliary body" EXACT [] xref: AAO:0010341 xref: BTO:0000260 xref: EMAPA:19065 xref: EV:0100346 xref: FMA:58295 xref: GAID:916 xref: MA:0000264 xref: MESH:A09.371.894.280 xref: SCTID:263340007 xref: UMLS:C0008779 xref: VHOG:0000102 xref: XAO:0000186 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Ciliary_Body is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0011892 ! anterior uvea property_value: homology_notes "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string [Term] id: UBERON:0001776 name: optic choroid namespace: uberon def: "vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." [Wikipedia:Choroid] comment: check choroid vs choroid layer; check ZFA/TAO placement - no homology assertion in VHOG. Note this is entirely in the posterior region of eyeball in ZFA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chorioid" RELATED [BTO:0001829] synonym: "choroid" EXACT [MA:0000263] synonym: "choroid coat" EXACT [Wikipedia:Choroid] synonym: "choroidea" EXACT LATIN [Wikipedia:Choroid] synonym: "eye choroid" EXACT [VHOG:0001568] synonym: "optic choroid" RELATED [ZFA:0005229] synonym: "posterior uvea" EXACT [Wikipedia:Uvea#Regions] xref: BTO:0001829 xref: EMAPA:19077 xref: EMAPA:25087 xref: EV:0100347 xref: FMA:58298 xref: GAID:913 xref: MA:0000263 xref: MESH:A09.371.894.223 xref: SCTID:181172003 xref: TAO:0005229 xref: UMLS:C0008520 xref: VHOG:0001568 xref: ZFA:0005229 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Choroid is_a: UBERON:0002049 ! vasculature is_a: UBERON:0002203 ! vasculature of eye relationship: adjacent_to UBERON:0000966 ! retina relationship: adjacent_to UBERON:0001773 ! sclera relationship: adjacent_to UBERON:0011892 ! anterior uvea relationship: overlaps UBERON:0001802 ! posterior segment of eyeball relationship: part_of UBERON:0001768 ! uvea property_value: has_relational_adjective "choroidal" xsd:string [Term] id: UBERON:0001777 name: substantia propria of cornea namespace: uberon def: "The substantia propria (or stroma of cornea) is fibrous, tough, unyielding, and perfectly transparent. It is composed of about 200 flattened lamellC& (plates of collagen fibrils), superimposed one on another. They are each about 1.5-2.5 micrometres in thickness. These fibrils run at different angles between the limbi. Fibres of the layers frequently interweave, the anterior lamellC& interweaving more than posterior lamellC&. The fibres of each lamella are parallel with one another, but at right angles to those of adjacent lamellC&. The lamellC& are produced by keratocytes (corneal corpuscles), which occupy about 10% of the substantia propria. These lamellC& are made up of bundles of modified connective tissue, the fibres of which are directly continuous with those of the sclera. More collagen fibres run in a temporal-nasal direction than run in the superior-inferior direction. This is often ignored by corneal transplant surgeons, leading to poor corneal mechanical strength in corneal transplant patients. [WP,unvetted]." [Wikipedia:Corneal_stroma] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cornea stroma" EXACT [] synonym: "corneal stroma" EXACT [] synonym: "stroma of cornea" EXACT [] synonym: "substantia propria" RELATED [] xref: EFO:0002514 xref: EMAPA:17602 xref: FMA:58306 xref: GAID:893 xref: MA:0001245 xref: MESH:A09.371.060.217.228 xref: SCTID:362511000 xref: TAO:0002189 xref: UMLS:C0010040 xref: ZFA:0001685 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Gray871.png/200px-Gray871.png xref: ncithesaurus:Corneal_Stroma is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0000964 ! cornea property_value: axiom_lost_from_external_ontology "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: develops_from tissue (UBERON:0000479)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: has_developmental_contribution_from tissue (UBERON:0000479)[TAO]" xsd:string property_value: external_definition "Portion of tissue that is located basal to Bowman's layer and distal to Descemet's membrane and is comprised largely of connective tissue.[TAO]" xsd:string [Term] id: UBERON:0001778 name: ciliary epithelium namespace: uberon def: "A double layer covering the ciliary body that produces aqueous humor." [Wikipedia:Ciliary_body#Ciliary_epithelium] synonym: "ciliary body epithelium" EXACT [FMA:58464] synonym: "epithelium of ciliary body" EXACT [FMA:58464] synonym: "ocular ciliary epithelium" EXACT [] xref: BTO:0001770 xref: FMA:58464 xref: MA:0001238 xref: SCTID:280870004 xref: UMLS:C0459736 xref: ncithesaurus:Ciliary_Epithelium is_a: UBERON:0000488 ! atypical epithelium is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: has_part GO:0048770 ! pigment granule relationship: part_of UBERON:0001775 ! ciliary body relationship: secretes UBERON:0001796 ! aqueous humor of eyeball intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001775 ! ciliary body [Term] id: UBERON:0001779 name: iris stroma namespace: uberon def: "the delicate vascular connective tissue that lies between the anterior surface of the iris and the pars iridica retinae." [Wikipedia:Iris_stroma, http://www.drugs.com/dict/stroma-of-iris.html] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "iridial stroma" EXACT [] synonym: "stroma of iris" EXACT [] xref: FMA:58526 xref: MA:0002777 xref: SCTID:280882008 xref: ZFA:0005569 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray883.png/200px-Gray883.png is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0003891 ! stroma is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001769 ! iris [Term] id: UBERON:0001780 name: spinal nerve namespace: uberon def: "Neural tree (organ) which is directly continuous with the spinal cord. Examples: Fifth cervical spinal nerve, third lumbar spinal nerve." [Wikipedia:Spinal_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "backbone nerve" EXACT [OBOL:automatic] synonym: "nerve of backbone" EXACT [OBOL:automatic] synonym: "nerve of spinal column" EXACT [OBOL:automatic] synonym: "nerve of spine" EXACT [OBOL:automatic] synonym: "nerve of vertebral column" EXACT [OBOL:automatic] synonym: "nervi spinales" RELATED LATIN [Wikipedia:Spinal_nerve] synonym: "spinal column nerve" EXACT [OBOL:automatic] synonym: "spinal nerve tree" EXACT [] synonym: "spine nerve" EXACT [OBOL:automatic] synonym: "vertebral column nerve" EXACT [OBOL:automatic] xref: AAO:0011101 xref: BTO:0000870 xref: EHDAA2:0001898 xref: EMAPA:16989 xref: FMA:5858 xref: GAID:841 xref: MA:0000233 xref: MESH:A08.800.800.720 xref: OpenCyc:Mx4rwK_iFJwpEbGdrcN5Y29ycA xref: SCTID:361099009 xref: UMLS:C0037941 xref: VHOG:0000824 xref: XAO:0003101 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Spinal_nerve.svg xref: ncithesaurus:Spinal_Nerve is_a: UBERON:0001021 ! nerve relationship: continuous_with UBERON:0002240 ! spinal cord relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: external_definition "Any of the paired nerves emerging from the spinal cord, each attached to the cord by two roots: ventral and dorsal, and passing out between the vertebrae. [TFD][VHOG]" xsd:string [Term] id: UBERON:0001781 name: layer of retina namespace: uberon def: "any of the layers that make up the retina[MP]." [MP:0003727] comment: Note that MA does not treat internal/external limiting memranes as layers - these are classified as laminae. Here we follow other ontologies in grouping with other layers. MA also treats retinal pigment epithelium and neural retina epithelium as distinct from the layers. We follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers - these are also classified as layers, giving us over the usual 10 layers subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "retina layer" EXACT [] synonym: "retina neuronal layer" EXACT [MP:0006069] synonym: "retinal layer" EXACT [] synonym: "retinal neuronal layer" EXACT [MP:0006069] xref: AAO:0010353 xref: FMA:58617 xref: MA:0001319 xref: SCTID:280657006 xref: UMLS:C0459649 xref: XAO:0000266 xref: ncithesaurus:Retina_Layer is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 ! organ component layer relationship: part_of UBERON:0000966 ! retina [Term] id: UBERON:0001782 name: pigmented layer of retina namespace: uberon def: "A monolayer of pigmented epithelium covering the neural retina; develops from the outer of the two layers of the optic cup[ZFA]. the pigmented cell layer just outside the neurosensory retina that nourishes retinal visual cells, and is firmly attached to the underlying choroid and overlying retinal visual cells[WP]." [Wikipedia:Retinal_pigment_epithelium, ZFIN:curator] comment: editor note - we follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "PRE" RELATED [] synonym: "RPE" RELATED [] synonym: "epithelium, retinal pigment" RELATED [BTO:0001177] synonym: "outer pigmented layer of retina" EXACT [] synonym: "pigment epithelium of retina" EXACT [] synonym: "pigmented epithelium" RELATED [] synonym: "pigmented retina" RELATED [] synonym: "pigmented retina epithelium" EXACT [] synonym: "pigmented retinal epithelium" EXACT [] synonym: "retinal pigment epithelium" EXACT [MP:0005201, Wikipedia:Retinal_pigment_epithelium] synonym: "retinal pigment layer" RELATED [VHOG:0000536] synonym: "retinal pigmented epithelium" EXACT [ZFA:0000144] synonym: "stratum pigmentosa retinae, p. pigmentosa retinae" RELATED LATIN [Wikipedia:Retinal_pigment_epithelium] synonym: "stratum pigmentosum (retina)" EXACT [] xref: AAO:0011096 xref: BTO:0001177 xref: EHDAA2:0001465 xref: EHDAA:4765 xref: EMAPA:17172 xref: FMA:58627 xref: MA:0000279 xref: SCTID:280662007 xref: TAO:0000144 xref: UMLS:C0035322 xref: VHOG:0000536 xref: XAO:0003217 xref: ZFA:0000144 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray881.png/200px-Gray881.png xref: ncithesaurus:Retinal_Pigment_Epithelium is_a: UBERON:0000483 ! epithelium is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: adjacent_to UBERON:0001787 ! photoreceptor layer of retina relationship: adjacent_to UBERON:0003902 ! retinal neural layer relationship: has_part GO:0048770 ! pigment granule intersection_of: UBERON:0001781 ! layer of retina intersection_of: develops_from UBERON:0005424 ! presumptive retinal pigmented epithelium property_value: external_definition "A monolayer of pigmented epithelium covering the neural retina; develops from the outer of the two layers of the optic cup. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "The monolayer of pigmented epithelium covering the neural retina.[AAO]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001783 name: optic disc namespace: uberon def: "The optic disc or optic nerve head is the location where ganglion cell axons exit the eye to form the optic nerve. There are no light sensitive rods or cones to respond to a light stimulus at this point. This causes a break in the visual field called 'the blind spot' or the 'physiological blind spot'. The optic nerve head in a normal human eye carries from 1 to 1.2 million neurons from the eye towards the brain. [WP,unvetted]." [Wikipedia:Optic_disc] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "optic disk" EXACT [MESH:A08.800.800.120.680.660, Wikipedia:Optic_disc] synonym: "optic nerve disc" RELATED [Wikipedia:Optic_disc] synonym: "optic nerve head" RELATED [Wikipedia:Optic_disc] synonym: "optic papilla" RELATED [Wikipedia:Optic_disc] synonym: "physiologic blind spot" RELATED [Wikipedia:Optic_disc] synonym: "physiologic blind spot of mariotte" RELATED [Wikipedia:Optic_disc] xref: EFO:0001974 xref: EHDAA2:0001307 xref: EHDAA:9077 xref: EMAPA:18238 xref: EMAPA:25088 xref: FMA:58634 xref: MA:0000278 xref: MESH:A08.800.800.120.680.660 xref: SCTID:362518006 xref: UMLS:C0029127 xref: VHOG:0000551 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Gray879.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ed/Gray879.png/200px-Gray879.png xref: ncithesaurus:Optic_Disc is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: continuous_with UBERON:0000941 ! cranial nerve II relationship: part_of UBERON:0000966 ! retina property_value: external_definition "The small blind spot on the surface of the retina. It is the point where the fibers of the retina leave the eye and become part of the optic nerve. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001784 name: obsolete macula lutea namespace: uberon is_obsolete: true consider: UBERON:0000053 ! macula lutea consider: UBERON:0000054 ! macula comment: Obsoleted as it accidentally grouped macula and macula lutea [Term] id: UBERON:0001785 name: cranial nerve namespace: uberon def: "Cranial nerves are nerves that emerge directly from the brain, in contrast to spinal nerves, which emerge from segments of the spinal cord. In humans, there are traditionally twelve pairs of cranial nerves. Only the first and the second pair emerge from the cerebrum; the remaining ten pairs emerge from the brainstem[WP]." [Wikipedia:Cranial_nerve] comment: Editors note: classified as neural tree organ, not nerve in FMA. CN II poses a challenge here as it is not strictly a nerve, yet is expected to be classified under CN. Note EMAPA subdivides nerve into CNS nerve and PNS nerve, with *all* cranial nerves classified as CNS nerves. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cranial nerves" RELATED [] synonym: "cranial neural tree organ" EXACT [] synonym: "nervus cranialis" RELATED LATIN [Wikipedia:Cranial_nerve] xref: AAO:0000108 xref: BTO:0001104 xref: EHDAA2:0000323 xref: EMAPA:17263 xref: EMAPA:17264 xref: FMA:5865 xref: GAID:802 xref: MA:0000215 xref: MESH:A08.800.800.120 xref: NIF_GrossAnatomy:birnlex_1623 xref: OpenCyc:Mx4rvWvJVpwpEbGdrcN5Y29ycA xref: SCTID:244447006 xref: TAO:0000641 xref: UMLS:C0010268 xref: VHOG:0000279 xref: XAO:0000429 xref: XAO:0003089 xref: ZFA:0000641 xref: http://upload.wikimedia.org/wikipedia/commons/1/18/Brain_human_normal_inferior_view_with_labels_en-2.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Brain_human_normal_inferior_view_with_labels_en.svg/200px-Brain_human_normal_inferior_view_with_labels_en.svg.png xref: ncithesaurus:Cranial_Nerve is_a: UBERON:0001021 ! nerve is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0000955 ! brain relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: in_lateral_side_of UBERON:0000010 ! peripheral nervous system property_value: external_definition "Twelve pairs of cranial nerves exit/enter the cranium through openings in the skull. The nerves contain efferent axons with motor and glandular functions, as well as afferent axons from cranial ganglia with sensory functions. The nerves are numbered in a rostral to caudal sequence, with the exception of the lateral line nerves.[TAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0001786 name: fovea centralis namespace: uberon def: "a part of the eye, located in the center of the macula region of the retina. [1] [2] The fovea is responsible for sharp central vision (also called foveal vision). The fovea is surrounded by the parafovea belt, and the perifovea outer region:[2] the parafovea is the intermediate belt where the ganglion cell layer is composed of more than five rows of cells; as well as the highest density of cones; the perifovea is the outermost region where the ganglion cell layer contains two to four rows of cells, and is where visual acuity is below the optimum. The perifovea contains an even more diminished density of cones, having 12 per 100 micrometres versus 50 per 100 micrometres in the most central fovea. This, in turn, is surrounded by a larger peripheral area that delivers highly compressed information of low resolution. Approximately 50% of the nerve fibers in the optic nerve carry information from the fovea, while the other 50% carry information from the rest of the retina. The parafovea extends to a distance of 1B< mm from the central fovea, and the perifovea is found 2B> mm away from the fovea centralis[WP]." [Wikipedia:Fovea_centralis_in_macula] comment: As an anatomical term, there are several foveae around the body, including in the head of the femur.(WP) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "centre of macula" EXACT [NIF_GrossAnatomy:birnlex_2543] synonym: "fovea" EXACT [] synonym: "fovea centralis in macula" EXACT [Wikipedia:Fovea_centralis_in_macula] xref: EV:0100350 xref: FMA:58658 xref: GAID:910 xref: MA:0001307 xref: MESH:A09.371.729.522.436 xref: NIF_GrossAnatomy:birnlex_2543 xref: SCTID:264479005 xref: UMLS:C0016622 xref: VHOG:0001572 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Fovea_Centralis is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000053 ! macula lutea property_value: external_definition "A small pit in the center of the macula lutea, the area of clearest vision, where the retinal layers are spread aside, and light falls directly on the cones. [TFD][VHOG]" xsd:string property_value: homology_notes "Definition of fovea centralis should be considered here as 'an area centralis at the visual axis' (reference 1). There is an uncertaincy of the relation, because: 1.-The fovea first appeared in evolution in the temporal retina of fishes. Then, in birds, the nasal fovea and bifoveal system with nasal and temporal foveas developed. The fovea disappeared in primitive mammals, and reappeared in primates. A residue of the fovea is conserved in the visual streak, and the disappearance and reappearance of the fovea, in primitive mammals and primates respectively, correlates with degeneration and restoration of cone pigment genes in photoreceptors (reference 2). 2.-Many retinal features (foveas, trichromacy, midget pathways and associated cell types) appear specific to primates. This has led to investigations in parallel with other mammalian models such as cat or rabbit. Correlation of the results often proves to be difficult, since an evolutionary scenario with transitions between the mammalian models is largely lacking (reference 3).[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001787 name: photoreceptor layer of retina namespace: uberon def: "The layer within the retina where the photoreceptor cell receptor segments reside." [Wikipedia:Layer_of_rods_and_cones, ZFA:0000143] comment: we follow MA and ZFA in subdividing this into inner and outer segments subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "layer of rods and cones" RELATED [] synonym: "retina photoreceptor layer" EXACT [] synonym: "retinal photoreceptor layer" EXACT [ZFA:0000143] synonym: "stratum segmentorum externorum et internorum (retina)" EXACT [] xref: FMA:58680 xref: MA:0001308 xref: TAO:0000143 xref: UMLS:C0229206 xref: VHOG:0001165 xref: XAO:0003215 xref: ZFA:0000143 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray881.png/200px-Gray881.png xref: ncithesaurus:Layer_of_the_Rods_and_Cones is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001788 ! outer limiting layer of retina relationship: has_part CL:0000287 ! eye photoreceptor cell relationship: part_of UBERON:0003902 ! retinal neural layer property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001788 name: outer limiting layer of retina namespace: uberon def: "the row of jucntional complexes between the plasma membranes of rod segments and the Muller glia cells; this barrier separates the layer of inner and outer segments of the rods and cones from the outer nuclear layer and forms a blood-retina barrier[MP]." [MP:0010236] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "external limiting lamina of retina" EXACT [] synonym: "external limiting membrane" EXACT [ZFA:0001331] synonym: "external limiting membrane of retina" EXACT [] synonym: "outer limiting membrane" EXACT [XAO:0003224] synonym: "outer limiting membrane of retina" EXACT [] synonym: "retina external limiting lamina" EXACT [] synonym: "retina outer limiting membrane" EXACT [MP:0010236] synonym: "stratum limitans externum (retina)" EXACT [] xref: FMA:58683 xref: MA:0001309 xref: SCTID:280676008 xref: TAO:0001331 xref: UMLS:C1518685 xref: XAO:0003224 xref: ZFA:0001331 xref: ncithesaurus:Outer_Limiting_Membrane is_a: UBERON:0007619 ! limiting membrane of retina relationship: adjacent_to UBERON:0001789 ! outer nuclear layer of retina [Term] id: UBERON:0001789 name: outer nuclear layer of retina namespace: uberon def: "The layer within the retina where the photoreceptor cell bodies reside." [ZFA:0001464] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ONL" NARROW [] synonym: "outer nuclear layer" BROAD [] synonym: "retina outer nuclear layer" EXACT [] synonym: "retinal outer nuclear layer" EXACT [] synonym: "stratum nucleare externum (retina)" EXACT [] xref: EMAPA:19157 xref: FMA:58684 xref: MA:0001315 xref: SCTID:280678009 xref: TAO:0001464 xref: UMLS:C0229210 xref: VHOG:0001170 xref: XAO:0003219 xref: ZFA:0001464 xref: ncithesaurus:Outer_Nuclear_Layer_of_Retina is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001790 ! outer plexiform layer of retina relationship: overlaps CL:0000287 ! eye photoreceptor cell relationship: part_of UBERON:0003902 ! retinal neural layer property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001790 name: outer plexiform layer of retina namespace: uberon def: "The layer within the retina where the bipolar cells synapse with the photoreceptor cells[ZFA]. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells[GO]." [ZFA:0001330] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "OPL" NARROW [] synonym: "external plexiform layer" BROAD [BTO:0003174] synonym: "outer plexiform layer" EXACT [BTO:0003174] synonym: "retina outer plexiform layer" EXACT [] synonym: "retinal outer plexiform layer" EXACT [] synonym: "stratum plexiforme externum" EXACT [] xref: BTO:0003174 xref: FMA:58685 xref: MA:0001316 xref: SCTID:280684007 xref: TAO:0001330 xref: UMLS:C0229217 xref: VHOG:0001171 xref: XAO:0003218 xref: ZFA:0001330 xref: ncithesaurus:Outer_Plexiform_Layer is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001791 ! inner nuclear layer of retina relationship: part_of UBERON:0003902 ! retinal neural layer disjoint_from: UBERON:0005376 ! olfactory bulb external plexiform layer property_value: external_definition "The layer within the retina where the bipolar cells synapse with the photoreceptor cells.[TAO]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001791 name: inner nuclear layer of retina namespace: uberon def: "The layer of the retina composed of the cell bodies of bipolar cells, horizontal cells, and some of the cell bodies of amacrine cells." [BTO:0003176] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "INL" NARROW [] synonym: "inner nuclear layer" EXACT [] synonym: "intermediate cell layer" EXACT [ZFA:0000119] synonym: "retina inner nuclear layer" EXACT [] synonym: "retinal inner nuclear layer" EXACT [] synonym: "stratum nucleare internum" EXACT [] xref: BTO:0003176 xref: EMAPA:19155 xref: FMA:58686 xref: MA:0001311 xref: NIF_GrossAnatomy:nlx_anat_1005031 xref: SCTID:362520009 xref: TAO:0000119 xref: UMLS:C0229211 xref: VHOG:0001167 xref: XAO:0003221 xref: ZFA:0000119 xref: ncithesaurus:Inner_Nuclear_Layer is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001795 ! inner plexiform layer of retina relationship: has_part CL:0000561 ! amacrine cell relationship: has_part CL:0000745 ! horizontal cell relationship: has_part CL:0000748 ! retinal bipolar neuron relationship: part_of UBERON:0003902 ! retinal neural layer property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001792 name: ganglionic layer of retina namespace: uberon def: "a layer of the retina that consists of retinal ganglion cells[WP]. innermost nuclear layer of the retina, which contains neurons that project axons through the optic nerve to the brain." [Wikipedia:Ganglion_cell_layer] comment: Check exact synonyms in ZFA / XAO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "GCL layer" EXACT [] synonym: "RGC layer" EXACT [] synonym: "ganglion cell layer" EXACT [FMA:58687, ZFA:0000024] synonym: "ganglionic cell layer of retina" EXACT [FMA:58687] synonym: "retina ganglion cell layer" EXACT [] synonym: "retina ganglion layer" EXACT [] synonym: "retinal ganglion cell layer" EXACT [] synonym: "retinal ganglion layer" EXACT [MP:0008510] synonym: "stratum ganglionicum (retina)" EXACT [FMA:58687] synonym: "stratum ganglionicum retinae" RELATED LATIN [Wikipedia:Ganglion_cell_layer] xref: BTO:0003398 xref: FMA:58687 xref: MA:0001310 xref: NIF_GrossAnatomy:nlx_anat_1005030 xref: SCTID:280670002 xref: TAO:0000024 xref: VHOG:0001166 xref: XAO:0003223 xref: ZFA:0000024 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray881.png/200px-Gray881.png xref: ncithesaurus:Ganglion_Cell_Layer is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001793 ! nerve fiber layer of retina relationship: part_of UBERON:0003902 ! retinal neural layer property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001793 name: nerve fiber layer of retina namespace: uberon alt_id: UBERON:0005888 def: "Fiber layer adjacent the retinal ganglion cell layer which is comprised of their axons as they traverse to the optic nerve[ZFA]. The retinal nerve fiber layer (nerve fiber layer, stratum opticum, RNFL) is formed by the expansion of the fibers of the optic nerve; it is thickest near the porus opticus, gradually diminishing toward the ora serrata. As the nerve fibers pass through the lamina cribrosa sclerae they lose their medullary sheaths and are continued onward through the choroid and retina as simple axis-cylinders. When they reach the internal surface of the retina they radiate from their point of entrance over this surface grouped in bundles, and in many places arranged in plexuses. Most of the fibers are centripetal, and are the direct continuations of the axis-cylinder processes of the cells of the ganglionic layer, but a few of them are centrifugal and ramify in the inner plexiform and inner nuclear layers, where they end in enlarged extremities." [Wikipedia:Nervous_system_fiber_layer, ZFA:0001619] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "layer of nerve fibers of retina" EXACT [] synonym: "layer of nerve fibres of retina" EXACT [] synonym: "optic fiber layer" RELATED [VHOG:0001169] synonym: "optic fiber layers" RELATED PLURAL [TAO:0002212] synonym: "retina nerve fiber layer" EXACT [] synonym: "stratum neurofibrarum (retina)" EXACT [] synonym: "stratum neurofibrarum retinae" EXACT LATIN [FMA:58688, FMA:TA] synonym: "stratum neurofibrum retinae" RELATED LATIN [Wikipedia:Nerve_fiber_layer] synonym: "stratum opticum of retina" EXACT [] xref: EMAPA:18591 xref: FMA:58688 xref: MA:0001314 xref: SCTID:280671003 xref: TAO:0002212 xref: VHOG:0001169 xref: XAO:0003220 xref: ZFA:0001619 is_a: UBERON:0001781 ! layer of retina is_a: UBERON:0003902 ! retinal neural layer relationship: adjacent_to UBERON:0001794 ! inner limiting layer of retina relationship: overlaps UBERON:0000941 ! cranial nerve II relationship: part_of UBERON:0003902 ! retinal neural layer property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001794 name: inner limiting layer of retina namespace: uberon def: "the row of fused Muller cell processes and astrocytes that separates the retinal nerve fiber layer from the vitreous[MP]." [MP:0010235] comment: TODO - check frog/fish subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "inner limiting membrane" EXACT [XAO:0003222] synonym: "inner limiting membrane of retina" EXACT [] synonym: "internal limiting lamina of retina" EXACT [] synonym: "internal limiting membrane of retina" EXACT [] synonym: "retina inner limiting membrane" EXACT [MP:0010235] synonym: "retina internal limiting lamina" EXACT [] xref: FMA:58689 xref: MA:0001313 xref: SCTID:280677004 xref: TAO:0001029 xref: UMLS:C1512783 xref: XAO:0003222 xref: ZFA:0001029 xref: ncithesaurus:Inner_Limiting_Membrane is_a: UBERON:0007619 ! limiting membrane of retina relationship: adjacent_to UBERON:0001797 ! vitreous humor relationship: overlaps CL:0000636 ! Mueller cell property_value: external_definition "Membrane on the apical surface of the retina. The retinal vasculature becomes adhered to the apical surface of the ILM by 30dpf[ZFIN:ZDB-PUB-071023-7, ZFIN:ZDB-PUB-120529-3]." xsd:string [Term] id: UBERON:0001795 name: inner plexiform layer of retina namespace: uberon def: "The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells[GO]." [Wikipedia:Inner_plexiform_layer] comment: BTO misspelling? subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "IPL" NARROW [] synonym: "inner plexiform layer" RELATED [BTO:0003175] synonym: "retina inner plexiform layer" EXACT [] synonym: "retinal inner plexiform layer" EXACT [] synonym: "stratum plexifome internum" RELATED [BTO:0003175] synonym: "stratum plexiforme internum" EXACT [FMA:58704] synonym: "stratum plexiforme internum retinae" RELATED LATIN [Wikipedia:Inner_plexiform_layer] xref: BTO:0003175 xref: FMA:58704 xref: MA:0001312 xref: NIF_GrossAnatomy:nlx_anat_1005032 xref: SCTID:280682006 xref: TAO:0001329 xref: UMLS:C0229221 xref: VHOG:0001168 xref: XAO:0003225 xref: ZFA:0001329 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray881.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray881.png/200px-Gray881.png xref: ncithesaurus:Inner_Plexiform_Layer is_a: UBERON:0003902 ! retinal neural layer relationship: overlaps CL:0000740 ! retinal ganglion cell relationship: overlaps CL:0000748 ! retinal bipolar neuron relationship: part_of UBERON:0003902 ! retinal neural layer intersection_of: UBERON:0001781 ! layer of retina intersection_of: adjacent_to UBERON:0001791 ! inner nuclear layer of retina intersection_of: adjacent_to UBERON:0001792 ! ganglionic layer of retina property_value: external_definition "The layer within the retina where the bipolar cells synapse with the dendrites of the ganglion cells.[TAO]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0001796 name: aqueous humor of eyeball namespace: uberon def: "Body substance in liquid state contained in the anterior and posterior chambers of the eyeball[FMA]. The aqueous humour is a thick watery substance filling the space between the lens and the cornea[WP]." [FMA:58819, Wikipedia:Aqueous_humor] comment: Note that FMA says A+P chambers, and MA states A chamber. ZFA states A chamber and tha it is produced primarily by dorsal ciliary epithelial cells.To be investigated across taxa. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "aqueous humor" EXACT [] synonym: "aqueous humour" EXACT [EHDAA2:0000139] synonym: "humor aquosus" EXACT LATIN [FMA:58819, FMA:TA] xref: EHDAA2:0000139 xref: EHDAA:10196 xref: EMAPA:18232 xref: ENVO:02000024 xref: FMA:58819 xref: GAID:890 xref: MA:0001236 xref: MESH:A09.371.060.067.070 xref: OpenCyc:Mx4rvdGd-5wpEbGdrcN5Y29ycA xref: SCTID:280587006 xref: UMLS:C0003662 xref: VHOG:0000548 xref: ZFA:0005564 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Aqueous_Humor is_a: UBERON:0006312 ! ocular refractive media relationship: part_of UBERON:0001766 ! anterior chamber of eyeball property_value: external_definition "The fluid produced by the ciliary process in the eye and occupying the anterior and posterior chambers. It provides nourishment for the lens and cornea and maintains the ocular pressure, and hence the optical integrity of the eyeball. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001797 name: vitreous humor namespace: uberon def: "Body substance of semisolid state which constitutes the vitreous body of the eye.[FMA]" [FMA:FMA, Wikipedia:Vitreous_humour] comment: Note that FMA distinguishes between a portion and the whole portion. We equate with whole portion here, but this is arbitrary subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "humor vitreous" EXACT [] synonym: "humor vitreus" EXACT LATIN [FMA:58822, FMA:TA] synonym: "humoral fluid" RELATED [BTO:0001451] synonym: "ocular fluid" RELATED [BTO:0001451] synonym: "portion of vitreous humor" BROAD [FMA:67388] synonym: "vitreous" EXACT [ZFA:0005561] synonym: "vitreous fluid" RELATED [BTO:0001451] synonym: "vitreous humour" RELATED [] synonym: "whole portion of vitreous humor" EXACT [FMA:58822] xref: BTO:0001451 xref: EMAPA:17837 xref: ENVO:02000032 xref: EV:0100344 xref: FMA:58822 xref: MA:0001286 xref: OpenCyc:Mx4rv7ZIfZwpEbGdrcN5Y29ycA xref: UMLS:C0229096 xref: VHOG:0000795 xref: ZFA:0005561 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Vitreous_Humor is_a: UBERON:0006312 ! ocular refractive media relationship: located_in UBERON:0005606 ! hyaloid cavity relationship: part_of UBERON:0001798 ! vitreous body [Term] id: UBERON:0001798 name: vitreous body namespace: uberon def: "Mucoid tissue in the vitreous chamber of the eyeball. Examples: There are only two instances, right and left vitreous bodies.[FMA]" [FMA:58827, FMA:FMA] comment: Note - in many AOs these are exact synonyms, but FMA has a part of link between portion of vitreous humor and this subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:58827 xref: GAID:919 xref: MA:0002462 xref: MESH:A09.371.943 xref: SCTID:181170006 xref: UMLS:C0042905 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Vitreous_Body is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001799 ! vitreous chamber of eyeball [Term] id: UBERON:0001799 name: vitreous chamber of eyeball namespace: uberon def: "The posterior chamber is a narrow chink behind the peripheral part of the iris of the human eye, and in front of the suspensory ligament of the lens and the ciliary processes the Posterior Chamber consists of small space directly posterior of the Iris but anterior to the lens. [WP,unvetted]." [Wikipedia:Vitreous_chamber] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "camera postrema" EXACT [] synonym: "camera postrema bulbi oculi" EXACT LATIN [FMA:58848, FMA:TA] synonym: "camera vitrea" EXACT [] synonym: "camera vitrea bulbi" EXACT [] synonym: "postremal chamber" EXACT [] synonym: "postremal chamber of eyeball" EXACT [] synonym: "vitreous chamber" EXACT [] xref: BTO:0002087 xref: FMA:58848 xref: MA:0002461 xref: UMLS:C0229095 xref: ncithesaurus:Vitreous_Chamber is_a: UBERON:0006311 ! chamber of eyeball relationship: part_of UBERON:0001802 ! posterior segment of eyeball [Term] id: UBERON:0001800 name: sensory ganglion namespace: uberon def: "the clusters of neurons in the somatic peripheral nervous system which contain the cell bodies of sensory nerve axons, interneurons and non-neuronal supporting cells." [MP:0000960] comment: This class was created automatically from a combination of ontologies synonym: "ganglion sensorium" EXACT [] xref: AEO:0001000 xref: FMA:5885 xref: MA:0002566 xref: MESH:A08.340.390 xref: UMLS:C0206429 xref: ncithesaurus:Sensory_Ganglion is_a: UBERON:0000045 ! ganglion [Term] id: UBERON:0001801 name: anterior segment of eyeball namespace: uberon def: "The anterior segment is the front third of the eye that includes the structures in front of the vitreous humour: the cornea, iris, ciliary body, and lens. Within the anterior segment are two fluid-filled spaces: the anterior chamber between the posterior surface of the cornea (i.e. the corneal endothelium) and the iris; the posterior chamber between the iris and the front face of the vitreous. Aqueous humor fills these spaces within the anterior segment and provides nutrients to the surrounding structures." [Wikipedia:Anterior_segment_of_eyeball] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior segment of eye" EXACT [] synonym: "anterior segment of the eye" EXACT [] synonym: "eye anterior segment" EXACT [] synonym: "segmentum anterius (bulbus oculi)" EXACT [] synonym: "segmentum anterius bulbi oculi" RELATED LATIN [Wikipedia:Anterior_segment_of_eyeball] xref: FMA:58865 xref: MA:0002484 xref: MESH:A09.371.060 xref: SCTID:280658001 xref: UMLS:C0003153 xref: ZFA:0005566 xref: http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png xref: ncithesaurus:Anterior_Eye_Segment is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010230 ! eyeball of camera-type eye property_value: spatially_disjoint_from UBERON:0001802 [Term] id: UBERON:0001802 name: posterior segment of eyeball namespace: uberon def: "The posterior segment is the back two-thirds of the eye that includes the anterior hyaloid membrane and all structures behind it: the vitreous humor, retina, choroid, and optic nerve. On the anterior side of the lens is the aqueous humour which is bounded on all sides by the lens, ciliary body, suspensory ligaments, and by the cornea. It lets light through without refraction, helps maintain the shape of the eye and suspends the delicate lens. In some animals, the retina contains a reflective layer (the tapetum lucidum) which increases the amount of light each photosensitive cell perceives, allowing the animal to see better under low light conditions." [Wikipedia:Posterior_segment_of_eyeball] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "eye posterior segment" EXACT [] synonym: "posterior segment of eye" EXACT [] synonym: "posterior segment of the eye" EXACT [] synonym: "segmentum posterius (bulbus oculi)" EXACT [] synonym: "segmentum posterius bulbi oculi" RELATED LATIN [Wikipedia:Posterior_segment_of_eyeball] xref: FMA:58868 xref: MA:0002485 xref: SCTID:280659009 xref: UMLS:C0278450 xref: ZFA:0005567 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png xref: ncithesaurus:Posterior_Eye_Segment is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010230 ! eyeball of camera-type eye [Term] id: UBERON:0001803 name: epithelium of lens namespace: uberon def: "The cells of the lens epithelium regulate most of the homeostatic functions of the lens.[6] As ions, nutrients, and liquid enter the lens from the aqueous humor, Na+/K+ ATPase pumps in the lens epithelial cells pump ions out of the lens to maintain appropriate lens osmolarity and volume, with equatorially positioned lens epithelium cells contributing most to this current. The activity of the Na+/K+ ATPases keeps water and current flowing through the lens from the poles and exiting through the equatorial regions." [Wikipedia:Lens_(anatomy)#Lens_Epithelium] comment: Usage notes: this class is the superclass of the anterior epithelium and equatorial epithlium, although the term 'lens epithelium' may refer specifically to the former subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial tissue of eye lens" EXACT [OBOL:automatic] synonym: "epithelial tissue of lens" EXACT [OBOL:automatic] synonym: "epithelium lentis" EXACT LATIN [FMA:58871, FMA:TA] synonym: "epithelium of eye lens" EXACT [OBOL:automatic] synonym: "eye lens epithelial tissue" EXACT [OBOL:automatic] synonym: "eye lens epithelium" EXACT [OBOL:automatic] synonym: "lens epithelial tissue" EXACT [OBOL:automatic] synonym: "lens epithelium" EXACT [] xref: BTO:0001873 xref: FMA:58871 xref: MA:0001301 xref: SCTID:362523006 xref: TAO:0001326 xref: XAO:0004094 xref: ZFA:0001326 is_a: UBERON:0000484 ! simple cuboidal epithelium is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000965 ! lens of camera-type eye [Term] id: UBERON:0001804 name: capsule of lens namespace: uberon def: "a smooth, transparent basement membrane that completely surrounds the lens. It is synthesized by the lens epithelium and its main components are Type IV collagen and sulfated glycosaminoglycans (GAGs)." [Wikipedia:Capsule_of_lens, Wikipedia:Lens_(anatomy)#Lens_capsule] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "capsula lentis" EXACT LATIN [] synonym: "lens capsule" EXACT [] xref: EHDAA2:0000977 xref: EMAPA:18237 xref: FMA:58881 xref: MA:0001300 xref: SCTID:244500004 xref: UMLS:C0229232 xref: VHOG:0000550 xref: ZFA:0005574 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray883.png/200px-Gray883.png xref: ncithesaurus:Lens_Capsule is_a: UBERON:0003893 ! capsule is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005769 ! basement membrane is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0001803 ! epithelium of lens relationship: develops_from UBERON:0005614 ! lens anterior epithelium relationship: surrounds UBERON:0000965 ! lens of camera-type eye intersection_of: UBERON:0003893 ! capsule intersection_of: surrounds UBERON:0000965 ! lens of camera-type eye property_value: external_definition "The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes " (...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001805 name: autonomic ganglion namespace: uberon def: "ganglion that has dendrites that form a junction between autonomic nerves originating from the central nervous system and autonomic nerves innervating their target organs in the periphery. There are two subtypes, sympathetic ganglion and parasympathetic ganglion." [Wikipedia:Autonomic_ganglion] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "autonomic nervous system ganglion" EXACT [OBOL:automatic] synonym: "ganglion autonomicum" RELATED LATIN [Wikipedia:Autonomic_ganglion] synonym: "ganglion of autonomic nervous system" EXACT [OBOL:automatic] synonym: "ganglion of visceral nervous system" EXACT [OBOL:automatic] synonym: "visceral nervous system ganglion" EXACT [OBOL:automatic] xref: AEO:0001001 xref: EMAPA:17157 xref: EMAPA:18221 xref: FMA:5889 xref: MA:0000220 xref: UMLS:C0017068 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xref: ncithesaurus:Autonomic_Ganglion is_a: UBERON:0000045 ! ganglion is_a: UBERON:0003338 ! ganglion of peripheral nervous system relationship: part_of UBERON:0002410 ! autonomic nervous system intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002410 ! autonomic nervous system [Term] id: UBERON:0001806 name: sympathetic ganglion namespace: uberon def: "Sympathetic ganglia are the ganglia of the sympathetic nervous system. They deliver information to the body about stress and impending danger, and are responsible for the familiar fight-or-flight response. They contain approximately 20000–30000 nerve cell bodies and are located close to and on either side of the spinal cord in long chains. [WP,unvetted]." [Wikipedia:Sympathetic_ganglion] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ganglion of sympathetic nervous system" EXACT [OBOL:automatic] synonym: "ganglion of sympathetic part of autonomic division of nervous system" EXACT [OBOL:automatic] synonym: "ganglion sympatheticum" EXACT [] synonym: "ganglion sympathicum" RELATED LATIN [BTO:0001333, Wikipedia:Sympathetic_ganglion] synonym: "sympathetic nervous system ganglion" EXACT [OBOL:automatic] synonym: "sympathetic part of autonomic division of nervous system ganglion" EXACT [OBOL:automatic] xref: AAO:0010773 xref: BTO:0001333 xref: EHDAA2:0001969 xref: EMAPA:17157 xref: FMA:5890 xref: MA:0000226 xref: SCTID:362485003 xref: UMLS:C0017071 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f7/Gray839.png/200px-Gray839.png xref: ncithesaurus:Sympathetic_Ganglion is_a: UBERON:0001805 ! autonomic ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: UBERON:0001807 name: paravertebral ganglion namespace: uberon def: "Trunk ganglion which is part of a bilaterally paired set of sympathetic ganglia located anterior and lateral to the spinal cord." [Wikipedia:Paravertebral_ganglion, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ganglion of sympathetic trunk" EXACT [] synonym: "ganglion trunci sympathetici" EXACT [] synonym: "ganglion trunci sympathici" EXACT LATIN [FMA:5891, FMA:TA] synonym: "sympathetic chain ganglion" EXACT [] xref: FMA:5891 xref: TAO:0001556 xref: ZFA:0001556 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2d/Gray847.png/200px-Gray847.png is_a: UBERON:0001806 ! sympathetic ganglion is_a: UBERON:0007134 ! trunk ganglion relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: UBERON:0001808 name: parasympathetic ganglion namespace: uberon def: "Parasympathetic ganglia are the autonomic ganglia of the parasympathetic nervous system. Most are small terminal ganglia or intramural ganglia, so named because they lie near or within (respectively) the organs they innervate. The exceptions are the four paired parasympathetic ganglia of the head and neck. [WP,unvetted]." [Wikipedia:Parasympathetic_ganglion] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ganglion parasympathicum" RELATED LATIN [BTO:0001256, Wikipedia:Parasympathetic_ganglion] xref: BTO:0001256 xref: EHDAA2:0001400 xref: FMA:5894 xref: MA:0002469 xref: NIF_GrossAnatomy:nlx_anat_100303 xref: SCTID:279284004 xref: UMLS:C0017069 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f7/Gray839.png/200px-Gray839.png xref: ncithesaurus:Parasympathetic_Ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest intersection_of: UBERON:0001805 ! autonomic ganglion intersection_of: part_of UBERON:0000011 ! parasympathetic nervous system [Term] id: UBERON:0001809 name: enteric ganglion namespace: uberon def: "." [Wikipedia:Enteric_ganglia] synonym: "intramural ganglion" EXACT [FMA:5896] xref: FMA:5896 xref: MA:0001144 xref: UMLS:C0501399 xref: ncithesaurus:Enteric_Ganglion is_a: UBERON:0001808 ! parasympathetic ganglion intersection_of: UBERON:0001808 ! parasympathetic ganglion intersection_of: part_of UBERON:0002005 ! enteric nervous system [Term] id: UBERON:0001810 name: nerve plexus namespace: uberon def: "Anatomical junction where subdivisions of two or more neural trees interconnect with one another to form a network through which nerve fibers of the constituent nerve trees become regrouped; together with other nerve plexuses, nerves and ganglia, it constitutes the peripheral nervous system. Examples: cervical nerve plexus, brachial nerve plexus, sacral nerve plexus[FMA]." [FMA:5901, Wikipedia:Nervous_system_plexus] comment: in FMA this is a subtype of junction rather than tissue subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AEO:0000138 xref: BTO:0000205 xref: EHDAA2:0003138 xref: EHDAA:3780 xref: FMA:5901 xref: MA:0002407 xref: SCTID:122455009 xref: UMLS:C0501403 xref: ncithesaurus:Nerve_Plexus is_a: UBERON:0003714 ! neural tissue relationship: has_part CL:0000526 ! afferent neuron relationship: has_part CL:0000527 ! efferent neuron relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0001811 name: conjunctiva namespace: uberon def: "The conjunctiva is a clear mucous membrane consisting of cells and underlying basement membrane that covers the sclera (white part of the eye) and lines the inside of the eyelids. It is made of epithelial tissue. [WP,unvetted]." [Wikipedia:Conjunctiva] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "wall of conjunctival sac" EXACT [] xref: AAO:0010343 xref: BTO:0003415 xref: EFO:0000374 xref: EV:0100340 xref: FMA:59011 xref: GAID:898 xref: MA:0000265 xref: MESH:A09.371.192 xref: SCTID:181161008 xref: UMLS:C0009758 xref: XAO:0000182 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/55/Gray883.png/200px-Gray883.png xref: ncithesaurus:Conjunctiva is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004121 ! ectoderm-derived structure relationship: adjacent_to UBERON:0001711 ! eyelid relationship: adjacent_to UBERON:0001773 ! sclera relationship: part_of UBERON:0005908 ! conjunctival sac relationship: part_of UBERON:0010409 ! eye surface property_value: has_relational_adjective "conjunctival" xsd:string [Term] id: UBERON:0001812 name: palpebral conjunctiva namespace: uberon comment: lines the eyeballs synonym: "eyelid conjunctiva" RELATED [] synonym: "tarsal conjunctiva" EXACT [Wikipedia:Conjunctiva] synonym: "tunica conjunctiva palpebrum" EXACT [] xref: FMA:59025 xref: MA:0001265 xref: SCTID:280666005 xref: UMLS:C0229274 xref: ncithesaurus:Palpebral_Conjunctiva is_a: UBERON:0000064 ! organ part is_a: UBERON:0010305 ! region of conjunctiva relationship: part_of UBERON:0001711 ! eyelid relationship: part_of UBERON:0001811 ! conjunctiva [Term] id: UBERON:0001813 name: somatic nerve plexus namespace: uberon def: "A nerve plexus that is part of a somatic nervous system [Automatically generated definition]." [OBOL:automatic] comment: TODO - check synonym: "plexus nervorum spinalium" EXACT LATIN [FMA:5903, FMA:TA] synonym: "plexus of spinal nerves" EXACT [FMA:5903] synonym: "spinal nerve plexus" EXACT [FMA:5903] xref: EHDAA2:0001899 xref: EMAPA:16987 xref: FMA:5903 xref: MA:0000235 xref: SCTID:42280003 xref: UMLS:C0228603 xref: VHOG:0000925 xref: ncithesaurus:Spinal_Nerve_Plexus intersection_of: UBERON:0001810 ! nerve plexus intersection_of: part_of UBERON:0000012 ! somatic nervous system [Term] id: UBERON:0001814 name: brachial nerve plexus namespace: uberon def: "The brachial plexus is an arrangement of nerve fibers, running from the spine, formed by the ventral rami of the lower cervical and upper thoracic nerve root, specifically from below the fifth cervical vertebra to above the first thoracic vertebra. It proceeds through the neck, the axilla (armpit region) and into the arm. [WP,unvetted]." [Wikipedia:Brachial_plexus] comment: check superclass - nerve vs collection of fibers vs junction; note that FMA also has 'brachial autonomic nerve plexus' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brachial plexus" EXACT [MA:0001180] synonym: "plexus brachialis" RELATED LATIN [Wikipedia:Brachial_plexus] xref: EHDAA2:0000180 xref: EHDAA:3782 xref: EMAPA:16988 xref: FMA:5906 xref: GAID:842 xref: MA:0001180 xref: MESH:A08.800.800.720.050 xref: OpenCyc:Mx4rwNWmO5wpEbGdrcN5Y29ycA xref: SCTID:181002002 xref: UMLS:C0006090 xref: VHOG:0000372 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3a/Gray808.png/200px-Gray808.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c9/Brachial_plexus_color.svg/750px-Brachial_plexus_color.svg.png xref: ncithesaurus:Brachial_Plexus is_a: UBERON:0001813 ! somatic nerve plexus relationship: overlaps UBERON:0002102 ! forelimb property_value: external_definition "A nerve plexus originating from the anterior branches of the last four cervical and the first thoracic spinal nerves, giving off many of the principal nerves of the shoulder, chest, and arms. [TFD][VHOG]" xsd:string property_value: homology_notes "To reach the muscles, dermatomes, and other structures of the limbs, some of the neurons in the spinal nerves come together in the plexus at the base of the limb. Such plexuses occur in all gnathostomes, and they reach their highest complexity among mammals and birds in which the cervical plexus supplies many ventral neck muscles, the brachial plexus supplies the pectoral appendage, a lumbosacral plexus supplies the pelvic appendage, and a coccygeal plexus supplies some of the pelvic muscles.[well established][VHOG]" xsd:string [Term] id: UBERON:0001815 name: lumbosacral nerve plexus namespace: uberon def: "The anterior divisions of the lumbar nerve, sacral nerve, and coccygeal nerves form the lumbosacral plexus, the first lumbar nerve being frequently joined by a branch from the twelfth thoracic. For descriptive purposes this plexus is usually divided into three parts: lumbar plexus sacral plexus pudendal plexus [WP,unvetted]." [Wikipedia:Lumbosacral_plexus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lumbosacral plexus" EXACT [] synonym: "plexus lumbosacralis" EXACT LATIN [FMA:5907, FMA:TA, Wikipedia:Lumbosacral_plexus] xref: EHDAA2:0001040 xref: EHDAA:4673 xref: EMAPA:17587 xref: FMA:5907 xref: GAID:849 xref: MA:0001181 xref: MESH:A08.800.800.720.450 xref: OpenCyc:Mx4rvzYo75wpEbGdrcN5Y29ycA xref: SCTID:181049003 xref: UMLS:C0024093 xref: VHOG:0000926 xref: http://upload.wikimedia.org/wikipedia/commons/8/8d/Gray822.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8d/Gray822.png/200px-Gray822.png xref: ncithesaurus:Lumbosacral_Plexus is_a: UBERON:0001813 ! somatic nerve plexus property_value: homology_notes "To reach the muscles, dermatomes, and other structures of the limbs, some of the neurons in the spinal nerves come together in the plexus at the base of the limb. Such plexuses occur in all gnathostomes, and they reach their highest complexity among mammals and birds in which the cervical plexus supplies many ventral neck muscles, the brachial plexus supplies the pectoral appendage, a lumbosacral plexus supplies the pelvic appendage, and a coccygeal plexus supplies some of the pelvic muscles.[well established][VHOG]" xsd:string [Term] id: UBERON:0001816 name: autonomic nerve plexus namespace: uberon def: "A nerve plexus that is part of an autonomic nervous system [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "autonomic plexus" EXACT [] synonym: "plexus autonomicus" EXACT LATIN [FMA:5910, FMA:TA] synonym: "plexus nervosus visceralis" EXACT LATIN [FMA:5910, FMA:TA] synonym: "plexus visceralis" EXACT LATIN [FMA:5910, FMA:TA] synonym: "visceral nerve plexus" EXACT [] synonym: "visceral plexus" EXACT [] xref: EMAPA:18224 xref: FMA:5910 xref: MA:0000221 xref: SCTID:362482000 intersection_of: UBERON:0001810 ! nerve plexus intersection_of: part_of UBERON:0002410 ! autonomic nervous system [Term] id: UBERON:0001817 name: lacrimal gland namespace: uberon def: "Lobular organ the parenchyma of which consists of glandular acini which communicate the lacrimal sac. Examples: There only two instances, right lacrimal and left lacrimal glands[FMA]. The lacrimal glands are paired almond-shaped glands, one for each eye, that secrete the aqueous layer of the tear film. They are situated in the upper, outer portion of each orbit. Inflammation of the lacrimal glands is called dacryoadenitis[WP]." [Wikipedia:Lacrimal_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula lacrimalis" RELATED LATIN [Wikipedia:Lacrimal_gland] synonym: "preorbital gland" RELATED SENSU [Wikipedia:Preorbital_gland] synonym: "tear gland" RELATED [BTO:0000044] xref: BTO:0000044 xref: EFO:0001389 xref: EV:0100339 xref: FMA:59101 xref: MA:0001296 xref: SCTID:181147003 xref: UMLS:C0022907 xref: VHOG:0001476 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Gray896.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Gray896.png/200px-Gray896.png xref: ncithesaurus:Lacrimal_Gland is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0002530 ! gland is_a: UBERON:0004859 ! eye gland relationship: part_of UBERON:0001750 ! lacrimal apparatus relationship: part_of UBERON:0002330 ! exocrine system property_value: external_definition "The preorbital gland is a paired exocrine gland found in many species of hoofed animals, which is homologous to the lacrimal gland found in humans. These glands are trenchlike slits of dark blue to black, nearly bare skin extending from the medial canthus of each eye. They are lined by a combination of sebaceous and sudoriferous glands, and they produce secretions which contain pheromones and other semiochemical compounds. Ungulates frequently deposit these secretions on twigs and grass as a means of communication with other animals. The preorbital gland serves different roles in different species. Pheromone-containing secretions from the preorbital gland may serve to establish an animal's dominance (especially in preparation for breeding), mark its territory, or simply to produce a pleasurable sensation to the animal. Because of its critical role in scent marking, the preorbital gland is usually considered as a type of scent gland. A further function of these glands may be to produce antimicrobial compounds against skin pathogens. Antimicrobial compounds found in these glands may be biosynthesized by the animal itself, or by microorganisms that live in these glands[Wikipedia:Preorbital_gland]." xsd:string [Term] id: UBERON:0001818 name: tarsal gland namespace: uberon def: "The meibomian glands (or tarsal glands) are a special kind of sebaceous glands at the rim of the eyelids, responsible for the supply of sebum, an oily substance that prevents evaporation of the eye's tear film, prevents tear spillage onto the cheek, and makes the closed lids airtight. There are approximately 50 glands on the upper eyelids and 25 glands on the lower eyelids. The glands are named after Heinrich Meibom (1638-1700), a German physician. [WP,unvetted]." [Wikipedia:Meibomian_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Meibomian gland" EXACT [] synonym: "gland of Meibom" EXACT [] synonym: "glandula tarsales" EXACT [] synonym: "palpebral gland" RELATED [] xref: BTO:0004165 xref: FMA:59104 xref: GAID:899 xref: MA:0001249 xref: MESH:A09.371.337.614 xref: SCTID:280585003 xref: UMLS:C0025181 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Gray1205.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Gray1205.png/200px-Gray1205.png xref: ncithesaurus:Meibomian_Gland is_a: UBERON:0013231 ! sebaceous gland of eyelid intersection_of: UBERON:0001821 ! sebaceous gland intersection_of: part_of UBERON:0004772 ! eyelid tarsus [Term] id: UBERON:0001819 name: palpebral fissure namespace: uberon def: "Orifice separating upper and lower eyelids. In the human adult this measures about 10mm vertically and 30 mm horizontally. It can be reduced in size in fetal alcohol syndrome. In Trisomy 9 the palpebral fissures can be upslanting. [WP,modified]." [Wikipedia:Palpebral_fissure] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "rima palpebrarum" RELATED LATIN [Wikipedia:Palpebral_fissure] xref: FMA:59110 xref: MA:0001266 xref: SCTID:280576003 xref: http://upload.wikimedia.org/wikipedia/commons/a/a9/Gray892.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a9/Gray892.png/200px-Gray892.png is_a: UBERON:0000161 ! orifice is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001711 ! eyelid [Term] id: UBERON:0001820 name: sweat gland namespace: uberon def: "Sweat glands are exocrine glands, found in the skin of all mammal species, that are used for body temperature regulation. In humans a system of apocrine - and merocrine sweat glands is the main method of cooling. Many other mammals rely on panting or other means as a primary source of cooling, but still use sweat glands to aid in body temperature regulation. Sweat also serves a purpose of increasing friction on the palms of hands or the pads of paws. Both apocrine and merocrine sweat glands contain myoepithelial cells (from Greek myo-, 'muscle'), specialized epithelial cells located between the gland cells and the underlying basal lamina. Myoepithelial cell contractions squeeze the gland and discharge the accumulated secretions. The secretory activities of the gland cells and the contractions of myoepithelial cells are controlled by both the autonomic nervous system and by the circulating hormones. Additionally, ceruminous glands, which produce ear wax, and mammary glands, which produce milk, are frequently considered to be modified sweat glands. [WP,unvetted]." [Wikipedia:Sweat_gland] comment: todo - check if all sweat glands are epidermal - see EMAPA:29743 subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula sudorifera" RELATED [BTO:0001331] synonym: "sudoriferous gland" RELATED [BTO:0001331] synonym: "sudoriparous gland" RELATED [BTO:0001331] xref: BTO:0001331 xref: EV:0100160 xref: FMA:59152 xref: GAID:943 xref: MA:0000150 xref: MESH:A10.336.899 xref: OpenCyc:Mx4rvVjx15wpEbGdrcN5Y29ycA xref: SCTID:361700009 xref: UMLS:C0038989 xref: VHOG:0001467 xref: http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6d/Skin.svg/200px-Skin.svg.png xref: ncithesaurus:Sweat_Gland is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0007771 ! epidermis gland relationship: develops_from UBERON:0005089 ! sweat gland placode relationship: has_quality PATO:0001873 ! cylindrical relationship: part_of UBERON:0001003 ! epidermis intersection_of: UBERON:0002530 ! gland intersection_of: secretes UBERON:0001089 ! sweat property_value: external_definition "A gland that secretes sweat, found in the dermis or subcutaneous tissue, opening by a duct on the body surface. [TFD][VHOG]" xsd:string property_value: homology_notes "Sweat glands (also called sudoriferous glands) are unique to mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0001821 name: sebaceous gland namespace: uberon def: "A holocrine gland that secretes sebum into the hair follicles, or in hairless areas into ducts.[MP]." [MP:0000647, Wikipedia:Sebaceous_gland] comment: Usage notes: sebaceous glands are also found in glabrous areas of eyelids, nose, penis, labia minora and nipples, and do not always secrete into hair follices. This causes some confusion in classification. In addition some structures, such as preputial glands are sometimes called 'modified' sebaceous glands, implying a non-subclass relationship. we follow MP and MA in keeping this class generic and creating a distinct subclass for sebaceuous glands of the skin. The FMA class may be better placed under this subclass. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula sebacea" RELATED LATIN [Wikipedia:Sebaceous_gland] synonym: "glandula sebaceae" RELATED [BTO:0001980] synonym: "sebaceous follicle" RELATED [BTO:0001980] xref: BTO:0001980 xref: EV:0100161 xref: FMA:59160 xref: GAID:900 xref: MA:0002565 xref: MESH:A10.336.827 xref: SCTID:361697005 xref: UMLS:C0036505 xref: VHOG:0001468 xref: http://upload.wikimedia.org/wikipedia/commons/4/49/HairFollicle.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/49/HairFollicle.png/200px-HairFollicle.png xref: ncithesaurus:Sebaceous_Gland is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0007771 ! epidermis gland is_a: UBERON:0012344 ! holocrine gland relationship: develops_from UBERON:0005088 ! sebaceous gland placode relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0002330 ! exocrine system relationship: part_of UBERON:0006003 ! skin adnexa relationship: secretes UBERON:0001866 ! sebum property_value: external_definition "Any of the numerous holocrine glands in the dermis that empty into a hair follicle and produce and secrete sebum. [TFD][VHOG]" xsd:string property_value: homology_notes "Sebaceous glands are also limited to mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0001822 name: orbital septum namespace: uberon def: "a membranous sheet that acts as the anterior boundary of the orbit. It extends from the orbital rims to the eyelids[WP]." [Wikipedia:Orbital_septum] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "septum orbitale" RELATED LATIN [Wikipedia:Orbital_septum] xref: FMA:59328 xref: MA:0001259 xref: SCTID:368859002 xref: http://upload.wikimedia.org/wikipedia/commons/1/18/Gray891.png is_a: UBERON:0000094 ! membrane organ is_a: UBERON:0003037 ! septum is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002204 ! musculoskeletal system relationship: part_of UBERON:0004772 ! eyelid tarsus relationship: surrounds UBERON:0001697 ! orbital region [Term] id: UBERON:0001823 name: nasal cartilage namespace: uberon def: "One of the cartilage structures in the nose that provide form and support[WP]." [Wikipedia:Nasal_cartilage] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilage of nose" EXACT [] xref: FMA:59502 xref: MA:0001883 xref: SCTID:278941001 xref: UMLS:C0225415 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e1/Gray852.png/200px-Gray852.png xref: ncithesaurus:Nasal_Cartilage is_a: UBERON:0002418 ! cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: encloses UBERON:0000402 ! nasal vestibule intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0000004 ! olfactory apparatus [Term] id: UBERON:0001824 name: mucosa of larynx namespace: uberon def: "the mucous lining of the larynx, which is composed of squamous epithelium in the upper larynx and ciliated columnar epithelium in the lower larynx." [MP:0002261] comment: This class was created automatically from a combination of ontologies synonym: "laryngeal mucosa" EXACT [] synonym: "larynx mucosa" EXACT [] synonym: "larynx mucosa of organ" EXACT [OBOL:automatic] synonym: "larynx mucous membrane" EXACT [OBOL:automatic] synonym: "larynx organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of organ of larynx" EXACT [OBOL:automatic] synonym: "mucous membrane of larynx" EXACT [] synonym: "organ mucosa of larynx" EXACT [OBOL:automatic] synonym: "tunica mucosa laryngis" EXACT LATIN [FMA:59662, FMA:TA] xref: EMAPA:18334 xref: FMA:59662 xref: GAID:301 xref: MA:0001766 xref: MESH:A04.329.597 xref: SCTID:361940006 xref: UMLS:C0023053 xref: ncithesaurus:Laryngeal_Mucosa is_a: UBERON:0000064 ! organ part is_a: UBERON:0000379 ! tracheal mucosa is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001737 ! larynx intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001737 ! larynx [Term] id: UBERON:0001825 name: paranasal sinus namespace: uberon def: "Paranasal sinuses are air-filled spaces, communicating with the nasal cavity, within the bones of the skull and face. [WP,unvetted]." [Wikipedia:Paranasal_sinuses] comment: Arise as epithelial lined diverticula of the lining of the nasal cavity. The extent of sinus development varies with species, most of the development occurs postnatally subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nasal sinus" RELATED [GAID:355] synonym: "sinus" BROAD [] xref: EHDAA:6489 xref: EV:0100038 xref: FMA:59679 xref: GAID:355 xref: MA:0000431 xref: MESH:A04.531.621 xref: SCTID:181203001 xref: UMLS:C0030471 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/Nnh_front.svg/200px-Nnh_front.svg.png xref: ncithesaurus:Paranasal_Sinus is_a: UBERON:0002553 ! anatomical cavity relationship: continuous_with UBERON:0001707 ! nasal cavity relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0001826 name: nasal cavity mucosa namespace: uberon def: "the mucous membrane that lines the nasal cavity[MP]." [MP:0002238] comment: TODO - check lining vs part of. split olfactory and nasal mucosa? synonym: "mucosa of nose" EXACT [FMA:59684] synonym: "mucous membrane of nose" EXACT [FMA:59684] synonym: "nasal mucosa" RELATED [] synonym: "tunica mucosa nasalis" EXACT [] synonym: "tunica mucosa nasi" EXACT LATIN [FMA:59684, FMA:TA] xref: BTO:0000912 xref: FMA:59684 xref: GAID:302 xref: SCTID:310211009 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004785 ! respiratory system mucosa relationship: located_in UBERON:0001707 ! nasal cavity intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000004 ! olfactory apparatus [Term] id: UBERON:0001827 name: lacrimal gland secretion namespace: uberon def: "A substance secreted the lacrimal gland.[Automatically generated definition]" [OBOL:automatical, Wikipedia:Tear] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lacrimal secretion" EXACT [] synonym: "tear" EXACT [FMA:59756] synonym: "tears" EXACT PLURAL [] xref: BTO:0001499 xref: ENVO:02000034 xref: FMA:59756 xref: GAID:1173 xref: MA:0002508 xref: MESH:A12.200.882 xref: UMLS:C0039409 xref: galen:Tear xref: galen:Tears xref: ncithesaurus:Tear intersection_of: UBERON:0000456 ! bodily secretion intersection_of: secreted_by UBERON:0001817 ! lacrimal gland [Term] id: UBERON:0001828 name: gingiva namespace: uberon def: "The fibrous investing tissue, covered by keratinized epithelium, that immediately surrounds a tooth and is contiguous with its periodontal ligament and with the mucosal tissues of the mouth[Glossary of Periodontal Terms 2001]." [ISBN10:0013002015, Wikipedia:Gingiva] comment: Editor notes: FMA has a 3-level breakdown of jaws into: region, jaw (skeleton+gums), skeleton. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gingival mucosa" RELATED [] synonym: "gum" EXACT [FMA:59762] synonym: "gum tissue" EXACT [UBERON:cjm] synonym: "gums" EXACT [] xref: BTO:0000519 xref: EFO:0001925 xref: EV:0100064 xref: FMA:59762 xref: GAID:1257 xref: MA:0000342 xref: MESH:A14.254.646.480 xref: OpenCyc:Mx4rvViWnZwpEbGdrcN5Y29ycA xref: SCTID:181224006 xref: UMLS:C0017562 xref: VHOG:0001269 xref: galen:Gingiva xref: http://upload.wikimedia.org/wikipedia/commons/2/2e/Tooth_Section.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2e/Tooth_Section.svg/200px-Tooth_Section.svg.png xref: ncithesaurus:Gingiva is_a: UBERON:0000344 ! mucosa is_a: UBERON:0003729 ! mouth mucosa relationship: adjacent_to UBERON:0004103 ! alveolar ridge relationship: adjacent_to UBERON:0008266 ! periodontal ligament relationship: continuous_with UBERON:0003729 ! mouth mucosa relationship: part_of UBERON:0003729 ! mouth mucosa relationship: part_of UBERON:0011595 ! jaw region property_value: has_relational_adjective "gingival" xsd:string [Term] id: UBERON:0001829 name: major salivary gland namespace: uberon def: "the three largest glands of the oral cavity that secrete most of the saliva, including the parotid, submandibular, and sublingual glands." [MP:0003792] comment: There are 3 pairs of major salivary glands in human and mouse[ISBN10:0123813611] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: FMA:59788 xref: MA:0002478 xref: SCTID:303049006 xref: UMLS:C0930553 xref: galen:MajorSalivaryGland xref: ncithesaurus:Major_Salivary_Gland is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0010047 ! oral gland relationship: in_lateral_side_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0001830 name: minor salivary gland namespace: uberon def: "the smaller, largely mucus-secreting, exocrine glands of the oral cavity, consisting of the labial, buccal, molar, lingual, and palatine glands[MP]. There are over 600 minor salivary glands located throughout the oral cavity within the lamina propria of the oral mucosa. They are 1-2mm in diameter and unlike the other glands, they are not encapsulated by connective tissue only surrounded by it. The gland is usually a number of acini connected in a tiny lobule. A minor salivary gland may have a common excretory duct with another gland, or may have its own excretory duct. Their secretion is mainly mucous in nature (except for Von Ebner's glands) and have many functions such as coating the oral cavity with saliva. Problems with dentures are usually associated with minor salivary glands[WP]." [MP:0003791, Wikipedia:Salivary_gland#Minor_Salivary_Glands] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: FMA:59789 xref: GAID:940 xref: MA:0002479 xref: MESH:A10.336.779.650 xref: SCTID:362177001 xref: UMLS:C0036099 xref: galen:MinorSalivaryGland xref: ncithesaurus:Minor_Salivary_Gland is_a: UBERON:0001044 ! salivary gland relationship: part_of UBERON:0002330 ! exocrine system relationship: part_of UBERON:0005334 ! oral lamina propria [Term] id: UBERON:0001831 name: parotid gland namespace: uberon def: "The parotid gland is the largest of the salivary glands. It is found wrapped around the mandibular ramus, and it secretes saliva through Stensen's duct into the oral cavity, to facilitate mastication and swallowing. [WP,unvetted]." [Wikipedia:Parotid_gland] comment: The mouse parotid, exorbital lacrimal gland and exocrine pancreas have similar histological appearances[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandula parotidea" RELATED LATIN [Wikipedia:Parotid_gland] synonym: "parotid" EXACT [] xref: AAO:0010095 xref: BTO:0001004 xref: EFO:0002558 xref: EMAPA:18537 xref: EV:0100060 xref: FMA:59790 xref: GAID:938 xref: MA:0001585 xref: MESH:A10.336.779.464 xref: OpenCyc:Mx4rvqwyg5wpEbGdrcN5Y29ycA xref: SCTID:181234002 xref: UMLS:C0030580 xref: VHOG:0000308 xref: galen:ParotidGland xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Illu_quiz_hn_02.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/51/Illu_quiz_hn_02.jpg/200px-Illu_quiz_hn_02.jpg xref: ncithesaurus:Parotid_Gland is_a: UBERON:0001829 ! major salivary gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0008801 ! parotid gland primordium relationship: in_lateral_side_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0001567 ! cheek disjoint_from: UBERON:0013219 ! parotoid gland property_value: external_definition "A mammalian salivary gland located caudal to the ear. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-22, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes "The most common oral glands in mammals are the salivary glands. There are usually three primary pairs of salivary glands, named for their approximate positions: mandibular (submandibular or submaxillary), sublingual, and parotid.[well established][VHOG]" xsd:string [Term] id: UBERON:0001832 name: sublingual gland namespace: uberon def: "The sublingual glands are salivary glands in the mouth. They lie anterior to the submandibular gland under the tongue, beneath the mucous membrane of the floor of the mouth. They are drained by 8-20 excretory ducts called the ducts of Rivinus. The largest duct, the sublingual duct (of Bartholin) joins the submandibular duct to drain through the sublingual caruncle. The sublingual gland consists mostly of Mucous acini capped with serous demilunes and is therefore categorized as a mixed gland. Most of the remaining small sublingual ducts open separately into the mouth on an elevated crest of mucous membrane, the sublingual fold, caused by the gland and on either side of the frenulum linguae. The chorda tympani nerve is secretomotor to the sublingual glands. [WP,unvetted]." [Wikipedia:Sublingual_gland] comment: Single lobed in mouse; largest acini of the 3 rodent salivary glands. In human and mouse, secretions are predominantly mucinous[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Rivinus gland" RELATED [BTO:0001315] synonym: "Rivinus' gland" EXACT [] synonym: "ductus sublingualis" EXACT [] synonym: "glandula sublingualis" RELATED LATIN [Wikipedia:Sublingual_gland] synonym: "sublingual salivary gland" RELATED [] synonym: "submaxillary gland" RELATED [MA:0001589] xref: BTO:0001315 xref: EMAPA:18809 xref: EV:0100062 xref: FMA:59791 xref: GAID:941 xref: MA:0001588 xref: MESH:A10.336.779.687 xref: SCTID:362176005 xref: UMLS:C0038553 xref: VHOG:0000363 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray1024.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray1024.png/200px-Gray1024.png xref: ncithesaurus:Sublingual_Salivary_Gland is_a: UBERON:0001829 ! major salivary gland relationship: develops_from UBERON:0006297 ! sublingual gland primordium disjoint_from: UBERON:0009964 ! crustacean maxillary gland property_value: external_definition "One of a pair of small salivary glands situated under the mucous membrane of the floor of the mouth, beneath the tongue. [TFD][VHOG]" xsd:string property_value: homology_notes "Most mammals have well-developed parotid, mandibular, and sublingual glands.[well established][VHOG]" xsd:string [Term] id: UBERON:0001833 name: lip namespace: uberon def: "One of the two fleshy folds which surround the opening of the mouth. " [Wikipedia:Lip, http://www.medterms.com/script/main/art.asp?articlekey=9458] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "labia oris" RELATED LATIN [Wikipedia:Lip] synonym: "lips" RELATED [] xref: BTO:0001647 xref: FMA:59816 xref: GAID:76 xref: MA:0000343 xref: MESH:A01.456.505.631.515 xref: OpenCyc:Mx4rvVi4U5wpEbGdrcN5Y29ycA xref: SCTID:181221003 xref: TAO:0007006 xref: UMLS:C0023759 xref: VHOG:0000677 xref: ZFA:0007006 xref: galen:Lip xref: http://upload.wikimedia.org/wikipedia/commons/9/90/Lips.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Mouth.jpg/200px-Mouth.jpg xref: ncithesaurus:Lip is_a: UBERON:0003102 ! surface structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000165 ! mouth relationship: surrounds UBERON:0000166 ! oral opening disjoint_from: UBERON:0004084 ! genital labium property_value: never_in_taxon NCBITaxon:8782 property_value: external_definition "Surface structure that is one of the two fleshy folds surrounding the opening of the mouth.[TAO]" xsd:string property_value: has_relational_adjective "labial" xsd:string [Term] id: UBERON:0001834 name: upper lip namespace: uberon alt_id: UBERON:0003391 def: "Lip that covers the upper portion of the mouth.[TAO]." [TAO:0001970, Wikipedia:Upper_lip] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "labium superius oris" RELATED LATIN [Wikipedia:Upper_lip] synonym: "upper jaw lip" EXACT [UBERON:cjm] xref: EMAPA:17925 xref: FMA:59817 xref: MA:0000919 xref: OpenCyc:Mx4rvWPv7pwpEbGdrcN5Y29ycA xref: SCTID:245776003 xref: TAO:0001970 xref: VHOG:0001750 xref: ZFA:0005226 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Illu01_head_neck.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d4/Illu01_head_neck.jpg/200px-Illu01_head_neck.jpg is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: immediate_transformation_of UBERON:0011592 ! future upper lip intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001709 ! upper jaw region property_value: external_definition "Lip that covers the lower portion of the mouth. [ZFIN:Curator][VHOG]" xsd:string property_value: external_definition "Lip that covers the upper portion of the mouth.[TAO]" xsd:string [Term] id: UBERON:0001835 name: lower lip namespace: uberon alt_id: UBERON:0003392 def: "Lip that covers the upper portion of the mouth.[TAO]." [TAO:0002060, Wikipedia:Lower_lip] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "labium inferius oris" RELATED LATIN [Wikipedia:Lower_lip] synonym: "lower jaw lip" EXACT [UBERON:cjm] xref: EHDAA2:0001020 xref: EMAPA:17909 xref: FMA:59818 xref: MA:0000921 xref: OpenCyc:Mx4rv842UpwpEbGdrcN5Y29ycA xref: SCTID:245777007 xref: TAO:0002060 xref: UMLS:C0458583 xref: ZFA:0005225 xref: http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Mouth.jpg/200px-Mouth.jpg xref: ncithesaurus:Lower_Lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0011596 ! future lower lip intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001710 ! lower jaw region property_value: external_definition "Lip that covers the lower portion of the mouth.[TAO]" xsd:string [Term] id: UBERON:0001836 name: saliva namespace: uberon def: "In humans, the saliva is a turbid and slightly viscous fluid, generally of an alkaline reaction, and is secreted by the parotid, submaxillary, and sublingual glands. In the mouth the saliva is mixed with the secretion from the buccal glands. In man and many animals, saliva is an important digestive fluid on account of the presence of the peculiar enzyme, ptyalin[GO]." [GO:0046541, Wikipedia:Saliva] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sailva normalis" RELATED LATIN [Wikipedia:Saliva] synonym: "saliva atomaris" RELATED LATIN [Wikipedia:Saliva] synonym: "saliva molecularis" RELATED LATIN [Wikipedia:Saliva] synonym: "salivary gland secretion" EXACT [FMA:59862] xref: BTO:0001202 xref: ENVO:02000036 xref: FMA:59862 xref: GAID:1167 xref: MA:0002507 xref: MAT:0000444 xref: MESH:A12.200.666 xref: OpenCyc:Mx4rvVjJ95wpEbGdrcN5Y29ycA xref: UMLS:C0036087 xref: galen:Saliva xref: ncithesaurus:Saliva is_a: UBERON:0000456 ! bodily secretion relationship: has_function_in GO:0007586 ! digestion property_value: has_relational_adjective "salivary" xsd:string [Term] id: UBERON:0001837 name: duct of salivary gland namespace: uberon def: "An intralobular duct found in salivary glands and involved in the production and transport of their secretions[BTO]." [BTO:0005115, Wikipedia:Salivary_duct] comment: check taxonomy coverage - define functionally? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "salivary duct" EXACT [] synonym: "salivary gland duct" EXACT [] synonym: "secretory duct" RELATED [BTO:0005115] xref: BTO:0005115 xref: FMA:59908 xref: GAID:939 xref: MA:0001586 xref: MESH:A10.336.779.640 xref: SCTID:181238004 is_a: UBERON:0003928 ! digestive system duct is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: channel_for UBERON:0001836 ! saliva relationship: channels_from UBERON:0001044 ! salivary gland relationship: channels_into UBERON:0000165 ! mouth intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001044 ! salivary gland [Term] id: UBERON:0001838 name: sublingual duct namespace: uberon def: "The excretory ducts of the sublingual gland are from eight to twenty in number. Of the smaller sublingual ducts (ducts of Rivinus), some join the submandibular duct; others open separately into the mouth, on the elevated crest of mucous membrane (plica sublingualis), caused by the projection of the gland, on either side of the frenulum linguae. One or more join to form the major sublingual duct (larger sublingual duct, duct of Bartholin), which opens into the submandibular duct. [WP,unvetted]." [Wikipedia:Sublingual_duct] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0004558 xref: FMA:59983 xref: MA:0002699 xref: SCTID:281000009 relationship: channels_from UBERON:0001832 ! sublingual gland intersection_of: UBERON:0001837 ! duct of salivary gland intersection_of: part_of UBERON:0001832 ! sublingual gland [Term] id: UBERON:0001839 name: bony labyrinth namespace: uberon def: "A system of fluid passages in the inner ear, including both the cochlea, which is part of the auditory system, and the vestibular system, which provides the sense of balance. The bony labyrinth, or osseous labyrinth, is the network of passages with bony walls lined with periosteum. The bony labyrinth is lined with the membranous labyrinth. There is a layer of perilymph between them. The three parts of the bony labyrinth are the vestibule of the ear, the semicircular canals, and the cochlea. The vestibular system is the region of the inner ear where the semicircular canals converge, close to the cochlea (the hearing organ). The vestibular system works with the visual system to keep objects in focus when the head is moving. Joint and muscle receptors also are important in maintaining balance. The brain receives, interprets, and processes the information from these systems that control our balance. [WP,unvetted]." [Wikipedia:Bony_labyrinth] comment: Ideally we would place a spatially disjoint from relationship to membranous labyrinth, but there are many parts in common. this should be resolved. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "labyrinthus osseus" RELATED LATIN [Wikipedia:Bony_labyrinth] synonym: "osseous labyrinth" EXACT [] synonym: "osseus labyrinth" RELATED [] xref: AAO:0011078 xref: BTO:0004685 xref: EV:0100362 xref: FMA:60179 xref: MA:0000238 xref: SCTID:279727008 xref: UMLS:C0458699 xref: VHOG:0001219 xref: XAO:0000193 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Gray920.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/22/Gray920.png/200px-Gray920.png xref: ncithesaurus:Osseous_Labyrinth is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001694 ! petrous part of temporal bone relationship: part_of UBERON:0001846 ! internal ear relationship: part_of UBERON:0004681 ! vestibular system [Term] id: UBERON:0001840 name: semicircular canal namespace: uberon def: "One of three half-circular, interconnected tubes located inside each ear[WP]. Fluid-filled toroidal spaces, arranged orthogonally to each other in the ear, that detect angular accelerations. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)" [Wikipedia:Semicircular_canal, ZFIN:curator] comment: Note that MA divides this into osseous and duct. In FMA, this is systemically part of the bony labyrinth. Note this is an anatomical space in ZFA. The MA treatment has advantages for representing the neuroepithelium, which should not be part of bone. Also check duct vs canal subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "canalis semicircularis" RELATED LATIN [Wikipedia:Semicircular_canal] synonym: "ductus semicirculares" RELATED PLURAL [BTO:0003383, FMA:71880, FMA:TA] synonym: "scc" RELATED [TAO:0000431] synonym: "semicircular canals" EXACT PLURAL [TAO:0000431] xref: AAO:0011098 xref: BTO:0003383 xref: EV:0100365 xref: FMA:60186 xref: GAID:776 xref: MA:0000249 xref: MESH:A09.246.631.663 xref: SCTID:279757004 xref: TAO:0000431 xref: UMLS:C0036622 xref: VHOG:0001144 xref: XAO:0000198 xref: ZFA:0000431 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Balance_Disorder_Illustration_A.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Balance_Disorder_Illustration_A.png/200px-Balance_Disorder_Illustration_A.png xref: ncithesaurus:Semicircular_Canal is_a: UBERON:0000025 ! tube is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003051 ! ear vesicle relationship: part_of UBERON:0001846 ! internal ear relationship: part_of UBERON:0001849 ! membranous labyrinth property_value: external_definition "Fluid-filled toroidal spaces, arranged orthogonally to each other in the ear, that detect angular accelerations. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. These ducts are sometimes called canals, but technically the term semicircular canal applies to the spaces in the osseus labyrinth in which the semicircular ducts lie.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0001841 name: anterior semicircular canal namespace: uberon def: "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)" [Wikipedia:Anterior_semicircular_canal, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior semicircular canals" RELATED [] synonym: "anterior semicircular duct" RELATED [] synonym: "canalis semircularis posterior" RELATED [AAO:0000058] synonym: "rostral vertical semicircular canal" RELATED [] synonym: "superior semicircular canal" EXACT [] xref: AAO:0000058 xref: EHDAA2:0001959 xref: EHDAA:7802 xref: EMAPA:17299 xref: FMA:60187 xref: MA:0001207 xref: SCTID:279764002 xref: TAO:0000314 xref: UMLS:C1288332 xref: ZFA:0000314 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png xref: ncithesaurus:Superior_Semicircular_Canal is_a: UBERON:0001840 ! semicircular canal relationship: part_of UBERON:0001840 ! semicircular canal property_value: axiom_lost_from_external_ontology "relationship loss: develops_from anterior semicircular canal primordium (TAO:0000469)[TAO]" xsd:string property_value: external_definition "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)[TAO]" xsd:string [Term] id: UBERON:0001842 name: posterior semicircular canal namespace: uberon def: "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)" [Wikipedia:Posterior_semicircular_canal, ZFIN:curator] comment: Editor notes: verify AAO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "canalis semicircularis posterior" RELATED LATIN [Wikipedia:Posterior_semicircular_canal] synonym: "caudal vertical semicircular canal" RELATED [] synonym: "pars superior of labyrinth" RELATED [AAO:0000420] synonym: "posterior semicircular canals" RELATED [] synonym: "posterior semicircular duct" RELATED [] xref: AAO:0000420 xref: EHDAA2:0001489 xref: EHDAA:7796 xref: EMAPA:17296 xref: FMA:60190 xref: MA:0001209 xref: SCTID:279762003 xref: TAO:0000262 xref: UMLS:C0229454 xref: ZFA:0000262 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray921.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png xref: ncithesaurus:Posterior_Semicircular_Canal is_a: UBERON:0001840 ! semicircular canal relationship: part_of UBERON:0001840 ! semicircular canal property_value: axiom_lost_from_external_ontology "relationship loss: develops_from posterior semicircular canal primordium (TAO:0000412)[TAO]" xsd:string property_value: external_definition "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)[TAO]" xsd:string [Term] id: UBERON:0001843 name: lateral semicircular canal namespace: uberon def: "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)" [Wikipedia:Lateral_semicircular_canal, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "horizontal semicircular canal" RELATED [] synonym: "lateral semicircular canals" RELATED [] synonym: "lateral semicircular duct" RELATED [] xref: EHDAA2:0000920 xref: EHDAA:7790 xref: EMAPA:17821 xref: FMA:60193 xref: MA:0001208 xref: SCTID:279761005 xref: TAO:0000220 xref: ZFA:0000220 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png is_a: UBERON:0001840 ! semicircular canal relationship: part_of UBERON:0001840 ! semicircular canal property_value: axiom_lost_from_external_ontology "relationship loss: develops_from lateral semicircular canal primordium (TAO:0000232)[TAO]" xsd:string property_value: external_definition "One of three fluid-filled toroidal spaces, arranged orthogonally to each other in each ear, that detect angular acceleration. (See Anatomical Atlas entry for semicircular canals by T. Whitfield.)[TAO]" xsd:string [Term] id: UBERON:0001844 name: cochlea namespace: uberon def: "The cochlea is the auditory portion of the inner ear. Its core component is the Organ of Corti, the sensory organ of hearing, which is distributed along the partition separating fluid chambers in the coiled tapered tube of the cochlea. The name is from the Latin for snail, which is from the Greek kokhlias 'snail, screw,' from kokhlos 'spiral shell,' in reference to its coiled shape; the cochlea is coiled in most mammals, monotremes being the exceptions. [WP,unvetted]." [Wikipedia:Cochlea] comment: AO notes: sources vary in connection to bony labyrinth. Taxon notes: The association with 'lagena' in frog and fish comes from HOG, although HOG is inconsistent here, associating lagena with XAO cochlea and ZFA cochlear duct. NBK53175 says: \"In contrast, the ventrally located auditory chambers have undergone more extensive evolutionary modifications. The saccule and lagena are prominent auditory organs in fish but the saccule has a vestibular role in mammals and birds, and the lagena is absent in mammals. The primary au- ditory organ in mammals and birds is the cochlea, which has no known counterpart in amphibians and fish (Riley and Phillips, 2003)\" subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cochlear organ" RELATED [BTO:0000267] synonym: "cochlear part of bony labyrinth" EXACT [] synonym: "lagena" EXACT SENSU [XAO:0000197] xref: AAO:0000253 xref: BTO:0000267 xref: EFO:0000357 xref: EMAPA:17597 xref: EV:0100363 xref: FMA:60201 xref: GAID:724 xref: MA:0000240 xref: MAT:0000144 xref: MESH:A09.246.631.246 xref: MIAA:0000144 xref: NIF_GrossAnatomy:birnlex_1190 xref: NIF_GrossAnatomy:birnlex_883 xref: OpenCyc:Mx4rvqfJmJwpEbGdrcN5Y29ycA xref: SCTID:181187008 xref: TAO:0000374 xref: UMLS:C0009195 xref: VHOG:0000691 xref: XAO:0000197 xref: ZFA:0000374 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Cochlea-crosssection.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c7/Cochlea-crosssection.png/200px-Cochlea-crosssection.png xref: ncithesaurus:Cochlea is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001839 ! bony labyrinth property_value: external_definition "A spiral-shaped cavity in the petrous portion of the temporal bone of the inner ear, containing the nerve endings essential for hearing and forming one of the divisions of the labyrinth. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "cochlear" xsd:string property_value: homology_notes "Because achieving high sensitivity is generally advantageous for auditory organs, it is not surprising that evidence for cochlear amplification is also seen in nonmammals. Spontaneous otoacoustic emissions (SOAEs) are narrow-band sound signals emitted from the inner ear, and it is generally assumed that their energy derives from the hair-cell molecular motors underlying cochlear amplification. However, all terrestrial vertebrates studied so far (including amphibians) show very similar SOAEs. The most parsimonious explanation for the universality of this phenomena is that some kind of amplifying mechanism is at least as old as land vertebrates themselves.[well established][VHOG]" xsd:string [Term] id: UBERON:0001845 name: perilymph namespace: uberon def: "Transudate contained in the osseous labyrinth outside the membranous labyrinth.[FMA]" [FMA:FMA, Wikipedia:Perilymph] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "liquor cotunnii" RELATED [Wikipedia:Perilymph] synonym: "perilympha" RELATED [Wikipedia:Perilymph] xref: FMA:60908 xref: GAID:1185 xref: MA:0002529 xref: MESH:A12.207.571.678 xref: TAO:0005413 xref: UMLS:C0031059 xref: ZFA:0005413 xref: ncithesaurus:Perilymph is_a: UBERON:0006586 ! otolymph relationship: located_in UBERON:0001839 ! bony labyrinth relationship: located_in UBERON:0002278 ! perilymphatic space relationship: surrounds UBERON:0001849 ! membranous labyrinth [Term] id: UBERON:0001846 name: internal ear namespace: uberon def: "Complex labyrinthine structure that comprises sensory endorgans specialized for vestibular, auditory, and acoustico-vestibular sensation." [PMID:16217737, Wikipedia:Internal_ear, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "auris interna" RELATED [BTO:0000630] synonym: "inner ear" EXACT [] synonym: "labyrinth" RELATED [] synonym: "otocyst" RELATED [] xref: AAO:0000238 xref: BTO:0000630 xref: EFO:0001363 xref: EHDAA2:0000831 xref: EHDAA:504 xref: EMAPA:16194 xref: EV:0100361 xref: FMA:60909 xref: GAID:871 xref: MA:0000237 xref: MAT:0000145 xref: MESH:A09.246.631 xref: MIAA:0000145 xref: NIF_GrossAnatomy:birnlex_1196 xref: OpenCyc:Mx4rwJ8SsJwpEbGdrcN5Y29ycA xref: SCTID:181189006 xref: TAO:0000217 xref: UMLS:C0022889 xref: VHOG:0000284 xref: XAO:0000192 xref: ZFA:0000217 xref: galen:InnerEar xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/19/Gray923.png/200px-Gray923.png xref: ncithesaurus:Internal_Ear is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003051 ! ear vesicle relationship: part_of UBERON:0001690 ! ear property_value: external_definition "The auditory (hearing) and vestibular (balance) organ of the fish, equivalent to the inner ear of amniotes. (See Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "The labyrinth, or inner ear, evolved very early in vertebrate history and, with many variations in configuration but none of basic design and function, has been retained by all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0001847 name: lobule of pinna namespace: uberon def: "The earlobe is, in humans and many other animals, the soft lower part of the external ear. It is the lowermost portion of the human pinna, projecting below the antitragus. The earlobe is composed of tough areolar and adipose (fatty) connective tissues, lacking the firmness and elasticity of the rest of the pinna. Since the earlobe does not contain cartilage the earlobe has a large blood supply and may help to warm the ears and maintain balance but generally earlobes are not considered to have any major biological function. [WP,unvetted]." [Wikipedia:Ear_lobe] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auricular lobule" EXACT [] synonym: "ear lobe" EXACT [] synonym: "ear lobule" RELATED [] synonym: "earlobe" EXACT [] synonym: "lobe of ear" EXACT [] synonym: "lobule of auricle" RELATED [] synonym: "lobule of auricle of ear" EXACT [] synonym: "lobulus auriculae" EXACT LATIN [FMA:60984, FMA:TA] synonym: "pinna lobule" EXACT [] xref: FMA:60984 xref: MA:0002468 xref: SCTID:362544006 xref: UMLS:C0229315 xref: ncithesaurus:Lobule_of_the_Auricle is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0001848 name: auricular cartilage namespace: uberon def: "cartilage of the pinna and much of the external ear canal." [http://medical-dictionary.thefreedictionary.com/auricular+cartilage] synonym: "cartilage of pinna" EXACT [FMA:61013] xref: FMA:61013 xref: MA:0001227 xref: SCTID:279627003 relationship: part_of UBERON:0001757 ! pinna intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0001849 name: membranous labyrinth namespace: uberon def: "Organ with organ cavity which consists of the vestibular labyrinth and the cochlear labyrinth. Examples: There are only two membranous labyrinths, the right and the left.[FMA]" [FMA:FMA, Wikipedia:Membranous_labyrinth] comment: inner ear has parts membranous and osseuous/bony labyrinth. it's not clear where the edinburgh terms 'labyrinth' belong, we place them here for now subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "labyrinthus membranaceus" RELATED LATIN [Wikipedia:Membranous_labyrinth] xref: AAO:0011060 xref: EHDAA:4698 xref: EMAPA:17815 xref: EV:0100367 xref: FMA:61022 xref: MA:0000242 xref: SCTID:263790009 xref: UMLS:C0458700 xref: VHOG:0000729 xref: XAO:0000194 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray924.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray924.png/200px-Gray924.png xref: ncithesaurus:Membranous_Labyrinth is_a: UBERON:0000062 ! organ is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: immediate_transformation_of UBERON:0010113 ! future membranous labyrinth relationship: part_of UBERON:0001846 ! internal ear property_value: external_definition "A system of communicating epithelial sacs and ducts within the bony labyrinth, containing the endolymph. [TFD][VHOG]" xsd:string property_value: homology_notes "The labyrinth, or inner ear, evolved very early in vertebrate history and, with many variations in configuration but none of basic design and function, has been retained by all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0001850 name: lacrimal duct namespace: uberon def: "Organ with organ cavity which connects the vestibule of the conjunctival sac to the nasal cavity. Examples: There are only two lacrimal ducts, the right and the left lacrimal ducts.[FMA]" [FMA:61063, Wikipedia:Lacrimal_canaliculi] comment: todo - resolve canaliculus vs tear duct vs lacrimal vs nasolacrimal subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lacrimal caniculus" RELATED [Wikipedia:Lacrimal_duct] synonym: "tear duct" RELATED [MA:0001295] xref: EMAPA:19245 xref: FMA:61063 xref: MA:0001295 is_a: UBERON:0000058 ! duct is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001750 ! lacrimal apparatus [Term] id: UBERON:0001851 name: cortex namespace: uberon def: "Outermost layer of an organ[WP]." [Wikipedia:Cortex_(anatomy)] comment: Note that this class is used more generically than in FMA, and includes e.g. cortex of hair subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cortex" EXACT [FMA:61109] synonym: "cortex of organ" EXACT [] xref: EFO:0000383 xref: EHDAA:9344 xref: FMA:61109 xref: galen:Cortex is_a: UBERON:0000064 ! organ part relationship: surrounds UBERON:0000062 ! organ property_value: has_relational_adjective "cortical" xsd:string [Term] id: UBERON:0001852 name: endolymph namespace: uberon def: "Transudate contained within the membranous labyrinth.[FMA]" [FMA:61112, Wikipedia:Endolymph] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Scarpa's fluid" RELATED [Wikipedia:Endolymph] synonym: "endolympha" RELATED LATIN [Wikipedia:Endolymph] synonym: "endolymphatic fluid" EXACT [] xref: FMA:61112 xref: GAID:1184 xref: MA:0002528 xref: MESH:A12.207.571.324 xref: TAO:0005414 xref: UMLS:C0014166 xref: ZFA:0005414 xref: http://upload.wikimedia.org/wikipedia/commons/c/c7/Cochlea-crosssection.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c7/Cochlea-crosssection.png/200px-Cochlea-crosssection.png xref: ncithesaurus:Endolymph is_a: UBERON:0006586 ! otolymph relationship: has_function_in GO:0055127 ! vibrational conductance of sound to the inner ear relationship: located_in UBERON:0001849 ! membranous labyrinth property_value: has_relational_adjective "otolymphic" xsd:string [Term] id: UBERON:0001853 name: utricle of membranous labyrinth namespace: uberon def: "one of the two otolith organs located in the vertebrate inner ear. These use small stones and a viscous fluid to stimulate hair cells to detect motion and orientation. The utricle is larger than the saccule and is of an oblong form, compressed transversely, and occupies the upper and back part of the vestibule, lying in contact with the recessus ellipticus and the part below it. The utricle contains mechanoreceptors called hair cells that distinguish between degrees of tilting of the head, thanks to their apical cilia set-up. These are covered by otolith which, due to gravity, pull on the cilia and tilt them. Depending on whether the tilt is in the direction of the kinocilium or not, the resulting hair cell polarisation is excitatory (depolarising) or inhibitory (hyperpolarisation), respectively. This signal to the vestibular nerve (which takes it to the brainstem) does not adapt with time. The effect of this is that, for example, an individual lying down to sleep will continue to detect that they are lying down hours later when they awaken[WP]." [Wikipedia:Utricle_(ear)] comment: XAO/AAO to be checked - see https://github.com/seger/aao/issues/5; AAO has both utricle and utriculus; these are generally considered synonyms - e.g. http://www.fishbase.org/glossary/Glossary.php?q=utriculus subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "membranous labyrinth utricle" EXACT [] synonym: "utricle" EXACT [] synonym: "utriculus" EXACT [ZFA:0000700] synonym: "utriculus (labyrinthus vestibularis)" EXACT [] xref: AAO:0000625 xref: AAO:0011109 xref: BTO:0001807 xref: EHDAA2:0002153 xref: EHDAA:4726 xref: EMAPA:17293 xref: EV:0100368 xref: FMA:61113 xref: MA:0000247 xref: SCTID:279817006 xref: TAO:0000700 xref: UMLS:C0042158 xref: VHOG:0000289 xref: XAO:0000195 xref: ZFA:0000700 xref: ncithesaurus:Utricle is_a: UBERON:0002518 ! otolith organ property_value: external_definition "The portion of the membranous labyrinth of the ear into which the semicircular ducts find their outlet. [Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, adapted_from_Dorian_AF][VHOG]" xsd:string property_value: homology_notes "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus.[well established][VHOG]" xsd:string [Term] id: UBERON:0001854 name: saccule of membranous labyrinth namespace: uberon def: "A bed of sensory cells situated in the inner ear. The saccule translates head movements into neural impulses which the brain can interpret. The saccule is sensitive to linear translations of the head, specifically movements up and down (think about moving on an elevator). When the head moves vertically, the sensory cells of the saccule are disturbed and the neurons connected to them begin transmitting impulses to the brain. These impulses travel along the vestibular portion of the eighth cranial nerve to the vestibular nuclei in the brainstem. is the smaller of the two vestibular sacs. It is globular in form and lies in the recessus sphC&ricus near the opening of the scala vestibuli of the cochlea. Its cavity does not directly communicate with that of the utricle. The anterior part of the saccule exhibits an oval thickening, the macula acustica sacculi, or macula, to which are distributed the saccular filaments of the vestibular branch of the vestibulocochlear nerve, also known as the acoustic nerve or cranial nerve VIII[WP]." [Wikipedia:Saccule] comment: XAO/AAO to be checked - see https://github.com/seger/aao/issues/5 subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "membranous labyrinth saccule" EXACT [] synonym: "saccule" EXACT [] synonym: "sacculus" EXACT LATIN [Wikipedia:Saccule, ZFA:0000428] synonym: "sacculus (labyrinthus vestibularis)" EXACT [] xref: AAO:0000550 xref: BTO:0001805 xref: EHDAA2:0001769 xref: EHDAA:4712 xref: EMAPA:17290 xref: EV:0100369 xref: FMA:61116 xref: MA:0000246 xref: SCTID:279827000 xref: TAO:0000428 xref: UMLS:C0036029 xref: VHOG:0000374 xref: XAO:0000196 xref: ZFA:0000428 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Bigotolith.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Bigotolith.jpg/200px-Bigotolith.jpg xref: ncithesaurus:Saccule is_a: UBERON:0002518 ! otolith organ property_value: external_definition "The most ventral chamber of the membranous labyrinth. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-25, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. (...) In all gnathostomes, the utriculus connects ventrally with a larger sac, called the sacculus (...) .[well established][VHOG]" xsd:string [Term] id: UBERON:0001855 name: cochlear duct of membranous labyrinth namespace: uberon def: "An endolymph filled cavity inside the cochlea, located in between the scala tympani and the scala vestibuli, separated by the basilar membrane and Reissner's membrane (the vestibular membrane) respectively. Houses the organ of Corti[WP]." [Wikipedia:Cochlear_duct] comment: TODO: check cochlear duct vs cochlear aqueduct vs scala media subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Reissner's canal" EXACT [] synonym: "cochlea duct" EXACT [NIF_GrossAnatomy:birnlex_2562] synonym: "cochlear aqueduct" RELATED [] synonym: "cochlear duct" EXACT [] synonym: "ductus cochlearis" RELATED LATIN [BTO:0001692, Wikipedia:Cochlear_duct] synonym: "membranous cochlea" RELATED [BTO:0001692] synonym: "reissners canal" EXACT [NIF_GrossAnatomy:birnlex_2562] synonym: "scala media" RELATED [Wikipedia:Cochlear_duct] synonym: "scala medias" EXACT [NIF_GrossAnatomy:birnlex_2562] synonym: "scala of Loewenberg" RELATED [BTO:0001692] xref: BTO:0001692 xref: EHDAA2:0000262 xref: EHDAA:4718 xref: EMAPA:17598 xref: FMA:61119 xref: GAID:874 xref: MA:0000243 xref: MESH:A09.246.631.246.292 xref: NIF_GrossAnatomy:birnlex_2562 xref: SCTID:279849006 xref: UMLS:C1323110 xref: VHOG:0000507 xref: http://upload.wikimedia.org/wikipedia/commons/b/bc/Gray928.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bc/Gray928.png/200px-Gray928.png xref: ncithesaurus:Cochlear_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005744 ! cranial conduit is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001844 ! cochlea relationship: part_of UBERON:0001849 ! membranous labyrinth relationship: part_of UBERON:0002499 ! cochlear labyrinth property_value: external_definition "The coiled portion of the membranous labyrinth located inside the cochlea. It contains endolymph. [TFD][VHOG]" xsd:string property_value: homology_notes "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus. (...) In all gnathostomes, the utriculus connects ventrally with a larger sac, called the sacculus (...) In most groups of gnathostomes, the caudoventral evagination of the sacculus forms a small lagena, and in some diapsids and mammals the lagena develops into a longer duct. The lagena becomes greatly elongated in therians and coils to form the cochlear duct.[well established][VHOG]" xsd:string [Term] id: UBERON:0001856 name: semicircular duct namespace: uberon def: "any of the three loop-shaped membranous inner tubular parts of the semicircular canals that are about one-fourth the diameter of the corresponding outer bony canals, that communicate at each end with the utricle, and that have near one end an expanded ampulla containing an area of sensory epithelium" [http://dictionary.reference.com/browse/semicircular+duct] comment: TODO - check canal vs duct. see http://en.wikipedia.org/wiki/File:Gray927.png synonym: "ductus semicirculares" RELATED PLURAL [FMA:71880, FMA:TA] synonym: "membranous semicircular canal" RELATED [MA:0000251] xref: FMA:61122 xref: MA:0000251 xref: SCTID:279833009 xref: UMLS:C1323109 xref: VHOG:0000238 xref: ncithesaurus:Semicircular_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001840 ! semicircular canal relationship: part_of UBERON:0001862 ! vestibular labyrinth property_value: homology_notes "In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus (...); Gnathostome ears have a horizontal semicircular duct. This brings their complement to three semicircular ducts, a pattern retained throughout gnathostome evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0001857 name: anterior semicircular duct namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "superior semicircular duct" RELATED [VHOG:0000246] xref: FMA:61123 xref: MA:0001211 xref: SCTID:279836001 xref: VHOG:0000246 is_a: UBERON:0001856 ! semicircular duct relationship: part_of UBERON:0001841 ! anterior semicircular canal property_value: homology_notes "Vertebrata is characterized by three synapomorphies. (...) Vertebrates also have at least two vertical semicircular ducts (...). In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus.[well established][VHOG]" xsd:string [Term] id: UBERON:0001858 name: posterior semicircular duct namespace: uberon def: "The semicircular canals are three half-circular, interconnected tubes located inside each ear. The three canals are the horizontal semicircular canal (also known as the lateral semicircular canal), superior semicircular canal (also known as the anterior semicircular canal), and the posterior semicircular canal. The canals are aligned approximately orthogonally to one another. The horizontal canal is aligned roughly horizontally in the head. The superior and anterior canals are aligned roughly at a 45 degree angle to a vertical plane drawn from the nose to the back of the skull. Thus, the horizontal canal detects horizontal head movements (such as when doing a pirouette), while the superior and posterior canals detect vertical head movements. Each canal is filled with a fluid called endolymph and contains a motion sensor with little hairs whose ends are embedded in a gelatinous structure called the cupula. As the skull twists in any direction, the endolymph is thrown into different sections of the canals. The cilia detect when the endolymph rushes past, and a signal is then sent to the brain. The semicircular canals are a component of the Labyrinth. Among species of mammals, the size of the semicircular canals is correlated with their type of locomotion. Specifically, species that are agile and have fast, jerky locomotion have larger canals relative to their body size than those that move more cautiously. [WP,unvetted]." [Wikipedia:Semicircular_canal] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61126 xref: MA:0001214 xref: SCTID:279835002 xref: VHOG:0000248 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Balance_Disorder_Illustration_A.png/200px-Balance_Disorder_Illustration_A.png is_a: UBERON:0001856 ! semicircular duct relationship: part_of UBERON:0001842 ! posterior semicircular canal property_value: homology_notes "Vertebrata is characterized by three synapomorphies. (...) Vertebrates also have at least two vertical semicircular ducts (...). In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus.[well established][VHOG]" xsd:string [Term] id: UBERON:0001859 name: lateral semicircular duct namespace: uberon def: "The lateral or horizontal canal (external semicircular canal) is the shortest of the three canals. Movement of fluid within this canal corresponds to rotation of the head around a vertical axis (i.e. the neck). [WP,unvetted]." [Wikipedia:Lateral_semicircular_duct] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61129 xref: MA:0001213 xref: SCTID:279834003 xref: VHOG:0000247 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png is_a: UBERON:0001856 ! semicircular duct relationship: part_of UBERON:0001843 ! lateral semicircular canal property_value: homology_notes "Gnathostome ears have a horizontal semicircular duct. This brings their complement to three semicircular ducts, a pattern retained throughout gnathostome evolution. [ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.58] ; In gnathostomes, each membranous labyrinth has three semicircular ducts that connect with a chamber known as the utriculus.[well established][VHOG]" xsd:string [Term] id: UBERON:0001860 name: endolymphatic duct namespace: uberon def: "From the posterior wall of the saccule a canal, the endolymphatic duct, is given off; this duct is joined by the ductus utriculosaccularis, and then passes along the aquaeductus vestibuli and ends in a blind pouch on the posterior surface of the petrous portion of the temporal bone, where it is in contact with the dura mater. [WP,unvetted]." [Wikipedia:Endolymphatic_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ductus endolymphaticus" EXACT LATIN [AAO:0000135, Wikipedia:Endolymphatic_duct] xref: AAO:0000135 xref: EMAPA:18580 xref: FMA:61246 xref: GAID:886 xref: MA:0001187 xref: MESH:A09.246.631.909.957.360 xref: SCTID:362567008 xref: TAO:0002194 xref: ZFA:0001705 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray924.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/Gray924.png/200px-Gray924.png is_a: UBERON:0000058 ! duct is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001849 ! membranous labyrinth property_value: external_definition "Duct that is part of the inner ear and connects to the semicircular canals ending in a pouch.[TAO]" xsd:string property_value: has_relational_adjective "endoymphatic" xsd:string [Term] id: UBERON:0001861 name: ductus reuniens namespace: uberon def: "The canalis reuniens of Hansen is part of the human inner ear. It connects the lower part of the saccule to the ductus cochlearis near its vestibular extremity." [Wikipedia:Canalis_reuniens_of_Hensen] synonym: "Hensen duct" RELATED [Wikipedia:Canalis_reuniens_of_Hensen] synonym: "Hensen's duct" RELATED [Wikipedia:Canalis_reuniens_of_Hensen] synonym: "canal of Henson" RELATED [Wikipedia:Canalis_reuniens_of_Hensen] synonym: "canalis reuniens" RELATED [Wikipedia:Canalis_reuniens_of_Hensen] synonym: "canalis reuniens of Hensen" RELATED [Wikipedia:Canalis_reuniens_of_Hensen] xref: EMAPA:17287 xref: FMA:61252 xref: MA:0000244 xref: SCTID:279805009 is_a: UBERON:0000058 ! duct is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: connects UBERON:0001854 ! saccule of membranous labyrinth relationship: connects UBERON:0001855 ! cochlear duct of membranous labyrinth relationship: part_of UBERON:0001862 ! vestibular labyrinth [Term] id: UBERON:0001862 name: vestibular labyrinth namespace: uberon def: "The part of the membranous labyrinth that includes the utricle and saccule lodged within the vestibule and the semicircular ducts lodged eccentrically in the corresponding canals." [BTO:0001856] synonym: "inner ear vestibular component" EXACT [EHDAA2:0000832] synonym: "labyrinthus vestibularis" RELATED [BTO:0001856] synonym: "vestibular apparatus" RELATED [] synonym: "vestibular component" BROAD [] xref: BTO:0001856 xref: EHDAA2:0000832 xref: EHDAA:4706 xref: EMAPA:17286 xref: FMA:61255 xref: MA:0000245 xref: SCTID:181188003 xref: UMLS:C0042606 xref: XAO:0004145 xref: ncithesaurus:Vestibular_Labyrinth is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001849 ! membranous labyrinth [Term] id: UBERON:0001863 name: scala vestibuli namespace: uberon def: "Scala vestibuli is a perilymph filled cavity inside the cochlea of the inner ear. It is separated from the scala media by Reissner's membrane and extends from the oval window to the helicotrema where it joins scala tympani. [WP,unvetted]." [Wikipedia:Scala_vestibuli] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61269 xref: MA:0001206 xref: SCTID:362578000 xref: http://upload.wikimedia.org/wikipedia/commons/1/19/Gray923.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/0/0c/Cochlea-crosssection.png/250px-Cochlea-crosssection.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/19/Gray923.png/200px-Gray923.png is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: located_in UBERON:0002278 ! perilymphatic space relationship: part_of UBERON:0001844 ! cochlea [Term] id: UBERON:0001864 name: scala tympani namespace: uberon def: "Scala tympani is one of the perilymph-filled cavities in the cochlear labyrinth. It is separated from the scala media by the basilar membrane, and it extends from the round window to the helicotrema, where it continues as scala vestibuli. The purpose of the perilymph-filled scala tympani and scala vestibuli is to transduce the movement of air that causes the tympanic membrane and the ossicles to vibrate, to movement of liquid and the basilar membrane. This movement is conveyed to the organ of Corti inside the scala media, composed of hair cells attached to the basilar membrane and their stereocilia embedded in the tectorial membrane. The movement of the basilar membrane compared to the tectorial membrane causes the sterocilia to bend. They then depolarise and send impulses to the brain via the cochlear nerve. This produces the sensation of sound. [WP,unvetted]." [Wikipedia:Scala_tympani] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61272 xref: GAID:879 xref: MA:0001205 xref: MESH:A09.246.631.246.848 xref: SCTID:362579008 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray921.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: located_in UBERON:0002278 ! perilymphatic space relationship: part_of UBERON:0001844 ! cochlea [Term] id: UBERON:0001865 name: cartilaginous external acoustic tube namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "cartilaginous external acoustic meatus" EXACT [] synonym: "cartilaginous part of external acoustic meatus" EXACT [] synonym: "external acoustic meatus cartilaginous part" EXACT [] synonym: "meatus acusticus externus cartilagineus" EXACT LATIN [FMA:61289, FMA:TA] xref: FMA:61289 xref: MA:0001234 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001352 ! external acoustic meatus [Term] id: UBERON:0001866 name: sebum namespace: uberon def: "Fatty lubricant matter secreted by sebaceous glands, and made of made of triglyceride oils, wax, squalene, and metabolytes of fat-producing cells[BTO,WP]." [BTO:0001981, Wikipedia:Sebaceous_glands#Sebum] comment: The composition of sebum varies across species. In humans, the lipid content is as follows: 25% wax monoesters, 41% triglycerides, 16% free fatty acids, 12% squalene; Sapienic acid is a sebum fatty acid that is unique to humans. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001981 xref: ENVO:02000037 xref: FMA:61304 xref: GAID:1168 xref: MA:0002538 xref: MESH:A12.200.702 xref: UMLS:C0036511 xref: ncithesaurus:Sebum relationship: has_part CHEBI:15440 ! squalene intersection_of: UBERON:0000456 ! bodily secretion intersection_of: secreted_by UBERON:0001821 ! sebaceous gland [Term] id: UBERON:0001867 name: cartilage of external ear namespace: uberon def: "A cartilage that is part of a external ear [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "auricular region cartilage" EXACT [OBOL:automatic] synonym: "auricular region of head cartilage" EXACT [OBOL:automatic] synonym: "cartilage of auricular region" EXACT [OBOL:automatic] synonym: "cartilage of auricular region of head" EXACT [OBOL:automatic] synonym: "cartilage of outer ear" EXACT [OBOL:automatic] synonym: "external ear cartilage" EXACT [] synonym: "outer ear cartilage" EXACT [OBOL:automatic] xref: FMA:61339 xref: GAID:103 xref: MA:0001886 xref: MESH:A02.165.207 xref: UMLS:C0013445 xref: ncithesaurus:External_Ear_Cartilage is_a: UBERON:0001996 ! elastic cartilage tissue is_a: UBERON:0003566 ! head connective tissue relationship: part_of UBERON:0001691 ! external ear intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0001691 ! external ear [Term] id: UBERON:0001868 name: skin of chest namespace: uberon def: "A zone of skin that is part of a chest [Automatically generated definition]." [OBOL:automatic] comment: check FMA:61415 synonym: "anterior thoracic region zone of skin" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax zone of skin" EXACT [OBOL:automatic] synonym: "chest skin" EXACT [] synonym: "chest zone of skin" EXACT [OBOL:automatic] synonym: "front of thorax zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of anterior chest" EXACT [FMA:61416] synonym: "zone of skin of anterior part of thorax" EXACT [FMA:61416] synonym: "zone of skin of anterior thoracic region" EXACT [OBOL:automatic] synonym: "zone of skin of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "zone of skin of chest" EXACT [OBOL:automatic] synonym: "zone of skin of front of thorax" EXACT [OBOL:automatic] synonym: "zone of skin of pectoral part of chest" RELATED [FMA:61417] xref: FMA:61416 xref: FMA:61417 xref: MA:0000553 xref: SCTID:181496004 is_a: UBERON:0001418 ! skin of thorax relationship: part_of UBERON:0001443 ! chest intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0001869 name: cerebral hemisphere namespace: uberon def: "One of two bilateral, largely symmetrical organ subdivisions within the telencephalon which contain the cerebral cortex and cerebral white matter.[FMA]" [FMA:FMA, Wikipedia:Cerebral_hemisphere] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hemisphere" RELATED [VHOG:0001639] synonym: "hemispherium cerebri" RELATED LATIN [Wikipedia:Cerebral_hemisphere] synonym: "telencephalic vesicle" RELATED [] xref: AAO:0010480 xref: BTO:0000231 xref: EFO:0002521 xref: FMA:61817 xref: MA:0000133 xref: NIF_GrossAnatomy:birnlex_1042 xref: OpenCyc:Mx4rvigx5ZwpEbGdrcN5Y29ycA xref: SCTID:278251007 xref: UMLS:C0228174 xref: VHOG:0001639 xref: galen:CerebralHemisphere xref: http://upload.wikimedia.org/wikipedia/commons/9/92/Hemispheres.png xref: ncithesaurus:Cerebral_Hemisphere is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: in_lateral_side_of UBERON:0000955 ! brain relationship: in_lateral_side_of UBERON:0001893 ! telencephalon relationship: part_of UBERON:0001893 ! telencephalon property_value: external_definition "Part of the telencephalon consisting of either of the two smooth, elongated halves of the cerebrum.[AAO]" xsd:string property_value: homology_notes "The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG]" xsd:string [Term] id: UBERON:0001870 name: frontal cortex namespace: uberon def: "Frontal lobe is the anterior-most of five lobes of the cerebral hemisphere. It is bounded by the central sulcus on its posterior border and by the longitudinal cerebral fissure on its medial border." [Wikipedia:Frontal_lobe] comment: Editor note: Many species don't have lobes but they do have frontal cortex. Lobe isn't a really well defined term though [MM] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "frontal lobe" EXACT [FMA:61824] synonym: "frontal region" EXACT [] synonym: "lobus frontalis" RELATED LATIN [Wikipedia:Frontal_lobe] synonym: "regio frontalis" EXACT LATIN [FMA:61824, FMA:TA] xref: BM:Tel-Cx-FR xref: BTO:0000484 xref: EFO:0000913 xref: EV:0100167 xref: FMA:61824 xref: GAID:674 xref: MA:0000905 xref: MAT:0000505 xref: MESH:A08.186.211.730.885.213.270 xref: NIF_GrossAnatomy:birnlex_928 xref: NIF_GrossAnatomy:nlx_anat_20090601 xref: OpenCyc:Mx4rv3OJ8JwpEbGdrcN5Y29ycA xref: SCTID:180920004 xref: UMLS:C0016733 xref: http://upload.wikimedia.org/wikipedia/commons/b/b4/Gray729.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b4/Gray729.png/200px-Gray729.png xref: ncithesaurus:Frontal_Lobe is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: adjacent_to UBERON:0001871 ! temporal lobe relationship: adjacent_to UBERON:0001872 ! parietal lobe relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0001871 name: temporal lobe namespace: uberon def: "Temporal lobe is the ventrolateral lobe of five lobes comprising each cerebral hemisphere. It is bounded dorsally by the lateral fissure and posteriorly by an arbitrary border shared with the occipital lobe." [Wikipedia:Temporal_lobe] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lobus temporalis" RELATED LATIN [Wikipedia:Temporal_lobe] synonym: "temporal cortex" EXACT [] synonym: "temporal neocortex" EXACT [DHB:TCx] xref: BM:Tel-Cx-Te xref: BTO:0001355 xref: EFO:0000917 xref: EMAPA:18797 xref: EV:0100169 xref: FMA:61825 xref: GAID:635 xref: MA:0000941 xref: MAT:0000508 xref: MESH:A08.186.211.730.885.213.863 xref: NIF_GrossAnatomy:birnlex_1160 xref: OpenCyc:Mx4rwQLi-ZwpEbGdrcN5Y29ycA xref: SCTID:180921000 xref: UMLS:C0039485 xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Gray730.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/91/Gray730.png/200px-Gray730.png xref: ncithesaurus:Temporal_Lobe is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0001872 name: parietal lobe namespace: uberon def: "Parietal lobe is the one of five lobes of the cerebral hemisphere which occupies the dorsal-posterior portion of the hemisphere. It is bounded by the central sulcus on its anterior border and and by the longitudinal cerebral fissure on its medial border. Posteriorly it shares an arbitrary border with the occipital lobe." [Wikipedia:Parietal_lobe] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lobus parietalis" RELATED LATIN [Wikipedia:Parietal_lobe] synonym: "parietal cortex" EXACT [] synonym: "parietal neocortex" EXACT [DHB:PCx] synonym: "parietal region" EXACT [] synonym: "regio parietalis" EXACT LATIN [FMA:61826, FMA:TA] xref: BTO:0001001 xref: EFO:0000914 xref: EV:0100168 xref: FMA:61826 xref: GAID:680 xref: MA:0000916 xref: MAT:0000506 xref: MESH:A08.186.211.730.885.213.670 xref: NIF_GrossAnatomy:birnlex_1148 xref: OpenCyc:Mx4rvg-typwpEbGdrcN5Y29ycA xref: SCTID:180922007 xref: UMLS:C0030560 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Gray726_parietal_lobe.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b2/Gray726_parietal_lobe.png/200px-Gray726_parietal_lobe.png xref: ncithesaurus:Parietal_Lobe_of_the_Brain is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: adjacent_to UBERON:0001871 ! temporal lobe relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0001873 name: caudate nucleus namespace: uberon def: "Nucleus of brain which is an elongated crescent-shaped mass lying parallel and adjacent to the lateral ventricle throughout its extent." [Wikipedia:Caudate_nucleus] comment: CHECK - rodents. The caudate nucleus and putamen are separated by a clear white matter bundle in most species but not in rodents (MM) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caudatus" EXACT [] synonym: "nucleus caudatus" RELATED LATIN [BTO:0000211, Wikipedia:Caudate_nucleus] xref: BM:Tel-CA xref: BTO:0000211 xref: EFO:0000907 xref: EMAPA:18207 xref: EV:0100185 xref: FMA:61833 xref: GAID:670 xref: MA:0000894 xref: MAT:0000513 xref: MESH:A08.186.211.730.885.105.487.550.184 xref: NIF_GrossAnatomy:birnlex_1373 xref: OpenCyc:Mx4rvvyAjJwpEbGdrcN5Y29ycA xref: SCTID:279297002 xref: UMLS:C0007461 xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Telencephalon-Horiconatal.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/91/Telencephalon-Horiconatal.jpg/200px-Telencephalon-Horiconatal.jpg xref: ncithesaurus:Caudate_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: immediate_transformation_of UBERON:0010122 ! future caudate nucleus relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0002435 ! striatum relationship: part_of UBERON:0005383 ! caudate-putamen [Term] id: UBERON:0001874 name: putamen namespace: uberon def: "Nucleus of brain which lies ventral to the caudate nucleus and internal capsule and medial to the external capsule. The putamen and caudate nucleus together form the dorsal striatum. It is also one of the structures that comprises the basal ganglia. Through various pathways, the putamen is connected to the substantia nigra and globus pallidus. The main function of the putamen is to regulate movements and influence various types of learning. It employs dopamine to perform its functions. The putamen also plays a role in degenerative neurological disorders, such as Parkinson's disease." [Wikipedia:Putamen] comment: CHECK - rodents. The caudate nucleus and putamen are separated by a clear white matter bundle in most species but not in rodents (MM) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus putamen" EXACT [] xref: BM:Tel-Pu xref: EV:0100187 xref: FMA:61834 xref: GAID:671 xref: MA:0000895 xref: MESH:A08.186.211.730.885.105.487.550.784 xref: NIF_GrossAnatomy:birnlex_809 xref: SCTID:281512002 xref: UMLS:C0034169 xref: VHOG:0001456 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/BrainCaudatePutamen.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/BrainCaudatePutamen.svg/200px-BrainCaudatePutamen.svg.png xref: ncithesaurus:Putamen is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0002435 ! striatum relationship: part_of UBERON:0005383 ! caudate-putamen property_value: homology_notes "All nuclei of the mammalian basal ganglia are also present in the oldest vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0001875 name: globus pallidus namespace: uberon def: "Subcortical nucleus, functionally part of the basal ganglia, which consists of two segments the external (or lateral) and internal (or medial) separated by the medial medullary lamina in primates. In rodents, The globus pallidus lateral is separated from the medial segment by the fibers of the internal capsule/cerebral peduncle[NIF]. Nucleus of brain which is located medially to the putamen and laterally to the internal capsule[FMA]." [FMA:61835, NIF_GrossAnatomy:birnlex_1234, Wikipedia:Globus_pallidus] comment: BTO and MA are inconsistent w.r.t striatum and pallidum being non-overlapping as in ABA. Note that we have pallidum as part_of basal gangion, so we can make the direct link to basal ganglion. ISBN10:1588900649 says: ... a derivative of the diencephalon, seperates as a result of growing fibers of theinternal capsule and is finally displaced into telencephalon. only a small medial remnannt remains, the entopeduncular nucleus. The globus pallidus should be regarded as part of the subthalamus subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pale body" EXACT [NIF_GrossAnatomy:birnlex_1234] synonym: "paleostriatum" EXACT [Wikipedia:Globus_pallidus] synonym: "pallidium" RELATED [Wikipedia:Globus_pallidus] synonym: "pallidum" RELATED [GO:0021759, NIF_GrossAnatomy:birnlex_1234, Wikipedia:Globus_pallidus] xref: BTO:0002246 xref: EFO:0000905 xref: EV:0100188 xref: FMA:61835 xref: GAID:668 xref: MA:0000890 xref: MAT:0000510 xref: MESH:A08.186.211.730.885.105.487.397 xref: NIF_GrossAnatomy:birnlex_1234 xref: SCTID:362361005 xref: UMLS:C0017651 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Brain_structure.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/Brain_structure.gif/200px-Brain_structure.gif xref: ncithesaurus:Globus_Pallidus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from_part_of UBERON:0001894 ! diencephalon relationship: overlaps UBERON:0002263 ! lentiform nucleus relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0002420 ! basal ganglion relationship: part_of UBERON:0006514 ! pallidum property_value: has_relational_adjective "pallidal" xsd:string [Term] id: UBERON:0001876 name: amygdala namespace: uberon def: "Subdivision of basal ganglion of telencephalon which is an almond-shaped gray mass in the dorsomedial part of the temporal lobe[FMA]" [FMA:61841, Wikipedia:Amygdala] comment: AO notes: MA and FMA differ on relationship to basal ganglion. The FMA text def suggests a subdivision, but it is classified as a subtype subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "amygdaloid area" RELATED [] synonym: "amygdaloid body" EXACT [] synonym: "amygdaloid complex" EXACT [NIF_GrossAnatomy:birnlex_1241] synonym: "amygdaloid nuclear complex" EXACT [] synonym: "amygdaloid nuclear group" RELATED [BTO:0001042] synonym: "amygdaloid nuclear groups" EXACT [] synonym: "amygdaloid nucleus" RELATED [FMA:61841] synonym: "archistriatum" EXACT [] synonym: "corpus amygdaloideum" RELATED LATIN [BTO:0001042, Wikipedia:Amygdala] synonym: "nucleus amygdalae" RELATED [BTO:0001042] xref: BM:Tel-Am xref: BTO:0001042 xref: EFO:0000252 xref: EV:0100189 xref: EV:0100190 xref: FMA:61841 xref: GAID:616 xref: MA:0000887 xref: MAT:0000289 xref: MESH:A08.186.211.577.090 xref: MIAA:0000289 xref: NIF_GrossAnatomy:birnlex_1241 xref: OpenCyc:Mx4rwJC_2ZwpEbGdrcN5Y29ycA xref: SCTID:279404004 xref: UMLS:C0002708 xref: VHOG:0001277 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Amyg.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Amyg.png/200px-Amyg.png xref: ncithesaurus:Amygdala is_a: UBERON:0002420 ! basal ganglion is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0001871 ! temporal lobe property_value: has_relational_adjective "amygdalar" xsd:string property_value: homology_notes "One part of the striatum is called the archistriatum. (...) The archistriatum of fishes consists of several indistinctly segregated nuclei called the amygdaloid (...) complex. Tetrapods retain the structure, and in mammals the corresponding amygdala is a globular mass that tends to be ventral to the other basal nuclei.[well established][VHOG]" xsd:string [Term] id: UBERON:0001877 name: medial septal nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "medial parolfactory nucleus" EXACT [] synonym: "medial septum" NARROW [NIF_GrossAnatomy:birnlex_1668] xref: ABA:MS xref: BM:Tel-Spt-SMN xref: BTO:0002446 xref: FMA:61879 xref: MA:0000935 xref: NIF_GrossAnatomy:birnlex_1668 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0001878 name: septofimbrial nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "nucleus septofibrialis" EXACT [NIF_GrossAnatomy:birnlex_730] synonym: "scattered nucleus of the septum" EXACT [] xref: ABA:SF xref: BM:SFN xref: FMA:61881 xref: MA:0000938 xref: NIF_GrossAnatomy:birnlex_730 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002667 property_value: spatially_disjoint_from UBERON:0007630 [Term] id: UBERON:0001879 name: nucleus of diagonal band namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "diagonal band nucleus" EXACT [] synonym: "nucleus of the diagonal band of broca" EXACT [] synonym: "olfactory area (roberts)" EXACT [] xref: ABA:NDB xref: EHDAA2:0004708 xref: FMA:61882 xref: MA:0000936 xref: NIF_GrossAnatomy:birnlex_719 xref: UMLS:C0175227 xref: ncithesaurus:Nucleus_of_Diagonal_Band is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0002663 ! septal nuclear complex relationship: part_of UBERON:0007629 ! medial septal complex [Term] id: UBERON:0001880 name: bed nucleus of stria terminalis namespace: uberon def: "A brain structure in the forebrain wrapped around the stria terminalis. It's largest extent can be found around the crossing of the anterior commissure[INCF]." [INCF:Seattle_mtg_2010, Wikipedia:Stria_terminalis#Bed_nucleus_of_the_stria_terminalis] synonym: "BST" BROAD [INCF:Seattle_mtg_2010] synonym: "bed nucleus of the stria terminalis" EXACT [NIF_GrossAnatomy:birnlex_724] synonym: "bed nucleus stria terminalis (johnson)" EXACT [NIF_GrossAnatomy:birnlex_724] synonym: "intercalate nucleus of stria terminalis" EXACT [] synonym: "interstitial nucleus of stria terminalis" EXACT [NIF_GrossAnatomy:birnlex_724] synonym: "nuclei of stria terminalis" EXACT [] synonym: "nucleus of stria terminalis" EXACT [FMA:61884] synonym: "nucleus striae terminalis" EXACT LATIN [FMA:61884, FMA:TA] synonym: "stria terminalis nucleus" EXACT [] xref: ABA:BST xref: BM:BNST xref: BTO:0002698 xref: EFO:0001971 xref: FMA:61884 xref: MA:0000925 xref: NIF_GrossAnatomy:birnlex_724 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0002663 ! septal nuclear complex relationship: surrounds UBERON:0003029 ! stria terminalis [Term] id: UBERON:0001881 name: island of calleja namespace: uberon def: "The islands of Calleja (IC, ISC, or IClj) are a group of neural granule cells located within the ventral striatum in the brains of most animals. This region of the brain is part of the limbic system, where it aids in the reinforcing effects of reward-like activities. Within most species, the islands are specifically located within the olfactory tubercle; however, in primates these islands are located within the nucleus accumbens, the reward center of the brain, since the olfactory tubercle has practically disappeared in the brains of primates. Both of these structures have been implicated in the processing of incentives as well as addictions to drugs. Projections to and from the islands supplement this knowledge with their involvement in the reward pathways for both cocaine and amphetamines. [WP,unvetted]." [Wikipedia:Islands_of_Calleja] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calleja island" EXACT [] synonym: "insulae olfactoriae, insula callejae" RELATED LATIN [Wikipedia:Islands_of_Calleja] synonym: "islands of calleja" EXACT [] xref: ABA:isl xref: BM:Tel-ISC xref: FMA:61888 xref: GAID:632 xref: MA:0000977 xref: MESH:A08.186.211.577.699.400 xref: NIF_GrossAnatomy:birnlex_1113 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Islands_of_Calleja_Rat.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Islands_of_Calleja_Rat.jpg/200px-Islands_of_Calleja_Rat.jpg is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001883 ! olfactory tubercle [Term] id: UBERON:0001882 name: nucleus accumbens namespace: uberon def: "a collection of pleomorphic cells in the caudal part of the anterior horn of the lateral ventricle, in the region of the olfactory tubercle, lying between the head of the caudate nucleus and the anterior perforated substance. It is part of the ventral striatum, a composite structure considered part of the basal ganglia[GO]." [GO:0021768, Wikipedia:Nucleus_accumbens] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "accumbens nucleus" EXACT [] synonym: "colliculus of caudate nucleus" EXACT [] synonym: "nucleus accumbens septi" EXACT LATIN [Wikipedia:Nucleus_accumbens] xref: ABA:ACB xref: BM:Ac xref: BTO:0001862 xref: EFO:0000906 xref: EHDAA2:0004707 xref: FMA:61889 xref: GAID:672 xref: MA:0000892 xref: MAT:0000512 xref: MESH:A08.186.211.730.885.105.683 xref: NIF_GrossAnatomy:birnlex_727 xref: SCTID:427667007 xref: UMLS:C0028633 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg/200px-Circuit_du_syst%C3%A8me_de_recompense.jpg xref: ncithesaurus:Accumbens_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0005403 ! ventral striatum property_value: spatially_disjoint_from UBERON:0001883 [Term] id: UBERON:0001883 name: olfactory tubercle namespace: uberon def: "a multi-sensory processing center in the olfactory cortex that plays a role in reward behaviors. The OT is a composite structure that receives direct input from the olfactory bulb and contains the morphological and histochemical characteristics of the ventral pallidum and the striatum of the forebrain (Heimer & Wilson 1975)." [Wikipedia:Anterior_perforated_substance] comment: AO notes: NIF has separate classes for exact syns in FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior perforated area" EXACT [FMA:61891] synonym: "anterior perforated space" EXACT [FMA:61891] synonym: "anterior perforated substance" EXACT [FMA:61891] synonym: "olfactory area (Mai)" EXACT [FMA:61891] synonym: "substantia perforata anterior" RELATED LATIN [Wikipedia:Anterior_perforated_substance] synonym: "tuberculum olfactorium" EXACT LATIN [FMA:61891, FMA:TA] xref: ABA:OT xref: BM:Tel-OLT xref: BTO:0001869 xref: EHDAA2:0004701 xref: EV:0100177 xref: FMA:61891 xref: MA:0000976 xref: NIF_GrossAnatomy:birnlex_1096 xref: NIF_GrossAnatomy:nlx_anat_1005037 xref: SCTID:369108006 xref: VHOG:0001625 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray732.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0004732 ! segmental subdivision of nervous system is_a: UBERON:0005401 ! cerebral grey matter is_a: UBERON:0005813 ! tubercle relationship: part_of UBERON:0001869 ! cerebral hemisphere relationship: part_of UBERON:0002894 ! olfactory cortex relationship: part_of UBERON:0005401 ! cerebral grey matter property_value: spatially_disjoint_from UBERON:0001882 property_value: external_definition "Subdivision of telencephalon which is a region on the ventro-medial aspect of the telencephalon penetrated by numerous blood vessels. It is bounded by the optic tract posteriorly and the olfactory trigone anteriorly[FMA:61891, Wikipedia:Anterior_perforated_substance]." xsd:string [Term] id: UBERON:0001884 name: phrenic nerve namespace: uberon def: "The phrenic nerve arises from the third, fourth, and fifth cervical spinal nerves (C3-C5) in humans. [WP,unvetted]." [Wikipedia:Phrenic_nerve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "diaphragmatic nerve" RELATED [BTO:0001063] synonym: "nervus phrenicus" RELATED LATIN [BTO:0001063, Wikipedia:Phrenic_nerve] synonym: "phrenic" RELATED [BTO:0001063] xref: BTO:0001063 xref: EHDAA:4677 xref: EMAPA:17813 xref: FMA:6191 xref: GAID:848 xref: MA:0001170 xref: MESH:A08.800.800.720.150.700 xref: OpenCyc:Mx4rvtmdUJwpEbGdrcN5Y29ycA xref: SCTID:280344009 xref: UMLS:C0031774 xref: VHOG:0000728 xref: http://upload.wikimedia.org/wikipedia/commons/3/3c/Gray806.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3c/Gray806.png/200px-Gray806.png xref: ncithesaurus:Phrenic_Nerve is_a: UBERON:0002003 ! peripheral nerve is_a: UBERON:0003443 ! thoracic cavity nerve relationship: located_in UBERON:0002224 ! thoracic cavity property_value: external_definition "A nerve that arises from the caudal cervical nerves and is primarily the motor nerve of the diaphragm but also sends sensory fibers to the pericardium. [TFD][VHOG]" xsd:string [Term] id: UBERON:0001885 name: dentate gyrus of hippocampal formation namespace: uberon def: "The dentate gyrus is one of two interlocking gyri of the hippocampus. It contains granule cells, which project to the pyramidal cells and interneurons of the CA3 region of the ammon gyrus[GO]." [Wikipedia:Dentate_gyrus] comment: BTO says dentate gyrus = fascia dentata + hilus. Note that GO classifies dentate gyrus development under hippocampus development subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "area dentata" EXACT [] synonym: "dentate gyrus" EXACT [] synonym: "fascia dentata" NARROW [] synonym: "gyrus dentatus" RELATED LATIN [BTO:0002496, Wikipedia:Dentate_gyrus] synonym: "hippocampal dentate gyrus" RELATED [BTO:0002496] xref: ABA:DG xref: BM:Tel-DG xref: BTO:0002496 xref: BTO:0002615 xref: EFO:0001366 xref: EMAPA:19037 xref: FMA:61922 xref: GAID:624 xref: MA:0000190 xref: MESH:A08.186.211.577.405.200 xref: NIF_GrossAnatomy:birnlex_1178 xref: SCTID:279211002 xref: UMLS:C0152314 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/HippocampalRegions.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ab/HippocampalRegions.jpg/200px-HippocampalRegions.jpg xref: ncithesaurus:Dentate_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0002421 ! hippocampal formation property_value: spatially_disjoint_from UBERON:0001954 property_value: spatially_disjoint_from UBERON:0002601 [Term] id: UBERON:0001886 name: choroid plexus namespace: uberon def: "A network formed by blood vessels and the tela choroidea which secretes CSF into the ventricular spaces." [ISBN10:0471888893, Wikipedia:Choroid_plexus] comment: TODO - check relationship to ventricle. Check subclass - ZFA says vasculature. Note that FMA:61934 (choroid plexus of cerebral hemisphere) has exact synonym 'choroid plexus' but it is not clear that this belongs here, as the fourth ventricle is not in the cerebral hemisphere subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chorioid plexus" EXACT [FMA:61934] synonym: "choroid plexus of cerebral hemisphere" RELATED [FMA:61934] synonym: "plexus choroideus" EXACT LATIN [FMA:61934, FMA:TA, Wikipedia:Choroid_plexus] synonym: "ventricular choroid plexus" RELATED [] xref: BTO:0000258 xref: EFO:0001915 xref: FMA:61934 xref: GAID:607 xref: MA:0000823 xref: MESH:A08.186.211.276.298 xref: SCTID:264450003 xref: TAO:0001443 xref: UMLS:C0008524 xref: VHOG:0001377 xref: ZFA:0001443 xref: http://upload.wikimedia.org/wikipedia/commons/b/b9/Gray708.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b9/Gray708.svg/200px-Gray708.svg.png xref: ncithesaurus:Choroid_Plexus is_a: UBERON:0005284 ! brain vasculature is_a: UBERON:0005629 ! vascular plexus relationship: part_of UBERON:0004086 ! brain ventricle relationship: part_of UBERON:0005283 ! tela choroidea disjoint_from: UBERON:0005336 ! capillary layer of choroid disjoint_from: UBERON:0010078 ! optic choroid vascular plexus property_value: external_definition "A tuft of capillaries that project into the ventricles of the brain and secretes cerebral spinal fluid. The choroid plexus is covered by a cuboidal epithelium which maintains the integrity of the blood-brain barrier.[TAO]" xsd:string property_value: external_definition "Fringe of the tela choroidea of the brain ventricles[MP]" xsd:string property_value: has_relational_adjective "choroidal" xsd:string [Term] id: UBERON:0001887 name: internal capsule namespace: uberon def: "Internal capsule is an organ subdivision of the telencephalon which is made up primarily of myelinated axonal neural tissue (white matter). The internal capsule is a major set of fiber bundles lateral to the thalamus and caudate nucleus and medial to the putamen and globus pallidus. It projects dorsally to the white matter underlying the cerebral cortex." [Wikipedia:Internal_capsule] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "capsula interna" RELATED LATIN [Wikipedia:Internal_capsule] synonym: "internal capsule radiations" EXACT [] xref: BM:IC xref: EMAPA:18206 xref: FMA:61950 xref: GAID:685 xref: MA:0002748 xref: MESH:A08.186.211.730.885.435 xref: NIF_GrossAnatomy:birnlex_1659 xref: UMLS:C0152341 xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Telencephalon-Horiconatal.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/91/Telencephalon-Horiconatal.jpg/200px-Telencephalon-Horiconatal.jpg xref: ncithesaurus:Internal_Capsule is_a: UBERON:0002437 ! cerebral white matter relationship: part_of UBERON:0001869 ! cerebral hemisphere [Term] id: UBERON:0001888 name: lateral olfactory tract namespace: uberon def: "The lateral olfactory stria is directed across the lateral part of the anterior perforated substance and then bends abruptly medialward toward the uncus of the hippocampal gyrus." [Wikipedia:Lateral_olfactory_stria] comment: Editor notes: We follow neurolex and use 'tract' rather than 'stria' as the primary label. We make this a subtype of olfactory tract. Currently this groups teleost and mammalian structures by the same name, but this may be a false grouping. For example, in zebrafish, the difference between medial and lateral depends on the region of telencephalon (dorsal or ventral). Taxon notes: In mammals the fibers of the dorsal lateral olfactory tract either pass under the accessory olfactory formation, or they penetrate through it separating the internal granule cells from the output cells.[PMID:7437895] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "LOT" RELATED ABBREVIATION [] synonym: "lateral olfactory stria" RELATED [FMA:61971] synonym: "stria olfactoria lateralis" RELATED LATIN [Wikipedia:Lateral_olfactory_stria] synonym: "tractus olfactorius lateralis" EXACT LATIN [ZFA:0000229] xref: BM:Tel-LOT xref: EV:0100175 xref: FMA:61971 xref: NIF_GrossAnatomy:birnlex_1559 xref: SCTID:369107001 xref: TAO:0000229 xref: ZFA:0000229 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray732.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png is_a: UBERON:0002265 ! olfactory tract property_value: external_definition "Telencephalic white matter which extends between the olfactory bulb and the ipsilateral dorsal telencephalon and carries secondary olfactory fibers. From Neuroanatomy of the Zebrafish Brain[ZFA:0000229]." xsd:string [Term] id: UBERON:0001889 name: trunk of phrenic nerve namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "phrenic nerve trunk" EXACT [] synonym: "phrenic neural trunk" EXACT [] xref: EHDAA2:0001463 xref: FMA:6198 xref: MA:0001177 is_a: UBERON:0001147 ! trunk of peripheral nerve relationship: part_of UBERON:0001884 ! phrenic nerve [Term] id: UBERON:0001890 name: forebrain namespace: uberon def: "The most anterior region the brain including both the telencephalon and diencephalon." [Wikipedia:Forebrain, ZFIN:ZDB-PUB-961014-576] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "prosencephalon" RELATED [] xref: AAO:0010147 xref: BTO:0000478 xref: EFO:0000909 xref: EHDAA2:0000556 xref: EHDAA:3470 xref: EMAPA:16895 xref: FMA:61992 xref: MA:0000170 xref: MAT:0000105 xref: MESH:A08.186.211.730 xref: MIAA:0000105 xref: NIF_GrossAnatomy:birnlex_1509 xref: SCTID:362291003 xref: TAO:0000109 xref: UMLS:C0085140 xref: VHOG:0000383 xref: XAO:0000011 xref: ZFA:0000109 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/54/EmbryonicBrain.svg/200px-EmbryonicBrain.svg.png xref: ncithesaurus:Fore-Brain xref: ncithesaurus:Prosencephalon is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain relationship: develops_from UBERON:0003080 ! anterior neural tube relationship: immediate_transformation_of UBERON:0006240 ! future forebrain relationship: part_of UBERON:0000955 ! brain property_value: axiom_lost_from_external_ontology "relationship loss: develops_from forebrain neural tube (TAO:0007041)[TAO]" xsd:string property_value: external_definition "Most anterior of the three regions of the brain consisting of the telencephalon and diencephalon.[AAO]" xsd:string property_value: external_definition "The most anterior region the brain including both the telencephalon and diencephalon. Kimmel et al, 1995.[TAO]" xsd:string property_value: has_relational_adjective "prosencephalic" xsd:string property_value: homology_notes "In craniate embryos, neural expression of Distal-less-related genes is exclusively in the forebrain (...). Because the major neural expression domain of amphioxus AmphiDll is in the anterior three-fourths of the cerebral vesicle, we suggest that this region of the neural tube is homologous to parts of the craniate forebrain. This conclusion is strongly supported by three-dimensional, computer-assisted reconstruction of the neural tube of amphioxus based on serial transmission electron microscopy. At the neuroanatomical level, a number of detailed homologies are indicated between the anterior three-fourths of the amphioxus cerebral vesicle and the diencephalic region of the craniate forebrain. If one assumes that the amphioxus condition fairly represents the nervous system of the proximate ancestor of the craniates, one can suggest that they evolved from a creature that had the beginnings of a forebrain.[well established][VHOG]" xsd:string [Term] id: UBERON:0001891 name: midbrain namespace: uberon def: "Organ component of neuraxis that has as its parts the tectum, cerebral peduncle, midbrain tegmentum and cerebral aqueduct[FMA]. The brain region between the forebrain anteriorly and the hindbrain posteriorly, including the tectum dorsally and the midbrain tegmentum ventrally[ZFA]. The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]." [FMA:61993, GO:0030901, Wikipedia:Midbrain, ZFIN:curator] comment: Editors note: developmental relationships need revised. AO notes: part of brainstem in ABA - we reject this in favor of ISBN10:0471888893 which has an implicit overlaps relationships subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mesencephalon" RELATED LATIN [Wikipedia:Midbrain] xref: AAO:0010149 xref: ABA:MB xref: BM:MB xref: BTO:0000138 xref: EFO:0000919 xref: EHDAA2:0001162 xref: EHDAA:3694 xref: EMAPA:16974 xref: EV:0100242 xref: FMA:61993 xref: MA:0000207 xref: MAT:0000106 xref: MESH:A08.186.211.132.659 xref: MIAA:0000106 xref: NIF_GrossAnatomy:birnlex_1667 xref: OpenCyc:Mx4rvsBUqpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001104 xref: SCTID:279099009 xref: TAO:0000128 xref: UMLS:C0025462 xref: VHOG:0000069 xref: XAO:0000014 xref: ZFA:0000128 xref: http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f9/Human_brain_inferior_view_description.JPG/200px-Human_brain_inferior_view_description.JPG xref: ncithesaurus:Mesencephalon is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0009616 ! presumptive midbrain relationship: has_developmental_contribution_from UBERON:0003849 ! mesencephalic neural crest relationship: part_of UBERON:0000955 ! brain property_value: spatially_disjoint_from UBERON:0001894 property_value: spatially_disjoint_from UBERON:0002028 property_value: external_definition "Middle part of the brain composed of the optic tectum and penducular region.[AAO]" xsd:string property_value: external_definition "The brain region between the forebrain anteriorly and the hindbrain posteriorly, including the tectum dorsally and the midbrain tegmentum ventrally. Kimmel et al, 1995.[TAO]" xsd:string property_value: has_relational_adjective "mesencephalic" xsd:string property_value: homology_notes "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string [Term] id: UBERON:0001892 name: rhombomere namespace: uberon def: "A segment of the developing hindbrain[ZFA]. In the vertebrate embryo, a rhombomere is a transiently divided segment of the developing neural tube, within the hindbrain region (a neuromere) in the area that will eventually become the rhombencephalon. The rhombomeres appear as a series of slightly constricted swellings in the neural tube, caudal to the cephalic flexure. In human embryonic development, the rhombomeres are present by day 29[WP]." [Wikipedia:Rhombomere, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "future rhombencephalon" RELATED [MIAA:0000272] synonym: "hindbrain segment" BROAD [ZFA:0001064] synonym: "rhombomere" EXACT [] synonym: "rhombomeres" RELATED PLURAL [VHOG:0000672] synonym: "segment of hindbrain" BROAD [ZFA:0001064] xref: EFO:0003617 xref: EMAPA:16148 xref: EMAPA:16478 xref: MAT:0000272 xref: MIAA:0000272 xref: RETIRED_EHDAA2:0000669 xref: TAO:0001064 xref: VHOG:0000672 xref: XAO:0004079 xref: ZFA:0001064 is_a: UBERON:0004733 ! segmental subdivision of hindbrain intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "A segment of the developing hindbrain. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "Rhombomeric segmentation is found in all living vertebrates and is of fundamental importance to the development of the vertebrate head.[well established][VHOG]" xsd:string [Term] id: UBERON:0001893 name: telencephalon namespace: uberon def: "Organ component of neuraxis that has as its parts the cerebral cortex, cerebral white matter, basal ganglia, septum and fornix, as well as subcortical gray and white matter structures[FMA]." [FMA:62000, Wikipedia:Telencephalon] comment: The telencephalon is the name for a large region within the brain that is attributed many functions. Many people refer to it as the cerebrum; however, it is technically referred to as the telencephalon. As a more technical definition, the telencephalon refers to the cerebral hemispheres and other, smaller structures within the brain, although the telencephalon is one of the larger divisions (in terms of number). It is the anterior-most embryological division of the brain that develops from the prosencephalon. The telencephalon is composed of the following sub-regions; Limbic system; Cerebral cortex or cortices of the cerebral hemispheres, Basal ganglia, Olfactory bulb. The telencephalon comprises what most people think of as the 'brain' It lies on top of the brainstem and is the largest and most well-developed of the five major divisions of the brain. The telencephalon is the newest structure in the phylogenetic sense, with mammals having the largest and most well-developed among all species. It emerges from the prosencephalon, the first of three vesicles that form from the embryonic neural tube (Christine Fennema-Notestine, NIF_GrossAnatomy:birnlex_1115). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cerebrum" EXACT [http://en.wikipedia.org/wiki/Talk:Cerebrum] synonym: "endbrain" EXACT [Swanson:2004] xref: AAO:0010479 xref: ABA:CH xref: BM:Tel xref: BTO:0000239 xref: EFO:0000912 xref: EHDAA2:0001982 xref: EMAPA:16652 xref: EMAPA:16910 xref: EV:0100165 xref: FMA:62000 xref: GAID:621 xref: MA:0000183 xref: MAT:0000421 xref: MESH:A08.186.211.730.885 xref: MIAA:0000421 xref: NIF_GrossAnatomy:birnlex_1115 xref: SCTID:263353005 xref: TAO:0000079 xref: VHOG:0000283 xref: XAO:0000012 xref: ZFA:0000079 is_a: UBERON:0002780 ! regional part of forebrain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003850 ! telencephalon neural crest relationship: part_of UBERON:0001890 ! forebrain property_value: spatially_disjoint_from UBERON:0002037 property_value: axiom_lost_from_external_ontology "relationship loss: develops_from presumptive telencephalon (TAO:0000571)[TAO]" xsd:string property_value: external_definition "Part of the forebrain consisting of paired olfactory bulbs and cerebral hemispheres.[AAO]" xsd:string property_value: external_definition "The anterior and dorsal forebrain neuromere, includes the olfactory bulb. Kimmel et al, 1995.[TAO]" xsd:string property_value: has_relational_adjective "cerebral" xsd:string property_value: has_relational_adjective "telenencephalic" xsd:string property_value: homology_notes "From an evolutionary standpoint, the telencephalon is the most recent brain structure: the amphioxus does not have this structure as a morphological entity. Overt telencephalon is present in the hagfish and lamprey to receive numerous input fibers from various parts of the CNS, similar to gnathostomes.[well established][VHOG]" xsd:string property_value: taxon_notes "In mammals the cortex covers almost the whole of the cerebral hemispheres." xsd:string property_value: taxon_notes "In ray-finned fishes the inner surfaces of the lateral and ventral regions of the cerebrum bulge up into the ventricles." xsd:string property_value: taxon_notes "In the amniotes, the cerebrum becomes increasingly large and complex. In reptiles, the paleopallium is much larger than in amphibians, and its growth has pushed the basal nuclei into the central regions of the cerebrum." xsd:string property_value: taxon_notes "In the most primitive living vertebrates, the hagfishes and lampreys, the cerebrum is a relatively simple structure receiving nerve impulses from the olfactory bulb." xsd:string property_value: taxon_notes "The cerebrum of birds has evolved along different lines to that of mammals, although they are similarly enlarged, by comparison with reptiles. However, this enlargement is largely due to the basal ganglia, with the other areas remaining relatively primitive in structure." xsd:string property_value: taxon_notes "dolphins are the only species (other than humans) to have cerebra accounting for as much as 2 percent of their body weight." xsd:string [Term] id: UBERON:0001894 name: diencephalon namespace: uberon def: "Organ component of neuraxis that has as its parts the epithalamus, thalamus, hypothalamus, subthalamus[FMA]. The more posterior and ventral of two forebrain neuromeres, the other being the telencephalon; major derivatives are the eye cups, the brain pretectal region, the thalamus, hypothalamus, and epithalamus (including the habenula and epiphysis). Kimmel et al, 1995." [FMA:62001, Wikipedia:Diencephalon, ZFIN:curator] comment: Note that in ABA, this is part of the brain stem subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "between brain" EXACT [] synonym: "betweenbrain" RELATED [BTO:0000342] synonym: "diencephalon" RELATED LATIN [Wikipedia:Diencephalon] synonym: "interbrain" EXACT [Swanson:2004] synonym: "mature diencephalon" EXACT [FMA:62001] xref: AAO:0010481 xref: ABA:IB xref: BM:Die xref: BTO:0000342 xref: EFO:0000911 xref: EHDAA2:0000385 xref: EHDAA:1969 xref: EHDAA:2645 xref: EHDAA:3472 xref: EMAPA:16641 xref: EMAPA:16896 xref: EV:0100194 xref: FMA:62001 xref: GAID:618 xref: MA:0000171 xref: MAT:0000420 xref: MESH:A08.186.211.730.385 xref: MIAA:0000420 xref: NIF_GrossAnatomy:birnlex_1503 xref: OpenCyc:Mx4rwC-V0JwpEbGdrcN5Y29ycA xref: SCTID:279328001 xref: TAO:0000101 xref: UMLS:C0012144 xref: VHOG:0000318 xref: XAO:0000013 xref: ZFA:0000101 xref: http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/54/EmbryonicBrain.svg/200px-EmbryonicBrain.svg.png xref: ncithesaurus:Diencephalon is_a: UBERON:0002780 ! regional part of forebrain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003851 ! diencephalon neural crest relationship: immediate_transformation_of UBERON:0006222 ! future diencephalon relationship: part_of UBERON:0001890 ! forebrain property_value: spatially_disjoint_from UBERON:0001891 property_value: spatially_disjoint_from UBERON:0002028 property_value: external_definition "The more posterior and ventral of two forebrain neuromeres, the other being the telencephalon; major derivatives are the eye cups, the brain pretectal region, the thalamus, hypothalamus, and epithalamus (including the habenula and epiphysis). Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Unpaired part of the forebrain comprised of three major parts; the epithalamus, thalamus, and hypothalamus.[AAO]" xsd:string property_value: has_relational_adjective "diencephalic" xsd:string property_value: homology_notes "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string [Term] id: UBERON:0001895 name: metencephalon namespace: uberon def: "Rostral segment of the hindbrain that has as its parts the pons (where present) and the cerebellum." [Wikipedia:Metencephalon] comment: the terms metencephalon and myelencephalon are only meaningful in mammals and birds[Neuroanatomy of the Zebrafish Brain]. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata and thus these are not distinguished in ZFA[ZFA]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "epencephalon" EXACT [ncithesaurus:Epencephalon] synonym: "epencephalon-2" RELATED [FMA:62003] xref: BTO:0000673 xref: EHDAA2:0001149 xref: EHDAA:5498 xref: EMAPA:17071 xref: FMA:62003 xref: GAID:594 xref: MA:0000197 xref: MESH:A08.186.211.132.810.428 xref: NIF_GrossAnatomy:birnlex_965 xref: UMLS:C1516904 xref: VHOG:0000741 xref: http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/54/EmbryonicBrain.svg/200px-EmbryonicBrain.svg.png xref: ncithesaurus:Epencephalon is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004733 ! segmental subdivision of hindbrain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: immediate_transformation_of UBERON:0010092 ! future metencephalon relationship: part_of UBERON:0002028 ! hindbrain property_value: dubious_for_taxon NCBITaxon:7955 property_value: external_definition "The anterior of two brain vesicles formed by specialization of the rhombencephalon in the developing embryo. It gives rise to cerebellum and pons. [TFD][VHOG]" xsd:string property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0001896 name: medulla oblongata namespace: uberon def: "Organ component of neuraxis that has as its parts the medullary reticular formation, inferior olivary complex and cochlear nuclear complex, among other structures[FMA]. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate[GO]." [FMA:62004, GO:0021550, Wikipedia:Bone_marrow_of_ovary_oblongata] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bulb" BROAD [] synonym: "bulbus" EXACT LATIN [FMA:62004, FMA:TA] synonym: "medulla" BROAD [ABA:MY] synonym: "medulla oblonzata" RELATED LATIN [Wikipedia:Medulla_oblongata] synonym: "metepencephalon" RELATED [FMA:62004] xref: AAO:0010486 xref: ABA:MY xref: BTO:0000041 xref: EFO:0000924 xref: EHDAA2:0001088 xref: EHDAA:7588 xref: EMAPA:17550 xref: EV:0100275 xref: FMA:62004 xref: GAID:590 xref: MA:0000206 xref: MAT:0000111 xref: MAT:0000367 xref: MESH:A08.186.211.132.810.406 xref: MIAA:0000111 xref: NIF_GrossAnatomy:birnlex_957 xref: OpenCyc:Mx4rvVjxSJwpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwCqnXJwpEbGdrcN5Y29ycA xref: SCTID:279104005 xref: TAO:0000545 xref: UMLS:C0025148 xref: VHOG:0000181 xref: XAO:0003100 xref: ZFA:0000545 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Illu_pituitary_pineal_glands.jpg/200px-Illu_pituitary_pineal_glands.jpg xref: ncithesaurus:Medulla_Oblongata is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: capable_of GO:0002027 ! regulation of heart rate relationship: capable_of GO:0043576 ! regulation of respiratory gaseous exchange relationship: capable_of GO:0044058 ! regulation of digestive system process relationship: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002298 ! brainstem relationship: part_of UBERON:0005290 ! myelencephalon property_value: spatially_disjoint_from UBERON:0000988 property_value: external_definition "Posterior portion of the hindbrain which controls respiration, heartbeat, digestion, and swallowing as well as some locomotor responses.[AAO]" xsd:string property_value: external_definition "The posterior region of the brain that is continuous with the spinal cord. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-17, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes "Classical anatomical studies subdivided the vertebrate rhombencephalon into pons and medulla oblongata. (...) The medulla oblongata appears therefore as a tagma, that is, a group of segmental units (pseudorhombomeres, in this case) sharing some morphological and molecular characteristics, and in some aspects different from the segmental units present in adjoining brain regions, pons and spinal cord.[well established][VHOG]" xsd:string [Term] id: UBERON:0001897 name: thalamus namespace: uberon def: "A midline paired symmetrical structure within the brains of vertebrates, including humans. It is situated between the cerebral cortex and midbrain, both in terms of location and neurological connections. Its function includes relaying sensation, special sense and motor signals to the cerebral cortex, along with the regulation of consciousness, sleep and alertness. The thalamus surrounds the third ventricle. It is the main product of the embryonic diencephalon." [Wikipedia:Thalamus] comment: AO notes: MA and ZFA think there is a distinct dorsal thalamus, but FMA says its an exact synonym. FMA has a distinct class for thalamic complex. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal thalamus" RELATED [FMA:62007] synonym: "dorsal thalamus (anthoney)" EXACT [FMA:62007] synonym: "thalami" RELATED PLURAL [VHOG:0000657] synonym: "thalamus dorsalis" RELATED LATIN [BTO:0001365, Wikipedia:Thalamus] xref: AAO:0010483 xref: ABA:TH xref: BTO:0001365 xref: EFO:0000910 xref: EMAPA:17540 xref: EV:0100195 xref: FMA:62007 xref: GAID:656 xref: MA:0000179 xref: MAT:0000109 xref: MESH:A08.186.211.730.385.826 xref: MIAA:0000109 xref: NIF_GrossAnatomy:birnlex_954 xref: OpenCyc:Mx4rwMPQ65wpEbGdrcN5Y29ycA xref: SCTID:244433007 xref: TAO:0001215 xref: UMLS:C0039729 xref: VHOG:0000657 xref: ZFA:0001215 xref: galen:Thalamus xref: http://upload.wikimedia.org/wikipedia/commons/c/ce/Brain_chrischan_thalamus.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/ce/Brain_chrischan_thalamus.jpg/200px-Brain_chrischan_thalamus.jpg xref: ncithesaurus:Thalamus is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: in_lateral_side_of UBERON:0010225 ! thalamic complex relationship: part_of UBERON:0010225 ! thalamic complex property_value: spatially_disjoint_from UBERON:0001898 property_value: external_definition "One of a pair of large oval nervous structures made of gray matter and forming most of the lateral walls of the third ventricle of the brain and part of the diencephalon. [TFD][VHOG]" xsd:string property_value: external_definition "Part of the diencephalon consisting of a mass of connecting fibers which relay sensory information to the cerebral cortex.[AAO]" xsd:string property_value: has_relational_adjective "thalamic" xsd:string property_value: homology_notes " (...) the brain regions of tetrapods, the structures they contain, and their basic organizational features are the same as in fishes.[well established][VHOG]" xsd:string [Term] id: UBERON:0001898 name: hypothalamus namespace: uberon def: "A specialized brain region of the ventral diencephalon arising near the end of the segmentation period; the embryonic hypothalamic region will give rise to the posterior pituitary gland as well as a number of brain nuclei. [ZFA]. One of the most important functions of the hypothalamus is to link the nervous system to the endocrine system via the pituitary gland (hypophysis).[Wikipedia]." [Wikipedia:Hypothalamus, ZFIN:curator] comment: Taxon notes: all vertebrates contain a hypothalamus[WP]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hypothalamus" RELATED LATIN [Wikipedia:Hypothalamus] synonym: "preoptico-hypothalamic area" EXACT [] synonym: "preoptico-hypothalamic region" EXACT [] xref: AAO:0010484 xref: ABA:HY xref: BM:Die-Hy xref: BTO:0000614 xref: EFO:0000107 xref: EHDAA2:0000802 xref: EHDAA:5446 xref: EMAPA:17536 xref: EV:0100225 xref: FMA:62008 xref: GAID:460 xref: MA:0000173 xref: MAT:0000112 xref: MESH:A08.186.211.577.482 xref: MIAA:0000112 xref: NIF_GrossAnatomy:birnlex_734 xref: OpenCyc:Mx4rwEgr9JwpEbGdrcN5Y29ycA xref: SCTID:264483005 xref: TAO:0000032 xref: UMLS:C0020663 xref: VHOG:0000179 xref: XAO:0004070 xref: ZFA:0000032 xref: galen:Hypothalamus xref: http://upload.wikimedia.org/wikipedia/commons/9/9f/LocationOfHypothalamus.jpg xref: ncithesaurus:Hypothalamus is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: capable_of GO:0046883 ! regulation of hormone secretion relationship: capable_of GO:0060986 ! endocrine hormone secretion relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0001894 ! diencephalon property_value: spatially_disjoint_from UBERON:0001897 property_value: external_definition "A specialized brain region of the ventral diencephalon arising near the end of the segmentation period; the embryonic hypothalamic region will give rise to the posterior pituitary gland as well as a number of brain nuclei. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Part of the diencephalon ventral to the thalamus consisting of connecting fibers and is a center for control of the autonomous nervous system.[AAO]" xsd:string property_value: has_relational_adjective "hypothalamic" xsd:string property_value: homology_notes "For instance, the vertebrate ventral diencephalon generates the hypothalamus which functions as a major endocrine center in cooperation with the hypophysis, the anterior part of the pituitary gland, located just ventral to the hypothalamus. In the amphioxus brain, the presence of a hypothalamus-like structure has been reported associated with the ventrally located Hatschek's pit, the hypothetical hypophysial homologue. It is thus conceivable that a hypothalamus-like structure originally involved in endocrine functions may have already been present before the establishment of vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0001899 name: epithalamus namespace: uberon def: "The epithalamus is the small dorsomedial area of the thalamus including the habenular nuclei and associated fiber bundles, the pineal body, and the epithelial roof of the third ventricle[GO]. a dorsal posterior segment of the diencephalon (a segment in the middle of the brain also containing the hypothalamus and the thalamus) which includes the habenula, the stria medullaris and the pineal body. Its function is the connection between the limbic system to other parts of the brain[WP] Some functions of its components include the secretion of melatonin by the pineal gland. " [Wikipedia:Epithalamus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithalamus" RELATED LATIN [Wikipedia:Epithalamus] xref: AAO:0010482 xref: ABA:EPI xref: BM:Die-Epi xref: BTO:0000175 xref: EFO:0000918 xref: EHDAA2:0000448 xref: EHDAA:5433 xref: EMAPA:17532 xref: EV:0100220 xref: FMA:62009 xref: GAID:455 xref: MA:0000172 xref: MAT:0000422 xref: MESH:A08.186.211.577.200 xref: MIAA:0000422 xref: NIF_GrossAnatomy:birnlex_1710 xref: OpenCyc:Mx4rvneLQpwpEbGdrcN5Y29ycA xref: SCTID:281487003 xref: TAO:0000509 xref: UMLS:C0152361 xref: VHOG:0000178 xref: ZFA:0000509 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Epithalamus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Epithalamus.png/200px-Epithalamus.png xref: ncithesaurus:Epithalamus is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: part_of UBERON:0001894 ! diencephalon property_value: spatially_disjoint_from UBERON:0001903 property_value: spatially_disjoint_from UBERON:0002733 property_value: spatially_disjoint_from UBERON:0002736 property_value: external_definition "Dorsal segment of the diencephalon containing the habenular ganglia, a choroid plexus, and the pineal organ.[AAO]" xsd:string property_value: external_definition "The roof of the diencephalon lying above the thalamus. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-11, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: has_relational_adjective "epithalamic" xsd:string property_value: homology_notes "The epithalamus has been historically conceived as a distinct neuroanatomical moiety within the diencephalon of all vertebrates. (...) The evolutionary origins of epithalamic structures are uncertain but asymmetry in this region is likely to have existed at the origin of the vertebrate, perhaps even the chordate, lineage.[well established][VHOG]" xsd:string [Term] id: UBERON:0001900 name: subthalamus namespace: uberon def: "Anterior part of the diencephalon that lies between the thalamus, hypothalamus, and tegmentum of the mesencephalon, including subthalamic nucleus, zona incerta, the fields of Forel, and the nucleus of ansa lenticularis[GO]." [GO:0021539, Wikipedia:Subthalamus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "prethalamus" EXACT DEVELOPMENTAL [] synonym: "subthalamic region" EXACT [] synonym: "thalamus ventralis" EXACT [NIF_GrossAnatomy:birnlex_708] synonym: "ventral thalamus" EXACT [] xref: BM:Die-VTh xref: EHDAA2:0004470 xref: EV:0100223 xref: FMA:62010 xref: GAID:653 xref: MA:0000181 xref: MESH:A08.186.211.730.385.800 xref: NIF_GrossAnatomy:birnlex_708 xref: SCTID:279332007 xref: TAO:0000458 xref: UMLS:C0152349 xref: ZFA:0000458 xref: ncithesaurus:Ventral_Thalamus is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002730 ! regional part of thalamus relationship: part_of UBERON:0001897 ! thalamus property_value: has_relational_adjective "subthalamic" xsd:string [Term] id: UBERON:0001901 name: epithelium of trachea namespace: uberon alt_id: UBERON:0003227 def: "An epithelium that is part of a trachea." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "epithelial tissue of trachea" EXACT [OBOL:automatic] synonym: "epithelial tissue of windpipe" EXACT [OBOL:automatic] synonym: "epithelium of windpipe" EXACT [OBOL:automatic] synonym: "trachea epithelial tissue" EXACT [OBOL:automatic] synonym: "trachea epithelium" EXACT [] synonym: "tracheal epithelium" EXACT [] synonym: "windpipe epithelial tissue" EXACT [OBOL:automatic] synonym: "windpipe epithelium" EXACT [OBOL:automatic] xref: BTO:0001389 xref: EHDAA2:0002069 xref: EHDAA:5007 xref: EMAPA:16855 xref: EMAPA:18409 xref: FMA:62015 xref: MA:0001862 xref: UMLS:C1179002 xref: VHOG:0001045 xref: ncithesaurus:Tracheal_Epithelium is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0004815 ! lower respiratory tract epithelium relationship: develops_from UBERON:0003258 ! endoderm of foregut intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0001902 name: epithelium of small intestine namespace: uberon def: "An epithelium that is part of a small intestine [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial tissue of small bowel" EXACT [OBOL:automatic] synonym: "epithelial tissue of small intestine" EXACT [OBOL:automatic] synonym: "epithelium of small bowel" EXACT [OBOL:automatic] synonym: "mid intestine epithelium" EXACT [ZFA:0005127] synonym: "small bowel epithelial tissue" EXACT [OBOL:automatic] synonym: "small bowel epithelium" EXACT [OBOL:automatic] synonym: "small intestinal epithelium" EXACT [] synonym: "small intestine epithelial tissue" EXACT [OBOL:automatic] synonym: "small intestine epithelium" EXACT [] xref: BTO:0001258 xref: FMA:62017 xref: MA:0001553 xref: SCTID:45480009 xref: TAO:0005127 xref: ZFA:0005127 is_a: UBERON:0001277 ! intestinal epithelium is_a: UBERON:0006799 ! glandular epithelium relationship: has_part CL:0000164 ! enteroendocrine cell relationship: part_of UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002108 ! small intestine property_value: external_definition "Intestinal epithelium which lines the lumen of the mid intestine.[TAO]" xsd:string [Term] id: UBERON:0001903 name: thalamic reticular nucleus namespace: uberon def: "The thalamic reticular nucleus is part of the ventral thalamus that forms a capsule around the thalamus laterally. It is separated from the thalamus by the external medullary lamina. Reticular cells are GABAergic, and have discoid dendritic arbors in the plane of the nucleus. Thalamic Reticular Nucleus is variously abbreviated TRN, RTN, NRT, and RT. [WP,unvetted]." [Wikipedia:Thalamic_reticular_nucleus] comment: AO notes: only MA considers this part of a subthalamus; MA also considers a subthalamus part of a thalamus subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus reticularis thalami" EXACT LATIN [FMA:62026, FMA:TA, Wikipedia:Thalamic_reticular_nucleus] synonym: "reticular nuclear group" EXACT [] synonym: "reticular nucleus of thalamus" EXACT [] synonym: "reticular nucleus of the thalamus" EXACT [] synonym: "reticular nucleus-2" EXACT [] synonym: "reticular thalamic nucleus" EXACT [] xref: ABA:RT xref: BM:Die-VTh-R xref: EV:0100214 xref: FMA:62026 xref: MA:0000876 xref: NIF_GrossAnatomy:birnlex_1721 xref: SCTID:279164008 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Constudthal.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ab/Constudthal.gif/200px-Constudthal.gif is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001900 ! subthalamus property_value: spatially_disjoint_from UBERON:0001899 property_value: spatially_disjoint_from UBERON:0002733 property_value: spatially_disjoint_from UBERON:0002736 [Term] id: UBERON:0001904 name: habenula namespace: uberon def: "Habenula is a segment of the epithalamus that has as its parts the lateral and medial habenular nuclei and the habenular commissure. // The habenula relays impulses from limbic areas of the telencephalon to an unpaired midbrain nucleus, the interpeduncular nucleus." [Wikipedia:Habenula, ZFIN:curator] comment: TODO - add separate term for nucleus (e.g. BTO:0003685 habenular nucleus) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "habenulae" RELATED [] synonym: "habenular nuclei" RELATED [] synonym: "habenular nucleus" RELATED [] xref: BTO:0003684 xref: EV:0100222 xref: FMA:62032 xref: GAID:619 xref: MA:0000830 xref: MESH:A08.186.211.577.200.360 xref: NIF_GrossAnatomy:birnlex_1611 xref: SCTID:362389008 xref: TAO:0000213 xref: ZFA:0000213 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray715.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray715.png/200px-Gray715.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001899 ! epithalamus property_value: external_definition "The habenula relays impulses from limbic areas of the telencephalon to an unpaired midbrain nucleus, the interpeduncular nucleus.[TAO]" xsd:string property_value: has_relational_adjective "habenular" xsd:string [Term] id: UBERON:0001905 name: pineal body namespace: uberon def: "The pineal body is an unpaired glandular organ subdivision shaped somewhat like a pine cone. It is attached on the midline near the posterior and habenular commissures of the epithalamus." [Wikipedia:Pineal_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "corpus pineale" EXACT [] synonym: "epiphysis" RELATED INCONSISTENT [ZFA:0000019] synonym: "epiphysis cerebri" RELATED [Wikipedia:Epiphysis_cerebri] synonym: "frontal organ" RELATED [VHOG:0000051] synonym: "glandula pinealis" EXACT LATIN [FMA:62033, FMA:TA] synonym: "pineal" RELATED [VHOG:0000051] synonym: "pineal gland" EXACT [FMA:62033] synonym: "pineal organ" EXACT [ZFA:0000019] synonym: "stirnorgan" RELATED [VHOG:0000051] xref: AAO:0010549 xref: ABA:PIN xref: BM:P xref: BTO:0001067 xref: EFO:0000865 xref: EHDAA2:0001466 xref: EHDAA:7523 xref: EMAPA:18778 xref: EV:0100131 xref: EV:0100221 xref: FMA:62033 xref: GAID:453 xref: MA:0000175 xref: MAT:0000448 xref: MESH:A06.407.635 xref: NIF_GrossAnatomy:birnlex_1184 xref: NIF_GrossAnatomy:nlx_anat_1010009 xref: OpenCyc:Mx4rv2FMGpwpEbGdrcN5Y29ycA xref: SCTID:181126002 xref: TAO:0000019 xref: UMLS:C0031939 xref: VHOG:0000051 xref: XAO:0000160 xref: ZFA:0000019 xref: galen:PinealGland xref: http://upload.wikimedia.org/wikipedia/commons/6/6b/Illu_pituitary_pineal_glands.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Illu_pituitary_pineal_glands.jpg/200px-Illu_pituitary_pineal_glands.jpg xref: ncithesaurus:Pineal_Gland is_a: UBERON:0002757 ! regional part of epithalamus is_a: UBERON:0003296 ! gland of diencephalon is_a: UBERON:0010134 ! secretory circumventricular organ relationship: part_of UBERON:0001899 ! epithalamus property_value: spatially_disjoint_from UBERON:0001941 property_value: spatially_disjoint_from UBERON:0001942 property_value: axiom_lost_from_external_ontology "relationship loss: part_of pineal complex (TAO:0001359)[TAO]" xsd:string property_value: external_definition "A circumscribed swelling, includes the pineal primordium that appears late in the segmentation period in the dorsal midline of the diencephalon. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Anatomical structure which is a medial outgrowth of the thalamus on the dorsal surface of the brain. This structure is light sensitive and secretes melatonin when exposed to prolonged darkness.[AAO]" xsd:string property_value: has_relational_adjective "epiphyseal" xsd:string property_value: has_relational_adjective "epiphysial" xsd:string property_value: homology_notes "The pineal gland has evolved from a part of the epiphyseal complex of anamniotes, which includes a median light-receptive pineal eye, parietal eye, or both.[well established][VHOG]" xsd:string [Term] id: UBERON:0001906 name: subthalamic nucleus namespace: uberon def: "The subthalamic nucleus is the lens-shaped nucleus located in the ventral part of the subthalamus on the inner aspect of the internal capsule that is concerned with the integration of somatic motor function[GO]." [Wikipedia:Subthalamic_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Luys' body" RELATED [BTO:0002252] synonym: "body of forel" EXACT [] synonym: "body of luys" EXACT [] synonym: "nucleus of corpus luysii" EXACT [] synonym: "nucleus of luys" EXACT [] synonym: "nucleus subthalamicus" RELATED LATIN [BTO:0002252, Wikipedia:Subthalamic_nucleus] synonym: "subthalamic nucleus (of luys)" EXACT [] xref: ABA:STN xref: BM:Die-Sb xref: BTO:0002252 xref: EFO:0001392 xref: EV:0100224 xref: FMA:62035 xref: GAID:655 xref: MA:0000877 xref: MESH:A08.186.211.730.385.800.800 xref: NIF_GrossAnatomy:nlx_anat_1010002 xref: UMLS:C0152355 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Basal-ganglia-coronal-sections-large.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/Basal-ganglia-coronal-sections-large.png/200px-Basal-ganglia-coronal-sections-large.png xref: ncithesaurus:Subthalamic_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001900 ! subthalamus property_value: spatially_disjoint_from UBERON:0001907 property_value: spatially_disjoint_from UBERON:0001931 property_value: spatially_disjoint_from UBERON:0001933 property_value: spatially_disjoint_from UBERON:0002430 [Term] id: UBERON:0001907 name: zona incerta namespace: uberon def: "The zona incerta is a horizontally elongated region of gray matter cells in the subthalamus below the thalamus. Its connections project extensively over the brain from the cerebral cortex down into the spinal cord. Its function is unknown though several have been proposed related to blimbicbmotor integrationb such as controlling visceral activity and pain; gating sensory input and synchronizing cortical and subcortical brain rhythms. Its dysfunction may play a role in central pain syndrome. It is also been identified as a promising deep brain stimulation therapy target for treating Parkinsons Disease. Its existence was first described by Auguste Forel in 1877 as a bregion of which nothing certain can be saidb. A hundred and thirty years later in 2007, Nadia Urbain and Martin DeschC*nes of UniversitC) Laval noted that the bzona incerta is among the least studied regions of the brain; its name does not even appear in the index of many textbooks. b [WP,unvetted]." [Wikipedia:Zona_incerta] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: ABA:ZI xref: BM:Die-VTh-ZI xref: BTO:0003146 xref: FMA:62038 xref: MA:0000878 xref: SCTID:369186007 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001900 ! subthalamus property_value: spatially_disjoint_from UBERON:0001906 property_value: spatially_disjoint_from UBERON:0001931 property_value: spatially_disjoint_from UBERON:0001933 property_value: spatially_disjoint_from UBERON:0002430 [Term] id: UBERON:0001908 name: optic tract namespace: uberon def: "Diencephalic white matter (tract) which is comprised of retinal ganglion cell axons after which they have passed through the optic chiasm[ZFA]. Predominantly white matter structure found in diencephalon consisting of fibers originating in the retina. The optic tract is considered to extend from the point of the optic chiasm and terminates largely, although not exclusively, in the lateral geniculate complex. Other fibers end in the superior colliculus and other structures in the diencephalon, midbrain and brainstem (MM)[NIF]." [NIF_GrossAnatomy, Wikipedia:Optic_tract, ZFIN:curator] comment: editor note: relationships need checking by expert. NIF and ZFA both state part of diencepahalon; MA says part of optic nerve II. in uberon, CNS and PNS are spatially disjoint, and axon tracts are part of the CNS so we make the relationship to CNII 'continuous_with' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "optic lemniscus" EXACT [] synonym: "tractus opticus" RELATED LATIN [Wikipedia:Optic_tract] synonym: "visual pathway" RELATED [GAID:735] xref: BM:Tel-OT xref: FMA:62046 xref: GAID:735 xref: MA:0001099 xref: MESH:A08.612.220.860 xref: NIF_GrossAnatomy:birnlex_1684 xref: SCTID:280952003 xref: TAO:0000252 xref: UMLS:C0152405 xref: VHOG:0001164 xref: XAO:0004101 xref: ZFA:0000252 xref: http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray773.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f6/Gray773.png/200px-Gray773.png xref: ncithesaurus:Optic_Tract is_a: UBERON:0001018 ! axon tract is_a: UBERON:0011591 ! tract of diencephalon relationship: continuous_with UBERON:0000941 ! cranial nerve II relationship: continuous_with UBERON:0000959 ! optic chiasma relationship: part_of UBERON:0001894 ! diencephalon relationship: part_of UBERON:0002104 ! visual system [Term] id: UBERON:0001909 name: habenular commissure namespace: uberon def: "The habenular commissure, is a brain commissure (a band of nerve fibers) situated in front of the pineal gland that connects the habenular nucleus on one side of the diencephalon with that on the other side. The habernular commissure is part of the trigonum habenulC& (a small depressed triangular area situated in front of the superior colliculus and on the lateral aspect of the posterior part of the tC&nia thalami). The trigonum habenulC& also contains groups of nerve cells termed the ganglion habenulC&. Fibers enter the trigonum habenulC& from the stalk of the pineal gland, and the habenular commissure. Most of the trigonum habenulC&'s fibers are, however, directed downward and form a bundle, the fasciculus retroflexus of Meynert, which passes medial to the red nucleus, and, after decussating with the corresponding fasciculus of the opposite side, ends in the interpeduncular ganglion. Nerve cell fibers enter the trigonum habenulC& from the stalk of the pineal body, and the habernular commissure. [WP,unvetted]." [Wikipedia:Habenular_commissure] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "commissura habenularum" EXACT LATIN [Wikipedia:Habenular_commissure, ZFA:0000359] synonym: "commissure habenularum" EXACT [MP:0008231] xref: BM:Die-Epi-HC xref: FMA:62048 xref: NIF_GrossAnatomy:birnlex_1609 xref: SCTID:279335009 xref: TAO:0000359 xref: ZFA:0000359 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray715.png is_a: UBERON:0005341 ! ventral commissure is_a: UBERON:0011590 ! commissure of diencephalon relationship: part_of UBERON:0001904 ! habenula [Term] id: UBERON:0001910 name: medial forebrain bundle namespace: uberon def: "The Medial forebrain bundle (MFB), is a complex bundle of axons coming from the basal olfactory regions, the periamygdaloid region, and the septal nuclei, and passing to the lateral hypothalamus, with some carrying on into the tegmentum. It contains both ascending and descending fibers. It also represents a part of the mesolimbic pathway, carrying information between the ventral tegmentum and the nucleus accumbens. It is commonly accepted that the MFB is a part of the reward system, involved in the integration of reward and pleasure. Electrical stimulation of the medial forebrain bundle is believed to cause sensations of pleasure. This hypothesis is based upon intracranial self-stimulation (ICSS) studies. Animals will work for MFB ICSS, and humans report that MFB ICSS is intensely pleasurable. This is most likely because the medial forebrain bundle carries information from the ventral tegmental area (VTA) to the nucleus accumbens (nAcc or Acb). The nAcc is a recognized reward center, and activation of the pathway from the VTA to the nAcc is believed to be rewarding, which is why it is sometimes referred to as the hedonic highway. [WP,unvetted]." [Wikipedia:Medial_forebrain_bundle] comment: AO notes: a pathway in NCIT subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "fasciculus medialis telencephali" RELATED LATIN [Wikipedia:Medial_forebrain_bundle] synonym: "medial forebrain fasciculus" EXACT [] synonym: "telencephalic medial fasciculus" EXACT [] xref: FMA:62064 xref: GAID:736 xref: MESH:A08.612.492 xref: NIF_GrossAnatomy:birnlex_908 xref: TAO:0005111 xref: UMLS:C0025055 xref: ZFA:0005111 xref: ncithesaurus:Medial_Forebrain_Bundle is_a: UBERON:0005838 ! fasciculus of brain relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0001911 name: mammary gland namespace: uberon def: "The specialized accessory gland of the skin of female mammals that secretes milk. In the human female, it is a compound tubuloalveolar gland composed of 15 to 25 lobes arranged radially about the nipple and separated by connective and adipose tissue, each lobe having its own excretory (lactiferous) duct opening on the nipple. The lobes are subdivided into lobules, with the alveolar ducts and alveoli being the secretory portion of the gland[BTO]. The mouse forms five to six pairs of mammary glands that extend from the neck to the groin." [BTO:0000817, Wikipedia:Mammary_gland] comment: Note that this class corresponds to the generic mammary gland. The human mammary gland is in the thoracic/breast region and is therefore covered by the subclass \"thoracic mammary gland\" // Males typically only have rudimentary mammary glands, The male Dayak fruit bat has lactating mammary glands. Male lactation occurs infrequently in some species. We make a part_of association to female organism for now as this is the canonical case // AO notes: in MP, this is implicitly part of female reproductive system, but not female genitalia // A mouse mammary gland contains a single duct or sinus, forming 5-10 secondary ducts subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Brustdruese" RELATED [BTO:0000817] synonym: "dug" RELATED [Wikipedia:Mammary_gland] synonym: "glandula mammaria" EXACT PLURAL [FMA:57983, FMA:TA, Wikipedia:Mammary_gland] synonym: "lactiferous gland" EXACT [FMA:62088] synonym: "lobe of breast" EXACT [] synonym: "lobe of mammary gland" EXACT [] synonym: "mamma" RELATED [BTO:0000817] synonym: "mammae" RELATED PLURAL [] xref: BTO:0000817 xref: EFO:0000854 xref: EMAPA:17759 xref: EV:0100125 xref: MA:0000145 xref: MAT:0000073 xref: MESH:A10.336.482 xref: MIAA:0000073 xref: OpenCyc:Mx4rvVjVq5wpEbGdrcN5Y29ycA xref: SCTID:361720005 xref: UMLS:C0929301 xref: VHOG:0000398 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Illu_breast_anatomy.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Illu_breast_anatomy.jpg/200px-Illu_breast_anatomy.jpg xref: ncithesaurus:Mammary_Gland is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005398 ! female reproductive gland relationship: develops_from UBERON:0005333 ! mammary bud relationship: part_of UBERON:0000474 ! female reproductive system relationship: part_of UBERON:0003100 ! female organism intersection_of: UBERON:0002530 ! gland intersection_of: secretes UBERON:0001913 ! milk property_value: external_definition "Any of the milk-producing apocrine glands typically occurring in pairs in female mammals and consisting of lobes containing clusters of alveoli with a system of ducts to convey the milk to an external nipple or teat. [TFD][VHOG]" xsd:string property_value: has_relational_adjective "mammary" xsd:string property_value: homology_notes "The detailed similarities of mammary glands in living monotremes, marsupials, and eutherians argue for a monophyletic origin of these glands, perhaps by the combination of parts of preexisting sebaceous and sweat glands.[well established][VHOG]" xsd:string [Term] id: UBERON:0001912 name: lobule of lactiferous gland namespace: uberon def: "Organ component of the mammary gland which consists of an aggregate of mammary alveoli that communicate with a lobular lactiferous duct.[FMA]" [FMA:62090] comment: TODO - ensure correct terminology for lobes/lobules. FMA uses lobule for core term, but also has 'set of mammary gland lobes'. ISBN10:0123813611 states no separate lobes in mouse subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "acinus of mammary gland" EXACT [] synonym: "breast lobe" RELATED [BTO:0004718] synonym: "lactiferous acinus" EXACT [] synonym: "lactiferous gland lobule" EXACT [] synonym: "lactiferous lobule" EXACT [] synonym: "lobe of breast" RELATED [BTO:0004718] synonym: "lobe of mammary gland" RELATED [BTO:0004718] synonym: "lobi glandulae mammariae" RELATED [BTO:0004718] synonym: "lobule of mammary gland" EXACT [] synonym: "lobus glandulae mammariae" RELATED [BTO:0004718] synonym: "mammary acinus" EXACT [] synonym: "mammary gland lobule" EXACT [] xref: BTO:0004718 xref: FMA:62090 xref: MA:0000793 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0001913 name: milk namespace: uberon def: "Secretion produced by the mammary gland.[FMA]" [FMA:FMA, Wikipedia:Breast_milk] comment: AO notes: ncit:Milk refers specifically to cow milk subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "mammary gland milk" EXACT [] xref: BTO:0000868 xref: ENVO:02000031 xref: EV:0100126 xref: FMA:62100 xref: GAID:1230 xref: MA:0002552 xref: MAT:0000056 xref: MESH:A13.622 xref: MIAA:0000056 xref: OpenCyc:Mx4rvVjGZJwpEbGdrcN5Y29ycA xref: UMLS:C1511310 xref: VHOG:0001263 xref: galen:Milk xref: ncithesaurus:Breast_Fluid_or_Secretion is_a: UBERON:0000456 ! bodily secretion is_a: UBERON:0006539 ! mammary gland fluid/secretion relationship: secreted_by UBERON:0001911 ! mammary gland property_value: homology_notes "The detailed similarities of mammary glands in living monotremes, marsupials, and eutherians argue for a monophyletic origin of these glands, perhaps by the combination of parts of preexisting sebaceous and sweat glands.[well established][VHOG]" xsd:string [Term] id: UBERON:0001914 name: colostrum namespace: uberon def: "The thin, yellow, serous fluid secreted by the mammary glands during pregnancy and immediately postpartum before lactation begins. It consists of immunologically active substances, white blood cells, water, protein, fat, and carbohydrates." [MESH:A12.200.194, Wikipedia:Colostrum] comment: AO notes: we follow in MA in making this is a sib of mammary gland milk, rather than a subclass. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0000276 xref: FMA:62101 xref: GAID:1159 xref: MA:0002551 xref: MESH:A12.200.194 xref: UMLS:C0009413 xref: ncithesaurus:Colostrum is_a: UBERON:0000456 ! bodily secretion is_a: UBERON:0006539 ! mammary gland fluid/secretion relationship: secreted_by UBERON:0001911 ! mammary gland property_value: has_relational_adjective "colostral" xsd:string [Term] id: UBERON:0001915 name: endothelium of capillary namespace: uberon def: "An endothelium that is part of a capillary [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "blood capillary endothelium" EXACT [OBOL:automatic] synonym: "capillary endothelium" EXACT [] synonym: "capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel" EXACT [OBOL:automatic] xref: BTO:0004954 xref: FMA:62114 xref: MA:0000711 xref: UMLS:C0006904 xref: ncithesaurus:Capillary_Endothelium is_a: UBERON:0001986 ! endothelium is_a: UBERON:0004638 ! blood vessel endothelium relationship: part_of UBERON:0001982 ! capillary intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001982 ! capillary [Term] id: UBERON:0001916 name: endothelium of arteriole namespace: uberon def: "An endothelium that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "arteriole endothelium" EXACT [] xref: FMA:62115 xref: MA:0000705 xref: UMLS:C1179024 xref: ncithesaurus:Arteriole_Endothelium is_a: UBERON:0001917 ! endothelium of artery is_a: UBERON:0001986 ! endothelium relationship: part_of UBERON:0001980 ! arteriole intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001980 ! arteriole [Term] id: UBERON:0001917 name: endothelium of artery namespace: uberon def: "An endothelium that is part of an artery [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "arterial endothelium" EXACT [] synonym: "artery endothelium" EXACT [] xref: AAO:0011013 xref: BTO:0004757 xref: FMA:62116 xref: MA:0000707 xref: UMLS:C1179025 xref: VHOG:0001215 xref: XAO:0000357 xref: ncithesaurus:Artery_Endothelium is_a: UBERON:0003915 ! endothelial tube is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001637 ! artery property_value: external_definition "The endothelium is the thin layer of cells that lines the interior surface of blood vessels, forming an interface between circulating blood in the lumen and the rest of the vessel wall.[AAO]" xsd:string property_value: homology_notes "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string [Term] id: UBERON:0001918 name: endothelium of venule namespace: uberon def: "An endothelium that is part of a venule [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "venule endothelium" EXACT [] xref: FMA:62117 xref: MA:0000716 xref: UMLS:C1179026 xref: ncithesaurus:Venule_Endothelium is_a: UBERON:0001986 ! endothelium is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium relationship: part_of UBERON:0001979 ! venule intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001979 ! venule [Term] id: UBERON:0001919 name: endothelium of vein namespace: uberon def: "An endothelium that is part of a vein [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "vein endothelium" EXACT [] synonym: "veinous endothelium" RELATED [VHOG:0001216] synonym: "venous endothelium" EXACT [] xref: AAO:0011110 xref: BTO:0004756 xref: FMA:62118 xref: MA:0000712 xref: UMLS:C1179027 xref: VHOG:0001216 xref: XAO:0000358 xref: ncithesaurus:Vein_Endothelium is_a: UBERON:0001986 ! endothelium is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001638 ! vein property_value: homology_notes "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string [Term] id: UBERON:0001920 name: paraventricular nucleus of thalamus namespace: uberon def: "The nucleus paraventricularis anterior thalami and nuclues paraventricularis posterior thalami, two of the nuclei mediani thalami; they are situated on the dorsomedial wall of the thalamus, juxtaposed to the third ventricle." [Dorlands_Medical_Dictionary:MerckSource] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei paraventriculares thalami" EXACT LATIN [FMA:62152, FMA:TA] synonym: "paraventricular gray" EXACT [] synonym: "paraventricular nuclei" RELATED PLURAL [] synonym: "paraventricular nuclei of thalamus" EXACT PLURAL [] synonym: "paraventricular thalamic nucleus" EXACT [] xref: ABA:PVT xref: BM:Die-Th-Pa xref: BTO:0002460 xref: FMA:62152 xref: MA:0000866 xref: NIF_GrossAnatomy:birnlex_764 xref: SCTID:369163000 xref: http://upload.wikimedia.org/wikipedia/en/thumb/e/ef/PVNss.jpg/200px-PVNss.jpg is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002705 ! midline nuclear group property_value: spatially_disjoint_from UBERON:0002992 [Term] id: UBERON:0001921 name: reuniens nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "medioventral nucleus" EXACT [] synonym: "nucleus reuniens" EXACT [] synonym: "reuniens thalamic nucleus" EXACT [] xref: BTO:0002459 xref: FMA:62153 xref: MA:0000865 xref: NIF_GrossAnatomy:birnlex_770 xref: SCTID:369164006 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0001922 name: parafascicular nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "nuclei parafasciculares thalami" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "nucleus parafascicularis" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "nucleus parafascicularis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "nucleus parafascicularis thalami" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "parafascicular nucleus (vogt)" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "parafascicular nucleus of thalamus" EXACT [] synonym: "parafascicular nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_952] synonym: "parafascicular thalamic nucleus" EXACT [] xref: ABA:PF xref: BM:Die-Th-Pf xref: EV:0100202 xref: FMA:62166 xref: MA:0000874 xref: NIF_GrossAnatomy:birnlex_952 xref: SCTID:279150008 xref: UMLS:C0228352 xref: ncithesaurus:Parafascicular_Nucleus_of_the_Thalamus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002733 ! intralaminar nuclear group property_value: spatially_disjoint_from UBERON:0001923 property_value: spatially_disjoint_from UBERON:0001924 property_value: spatially_disjoint_from UBERON:0002955 property_value: spatially_disjoint_from UBERON:0003036 [Term] id: UBERON:0001923 name: central medial nucleus namespace: uberon def: "a small cell group in the interthalamic adhesion of the thalamus that occupy the midline region of the internal medullary lamina, between the left and right paracentral nuclei." [MP:0008929] comment: This class was created automatically from a combination of ontologies synonym: "central medial nucleus of thalamus" EXACT [] synonym: "central medial nucleus thalamus (rioch 1928)" EXACT [NIF_GrossAnatomy:birnlex_971] synonym: "central medial thalamic nucleus" EXACT [] synonym: "nucleus centralis medialis" EXACT [NIF_GrossAnatomy:birnlex_971] synonym: "nucleus centralis medialis thalami" EXACT [NIF_GrossAnatomy:birnlex_971] xref: ABA:CM xref: BM:Die-CeM xref: BTO:0003753 xref: FMA:62171 xref: MA:0000872 xref: NIF_GrossAnatomy:birnlex_971 xref: SCTID:279161000 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0001922 property_value: spatially_disjoint_from UBERON:0001924 property_value: spatially_disjoint_from UBERON:0002955 property_value: spatially_disjoint_from UBERON:0003036 [Term] id: UBERON:0001924 name: paracentral nucleus namespace: uberon def: "one of the intralaminar nuclei of the thalamus, located medial to the central lateral nucleus." [MP:0008928] comment: todo - relationships synonym: "nucleus centralis lateralis superior (kusama)" EXACT [NIF_GrossAnatomy:birnlex_981] synonym: "nucleus paracentral" EXACT [NIF_GrossAnatomy:birnlex_981] synonym: "nucleus paracentral thalami" EXACT [NIF_GrossAnatomy:birnlex_981] synonym: "nucleus paracentralis thalami" EXACT LATIN [FMA:62172, FMA:TA] synonym: "paracentral nucleus of thalamus" EXACT [] synonym: "paracentral nucleus thalamus (gurdjian 1927)" EXACT [NIF_GrossAnatomy:birnlex_981] synonym: "paracentral thalamic nucleus" EXACT [] xref: ABA:PCN xref: BM:Die-Th-Pc xref: EV:0100204 xref: FMA:62172 xref: MA:0000873 xref: NIF_GrossAnatomy:birnlex_981 xref: SCTID:279152000 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002733 ! intralaminar nuclear group property_value: spatially_disjoint_from UBERON:0001922 property_value: spatially_disjoint_from UBERON:0001923 property_value: spatially_disjoint_from UBERON:0002955 property_value: spatially_disjoint_from UBERON:0003036 [Term] id: UBERON:0001925 name: ventral lateral nucleus namespace: uberon def: "The ventral lateral nucleus (VL) is a nucleus of the thalamus. [WP,unvetted]." [Wikipedia:Ventral_lateral_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "lateral ventral nucleus of thalamus" EXACT [] synonym: "nuclei ventrales laterales thalami" RELATED [BTO:0002463] synonym: "nucleus ventralis intermedius" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "nucleus ventralis lateralis" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "nucleus ventralis lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "nucleus ventralis thalami lateralis" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "nucleus ventrolateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "ventral lateral complex of thalamus" EXACT [] synonym: "ventral lateral nuclei of thalamus" RELATED [BTO:0002463] synonym: "ventral lateral nucleus of thalamus" EXACT [] synonym: "ventral lateral thalamic nuclei" EXACT [] synonym: "ventral lateral thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1237] synonym: "ventrolateral nucleus of the thalamus" EXACT [] synonym: "ventrolateral thalamic nucleus" EXACT [] xref: BM:Die-Th-VL xref: BTO:0002463 xref: FMA:62186 xref: NIF_GrossAnatomy:birnlex_1237 xref: SCTID:279146001 xref: TAO:0000306 xref: UMLS:C0228339 xref: ZFA:0000306 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png xref: ncithesaurus:Ventrolateral_Nucleus_of_the_Thalamus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001900 ! subthalamus [Term] id: UBERON:0001926 name: lateral geniculate body namespace: uberon def: "The lateral geniculate nucleus is the primary processor of visual information received from the retina[GO]." [Wikipedia:Lateral_geniculate_body] comment: Note that BTO has distinct classes for body and nucleus, but other sources treat as identical subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus geniculatum externum" RELATED [BTO:0004367] synonym: "corpus geniculatum laterales" EXACT [NIF_GrossAnatomy:birnlex_1662] synonym: "external geniculate body" RELATED [Wikipedia:Lateral_geniculate_nucleus] synonym: "lateral geniculate complex" EXACT [] synonym: "lateral geniculate nucleus" EXACT [] synonym: "nucleus geniculatus lateralis" EXACT [NIF_GrossAnatomy:birnlex_1662] xref: BTO:0004366 xref: BTO:0004367 xref: EFO:0001988 xref: EV:0100219 xref: FMA:62209 xref: MA:0000869 xref: NIF_GrossAnatomy:birnlex_1662 xref: SCTID:362377006 xref: UMLS:C0086526 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b7/Gray719.png/200px-Gray719.png xref: ncithesaurus:External_Geniculate_Body is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002704 ! metathalamus [Term] id: UBERON:0001927 name: medial geniculate body namespace: uberon def: "The Medial Geniculate Nucleus (MGN) or Medial Geniculate Body (MGB) is part of the auditory thalamus and represents the thalamic relay between the inferior colliculus (IC) and the auditory cortex (AC). It is made up of a number of sub-nuclei that are distinguished by their neuronal morphology and density, by their afferent and efferent connections, and by the coding properties of their neurons. It is thought that the MGB influences the direction and maintenance of attention. [WP,unvetted]." [Wikipedia:Medial_geniculate_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "MGB" RELATED [BTO:0002674] synonym: "corpus geniculatum mediale" EXACT [NIF_GrossAnatomy:birnlex_1670] synonym: "internal geniculate body" RELATED [ncithesaurus:Internal_Geniculate_Body] synonym: "medial geniculate complex" EXACT [] synonym: "medial geniculate nuclei" EXACT [] synonym: "medial geniculate nucleus" EXACT [] synonym: "nuclei corporis geniculati medialis" EXACT LATIN [FMA:62211, FMA:TA] xref: ABA:MG xref: BM:Die-Th-MG xref: BTO:0002674 xref: EFO:0001968 xref: EV:0100218 xref: FMA:62211 xref: MA:0000870 xref: NIF_GrossAnatomy:birnlex_1670 xref: SCTID:362378001 xref: UMLS:C0086596 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png xref: ncithesaurus:Internal_Geniculate_Body is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002704 ! metathalamus property_value: spatially_disjoint_from UBERON:0002479 [Term] id: UBERON:0001928 name: preoptic area namespace: uberon def: "Area of the forebrain anterior to the posterior tuberculum and the hypothalamus and ventral to the ventral thalamus[ZFA]." [Wikipedia:Preoptic_area, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "area hypothalamica rostralis" RELATED [BTO:0001796] synonym: "area praeoptica" RELATED [] synonym: "area preoptica" RELATED LATIN [Wikipedia:Preoptic_area] synonym: "preoptic hypothalamic area" RELATED [BTO:0001796] synonym: "preoptic hypothalamic region" RELATED [BTO:0001796] synonym: "preoptic nuclei" EXACT [] synonym: "preoptic region" RELATED [] synonym: "preoptic region of hypothalamus" EXACT [] synonym: "regio hypothalamica anterior" RELATED [BTO:0001796] xref: BM:Die-Hy-POA xref: BTO:0001796 xref: EFO:0002523 xref: FMA:62313 xref: GAID:644 xref: MESH:A08.186.211.730.385.357.342.450 xref: NIF_GrossAnatomy:birnlex_1706 xref: SCTID:362382004 xref: TAO:0000470 xref: ZFA:0000470 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/HypothalamicNuclei.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: part_of UBERON:0001894 ! diencephalon property_value: external_definition "Area of the forebrain anterior to the posterior tuberculum and the hypothalamus and ventral to the ventral thalamus. See Figure 7, Atlas of Early Zebrafish Brain Development.[TAO]" xsd:string [Term] id: UBERON:0001929 name: supraoptic nucleus namespace: uberon def: "The supraoptic nucleus (SON) is a nucleus of magnocellular neurosecretory cells in the hypothalamus of the mammalian brain. The nucleus is situated at the base of the brain, adjacent to the optic chiasm. In humans, it contains about 3,000 neurons. [WP,unvetted]." [Wikipedia:Supraoptic_nucleus, https://sourceforge.net/tracker/?func=detail&aid=3474225&group_id=76834&atid=1205376] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus supraopticus" EXACT LATIN [BTO:0002697, Wikipedia:Supraoptic_nucleus] synonym: "supra-optic nucleus" EXACT [] synonym: "supraoptic nucleus of hypothalamus" EXACT [] xref: ABA:SO xref: BM:Die-Hy-SON xref: BTO:0002697 xref: EFO:0002476 xref: EV:0100227 xref: FMA:62317 xref: GAID:646 xref: MA:0000849 xref: MESH:A08.186.211.730.385.357.342.650 xref: NIF_GrossAnatomy:birnlex_1411 xref: SCTID:369130007 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/SONss.jpg xref: http://upload.wikimedia.org/wikipedia/en/thumb/d/d7/SONss.jpg/200px-SONss.jpg is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0006568 ! hypothalamic nucleus relationship: capable_of GO:0030103 ! vasopressin secretion relationship: part_of UBERON:0002271 ! periventricular zone of hypothalamus relationship: part_of UBERON:0002550 ! anterior hypothalamic region property_value: spatially_disjoint_from UBERON:0001930 property_value: spatially_disjoint_from UBERON:0001932 [Term] id: UBERON:0001930 name: paraventricular nucleus of hypothalamus namespace: uberon def: "The paraventricular nucleus (PVN) is a neuronal nucleus in the hypothalamus. It contains multiple subpopulations of neurons that are activated by a variety of stressful and/or physiological changes. Many PVH neurons project directly to the posterior pituitary where they release oxytocin or vasopressin into the general circulation. Other PVN neurons control various anterior pituitary functions, while still others directly regulate appetite and autonomic functions in the brainstem and spinal cord. [WP,unvetted]." [Wikipedia:Paraventricular_nucleus_of_hypothalamus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "filiform nucleus" EXACT [] synonym: "nuclei paraventricularis hypothalami" RELATED LATIN [Wikipedia:Paraventricular_nucleus_of_hypothalamus] synonym: "nucleus paraventricularis hypothalami" RELATED [BTO:0002476] synonym: "paraventricular hypothalamic nucleus" EXACT [] synonym: "paraventricular nucleus" EXACT [] xref: ABA:PVH xref: BM:Die-Hy-PAH xref: BTO:0002476 xref: EFO:0002469 xref: EV:0100229 xref: FMA:62320 xref: GAID:643 xref: MA:0000848 xref: MESH:A08.186.211.730.385.357.342.400 xref: NIF_GrossAnatomy:birnlex_1407 xref: SCTID:369131006 xref: http://upload.wikimedia.org/wikipedia/commons/e/ef/PVNss.jpg xref: http://upload.wikimedia.org/wikipedia/en/thumb/e/ef/PVNss.jpg/200px-PVNss.jpg is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002271 ! periventricular zone of hypothalamus property_value: spatially_disjoint_from UBERON:0001929 property_value: spatially_disjoint_from UBERON:0001932 [Term] id: UBERON:0001931 name: lateral preoptic nucleus namespace: uberon def: "The lateral preoptic nucleus is lateral to the medial preoptic nucleus. It also mediates non-REM sleep onset.[WP,unvetted]." [Wikipedia:Preoptic_area#Lateral_preoptic_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral preoptic area" EXACT [] synonym: "lateral preoptic hypothalamic nucleus" EXACT [] xref: ABA:LPO xref: BM:Die-Hy-LPO xref: FMA:62326 xref: MA:0000835 xref: NIF_GrossAnatomy:birnlex_1722 xref: SCTID:369129002 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0006568 ! hypothalamic nucleus relationship: capable_of GO:0045188 ! regulation of circadian sleep/wake cycle, non-REM sleep relationship: part_of UBERON:0002273 ! lateral zone of hypothalamus property_value: spatially_disjoint_from UBERON:0001906 property_value: spatially_disjoint_from UBERON:0001907 property_value: spatially_disjoint_from UBERON:0001933 property_value: spatially_disjoint_from UBERON:0002430 [Term] id: UBERON:0001932 name: arcuate nucleus of hypothalamus namespace: uberon def: "The arcuate nucleus (or infundibular nucleus) is an aggregation of neurons in the mediobasal hypothalamus, adjacent to the third ventricle and the median eminence. The arcuate nucleus includes several important populations of neurons, including: Neuroendocrine neurons, Centrally-projecting neurons and Others. [WP,unvetted]." [Wikipedia:Arcuate_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arcuate hypothalamic nucleus" EXACT [] synonym: "arcuate nucleus" EXACT [] synonym: "arcuate nucleus-2" EXACT [] synonym: "arcuate periventricular nucleus" EXACT [] synonym: "infundibular hypothalamic nucleus" EXACT [] synonym: "infundibular nucleus" EXACT [] synonym: "infundibular periventricular nucleus" EXACT [] synonym: "nucleus arcuatus" EXACT LATIN [FMA:62329, FMA:TA] synonym: "nucleus arcuatus hypothalami" RELATED LATIN [BTO:0002473, Wikipedia:Arcuate_nucleus] synonym: "nucleus infundibularis" RELATED [BTO:0002473] synonym: "nucleus semilunaris" RELATED [BTO:0002473] xref: ABA:ARH xref: BM:HAr xref: BTO:0002473 xref: EV:0100230 xref: FMA:62329 xref: GAID:647 xref: MA:0000847 xref: MESH:A08.186.211.730.385.357.352.081 xref: NIF_GrossAnatomy:birnlex_1638 xref: UMLS:C0003741 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/HypothalamicNuclei.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG xref: ncithesaurus:Arcuate_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002271 ! periventricular zone of hypothalamus property_value: spatially_disjoint_from UBERON:0001929 property_value: spatially_disjoint_from UBERON:0001930 [Term] id: UBERON:0001933 name: retrochiasmatic area namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "retrochiasmatic region" EXACT [] xref: ABA:RCH xref: FMA:62330 xref: MA:0000841 xref: NIF_GrossAnatomy:birnlex_1569 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002272 ! medial zone of hypothalamus property_value: spatially_disjoint_from UBERON:0001906 property_value: spatially_disjoint_from UBERON:0001907 property_value: spatially_disjoint_from UBERON:0001931 property_value: spatially_disjoint_from UBERON:0002430 [Term] id: UBERON:0001934 name: dorsomedial nucleus of hypothalamus namespace: uberon def: "The Dorsomedial hypothalamic nucleus is a nucleus of the hypothalamus. It is involved in feeding, drinking, and body weight regulation. [WP,unvetted]." [Wikipedia:Dorsomedial_hypothalamic_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsomedial hypothalamic nucleus" EXACT [] synonym: "dorsomedial nucleus of dorsal hypothalamus" EXACT [] synonym: "dorsomedial nucleus of intermediate hypothalamus" EXACT [] synonym: "nucleus dorsomedialis hypothalamicae intermediae" RELATED LATIN [BTO:0002474, Wikipedia:Dorsomedial_hypothalamic_nucleus] xref: ABA:DMH xref: BM:Die-Hy-DMH xref: BTO:0002474 xref: EV:0100232 xref: FMA:62331 xref: GAID:648 xref: MA:0000838 xref: MESH:A08.186.211.730.385.357.352.270 xref: NIF_GrossAnatomy:birnlex_1558 xref: SCTID:369134003 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/HypothalamicNuclei.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002951 ! regional part of intermediate hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: capable_of GO:0060259 ! regulation of feeding behavior relationship: part_of UBERON:0002272 ! medial zone of hypothalamus relationship: part_of UBERON:0002555 ! intermediate hypothalamic region property_value: spatially_disjoint_from UBERON:0002034 property_value: spatially_disjoint_from UBERON:0002219 property_value: spatially_disjoint_from UBERON:0002625 property_value: spatially_disjoint_from UBERON:0002689 property_value: spatially_disjoint_from UBERON:0002690 property_value: spatially_disjoint_from UBERON:0007626 [Term] id: UBERON:0001935 name: ventromedial nucleus of hypothalamus namespace: uberon def: "The ventromedial nucleus (sometimes referred to as the ventromedial hypothalamus) is a nucleus of the hypothalamus. [WP,unvetted]." [Wikipedia:Ventromedial_hypothalamic_nucleus] comment: part of tuberal area in MA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus ventromedialis hypothalami" RELATED [BTO:0002472] synonym: "ventrolateral hypothalamic nucleus" RELATED [BTO:0002472] synonym: "ventrolateral nucleus of hypothalamus" RELATED [BTO:0002472] synonym: "ventromedial hypothalamic nucleus" EXACT [] synonym: "ventromedial nucleus of hypothalamus." RELATED [BTO:0002472] xref: ABA:VMH xref: BM:VMH xref: BTO:0002472 xref: EV:0100233 xref: FMA:62332 xref: GAID:650 xref: MA:0000845 xref: MESH:A08.186.211.730.385.357.352.953 xref: NIF_GrossAnatomy:birnlex_1572 xref: SCTID:369124007 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002951 ! regional part of intermediate hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002555 ! intermediate hypothalamic region property_value: spatially_disjoint_from UBERON:0002035 property_value: spatially_disjoint_from UBERON:0002206 property_value: spatially_disjoint_from UBERON:0002634 property_value: spatially_disjoint_from UBERON:0002706 [Term] id: UBERON:0001936 name: tuberomammillary nucleus namespace: uberon def: "The tuberomammillary nucleus is a subnucleus of the posterior third of the hypothalamus. It consists of, largely, histaminergic and is involved with the control of arousal, sleep and circadian rhythm. Axons of the tuberomammillary nucleus project primarily to the cerebral cortex, thalamus, basal ganglia, basal forebrain, and hypothalamus. The projections to the cerebral cortex directly increase cortical activation and arousal, and projections to acetylcholinergic neurons of the basal forebrain and dorsal pons do so indirectly, by increasing the release of acetylcholine in the cerebral cortex. [WP,unvetted]." [Wikipedia:Tuberomammillary_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "TM" EXACT [NIF_GrossAnatomy:birnlex_1271] synonym: "caudal magnocellular nucleus" EXACT [NIF_GrossAnatomy:birnlex_1271] synonym: "mammilloinfundibular nucleus" EXACT [FMA:62335] synonym: "mammiloinfundibular nucleus" EXACT [NIF_GrossAnatomy:birnlex_1271] synonym: "tuberomamillary nucleus" RELATED DUBIOUS [EV:0100237] synonym: "tuberomammillary hypothalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1271] synonym: "tuberomammillary nucleus" EXACT [NIF_GrossAnatomy:birnlex_1271] xref: ABA:TM xref: EV:0100237 xref: FMA:62335 xref: MA:0000853 xref: NIF_GrossAnatomy:birnlex_1271 xref: SCTID:369122006 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002785 ! regional part of lateral hypothalamic region is_a: UBERON:0002789 ! regional part of posterior hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002206 ! mammillary body relationship: part_of UBERON:0002430 ! lateral hypothalamic area property_value: spatially_disjoint_from UBERON:0001938 property_value: spatially_disjoint_from UBERON:0001939 property_value: spatially_disjoint_from UBERON:0001940 [Term] id: UBERON:0001937 name: lateral hypothalamic nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: EV:0100234 xref: FMA:62337 xref: NIF_GrossAnatomy:birnlex_1199 xref: SCTID:360452004 xref: TAO:0000227 xref: ZFA:0000227 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002785 ! regional part of lateral hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002430 ! lateral hypothalamic area [Term] id: UBERON:0001938 name: lateral mammillary nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "lateral mammillary hypothalamic nucleus" EXACT [] synonym: "lateral nucleus of mammillary body" EXACT [] synonym: "nucleus mammillaris lateralis" EXACT LATIN [FMA:62341, FMA:TA] xref: ABA:LM xref: EV:0100239 xref: FMA:62341 xref: MA:0000850 xref: NIF_GrossAnatomy:birnlex_1460 xref: SCTID:369143007 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002789 ! regional part of posterior hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002206 ! mammillary body property_value: spatially_disjoint_from UBERON:0001936 property_value: spatially_disjoint_from UBERON:0001939 property_value: spatially_disjoint_from UBERON:0001940 [Term] id: UBERON:0001939 name: medial mammillary nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "internal mammillary nucleus" EXACT [] synonym: "medial nucleus of mammillary body" EXACT [] synonym: "nucleus mammillaris medialis" EXACT LATIN [FMA:62342, FMA:TA] xref: ABA:MM xref: EV:0100238 xref: FMA:62342 xref: MA:0000851 xref: NIF_GrossAnatomy:birnlex_1299 xref: SCTID:369141009 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002789 ! regional part of posterior hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002206 ! mammillary body property_value: spatially_disjoint_from UBERON:0001936 property_value: spatially_disjoint_from UBERON:0001938 property_value: spatially_disjoint_from UBERON:0001940 [Term] id: UBERON:0001940 name: supramammillary nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies xref: ABA:SUM xref: FMA:62347 xref: MA:0000852 xref: NIF_GrossAnatomy:birnlex_1479 xref: SCTID:369144001 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002789 ! regional part of posterior hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002206 ! mammillary body property_value: spatially_disjoint_from UBERON:0001936 property_value: spatially_disjoint_from UBERON:0001938 property_value: spatially_disjoint_from UBERON:0001939 [Term] id: UBERON:0001941 name: lateral habenular nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "lateral habenula" EXACT [] synonym: "nucleus habenulae lateralis" EXACT [NIF_GrossAnatomy:birnlex_1438] synonym: "nucleus habenularis lateralis" EXACT [NIF_GrossAnatomy:birnlex_1438] synonym: "nucleus habenularis lateralis epithalami" EXACT [NIF_GrossAnatomy:birnlex_1438] xref: ABA:LH xref: BM:Die-Epi-Hl xref: BTO:0002699 xref: FMA:62372 xref: MA:0000831 xref: NIF_GrossAnatomy:birnlex_1438 xref: SCTID:361538005 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002757 ! regional part of epithalamus is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0001904 ! habenula property_value: spatially_disjoint_from UBERON:0001905 property_value: spatially_disjoint_from UBERON:0001942 [Term] id: UBERON:0001942 name: medial habenular nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "medial habenula" EXACT [] synonym: "nucleus habenulae medialis" EXACT [NIF_GrossAnatomy:birnlex_1431] synonym: "nucleus habenularis medialis" EXACT [NIF_GrossAnatomy:birnlex_1431] synonym: "nucleus habenularis medialis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1431] synonym: "nucleus habenularis medialis epithalami" EXACT [NIF_GrossAnatomy:birnlex_1431] xref: ABA:MH xref: BM:Die-Epi-HM xref: BTO:0003686 xref: FMA:62373 xref: MA:0000832 xref: NIF_GrossAnatomy:birnlex_1431 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002757 ! regional part of epithalamus is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0001904 ! habenula property_value: spatially_disjoint_from UBERON:0001905 property_value: spatially_disjoint_from UBERON:0001941 [Term] id: UBERON:0001943 name: midbrain tegmentum namespace: uberon def: "Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN10:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]." [FMA:FMA, ISBN10:0471888893, Wikipedia:Midbrain_tegmentum] comment: 'tegmentum' is used generically for the ventral part of the brainstem (ISBN10:0471888893). We use the label 'midbrain tegmentum' to denote the midbrain structure. In NIFSTD tegmentum is a composite structure and there is a separate class for midbrain tegmentum and pontine tegmentum subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mesencephalic tegmentum" RELATED [VHOG:0001367] synonym: "tegmentum" BROAD [ISBN10:0471888893] synonym: "tegmentum mesencephali" EXACT LATIN [Wikipedia:Midbrain_tegmentum] synonym: "tegmentum of midbrain" EXACT [] xref: BTO:0003388 xref: EFO:0000921 xref: EHDAA2:0004475 xref: EMAPA:18215 xref: FMA:62393 xref: MA:0000212 xref: MAT:0000452 xref: NIF_GrossAnatomy:birnlex_1200 xref: SCTID:362392007 xref: TAO:0000160 xref: VHOG:0001367 xref: ZFA:0000160 xref: http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b6/Gray712.png/200px-Gray712.png is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002950 ! regional part of midbrain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010285 ! midbrain basal plate relationship: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0002298 ! brainstem property_value: homology_notes "Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG]" xsd:string [Term] id: UBERON:0001944 name: pretectal region namespace: uberon def: "Region between dorsal thalamus and optic tectum[pub]. It receives binocular sensory input from retinal ganglion cells of the eyes, and is the region responsible for maintaining the pupillary light reflex. [WP,unvetted]." [ISBN10:0471888893, Wikipedia:Pretectum] comment: part of diencephalon in ZFA - modify to adjacent here, supported by pub subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "area pretectalis" EXACT LATIN [FMA:62402, FMA:TA] synonym: "nuclei pretectales" EXACT LATIN [FMA:62402, FMA:TA] synonym: "pretectal area" EXACT [] synonym: "pretectal nuclei" EXACT [] synonym: "pretectum" EXACT [] xref: ABA:PRT xref: BM:MB-Tec-PT xref: FMA:62402 xref: MA:0001062 xref: NIF_GrossAnatomy:birnlex_703 xref: SCTID:416333003 xref: TAO:0000418 xref: ZFA:0000418 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: adjacent_to UBERON:0004703 ! dorsal thalamus relationship: part_of UBERON:0002314 ! midbrain tectum property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0001945 name: superior colliculus namespace: uberon def: "Part of the midbrain tectum consisting of paired bodies that sit caudal to the thalamus and surround the pineal gland in the mesencephalon of vertebrate brains. It comprises the rostral aspect of the midbrain, posterior to the periaqueductal gray and adjacent superior the inferior colliculus. The inferior and superior colliculi are known collectively as the corpora quadrigemina (Latin, quadruplet bodies). It consists of several identified cellular layers and also comprises the brachium of the superior colliculus and commissure of superior colliculus [Wikipedia.org and Neuronames (MM)]." [NIF_GrossAnatomy:birnlex_1040, Wikipedia:Superior_colliculus] comment: The term SC is used when discussing mammals, and OT for other vertebrates[WP]. The tectum is a layered structure, with a number of layers that vary by species. The superficial layers are sensory-related, and receive input from the eyes as well as other sensory systems.[1] The optic tectum is one of the fundamental components of the vertebrate brain, existing across the full range of species from hagfish to human.[4] (See the brain article for background.) Some aspects of the structure are very consistent, including a structure composed of a number of layers, with a dense input from the optic nerve to the superficial layers and another strong input conveying somatosensory input to deeper layers. Other aspects are highly variable, such as the total number of layers (from 3 in the African lungfish to 15 in the goldfish[5]), and the number of different types of cells (from 2 in the lungfish to 27 in the house sparrow[5]). In hagfish, lamprey, and shark it is a relatively small structure, but in teleost fish it is greatly expanded, in some cases becoming the largest structure in the brain. (See the adjoining drawing of a codfish brain.) In amphibians, reptiles, and especially birds it is also a very significant component, but in mammals it is dwarfed by the massive expansion of the cerebral cortex. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior colliculus" EXACT [] synonym: "anterior corpus quadrigeminum" EXACT [] synonym: "corpora bigemina" RELATED [] synonym: "cranial colliculus" EXACT [] synonym: "dorsal midbrain" RELATED [] synonym: "optic lobe" RELATED [] synonym: "optic tectum" EXACT SENSU [Wikipedia:Superior_colliculus, ZFA:0000445] synonym: "tectal lobe" RELATED [] synonym: "tectum" RELATED [] synonym: "tectum opticum" RELATED [] xref: AAO:0010609 xref: BM:MB-Tec-SC xref: BTO:0000965 xref: EFO:0002474 xref: EV:0100245 xref: FMA:62403 xref: GAID:576 xref: MA:0001068 xref: MESH:A08.186.211.132.659.237.816 xref: NIF_GrossAnatomy:birnlex_1040 xref: TAO:0000445 xref: XAO:0003226 xref: ZFA:0000445 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Cn3nucleus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png is_a: UBERON:0002966 ! regional part of midbrain tectum is_a: UBERON:0006794 ! visual processing part of nervous system relationship: in_lateral_side_of UBERON:0002314 ! midbrain tectum relationship: part_of UBERON:0002259 ! corpora quadrigemina property_value: external_definition "The brain structure where the two separate inputs from the two eyes are combined into a single, integrated map.[AAO]" xsd:string property_value: external_definition "The roof of the midbrain, morphologically visible by the end of the segmentation period. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0001946 name: inferior colliculus namespace: uberon def: "The inferior colliculi together with the superior colliculi form the eminences of the corpora quadrigemina, and also part of the tectal region of the midbrain. The inferior colliculus lies caudal to its counterpart - the superior colliculus - above the trochlear nerve, and at the base of the projection of the medial geniculate nucleus (MGN) and the lateral geniculate nucleus (LGN). The inferior colliculus is the principal midbrain nucleus of the auditory pathway and receives input from several more peripheral brainstem nuclei in the auditory pathway, as well as inputs from the auditory cortex. The inferior colliculus has three subnuclei. [WP,unvetted]." [Wikipedia:Inferior_colliculus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caudal colliculus" EXACT [] synonym: "colliculus inferior" RELATED LATIN [Wikipedia:Inferior_colliculus] synonym: "inferior colliculi" EXACT PLURAL [EV:0100246] synonym: "posterior colliculus" EXACT [] synonym: "posterior corpus quadrigeminum" EXACT [] xref: ABA:IC xref: EFO:0002465 xref: EV:0100246 xref: FMA:62404 xref: GAID:575 xref: MA:0001067 xref: MESH:A08.186.211.132.659.237.364 xref: NIF_GrossAnatomy:birnlex_806 xref: http://upload.wikimedia.org/wikipedia/commons/2/26/Gray711.png is_a: UBERON:0002966 ! regional part of midbrain tectum relationship: in_lateral_side_of UBERON:0002314 ! midbrain tectum relationship: part_of UBERON:0002259 ! corpora quadrigemina [Term] id: UBERON:0001947 name: red nucleus namespace: uberon def: "The red nucleus is a structure in the rostral midbrain involved in motor coordination. It comprises a caudal magnocellular and a rostral parvocellular part. [WP,unvetted]." [Wikipedia:Red_nucleus] comment: Function notes: in animals without a significant corticospinal tract, gait is mainly controlled by the red nucleus. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus ruber" EXACT LATIN [TAO:0000552, Wikipedia:Red_nucleus] xref: ABA:RN xref: BM:MB-RN xref: EHDAA2:0004706 xref: EV:0100248 xref: FMA:62407 xref: GAID:586 xref: MA:0001063 xref: MESH:A08.186.211.132.659.822.642 xref: NIF_GrossAnatomy:birnlex_1478 xref: SCTID:279287006 xref: TAO:0000552 xref: ZFA:0000552 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Cn3nucleus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0001948 name: regional part of spinal cord namespace: uberon def: "A multi-tissue structure that is part of a spinal cord." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "spinal cord part" RELATED [] xref: NIF_GrossAnatomy:birnlex_1496 xref: SCTID:244437008 xref: UMLS:C1268166 xref: ncithesaurus:Spinal_Cord_Part is_a: UBERON:0000073 ! regional part of nervous system intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0001949 name: gingival epithelium namespace: uberon def: "A stratified squamous epithelium consisting of a basal layer; it is keratinized or parakeratinized[BTO]." [BTO:0004998] comment: In humans: 15% orthokeratinized, 75% parakeratinized, 10% non-keratinized; diurnal; decreased keratinization with age. Note that in FMA this is classified as keratinized squamous - this perhaps refers to the epithelium of the attached or free gingiva synonym: "epithelial tissue of gingiva" EXACT [OBOL:automatic] synonym: "epithelium of gingiva" EXACT [] synonym: "gingiva epithelial tissue" EXACT [OBOL:automatic] synonym: "gingiva epithelium" EXACT [OBOL:automatic] xref: BTO:0004998 xref: FMA:62423 xref: MA:0001576 xref: UMLS:C1179154 xref: ncithesaurus:Gingival_Epithelium is_a: UBERON:0002424 ! oral epithelium is_a: UBERON:0006915 ! stratified squamous epithelium relationship: part_of UBERON:0001828 ! gingiva intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001828 ! gingiva [Term] id: UBERON:0001950 name: neocortex namespace: uberon def: "The neocortex is a part of the brain of mammals. It is the outer layer of the cerebral hemispheres, and made up of six layers, labelled I to VI (with VI being the innermost and I being the outermost). The neocortex is part of the cerebral cortex (along with the archicortex and paleocortex, which are cortical parts of the limbic system). It is involved in higher functions such as sensory perception, generation of motor commands, spatial reasoning, conscious thought and, in humans, language. Other names for the neocortex include neopallium and isocortex ('equal rind'). [WP,unvetted]." [Wikipedia:Neocortex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebral neocortex" EXACT [] synonym: "homogenetic cortex" EXACT DEPRECATED [ISBN10:0471888893] synonym: "homotypical cortex" EXACT [NIF_GrossAnatomy:birnlex_2547] synonym: "isocortex" EXACT [] synonym: "isocortex (sensu lato)" EXACT [FMA:62429] synonym: "neopallial cortex" EXACT [] synonym: "neopallium" EXACT [] synonym: "nonolfactory cortex" RELATED [BTO:0000920] xref: ABA:Isocortex xref: BTO:0000920 xref: EHDAA2:0004662 xref: FMA:62429 xref: GAID:677 xref: MA:0002754 xref: MESH:A08.186.211.730.885.213.420 xref: NIF_GrossAnatomy:birnlex_2547 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Neocortex.jpg is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex property_value: spatially_disjoint_from UBERON:0002264 property_value: spatially_disjoint_from UBERON:0002421 [Term] id: UBERON:0001951 name: epithelium of nasopharynx namespace: uberon alt_id: UBERON:0003237 def: "An epithelium that is part of a nasopharynx [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "epithelial tissue of nasal part of pharynx" EXACT [OBOL:automatic] synonym: "epithelial tissue of nasopharynx" EXACT [OBOL:automatic] synonym: "epithelial tissue of rhinopharynx" EXACT [OBOL:automatic] synonym: "epithelium of nasal part of pharynx" EXACT [OBOL:automatic] synonym: "epithelium of rhinopharynx" EXACT [OBOL:automatic] synonym: "nasal part of pharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "nasal part of pharynx epithelium" EXACT [OBOL:automatic] synonym: "nasopharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "nasopharynx epithelium" EXACT [] synonym: "rhinopharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "rhinopharynx epithelium" EXACT [OBOL:automatic] xref: BTO:0004480 xref: EHDAA2:0001241 xref: EHDAA:7090 xref: EMAPA:17672 xref: FMA:62452 xref: MA:0001865 xref: UMLS:C1179157 xref: VHOG:0001038 xref: ncithesaurus:Nasopharynx_Epithelium is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0003351 ! pharyngeal epithelium is_a: UBERON:0004814 ! upper respiratory tract epithelium relationship: part_of UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001728 ! nasopharynx [Term] id: UBERON:0001952 name: epithelium of oropharynx namespace: uberon def: "An epithelium that is part of a oropharynx [Automatically generated definition]." [OBOL:automatic] comment: Histology/AO notes: Composition varies with species and time. This is classified as nonkeratinizing stratified squamous in FMA, unilaminar in EHDAA2; the majority of the pharyngeal epithelium is unilaminar in zebrafish synonym: "oropharyngeal epithelium" EXACT [] synonym: "oropharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "oropharynx epithelium" EXACT [MA:0001605] xref: EHDAA2:0004083 xref: FMA:62453 xref: MA:0001605 xref: UMLS:C1179158 xref: ncithesaurus:Oropharynx_Epithelium is_a: UBERON:0003351 ! pharyngeal epithelium is_a: UBERON:0004808 ! gastrointestinal system epithelium relationship: part_of UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001729 ! oropharynx [Term] id: UBERON:0001953 name: presubiculum namespace: uberon def: "a modified six-layered cortex between the subiculum and the main part of the parahippocampal gyrus." [http://medical-dictionary.thefreedictionary.com/presubiculum] comment: Consider merging with BA27 synonym: "area 27 of Brodmann" RELATED INCONSISTENT [FMA:62486] synonym: "presubiculum (Cajal)" EXACT [NIF_GrossAnatomy:birnlex_1108] xref: ABA:PRE xref: BM:Tel-Cx-PSB xref: FMA:62486 xref: MA:0000923 xref: NIF_GrossAnatomy:birnlex_1108 xref: http://upload.wikimedia.org/wikipedia/commons/5/5f/Brodmann_Cytoarchitectonics_27.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5f/Brodmann_Cytoarchitectonics_27.png/200px-Brodmann_Cytoarchitectonics_27.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002973 ! parahippocampal gyrus property_value: spatially_disjoint_from UBERON:0002191 property_value: spatially_disjoint_from UBERON:0002728 property_value: spatially_disjoint_from UBERON:0004683 [Term] id: UBERON:0001954 name: Ammon's horn namespace: uberon alt_id: UBERON:0003940 alt_id: UBERON:0004165 def: "A paired structure, with mirror-image halves in the left and right sides of the brain. The hippocampus is closely associated with the cerebral cortex, and in primates is located in the medial temporal lobe, underneath the cortical surface. It is shaped like a curved tube[WP]." [Wikipedia:Hippocampus] comment: WP: Non-mammalian species do not have a brain structure that looks like the mammalian hippocampus, but they have one that is considered homologous to it. The hippocampus, as pointed out above, is essentially the medial edge of the cortex. Only mammals have a fully developed cortex, but the structure it evolved from, called the pallium, is present in all vertebrates, even the most primitive ones such as the lamprey or hagfish.[82] The pallium is usually divided into three zones: medial, lateral, and dorsal. The medial pallium forms the precursor of the hippocampus. It does not resemble the hippocampus visually, because the layers are not warped into an S shape or enwrapped by the dentate gyrus, but the homology is indicated by strong chemical and functional affinities. There is now evidence that these hippocampal-like structures are involved in spatial cognition in birds, reptiles, and fish. In birds, the correspondence is sufficiently well established that most anatomists refer to the medial pallial zone as the \"avian hippocampus\". The story for fish is more complex. In teleost fish (which make up the great majority of existing species), the forebrain is distorted in comparison to other types of vertebrates: most neuroanatomists believe that the teleost forebrain is essentially everted, like a sock turned inside-out, so that structures that lie in the interior, next to the ventricles, for most vertebrates, are found on the outside in teleost fish, and vice versa.[86] One of the consequences of this is that the medial pallium (\"hippocampal\" zone) of a typical vertebrate is thought to correspond to the lateral pallium of a typical fish. Several types of fish (particularly goldfish) have been shown experimentally to have strong spatial memory abilities, even forming \"cognitive maps\" of the areas they inhabit.[80] There is evidence that damage to the lateral pallium impairs spatial memory. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Ammon's horn" EXACT [GO:0021541] synonym: "ammon gyrus" EXACT [GO:0021541] synonym: "ammon horn" EXACT [NIF_GrossAnatomy:birnlex_721] synonym: "cornu ammonis" RELATED [GO:0021541] synonym: "hippocampus" RELATED [MA:0000191] synonym: "hippocampus major" EXACT [] synonym: "hippocampus proper" EXACT [] synonym: "hippocampus proprius" EXACT LATIN [FMA:62493, FMA:TA] xref: ABA:CA xref: BM:Tel-CAM xref: BTO:0003705 xref: EFO:0000530 xref: EHDAA2:0004443 xref: EMAPA:19039 xref: EMAPA:19148 xref: EV:0100180 xref: FMA:62493 xref: GAID:623 xref: MA:0000191 xref: MAT:0000114 xref: MESH:A08.186.211.577.405 xref: MIAA:0000114 xref: NIF_GrossAnatomy:birnlex_721 xref: OpenCyc:Mx4rv3piFJwpEbGdrcN5Y29ycA xref: SCTID:361561007 xref: UMLS:C0019564 xref: VHOG:0001177 xref: http://scalablebrainatlas.incf.org/services/thumbnail.php?template=ABA07&size=L&dim=2d3d&format=png&region=CA xref: http://upload.wikimedia.org/wikipedia/commons/2/2e/Gray739-emphasizing-hippocampus.png xref: ncithesaurus:Cornu_Ammonis xref: ncithesaurus:Hippocampus is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0002421 ! hippocampal formation relationship: part_of UBERON:0002600 ! limbic lobe property_value: spatially_disjoint_from UBERON:0001885 property_value: spatially_disjoint_from UBERON:0002601 property_value: has_relational_adjective "hippocampal" xsd:string [Term] id: UBERON:0001955 name: epithelium of respiratory bronchiole namespace: uberon def: "An epithelium that is part of a respiratory bronchiole [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchiolus respiratorius epithelial tissue" EXACT [OBOL:automatic] synonym: "bronchiolus respiratorius epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of bronchiolus respiratorius" EXACT [OBOL:automatic] synonym: "epithelial tissue of respiratory bronchiole" EXACT [OBOL:automatic] synonym: "epithelium of bronchiolus respiratorius" EXACT [OBOL:automatic] synonym: "respiratory bronchiole epithelial tissue" EXACT [OBOL:automatic] synonym: "respiratory bronchiole epithelium" EXACT [] xref: FMA:62498 xref: MA:0001773 xref: UMLS:C1179179 xref: ncithesaurus:Respiratory_Bronchiole_Epithelium is_a: UBERON:0002051 ! epithelium of bronchiole relationship: has_part CL:0000158 ! Clara cell relationship: part_of UBERON:0002188 ! respiratory bronchiole intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002188 ! respiratory bronchiole [Term] id: UBERON:0001956 name: cartilage of bronchus namespace: uberon def: "the hyaline cartilaginous structures that support the bronchi, present as irregular rings in the larger bronchi (and not as regular as in the trachea), and as small plates and islands in the smaller bronchi; as the branching continues through the bronchial tree, the amount of hyaline cartilage in the walls decreases until it is absent in the smallest bronchioles[MP]." [MP:0010988] synonym: "bronchi cartilage" EXACT [OBOL:automatic] synonym: "bronchial cartilage" EXACT [] synonym: "bronchial cartilage ring" EXACT [MP:0010988] synonym: "bronchial trunk cartilage" EXACT [OBOL:automatic] synonym: "bronchus cartilage" EXACT [] synonym: "cartilage of bronchi" EXACT [OBOL:automatic] synonym: "cartilage of bronchial trunk" EXACT [OBOL:automatic] synonym: "cartilagines bronchiales" EXACT PLURAL [] xref: FMA:62649 xref: MA:0001835 xref: SCTID:278980009 xref: UMLS:C0225604 xref: ncithesaurus:Bronchus_Cartilage is_a: UBERON:0001994 ! hyaline cartilage tissue is_a: UBERON:0003592 ! bronchus connective tissue is_a: UBERON:0003603 ! lower respiratory tract cartilage intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0001957 name: submucosa of bronchus namespace: uberon def: "A submucosa that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchi submucosa" EXACT [OBOL:automatic] synonym: "bronchial submucosa" EXACT [] synonym: "bronchial trunk submucosa" EXACT [OBOL:automatic] synonym: "bronchus submucosa" EXACT [] synonym: "submucosa of bronchi" EXACT [OBOL:automatic] synonym: "submucosa of bronchial trunk" EXACT [OBOL:automatic] xref: BTO:0002108 xref: FMA:62653 xref: MA:0001837 xref: SCTID:85546005 xref: UMLS:C0225601 xref: ncithesaurus:Bronchus_Submucosa is_a: UBERON:0000009 ! submucosa is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004777 ! respiratory system submucosa relationship: part_of UBERON:0002185 ! bronchus intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0001958 name: epithelium of terminal bronchiole namespace: uberon def: "An epithelium that is part of a terminal bronchiole [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchiolus terminalis epithelial tissue" EXACT [OBOL:automatic] synonym: "bronchiolus terminalis epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of bronchiolus terminalis" EXACT [OBOL:automatic] synonym: "epithelial tissue of terminal bronchiole" EXACT [OBOL:automatic] synonym: "epithelium of bronchiolus terminalis" EXACT [OBOL:automatic] synonym: "terminal bronchiole epithelial tissue" EXACT [OBOL:automatic] synonym: "terminal bronchiole epithelium" EXACT [] xref: FMA:62794 xref: MA:0001774 xref: UMLS:C1179400 xref: ncithesaurus:Terminal_Bronchiole_Epithelium is_a: UBERON:0002051 ! epithelium of bronchiole relationship: has_part CL:0000158 ! Clara cell relationship: part_of UBERON:0002187 ! terminal bronchiole intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002187 ! terminal bronchiole [Term] id: UBERON:0001959 name: white pulp of spleen namespace: uberon def: "The white pulp contains T cells, B cells and accessory cells. The function of the white pulp is to mount an immunological response to antigens within the blood. The white pulp is present in the form of a periarteriolar lymphoid sheath. This sheath contains B cell follicles and T cells. At the edge of the T zone is a region known as the marginal zone where larger lymphocytes and antigen presenting dendritic cells are located." [Wikipedia:White_pulp] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "noduli lymphoidei splenici" RELATED LATIN [Wikipedia:White_pulp] synonym: "pulpa alba" EXACT LATIN [FMA:62805, FMA:TA] synonym: "spleen white pulp" EXACT [] synonym: "splenic white pulp" EXACT [] synonym: "white pulp" EXACT [] xref: FMA:62805 xref: MA:0000762 xref: UMLS:C0229686 xref: http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1191.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/15/Gray1191.png/200px-Gray1191.png xref: ncithesaurus:Splenic_White_Pulp is_a: UBERON:1000023 ! spleen pulp relationship: composed_primarily_of CL:0000542 ! lymphocyte [Term] id: UBERON:0001960 name: periarterial lymphatic sheath namespace: uberon def: "the area of the spleen in which T cells surround the central arteriole" [MP:0002358] comment: AO notes: FMA distinguishes periarterial (PALS) from periarteriolar (FMA:62806) synonym: "PALS" EXACT [MP:0002358] synonym: "T cell domain of the splenic white pulp" EXACT [MP:0002358] synonym: "periarterial lymphoid sheath" EXACT [] synonym: "periarteriolar sheath" EXACT [MP:0002358] synonym: "spleen periarteriolar lymphatic sheath" EXACT [] synonym: "splenic periarteriolar lymphoid sheath" RELATED [MP:0002358] xref: FMA:62810 xref: MA:0000765 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0010393 ! T cell domain intersection_of: part_of UBERON:0001959 ! white pulp of spleen [Term] id: UBERON:0001961 name: mucosa-associated lymphoid tissue namespace: uberon def: "diffuse system of small concentrations of lymphoid tissue found in various sites of the body such as the gastrointestinal tract, thyroid, breast, lung, salivary glands, eye, and skin[WP]. Mucosal-associated lymphoid tissue is typically found as nodules associated with mucosal epithelia with distinct internal structures including B- and T-zones for the activation of lymphocytes[GO]." [Wikipedia:Mucosa-associated_lymphoid_tissue] comment: Editor notes: todo - add part relationships to specific layers subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "MALT" EXACT [] synonym: "epithelio-lymphoid tissue" EXACT [FMA:62819] synonym: "mucosa associated lymphatic tissue" EXACT [] synonym: "mucosa associated lymphoid tissue" EXACT [] synonym: "mucosa-associated lymphoid tissue" EXACT [GO:0048537] synonym: "mucosal-associated lymphatic tissue" EXACT [GO:0048537] synonym: "mucosal-associated lymphoid tissue" EXACT [GO:0048537] xref: FMA:62819 xref: MA:0000140 xref: UMLS:C0599921 xref: ncithesaurus:Mucosa-Associated_Lymphoid_Tissue is_a: UBERON:0012069 ! epithelium-associated lymphoid tissue relationship: overlaps UBERON:0000344 ! mucosa relationship: site_of GO:0046649 ! lymphocyte activation [Term] id: UBERON:0001962 name: gut-associated lymphoid tissue namespace: uberon def: "Mucosa-associated lymphoid tissue in digestive tract. includes Peyer's patches, appendix, and solitary lymph nodules[GO]." [Wikipedia:Gut-associated_lymphoid_tissue] comment: Editor notes: phylogenetic relationships to be added. Taxon notes: guts of jawless fish contains cells with lymphocyte-like morphology (Mayer 2002). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "GALT" RELATED [] synonym: "gut associated lymphoid tissue" EXACT [] xref: FMA:62820 xref: MA:0000136 xref: UMLS:C0596638 xref: ncithesaurus:Gut_Associated_Lymphoid_Tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0001961 ! mucosa-associated lymphoid tissue intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0001963 name: bronchial-associated lymphoid tissue namespace: uberon def: "A diffuse collection of lymphpoid cells that participate in airway immune responses" [ISBN10:0123813611] comment: Lymphoid tissue associated with airways in mice has functional similarities to human BALT[ISBN10:0123813611] Notes: FMA classifies this as organized, not diffuse synonym: "BALT" RELATED [] synonym: "bronchus associated lymphoid tissue" EXACT [] xref: FMA:62821 xref: MA:0000135 xref: UMLS:C1179418 xref: ncithesaurus:Bronchus-Associated_Lymphoid_Tissue is_a: UBERON:0004119 ! endoderm-derived structure relationship: overlaps UBERON:0001957 ! submucosa of bronchus intersection_of: UBERON:0001961 ! mucosa-associated lymphoid tissue intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0001964 name: least splanchnic nerve namespace: uberon def: "Thoracic nerve that nerve travels into the abdomen, where its fibers synapse in the renal ganglia." [Wikipedia:Thoracic_splanchnic_nerves#cite_note-4] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "least thoracic splanchnic nerve" EXACT [FMA:6283] synonym: "lowest splanchnic nerve" EXACT [FMA:6283] synonym: "nervus splanchnicus imus" EXACT LATIN [FMA:6283, FMA:TA] synonym: "ramus renalis nervus splanchnici minoris" EXACT LATIN [FMA:6283, FMA:TA] synonym: "renal branch of lesser splanchnic nerve" EXACT [FMA:6283] synonym: "renal nerve" EXACT [FMA:6283] synonym: "thoracic splanchnic nerve" RELATED [] xref: EMAPA:29691 xref: FMA:6283 xref: MA:0002635 xref: SCTID:280506004 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray838.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Gray838.png/200px-Gray838.png is_a: UBERON:0003429 ! abdomen nerve is_a: UBERON:0003715 ! splanchnic nerve is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0001965 name: substantia nigra pars compacta namespace: uberon def: "Regional part of substantia nigra consisting of a densely packed region of cells, more or less dorsal to the pars reticulata, but extending into the pars reticulata in some species. The dominant neurotransmitter used by pars compacta neurons is dopamine. Pars compacta neurons are pigmented in many species (MM)[NIF]." [NIF_GrossAnatomy:birnlex_990, Wikipedia:Substantia_nigra_pars_compacta] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "SNpc" EXACT [] synonym: "compact part of substantia nigra" EXACT [] synonym: "pars compacta" EXACT [] synonym: "pars compacta substantiae nigrae" EXACT LATIN [FMA:62907, FMA:TA] synonym: "substantia nigra compact part" EXACT [NIF_GrossAnatomy:birnlex_990] synonym: "substantia nigra compacta" EXACT [NIF_GrossAnatomy:birnlex_990] synonym: "substantia nigra, compact part" EXACT [] xref: ABA:SNc xref: BM:MB-SNc xref: BTO:0003749 xref: FMA:62907 xref: MA:0001064 xref: NIF_GrossAnatomy:birnlex_990 xref: UMLS:C0175412 xref: ncithesaurus:Pars_Compacta is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002038 ! substantia nigra property_value: spatially_disjoint_from UBERON:0002142 property_value: spatially_disjoint_from UBERON:0007412 [Term] id: UBERON:0001966 name: substantia nigra pars reticulata namespace: uberon def: "Regional part of substantia nigra consisting of loosely packed cells, generally located ventral and lateral to the pars compacta. Many cells in this region use GABA as a neurotransmitter (MM)[NLex]." [Neurolex:Substantia_nigra_pars_reticulata, Wikipedia:Pars_reticulata] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars reticularis substantiae nigrae" EXACT LATIN [FMA:62908, FMA:TA] synonym: "pars reticulata" EXACT [] synonym: "reticular part of substantia nigra" EXACT [] synonym: "substantia nigra, reticular part" EXACT [] xref: ABA:SNr xref: BM:MB-SNr xref: BTO:0003750 xref: FMA:62908 xref: MA:0001066 xref: NIF_GrossAnatomy:birnlex_968 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002038 ! substantia nigra property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0001967 name: reticular lamina namespace: uberon def: "a thin extracellular layer that sometimes lies below the basal lamina, is composed chiefly of collagenous fibers, and serves to anchor the basal lamina to underlying connective tissue." [Wikipedia:Reticular_lamina, http://mw1.merriam-webster.com/medical/reticular%20lamina] comment: todo - use GO? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fibroreticular lamina" EXACT [] synonym: "lamina fibroreticularis" EXACT [] synonym: "reticular membrane" RELATED [] xref: FMA:62924 is_a: UBERON:0005764 ! acellular membrane relationship: part_of UBERON:0005769 ! basement membrane [Term] id: UBERON:0001968 name: semen namespace: uberon def: "Body substance which consists of spermatozoa and seminal plasma.[FMA]" [FMA:FMA, Wikipedia:Semen] comment: Taxon notes: Note that in this ontology, semen is defined as the sum of sperm and seminal fluid, where seminal fluid is defined a taxonomically generic way (see comments for UBERON:0006530). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001230 xref: FMA:62966 xref: GAID:1169 xref: MA:0002522 xref: MESH:A12.200.732 xref: OpenCyc:Mx4rvgC-zpwpEbGdrcN5Y29ycA xref: UMLS:C1518159 xref: UMLS:C2756969 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/40/Human_semen_in_petri_dish2.jpg/180px-Human_semen_in_petri_dish2.jpg xref: ncithesaurus:Male_Genital_System_Fluid_or_Secretion xref: ncithesaurus:Semen is_a: UBERON:0000463 ! portion of organism substance relationship: has_part CL:0000019 ! sperm relationship: has_part UBERON:0006530 ! seminal fluid relationship: output_of GO:0042713 ! sperm ejaculation property_value: has_relational_adjective "seminal" xsd:string [Term] id: UBERON:0001969 name: blood plasma namespace: uberon def: "Body substance in liquid state contained in the lumen of arterial and venous trees, blood capillary and the cardiac chambers; constitutes the liquid phase of blood.[FMA]" [FMA:FMA, Wikipedia:Blood_plasma] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "plasma" EXACT [] synonym: "portion of blood plasma" EXACT [] synonym: "portion of plasma" EXACT [] xref: BTO:0000131 xref: EFO:0001905 xref: FMA:62970 xref: GAID:1178 xref: MA:0002501 xref: MAT:0000052 xref: MESH:A12.207.152.693 xref: MIAA:0000052 xref: OpenCyc:Mx4rEg4ZYrIbEduAAAAOpmP6tw xref: UMLS:C0032105 xref: ncithesaurus:Plasma is_a: UBERON:0000179 ! haemolymphatic fluid is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0000178 ! blood [Term] id: UBERON:0001970 name: bile namespace: uberon def: "a bitter-tasting, dark green to yellowish brown fluid, produced by the liver of most vertebrates, that aids the process of digestion of lipids in the small intestine. In many species, bile is stored in the gallbladder and upon eating is discharged into the duodenum. Bile is a composition of the following materials: water (85%), bile salts (10%), mucus and pigments (3%), fats (1%), inorganic salts (0.7%) and cholesterol (0.3%)[WP]." [Wikipedia:Bile] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fel" RELATED [BTO:0000121] synonym: "gall" RELATED [BTO:0000121] xref: BTO:0000121 xref: ENVO:02000023 xref: FMA:62971 xref: GAID:1157 xref: MA:0002513 xref: MESH:A12.200.087 xref: UMLS:C0005388 xref: galen:Bile xref: ncithesaurus:Bile is_a: UBERON:0000456 ! bodily secretion is_a: UBERON:0000463 ! portion of organism substance [Term] id: UBERON:0001971 name: gastric juice namespace: uberon def: "." [Wikipedia:Gastric_juice] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "stomach secretion" EXACT [] synonym: "succus gastricus" RELATED [BTO:0000501] xref: BTO:0000501 xref: FMA:62972 xref: GAID:1160 xref: MA:0002519 xref: MESH:A12.200.307 xref: UMLS:C0017133 xref: galen:GastricJuice xref: ncithesaurus:Gastric_Secretion is_a: UBERON:0000456 ! bodily secretion [Term] id: UBERON:0001972 name: submucosa of esophagus namespace: uberon def: "A submucosa that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal submucosa" EXACT [] synonym: "esophagus submucosa" EXACT [] synonym: "gullet submucosa" EXACT [OBOL:automatic] synonym: "oesophagus submucosa" EXACT [OBOL:automatic] synonym: "submucosa of esophagus" EXACT [] synonym: "submucosa of gullet" EXACT [OBOL:automatic] synonym: "submucosa of oesophagus" EXACT [OBOL:automatic] synonym: "tela submucosa esophagi" EXACT LATIN [BTO:0002109] synonym: "tela submucosa oesophageae" EXACT LATIN [FMA:62997, FMA:TA] synonym: "tela submucosa of esophagus" EXACT [] xref: BTO:0002109 xref: FMA:62997 xref: MA:0002724 xref: SCTID:362128009 is_a: UBERON:0000009 ! submucosa is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001096 ! wall of esophagus intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0001973 name: substance of tooth namespace: uberon def: "Body substance in solid state produced by odontoblasts, amyloblasts or cementoblasts.[FMA]" [FMA:63001] comment: note the asserted dual parentage. This is deliberate, pending better definitions of the distinction between substance and tissue subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "portion of substance of tooth" EXACT [FMA:63001] synonym: "tooth substance" EXACT [] xref: FMA:63001 xref: MA:0002540 is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0001091 ! calcareous tooth [Term] id: UBERON:0001974 name: lamina propria of esophagus namespace: uberon def: "A lamina propria that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "esophagus lamina propria" EXACT [] synonym: "esophagus lamina propria mucosa" EXACT [OBOL:automatic] synonym: "esophagus lamina propria mucosae" EXACT [OBOL:automatic] synonym: "gullet lamina propria" EXACT [OBOL:automatic] synonym: "gullet lamina propria mucosa" EXACT [OBOL:automatic] synonym: "gullet lamina propria mucosae" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of esophagus" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of gullet" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of oesophagus" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of esophagus" EXACT [] synonym: "lamina propria mucosae of gullet" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of oesophagus" EXACT [OBOL:automatic] synonym: "lamina propria of gullet" EXACT [OBOL:automatic] synonym: "lamina propria of oesophagus" EXACT [OBOL:automatic] synonym: "oesophagus lamina propria" RELATED [] synonym: "oesophagus lamina propria mucosa" EXACT [OBOL:automatic] synonym: "oesophagus lamina propria mucosae" EXACT [OBOL:automatic] xref: EMAPA:26987 xref: EMAPA:27003 xref: FMA:63050 xref: MA:0001568 xref: UMLS:C1707949 xref: ncithesaurus:Esophageal_Lamina_Propria is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002469 ! esophagus mucosa intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0001975 name: serosa of esophagus namespace: uberon def: "A serous membrane that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "esophagus serosa" EXACT [] synonym: "esophagus serous membrane" EXACT [OBOL:automatic] synonym: "gullet serosa" EXACT [OBOL:automatic] synonym: "gullet serous membrane" EXACT [OBOL:automatic] synonym: "oesophagus serosa" RELATED [] synonym: "oesophagus serous membrane" EXACT [OBOL:automatic] synonym: "serosa of abdominal part of esophagus" EXACT [] synonym: "serosa of gullet" EXACT [OBOL:automatic] synonym: "serosa of oesophagus" EXACT [] synonym: "serous coat of oesophagus" EXACT [] synonym: "serous membrane of esophagus" EXACT [OBOL:automatic] synonym: "serous membrane of gullet" EXACT [OBOL:automatic] synonym: "serous membrane of oesophagus" EXACT [OBOL:automatic] synonym: "tunica serosa oesophageae" EXACT LATIN [FMA:63057, FMA:TA] xref: FMA:63057 xref: MA:0001571 is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0001096 ! wall of esophagus intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0001976 name: epithelium of esophagus namespace: uberon def: "An epithelium that is part of a esophagus." [OBOL:automatic] comment: todo check epithelium types: in FMA: Nonkeratinizing stratified squamous epithelium; mouse has basal and squamous subtypes; in ZFA it is columnar subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial tissue of esophagus" EXACT [OBOL:automatic] synonym: "epithelial tissue of gullet" EXACT [OBOL:automatic] synonym: "epithelial tissue of oesophagus" EXACT [OBOL:automatic] synonym: "epithelium of gullet" EXACT [OBOL:automatic] synonym: "epithelium of oesophagus" EXACT [OBOL:automatic] synonym: "esophageal epithelium" EXACT [] synonym: "esophagus epithelial tissue" EXACT [OBOL:automatic] synonym: "esophagus epithelium" EXACT [] synonym: "gullet epithelial tissue" EXACT [OBOL:automatic] synonym: "gullet epithelium" EXACT [OBOL:automatic] synonym: "oesophagus epithelial tissue" EXACT [OBOL:automatic] synonym: "oesophagus epithelium" RELATED [] xref: BTO:0001578 xref: EFO:0003041 xref: EHDAA2:0001287 xref: EMAPA:16835 xref: FMA:63063 xref: MA:0001565 xref: TAO:0001499 xref: UMLS:C1179544 xref: ZFA:0001499 xref: ncithesaurus:Esophageal_Epithelium is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! gut epithelium relationship: part_of UBERON:0002469 ! esophagus mucosa intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001043 ! esophagus property_value: external_definition "Simple columnar epithelium that lines the esophagus. Chen et al, 2007.[TAO]" xsd:string [Term] id: UBERON:0001977 name: serum namespace: uberon def: "Body substance derived from plasma by the elimination of fibrinogen.[FMA]" [FMA:FMA, Wikipedia:Serum] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "blood serum" EXACT [] xref: BTO:0000133 xref: BTO:0001239 xref: EHDAA2:0004728 xref: FMA:63083 xref: MA:0002502 xref: UMLS:C0229671 xref: ncithesaurus:Serum is_a: UBERON:0000179 ! haemolymphatic fluid is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0001969 ! blood plasma [Term] id: UBERON:0001978 name: parenchyma of pancreas namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "pancreas parenchyma" EXACT [] synonym: "pancreatic parenchyma" EXACT [] xref: FMA:63120 xref: MA:0000724 xref: SCTID:371401008 xref: VHOG:0001430 is_a: UBERON:0000353 ! parenchyma relationship: part_of UBERON:0001264 ! pancreas [Term] id: UBERON:0001979 name: venule namespace: uberon def: "Subdivision of venous tree (organ) which is directly continuous with the capillary vessel." [Wikipedia:Venule] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "venula" RELATED LATIN [Wikipedia:Venule] xref: BTO:0002626 xref: FMA:63130 xref: MA:0000071 xref: MESH:A07.231.432.952 xref: SCTID:341687009 xref: TAO:0005315 xref: UMLS:C0042520 xref: VHOG:0001765 xref: ZFA:0005315 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Illu_capillary.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Illu_capillary.jpg/200px-Illu_capillary.jpg xref: ncithesaurus:Venule is_a: UBERON:0003920 ! venous blood vessel relationship: part_of UBERON:0001009 ! circulatory system property_value: external_definition "Multi-tissue structure part of the blood vasculature formed by the anastomosis of capillaries. Venules carry blood toward the heart.[TAO]" xsd:string [Term] id: UBERON:0001980 name: arteriole namespace: uberon def: "the smallest division of the artery located between the muscular arteries and the capillaries[GO]. Subdivision of arterial tree (organ) which is directly continuous with capillary vessel[FMA]." [FMA:63182, GO:0014830, Wikipedia:Arteriole] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arteriola" RELATED LATIN [Wikipedia:Arteriole] xref: AAO:0010253 xref: BTO:0001997 xref: FMA:63182 xref: MA:0000063 xref: MESH:A07.231.114.060 xref: SCTID:337724002 xref: TAO:0002138 xref: UMLS:C0003847 xref: VHOG:0001763 xref: ZFA:0005255 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Illu_capillary.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Illu_capillary.jpg/200px-Illu_capillary.jpg xref: ncithesaurus:Arteriole is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0003509 ! arterial blood vessel relationship: part_of UBERON:0001637 ! artery property_value: external_definition "Multi-tissue structure part of the blood vasculature, feeds into capillaries. Arterioles carry blood away from the heart.[TAO]" xsd:string property_value: external_definition "Small, terminal branch of an artery which generally connects to capillaries.[AAO]" xsd:string [Term] id: UBERON:0001981 name: blood vessel namespace: uberon def: "A vessel through which blood circulates in the body." [BTO:0001102, Wikipedia:Blood_vessel] comment: note that FMA:63183 Blood vessel is categorized as 'general anatomical term'. Suggestion to map to region of vascular tree from Terry H at JAX. Taxon notes: annelids have blood vessels, but this class is not applicable to annelids. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "region of vascular tree organ" EXACT [FMA:50722] synonym: "vas sanguineum" RELATED LATIN [Wikipedia:Blood_vessel] synonym: "vascular tree organ region" EXACT [FMA:50722] xref: AAO:0011004 xref: AEO:0000207 xref: BTO:0001102 xref: EFO:0000817 xref: EHDAA2:0003252 xref: EHDAA:240 xref: FMA:50722 xref: FMA:63183 xref: GAID:169 xref: MA:0000060 xref: MAT:0000393 xref: MESH:A07.231 xref: NIF_GrossAnatomy:nlx_anat_090901 xref: OpenCyc:Mx4rvVjxlpwpEbGdrcN5Y29ycA xref: SCTID:361097006 xref: TAO:0002137 xref: UMLS:C0005847 xref: VHOG:0001250 xref: XAO:0001011 xref: ZFA:0005314 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Circulatory_System_en.svg/200px-Circulatory_System_en.svg.png xref: ncithesaurus:Blood_Vessel is_a: UBERON:0000055 ! vessel is_a: UBERON:0006914 ! squamous epithelium is_a: UBERON:0007500 ! epithelial tube open at both ends is_a: UBERON:0012275 ! meso-epithelium relationship: channel_for UBERON:0000178 ! blood relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0006965 ! vascular cord relationship: has_function_in GO:0008015 ! blood circulation relationship: has_part CL:0000071 ! blood vessel endothelial cell relationship: part_of UBERON:0004537 ! blood vasculature property_value: external_definition "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" xsd:string property_value: external_definition "Any of the vessels through which blood circulates in the body.[AAO]" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string [Term] id: UBERON:0001982 name: capillary namespace: uberon def: "Any of the smallest blood vessels connecting arterioles with venules." [ISBN10:0073040584, Wikipedia:Capillary] comment: Structure notes: capillaries lack tunica media and tunica adventitia; only the endothelial wall of the tunica intima belongs subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "blood capillary" EXACT [] synonym: "capillary vessel" EXACT [] xref: AAO:0010252 xref: BTO:0002045 xref: EFO:0001906 xref: EMAPA:28039 xref: EMAPA:28075 xref: EV:0100035 xref: FMA:63194 xref: MA:0000065 xref: MESH:A07.231.432.410 xref: NIF_GrossAnatomy:nlx_anat_090902 xref: OpenCyc:Mx4rvWEU-5wpEbGdrcN5Y29ycA xref: TAO:0005250 xref: UMLS:C0935624 xref: VHOG:0001253 xref: XAO:0000116 xref: ZFA:0005250 xref: http://upload.wikimedia.org/wikipedia/commons/2/2f/A_red_blood_cell_in_a_capillary,_pancreatic_tissue_-_TEM.jpg xref: ncithesaurus:Capillary is_a: UBERON:0010523 ! microcirculatory vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: connects UBERON:0001979 ! venule intersection_of: connects UBERON:0001980 ! arteriole property_value: external_definition "Any of the tiny blood vessels connecting the arterioles to the venules.[AAO]" xsd:string property_value: homology_notes "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string [Term] id: UBERON:0001983 name: crypt of Lieberkuhn namespace: uberon def: "A gland found in the epithelial lining of the intestine and colon." [Wikipedia:Intestinal_crypt] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "Lieberkuhn crypt" EXACT [] synonym: "crypt of LieberkCHu et al. 2001." [Wikipedia:Heart_valve#Atrioventricular_valves, ZFIN:curator] comment: AO notes: in ZFA this is part of both atrium and ventricle, but we use a connecting relationship here; see also notes for left and right. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "AV valve" EXACT [] xref: EHDAA2:0000153 xref: EHDAA:7421 xref: FMA:7233 xref: MA:0002789 xref: OpenCyc:Mx4rfCfdorrpEduAAAACs6hRXg xref: SCTID:11124005 xref: TAO:0005064 xref: VHOG:0001472 xref: ZFA:0005064 xref: galen:AtrioventricularValve is_a: UBERON:0000946 ! cardial valve relationship: attaches_to UBERON:0004292 ! cardiac skeleton relationship: connects UBERON:0002081 ! cardiac atrium relationship: connects UBERON:0002082 ! cardiac ventricle relationship: develops_from UBERON:0002062 ! endocardial cushion relationship: part_of UBERON:0011820 ! atrioventricular region property_value: external_definition "The atrioventricular valve has four distinct leaflets oriented anterior, posterior, left, and right of the atrioventricular orifice. Hu et al. 2001.[TAO]" xsd:string property_value: external_definition "Valve in the heart through which blood flows from the atria to the ventricles. [TFD][VHOG]" xsd:string property_value: homology_notes "The conus arteriosus is the most distal part of the primitive fish heart and forms the connection between the ventricle and the ventral aorta. At the sinoatrial, the atrioventricular, and the ventriculoconal junctions, valves developed to prevent backflow of blood during relaxation of the preceding compartment.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002134 name: tricuspid valve namespace: uberon def: "Atrioventricular valve which has as its parts the anterior, posterior and septal leaflets, attached to the fibrous ring of tricuspid valve.[FMA]" [FMA:FMA, Wikipedia:Tricuspid_valve] comment: AO notes: FMA part_ofs changed to connects subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "right atrioventricular valve" EXACT [FMA:7234] synonym: "valva atrioventricularis dextra" EXACT LATIN [FMA:7234, FMA:TA] synonym: "valvula tricuspidalis" RELATED LATIN [Wikipedia:Tricuspid_valve] xref: EHDAA2:0004029 xref: EHDAA:7427 xref: EMAPA:17873 xref: FMA:7234 xref: GAID:567 xref: MA:0000090 xref: MESH:A07.541.510.893 xref: OpenCyc:Mx4rvuWAAJwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0002081 xref: SCTID:181288007 xref: UMLS:C0040960 xref: VHOG:0000816 xref: galen:TricuspidValve xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/20/Diagram_of_the_human_heart_%28cropped%29.svg/200px-Diagram_of_the_human_heart_%28cropped%29.svg.png xref: ncithesaurus:Tricuspid_Valve is_a: UBERON:0005208 ! right atrium valve relationship: connects UBERON:0002078 ! right atrium relationship: connects UBERON:0002080 ! heart right ventricle intersection_of: UBERON:0002133 ! atrioventricular valve intersection_of: part_of UBERON:0005965 ! outflow part of right atrium property_value: external_definition "The three-segmented valve of the heart that keeps blood in the right ventricle from flowing back into the right atrium. [TFD][VHOG]" xsd:string property_value: homology_notes "The mature AV (atrioventricular) valve of the adult zebrafish 2-chambered heart is structurally similar to the mammalian AV valves with stratified ECM (extracellular matrix) and supporting chordae tendineae. Therefore, the major cellular and molecular events of valve development are largely conserved among animals with hearts composed of multiple chambers.[well established][VHOG]" xsd:string [Term] id: UBERON:0002135 name: mitral valve namespace: uberon def: "Atrioventricular valve which has as its parts the anterior and posterior leaflets, attached to the fibrous ring of mitral valve.[FMA]" [FMA:FMA, Wikipedia:Mitral_valve] comment: AO notes: FMA part_ofs changed to connects subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bicuspid valve" RELATED [] synonym: "left atrioventricular valve" EXACT [] synonym: "valva atrioventricularis sinistra" EXACT LATIN [FMA:7235, FMA:TA] synonym: "valva mitralis" RELATED LATIN [Wikipedia:Mitral_valve] xref: EFO:0003933 xref: EHDAA2:0000168 xref: EMAPA:17871 xref: FMA:7235 xref: GAID:565 xref: MA:0000088 xref: MESH:A07.541.510.507 xref: OpenCyc:Mx4rv4l2nJwpEbGdrcN5Y29ycA xref: SCTID:181286006 xref: UMLS:C0026264 xref: VHOG:0000817 xref: galen:MitralValve xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/20/Diagram_of_the_human_heart_%28cropped%29.svg/200px-Diagram_of_the_human_heart_%28cropped%29.svg.png xref: ncithesaurus:Mitral_Valve relationship: attaches_to UBERON:0005995 ! mitral valve anulus relationship: connects UBERON:0002079 ! left atrium relationship: connects UBERON:0002084 ! heart left ventricle intersection_of: UBERON:0002133 ! atrioventricular valve intersection_of: part_of UBERON:0005966 ! outflow part of left atrium disjoint_from: UBERON:0007120 ! premolar tooth property_value: external_definition "A valve of the heart, composed of two triangular flaps, that is located between the left atrium and left ventricle and regulates blood flow between these chambers. [TFD][VHOG]" xsd:string property_value: homology_notes "The mature AV (atrioventricular) valve of the adult zebrafish 2-chambered heart is structurally similar to the mammalian AV valves with stratified ECM (extracellular matrix) and supporting chordae tendineae. Therefore, the major cellular and molecular events of valve development are largely conserved among animals with hearts composed of multiple chambers.[well established][VHOG]" xsd:string [Term] id: UBERON:0002136 name: hilus of dentate gyrus namespace: uberon comment: Merge with CA4? synonym: "CA4" RELATED [] synonym: "dentate gyrus hilus" EXACT [] synonym: "field CA4 of hippocampal formation" EXACT [] xref: FMA:72358 xref: MA:0000947 xref: NIF_GrossAnatomy:birnlex_1482 is_a: UBERON:0002437 ! cerebral white matter is_a: UBERON:0002744 ! hilum of dentate nucleus relationship: part_of UBERON:0001885 ! dentate gyrus of hippocampal formation [Term] id: UBERON:0002137 name: aortic valve namespace: uberon def: "Cardiac valve which has as its parts the anterior, right posterior and left posterior cusps, attached to the fibrous ring of aortic valve.[FMA]" [FMA:FMA, Wikipedia:Aortic_valve] comment: Human variation: It is normally tricuspid (with three leaflets), although in 1% of the population it is found to be congenitally bicuspid (two leaflets) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "valva aortae" RELATED LATIN [Wikipedia:Aortic_valve] xref: BTO:0004628 xref: EFO:0003879 xref: EHDAA2:0000134 xref: EHDAA:4410 xref: EMAPA:17870 xref: FMA:7236 xref: GAID:563 xref: MA:0000087 xref: MESH:A07.541.510.110 xref: OpenCyc:Mx4rv5914JwpEbGdrcN5Y29ycA xref: SCTID:181287002 xref: UMLS:C0003501 xref: VHOG:0000815 xref: galen:AorticValve xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xref: ncithesaurus:Aortic_Valve is_a: UBERON:0005623 ! semi-lunar valve relationship: part_of UBERON:0005956 ! outflow part of left ventricle property_value: external_definition "The valve between the left ventricle of the heart and the ascending aorta, consisting of three semilunar cusps. [TFD][VHOG]" xsd:string [Term] id: UBERON:0002138 name: habenulo-interpeduncular tract namespace: uberon comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Meynert's retroflex bundle" EXACT [] synonym: "fasciculus retroflexus" EXACT [] synonym: "fasciculus retroflexus (meynert)" EXACT [NIF_GrossAnatomy:birnlex_1504] synonym: "habenulointerpeduncular fasciculus" EXACT [] synonym: "habenulointerpeduncular tract" RELATED [] synonym: "habenulopeduncular tract" EXACT [] synonym: "tractus habenulo-interpeduncularis" EXACT [ZFA:0000353] xref: BM:HPT xref: FMA:72400 xref: NIF_GrossAnatomy:birnlex_1504 xref: SCTID:369194000 xref: TAO:0000353 xref: ZFA:0000353 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0002139 name: subcommissural organ namespace: uberon def: "The subcommissural organ is a circumventricular organ consisting of ependymal cells which secrete SCO-spondin[WP,partially vetted]." [PMID:9579598, Wikipedia:Subcommissural_organ] comment: Occurs throughout the vertebartes [PMID:9579598, doi:10.1002/ar.1091260210]. First appears in hagfish(Olsson). In many species, including the human, it reaches its full development during embryonic life[PMID:9579598]. During the course of phyletic evolution, one notes various changes. Indeed, in lower vertebrates, the SCO presents a greater degree of enzyme activity than the ependyma while in birds the ependyma demonstrates a more intense activity than the SCO[PMID:479574] Sometimes preceded by flexural organ[doi:10.1007/BF00303086] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "SCO" RELATED [] synonym: "dorsal subcommissural organ" RELATED [] synonym: "organum subcommissurale" RELATED LATIN [Wikipedia:Subcommissural_organ] xref: BTO:0001820 xref: FMA:72414 xref: GAID:794 xref: MA:0002941 xref: MESH:A08.713.810 xref: NIF_GrossAnatomy:birnlex_1028 xref: SCTID:369193006 xref: TAO:0000683 xref: ZFA:0000683 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray715.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray715.png/200px-Gray715.png is_a: UBERON:0002966 ! regional part of midbrain tectum is_a: UBERON:0010134 ! secretory circumventricular organ relationship: has_part CL:0000065 ! ependymal cell relationship: part_of UBERON:0002314 ! midbrain tectum relationship: part_of UBERON:0011357 ! Reissner's fiber property_value: present_in_taxon NCBITaxon:7742 [Term] id: UBERON:0002140 name: parabigeminal nucleus namespace: uberon def: "." [Wikipedia:Superior_colliculus#Nucleus_Isthmii.2FParabigeminalis] comment: AO notes: in MA this is part of the tegmentum/brainstem synonym: "nucleus isthmi" RELATED [VHOG:0001701] synonym: "nucleus parabigeminalis" EXACT [http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=482] xref: ABA:PBG xref: BM:PBG xref: FMA:72415 xref: MA:0001074 xref: NIF_GrossAnatomy:birnlex_1007 xref: VHOG:0001701 is_a: UBERON:0011214 ! nucleus of midbrain tectum property_value: homology_notes "Nucleus isthmi is present in the isthmus in most vertebrates. It is called the parabigeminal nucleus in mammals (reference 1); In sum, our results show that the origin of neurons of some tegmental hindbrain nuclei, namely, nucleus isthmi/superior reticular nucleus and secondary gustatory/viscerosensory nucleus is in the URL (upper rhombic lip), and that the temporal order of cell types produced by the URL and their developmental program are conserved among vertebrate species (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002141 name: parvocellular oculomotor nucleus namespace: uberon def: "The Edinger-Westphal nucleus (also known as the accessory oculomotor nucleus) is the accessory parasympathetic cranial nerve nucleus of the oculomotor nerve, supplying the constricting muscles of the iris. Alternatively, the Edinger-Westphal nucleus is a term often used to refer to the adjacent population of non-preganglionic neurons that do not project to the ciliary ganglion, but rather project to the spinal cord, dorsal raphe nucleus, and septal nuclei. Unlike the classical, preganglionic Edinger-Westphal neurons that contain choline acetyltransferase, neurons of the non-preganglionic Edinger-Westphal nucleus have been shown to contain various stress- and feeding-related neuropeptides, such as Urocortin and cocaine- and amphetamine-regulated transcript. Proper nomenclature for this distinct brain region has not yet been established. [WP,unvetted]." [Wikipedia:Edinger-westphal_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "accessory oculomotor nucleus" EXACT [] synonym: "edinger-westphal nucleus" EXACT [] synonym: "nucleus Edinger-Westphal" EXACT [ZFA:0000244] synonym: "oculomotor nucleus, parvocellular part" EXACT [] xref: ABA:EW xref: BM:EW xref: FMA:72424 xref: MA:0001071 xref: NIF_GrossAnatomy:birnlex_822 xref: SCTID:62088007 xref: TAO:0000244 xref: ZFA:0000244 is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002142 name: pedunculopontine tegmental nucleus namespace: uberon def: "The pedunculopontine nucleus (PPN) (or pedunculopontine tegmental nucleus, PPTN) is located in the brainstem, caudal to the substantia nigra and adjacent to the superior cerebellar peduncle. It is composed by a wide variety of neurochemical cell types, including cholinergic, glutamatergic and GABAergic cells. In the classical sense, the PPN is considered to be one of the main components of the reticular activating system. [WP,unvetted]." [Wikipedia:Pedunculopontine_tegmental_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "peduncular pontine nucleus" EXACT [] synonym: "pedunculopontine nucleus" EXACT [] xref: ABA:PPN xref: BM:Pons-PPT xref: FMA:72429 xref: MA:0001020 xref: NIF_GrossAnatomy:birnlex_1437 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons relationship: part_of UBERON:0002275 ! reticular formation property_value: spatially_disjoint_from UBERON:0001965 property_value: spatially_disjoint_from UBERON:0007412 [Term] id: UBERON:0002143 name: dorsal tegmental nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal tegmental nucleus (gudden)" EXACT [] synonym: "dorsal tegmental nucleus of gudden" EXACT [NIF_GrossAnatomy:birnlex_992] synonym: "gudden nucleus" EXACT [] synonym: "nucleus tegmentalis dorsalis" EXACT [ZFA:0000346] synonym: "nucleus tegmentalis posterior" EXACT LATIN [FMA:72434, FMA:TA] synonym: "posterior tegmental nucleus" EXACT [] synonym: "von Gudden's nucleus" EXACT [] xref: ABA:DTN xref: BM:TD xref: FMA:72434 xref: MA:0001013 xref: NIF_GrossAnatomy:birnlex_992 xref: TAO:0000346 xref: VHOG:0001368 xref: ZFA:0000346 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002144 name: peripeduncular nucleus namespace: uberon def: "a group of neuron cell bodies that form a thin, caplike configuration over the dorsolateral aspect of the crus cerebri; many of its cells are acetylcholinesterase positive." [http://www.medilexicon.com/medicaldictionary.php?t=61630] comment: Note that FMA and NIF support this being part of midbrain tegmentum; MA places this in the thalamus and ABA supports thalamus. todo - check. for now we take a conservative position and assert overlaps for both rather than part of synonym: "peripeduncular nucleus of pons" EXACT [FMA:72437] xref: ABA:PP xref: BM:MB-PPN xref: FMA:72437 xref: MA:0000875 xref: NIF_GrossAnatomy:birnlex_1474 xref: SCTID:25949000 is_a: UBERON:0002308 ! nucleus of brain relationship: overlaps UBERON:0001900 ! subthalamus relationship: overlaps UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0002704 property_value: spatially_disjoint_from UBERON:0002776 [Term] id: UBERON:0002145 name: interpeduncular nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "interpedunclear nucleus" RELATED [MTB:379] synonym: "interpeduncular ganglion" EXACT [] synonym: "interpeduncular nucleus tegmentum" RELATED [TAO:0000903] xref: ABA:IPN xref: BM:MB-IP xref: FMA:72439 xref: MA:0001069 xref: NIF_GrossAnatomy:birnlex_1000 xref: TAO:0000903 xref: ZFA:0000903 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0002043 [Term] id: UBERON:0002146 name: pulmonary valve namespace: uberon def: "Cardiac valve which has as its parts the right anterior, left anterior and posterior cusps, attached to the fibrous ring of pulmonary valve.[FMA]" [FMA:FMA, Wikipedia:Pulmonary_valve] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pulmonic valve" EXACT [] synonym: "valva trunci pulmonalis" RELATED LATIN [Wikipedia:Pulmonary_valve] xref: EHDAA2:0001577 xref: EHDAA:4412 xref: EMAPA:17872 xref: FMA:7246 xref: GAID:566 xref: MA:0000089 xref: MESH:A07.541.510.738 xref: OpenCyc:Mx4rwP6uq5wpEbGdrcN5Y29ycA xref: SCTID:181289004 xref: UMLS:C0034086 xref: VHOG:0000814 xref: galen:PulmonaryValve xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/20/Diagram_of_the_human_heart_%28cropped%29.svg/200px-Diagram_of_the_human_heart_%28cropped%29.svg.png xref: ncithesaurus:Pulmonary_Valve is_a: UBERON:0005623 ! semi-lunar valve property_value: external_definition "The valve with semilunar cusps at the entrance to the pulmonary trunk from the right ventricle of the heart. [TFD][VHOG]" xsd:string [Term] id: UBERON:0002147 name: reticulotegmental nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "nucleus reticularis tegmenti pontis" EXACT LATIN [FMA:72471, FMA:TA] synonym: "reticular tegmental nucleus" EXACT [] synonym: "reticulotegmental nucleus of pons" EXACT [] synonym: "tegmental reticular nucleus, pontine gray" EXACT [] xref: ABA:TRN xref: FMA:72471 xref: MA:0001025 xref: NIF_GrossAnatomy:birnlex_882 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons relationship: part_of UBERON:0002275 ! reticular formation property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002148 name: locus ceruleus namespace: uberon def: "The locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic[GO]. Bluish region in the superior angle of the fourth ventricle floor, corresponding to melanin-like pigmented nerve cells which lie lateral to the ponto-mesencephalic central gray (griseum centrale). It is also known as nucleus pigmentosus pontis[GAID]." [GAID:577, GO:0021703, Wikipedia:Locus_ceruleus] comment: TODO - check ZFA/pons. also GO says part of dorsorostral pons subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "blue nucleus" EXACT [NIF_GrossAnatomy:birnlex_905] synonym: "caerulean nucleus" EXACT [] synonym: "locus caeruleus" EXACT [NIF_GrossAnatomy:birnlex_905] synonym: "locus cinereus" RELATED [BTO:0001408] synonym: "locus coeruleu" EXACT [] synonym: "locus coeruleus" EXACT [] synonym: "nucleus caeruleus" EXACT LATIN [FMA:72478, FMA:TA] synonym: "nucleus of locus caeruleus" EXACT [] synonym: "nucleus pigmentosus pontis" EXACT [NIF_GrossAnatomy:birnlex_905] synonym: "substantia ferruginea" EXACT [NIF_GrossAnatomy:birnlex_905] xref: ABA:LC xref: BM:Pons-LC xref: BTO:0001408 xref: EFO:0001963 xref: FMA:72478 xref: GAID:577 xref: MA:0001017 xref: MESH:A08.186.211.132.659.473 xref: NIF_GrossAnatomy:birnlex_905 xref: SCTID:369016004 xref: TAO:0000539 xref: UMLS:C0023951 xref: ZFA:0000539 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Gray709.png/200px-Gray709.png xref: ncithesaurus:Locus_Coeruleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: capable_of GO:0048243 ! norepinephrine secretion relationship: part_of UBERON:0000988 ! pons property_value: spatially_disjoint_from UBERON:0002047 property_value: spatially_disjoint_from UBERON:0002267 property_value: spatially_disjoint_from UBERON:0002587 property_value: spatially_disjoint_from UBERON:0003004 [Term] id: UBERON:0002149 name: superior salivatory nucleus namespace: uberon def: "visceromotor cranial nerve nucleus located in the pontine tegmentum." [Wikipedia:Superior_salivatory_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "superior salivary nucleus" EXACT [GO:0021753] xref: ABA:SSN xref: EHDAA2:0004646 xref: FMA:72482 xref: MA:0001027 xref: NIF_GrossAnatomy:birnlex_1131 xref: SCTID:369028007 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Gray788.png/200px-Gray788.png is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0004133 ! salivatory nucleus relationship: immediate_transformation_of UBERON:0010125 ! future superior salivatory nucleus relationship: part_of UBERON:0003023 ! pontine tegmentum property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002150 name: superior cerebellar peduncle namespace: uberon def: "The superior cerebellar peduncles (brachium conjunctivum), two in number, emerge from the upper and medial part of the white substance of the hemispheres and are placed under cover of the upper part of the cerebellum. They are joined to each other across the middle line by the anterior medullary velum, and can be followed upward as far as the inferior colliculi, under which they disappear. Below, they form the upper lateral boundaries of the fourth ventricle, but as they ascend they converge on the dorsal aspect of the ventricle and thus assist in roofing it in. All fibers (except vestibular fibers to the vestibular nuclei through the inferior cerebellar peduncle) carrying information from the cerebellum to the midbrain and pons pass through the superior cerebellar peduncle. [WP,unvetted]." [Wikipedia:Superior_cerebellar_peduncle] comment: Editor notes: we follow NIF in dividing this into 3 parts. This allows for consistency with ABA. AO notes: we make the TAO class disjoint for now as it's not clear if this is the analagous structure subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brachium conjunctivum" EXACT [NIF_GrossAnatomy:birnlex_1711] synonym: "pedunculus cerebellaris superior" RELATED LATIN [Wikipedia:Superior_cerebellar_peduncle] synonym: "superior peduncle" RELATED [Wikipedia:Superior_cerebellar_peduncle] xref: BM:BC xref: MA:0002746 xref: NIF_GrossAnatomy:birnlex_1711 xref: SCTID:279218008 xref: http://upload.wikimedia.org/wikipedia/commons/9/97/Gray704.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray704.png/200px-Gray704.png is_a: UBERON:0007416 ! cerebellar peduncle [Term] id: UBERON:0002151 name: pontine nuclear group namespace: uberon def: "The pontine nuclei are a part of the pons which store the memory of intention during motor activity. Corticopontine fibres carry information from the primary motor cortex to the ipsilateral pontine nucleus in the ventral pons, and the pontocerebellar projection then carries that information to the contralateral cerebellum via the middle cerebellar peduncle. They therefore allow modification of actions in the light of their outcome, or error correction, and are hence important in learning motor skills. [WP,unvetted]." [Wikipedia:Pontine_nuclei] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei pontis" RELATED LATIN [BTO:0003396, Wikipedia:Pontine_nuclei] synonym: "pontine gray" EXACT [NIF_GrossAnatomy:birnlex_1516] synonym: "pontine gray matter" RELATED [BTO:0003396] synonym: "pontine nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_1516] synonym: "pontine nuclear group" EXACT [FMA:72512] synonym: "pontine nuclei" EXACT [] synonym: "pontine nucleus" EXACT [] xref: ABA:PG xref: BM:Pons-PGr xref: BTO:0003396 xref: FMA:72512 xref: MA:0001021 xref: NIF_GrossAnatomy:birnlex_1516 xref: SCTID:304942009 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Lower_pons_horizontal_KB.svg is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0002567 ! basal part of pons property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002152 name: middle cerebellar peduncle namespace: uberon def: "The middle cerebellar peduncles (brachia pontis) are composed entirely of centripetal fibers, which arise from the cells of the nuclei pontis of the opposite side and end in the cerebellar cortex; the fibers are arranged in three fasciculi, superior, inferior, and deep. The superior fasciculus, the most superficial, is derived from the upper transverse fibers of the pons; it is directed backward and lateralward superficial to the other two fasciculi, and is distributed mainly to the lobules on the inferior surface of the cerebellar hemisphere and to the parts of the superior surface adjoining the posterior and lateral margins. The inferior fasciculus is formed by the lowest transverse fibers of the pons; it passes under cover of the superior fasciculus and is continued downward and backward more or less parallel with it, to be distributed to the folia on the under surface close to the vermis. The deep fasciculus comprises most of the deep transverse fibers of the pons. It is at first covered by the superior and inferior fasciculi, but crosses obliquely and appears on the medial side of the superior, from which it receives a bundle; its fibers spread out and pass to the upper anterior cerebellar folia. The fibers of this fasciculus cover those of the restiform body. [WP,unvetted]." [Wikipedia:Middle_cerebellar_peduncle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brachium pontis" EXACT [NIF_GrossAnatomy:birnlex_1529] synonym: "pedunculus cerebellaris medius" RELATED LATIN [Wikipedia:Middle_cerebellar_peduncle] xref: BM:Pons-BP xref: FMA:72515 xref: MA:0002745 xref: NIF_GrossAnatomy:birnlex_1529 xref: NIF_GrossAnatomy:birnlex_1699 xref: SCTID:279219000 xref: http://upload.wikimedia.org/wikipedia/commons/2/2b/Gray705.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2b/Gray705.png/200px-Gray705.png is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007416 ! cerebellar peduncle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002298 ! brainstem relationship: part_of UBERON:0002567 ! basal part of pons [Term] id: UBERON:0002153 name: fastigial nucleus namespace: uberon alt_id: UBERON:0008997 def: "The fastigial nucleus or nucleus fastigii refers specifically to the concentration of gray matter nearest to the middle line at the anterior end of the superior vermis, and immediately over the roof of the fourth ventricle, from which it is separated by a thin layer of white matter. It is smaller than the nucleus dentatus, but somewhat larger than the nucleus emboliformis and nucleus globosus, the other two independent centers of gray matter in the cerebellum. [WP,unvetted]." [Wikipedia:Fastigial_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "medial (fastigial) nucleus" EXACT [] synonym: "medial cerebellar nucleus" EXACT [] synonym: "nucleus fastigii" EXACT LATIN [BTO:0003839, Wikipedia:Fastigial_nucleus] synonym: "roof nucleus-1" EXACT [] xref: ABA:FN xref: BM:CB-CBM xref: BTO:0003839 xref: FMA:72537 xref: MA:0001009 xref: NIF_GrossAnatomy:birnlex_1146 xref: SCTID:279224002 xref: VHOG:0001699 xref: http://upload.wikimedia.org/wikipedia/commons/2/23/Gray707.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/23/Gray707.png/200px-Gray707.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0008995 ! nucleus of cerebellar nuclear complex relationship: part_of UBERON:0002130 ! cerebellar nuclear complex property_value: spatially_disjoint_from UBERON:0002132 property_value: homology_notes "One or more deep cerebellar nuclei appear in agnathans, sharks, ropefishes, lungfishes, Latimeria, and amphibians. Reptiles have two nuclei (a medial and a lateral), and birds and mammals have three nuclei (a medial, a lateral, and an interposed nucleus). The medial nucleus of mammals is known as the fastigial nucleus, and the lateral nucleus is known as the dentate nucleus.[well established][VHOG]" xsd:string [Term] id: UBERON:0002154 name: lateral reticular nucleus namespace: uberon def: "The lateral reticular nucleus, of the funiculus, can be divided into three subnuclei, the parvocellular, magnocellular and the subtrigeminal. As is typical of the reticular formation, none of these are very distinct subnuclei, but rather blurred distinctions between cell types and location. The lateral reticular nucleus sends all of its projections to the cerebellum. The parvocellular portion of the LRN and the immediately adjacent magnocellular portion send most their projections to the vermis of the cerebellum. The rest of the magnocellular subnucleus sends its projections to the hemisphere regions of the cerebellum. The subtrigeminal nucleus sends its projections to the flocculonodular lobe. All of these efferent pathways are projected in an ipsilateral manner to the cerebellum, the most abundant of which are those to the vermis. This nucleus is also involved in the mediation of inspiration (in-breathing) with a part of the ventral r. nucleus. The afferent pathways to the LRN come from the spinal cord and higher brain structures. Most of the afferents come from the ipsilateral dorsal horn of the spinal cord and project exclusively to the parts of the LRN that do not receive input from the cortex. The spinal cord projections terminate mostly in the parvocellular region along with the adjacent magnocellular cells. This implies that most input from the spinal cord is relayed into the vermis. [WP,unvetted]." [Wikipedia:Lateral_reticular_nucleus] comment: Comment: note in ABA this is disjoint from MDR, but we relax this here to accomodate FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "lateral reticular nucleus (medulla)" EXACT [] synonym: "nucleus reticularis lateralis medullae oblongatae" RELATED LATIN [Wikipedia:Lateral_reticular_nucleus] xref: ABA:LRN xref: BM:LR xref: FMA:72574 xref: MA:0001047 xref: NIF_GrossAnatomy:nlx_anat_20081246 xref: TAO:0000535 xref: ZFA:0000535 is_a: UBERON:0002579 ! regional part of medullary reticular formation is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0009775 ! lateral medullary reticular complex intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0009775 ! lateral medullary reticular complex property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002155 name: gigantocellular nucleus namespace: uberon def: "The gigantocellular nucleus, as the name indicates, is mainly composed of the so called giant neuronal cells. This nucleus has been known to innervate the caudal hypoglossal nucleus, and responds to glutamateric stimuli. The gigantocellular nucleus excites the hypoglossal nucleus, and can play a role in the actions of the said nerve . This nucleus receives connections from the periaqueductal gray, the paraventricular hypothalamic nucleus, central nucleus of the amygdala, lateral hypothalamic area, and parvocellular reticular nucleus. Retrograde studies have shown that the deep mesencephalic reticular formation and oral pontine reticular nucleus project to the nucleus gigantocellularis. The dorsal rostral section of the nucleus reticularis gigantocellularis is also involved mediating in expiration (or out-breathing) along with the parvocellular nucleus. [WP,unvetted]." [Wikipedia:Gigantocellular_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gigantocellular reticular nucleus" EXACT [] synonym: "nucleus gigantocellularis" EXACT LATIN [FMA:72576, FMA:TA] xref: ABA:GRN xref: FMA:72576 xref: MA:0001037 xref: NIF_GrossAnatomy:nlx_anat_1005001 is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002156 name: nucleus raphe magnus namespace: uberon def: "The nucleus raphe magnus, located directly rostral to the raphe obscurus, is afferently stimulated from axons in the spinal cord and cerebellum. This makes the magnus a likely candidate for part of the motor system; however, it seems to participate in the endogenous analgesia system. The magnus receives descending afferents from the periaqueductal gray, the paraventricular hypothalamic nucleus, central nucleus of the amygdala, lateral hypothalamic area, parvocellular reticular nucleus and the prelimbic, infralimbic, medial and lateral precentral cortices . All of these brain areas influence the main function of the raphe magnus. The main function of the magnus is mostly pain mediation; in fact it sends projections to the dorsal horn of the spinal cord to directly inhibit pain. The periaquiductal gray, the epicenter of analgesia, sends efferent connections to the nucleus raphe magnus in when it is stimulated by opiates (endogenous or otherwise). Electrical stimulation of the PAG produces analgesia, as well as administration of morphine to the PAG or n.r. magnus. The antinociceptic effects of electrical stimulation of the PAG can be blocked by administering naloxone, an opiate antagonist, to the n.r. magnus. All of this seems to indicate that the magnus is part of the endogenous opiate system, and acts to inhibit pain in the spinal cord. [WP,unvetted]." [Wikipedia:Nucleus_raphe_magnus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "magnus raphe nucleus" EXACT [] synonym: "nucleus raphes magnus" EXACT LATIN [FMA:72584, FMA:TA, Wikipedia:Nucleus_raphe_magnus] synonym: "raphe magnus" RELATED [Wikipedia:Nucleus_raphe_magnus] synonym: "raphe magnus nucleus" EXACT [NIF_GrossAnatomy:birnlex_1363] xref: ABA:RM xref: EFO:0002518 xref: FMA:72584 xref: MA:0001024 xref: NIF_GrossAnatomy:birnlex_1363 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/94/Gray694.png/200px-Gray694.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002677 ! regional part of medullary raphe nuclear complex is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0002692 ! medullary raphe nuclear complex property_value: spatially_disjoint_from UBERON:0002157 property_value: spatially_disjoint_from UBERON:0002684 [Term] id: UBERON:0002157 name: nucleus raphe pallidus namespace: uberon def: "The nucleus raphe pallidus receives afferent connections from the periaqueductal gray, the paraventricular hypothalamic nucleus, central nucleus of the amygdala, lateral hypothalamic area, and parvocellular reticular nucleus. Also, the pallidus receives afferents from the medial preoptic area, median preoptic nucleus and lateral paragigantocellular reticular nuclei . The pallidus has recently been shown to be involved in the activation of a fever as an immunoreaction. It has been implied that the preoptic area is constantly inhibiting the raphe pallidus, especially the rostral portion, with GABA. When the preoptic area receives immune signals from the body, the inhibition stops and the rostral portion of the raphe pallidus excites the intermediolateral cell column, which induces a fever . The raphe pallidus has also been known to mediate the tachycardia response, an extremely high heart rate known to be incited by emotional or psychological stress. Microinjections of a GABA-a antagonist into the raphe pallidus, induces an increased heart rate. Conversely, microinjections of muscimol, a GABA-a agonist, inhibit tachycardia in rats under air-stress stimuli. In both of these cases, GABA is mediating two different sympathetic responses, so clearly the nucleus raphe pallidus is a far more a complex nucleus than previously thought. [WP,unvetted]." [Wikipedia:Nucleus_raphe_pallidus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus raphes pallidus" EXACT LATIN [FMA:72586, FMA:TA, Wikipedia:Nucleus_raphe_pallidus] synonym: "pallidal raphe nucleus" EXACT [] synonym: "raphe pallidus nucleus" EXACT [] xref: ABA:RPA xref: FMA:72586 xref: MA:0001051 xref: NIF_GrossAnatomy:birnlex_1375 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/94/Gray694.png/200px-Gray694.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002677 ! regional part of medullary raphe nuclear complex is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0002692 ! medullary raphe nuclear complex property_value: spatially_disjoint_from UBERON:0002156 property_value: spatially_disjoint_from UBERON:0002684 [Term] id: UBERON:0002158 name: principal inferior olivary nucleus namespace: uberon def: "The inferior olivary nucleus that consists of the major laminar structure." [Wikipedia:Olivary_body#Olivary_nuclei] comment: This class was created automatically from a combination of ontologies synonym: "chief inferior olivary nucleus" EXACT [] synonym: "convoluted olive" EXACT [NIF_GrossAnatomy:nlx_anat_20081248] synonym: "inferior olivary complex, principal olive" EXACT [] synonym: "inferior olive principal nucleus" EXACT [] synonym: "inferior olive, principal nucleus" EXACT [] synonym: "main olivary nucleus" EXACT [] synonym: "nucleus olivaris principalis" EXACT LATIN [FMA:72592, FMA:TA] synonym: "principal nucleus of inferior olive" EXACT [] synonym: "principal olivary nucleus" EXACT [] synonym: "principal olive" EXACT [NIF_GrossAnatomy:nlx_anat_20081248] xref: FMA:72592 xref: MA:0001046 xref: NIF_GrossAnatomy:nlx_anat_20081248 is_a: UBERON:0007244 ! inferior olivary nucleus [Term] id: UBERON:0002159 name: medial accessory inferior olivary nucleus namespace: uberon def: "The inferior olivary nucleus that lies between the primary olivary nucleus and the pyramid, and forms a curved lamina, the concavity of which is directed laterally" [Wikipedia:Olivary_body#Olivary_nuclei] comment: This class was created automatically from a combination of ontologies synonym: "inferior olivary complex, medial accessory olive" EXACT [] synonym: "inferior olive medial nucleus" EXACT [] synonym: "inferior olive, medial nucleus" EXACT [] synonym: "medial accessory olivary nucleus" EXACT [] synonym: "nucleus olivaris accessorius medialis" EXACT LATIN [FMA:72594, FMA:TA] xref: FMA:72594 xref: MA:0001045 xref: SCTID:369069003 is_a: UBERON:0007244 ! inferior olivary nucleus [Term] id: UBERON:0002160 name: nucleus prepositus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "nucleus praepositus" EXACT [NIF_GrossAnatomy:birnlex_2652] synonym: "nucleus prepositus hypoglossus" RELATED [] synonym: "prepositus hypoglossal nucleus" EXACT [] synonym: "prepositus nucleus" EXACT [] xref: ABA:PRP xref: FMA:72596 xref: MA:0001023 xref: NIF_GrossAnatomy:birnlex_2652 xref: SCTID:369078009 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons property_value: spatially_disjoint_from UBERON:0002881 [Term] id: UBERON:0002161 name: gracile nucleus namespace: uberon def: "Located in the medulla oblongata, the gracile nucleus is one of the dorsal column nuclei that participate in the sensation of fine touch and proprioception of the lower body (legs and trunk). It contains second-order neurons of the dorsal column-medial lemniscus system, which receive inputs from sensory neurons of the dorsal root ganglia and send axons that synapse in the thalamus. The neurons contained within the nucleus form a visible bump called the gracile tubercle on the posterior side of the closed medulla at the floor of the fourth ventricle. The gracile nucleus and fasciculus carry epicritic, kinesthetic, and conscious proprioceptive information from the lower part of the body (below the level of T6 in the spinal cord). The counterpart to the gracile nucleus and fasciculus is the cuneate nucleus and fasciculus, which carries the same type of information, but from the upper body (above T6, excepting the face and ear - the information from the face and ear is carried by the primary sensory trigeminal nucleus). [WP,unvetted]." [Wikipedia:Gracile_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Goll's nucleus" EXACT [] synonym: "golls nucleus" EXACT [NIF_GrossAnatomy:birnlex_2643] synonym: "nucleus gracilis" EXACT LATIN [NIF_GrossAnatomy:birnlex_2643, Wikipedia:Gracile_nucleus] xref: ABA:GR xref: BM:Me-Gr xref: EV:0100280 xref: FMA:72602 xref: MA:0001038 xref: NIF_GrossAnatomy:birnlex_2643 xref: SCTID:369071003 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Gray688.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Gray688.png/200px-Gray688.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0002045 [Term] id: UBERON:0002162 name: area postrema namespace: uberon def: "A small, rounded eminence on each side of the FOURTH VENTRICLE, which receives nerve fibers from the SOLITARY NUCLEUS , SPINAL CORD, and adjacent areas of the MEDULLA. The area postrema lies outside the BLOOD-BRAIN BARRIER and its functions include acting as an emetic chemoreceptor." [MESH:A08.186.211.132.810.406.286, Wikipedia:Area_postrema] comment: Function notes: vomiting center in humans[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: ABA:AP xref: BTO:0003425 xref: FMA:72607 xref: GAID:591 xref: MA:0001034 xref: MESH:A08.186.211.132.810.406.286 xref: NIF_GrossAnatomy:birnlex_2636 xref: SCTID:369039005 xref: TAO:0005146 xref: ZFA:0005146 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Gray709.png/200px-Gray709.png is_a: UBERON:0002678 ! regional part of medulla oblongata is_a: UBERON:0010135 ! sensory circumventricular organ relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002591 property_value: spatially_disjoint_from UBERON:0002610 property_value: spatially_disjoint_from UBERON:0002864 property_value: spatially_disjoint_from UBERON:0002866 property_value: spatially_disjoint_from UBERON:0002873 property_value: spatially_disjoint_from UBERON:0007633 property_value: external_definition "An area of medulla oblongata, outside the blood-brain barrier. The apical terminals of the neurons are, in a strategic location either to monitor the chemical constitution of the plasma or to release neurogenic substances into the general circulation. Ma 1997.[TAO]" xsd:string [Term] id: UBERON:0002163 name: inferior cerebellar peduncle namespace: uberon def: "The upper part of the posterior district of the medulla oblongata is occupied by the inferior peduncle, a thick rope-like strand situated between the lower part of the fourth ventricle and the roots of the glossopharyngeal and vagus nerves. Each cerebellar inferior peduncle connects the medulla spinalis and medulla oblongata with the cerebellum, and comprises the juxtarestiform body and restiform body. Important fibers running through the inferior cerebellar peduncle include the spinocerebellar tract and axons from the inferior olivary nucleus, among others. [WP,unvetted]." [Wikipedia:Inferior_cerebellar_peduncle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus restiforme" EXACT LATIN [FMA:72615, FMA:TA] synonym: "inferior peduncle" RELATED [Wikipedia:Inferior_cerebellar_peduncle] synonym: "pedunculus cerebellaris inferior" RELATED LATIN [Wikipedia:Inferior_cerebellar_peduncle] synonym: "restiform body" EXACT [NIF_GrossAnatomy:birnlex_1691] xref: BM:RB xref: FMA:72615 xref: MA:0002744 xref: NIF_GrossAnatomy:birnlex_1645 xref: NIF_GrossAnatomy:birnlex_1691 xref: SCTID:362418008 xref: http://upload.wikimedia.org/wikipedia/commons/f/fc/Gray677.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fc/Gray677.png/200px-Gray677.png is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007416 ! cerebellar peduncle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002164 name: tectobulbar tract namespace: uberon def: "a long process of a CNS neuron, that carries efferent (outgoing) action potentials from the cell body in the optic tectum towards target cells in the premotor reticulospinal system in the hindbrain." [GO:0034429] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "tecto-bulbar tract" EXACT [] xref: FMA:72645 xref: NIF_GrossAnatomy:birnlex_750 xref: SCTID:369265000 xref: TAO:0000446 xref: ZFA:0000446 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002678 ! regional part of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002165 name: endocardium namespace: uberon alt_id: UBERON:0006225 def: "The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]. Tunica intima which has as its parts the endothelium of endocardium and the fibroelastic connective tissue that surrounds the cavity of a cardiac chamber[FMA]." [FMA:7280, Wikipedia:Endocardium] comment: fixed in GO to reflect FMA. See email to David/Varsha June 18 2010 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "endocardial tissue" EXACT [EMAPA:17868] synonym: "heart endocardial tissue" RELATED [VHOG:0000084] synonym: "heart endocardium" EXACT [] xref: AAO:0010408 xref: BTO:0000387 xref: EFO:0000821 xref: EHDAA2:0004153 xref: EMAPA:17868 xref: EV:0100021 xref: FMA:7280 xref: GAID:550 xref: MA:0000076 xref: MAT:0000455 xref: MESH:A07.541.207 xref: OpenCyc:Mx4rsWA75K1cEduAAADggVaqvw xref: SCTID:362013006 xref: TAO:0001320 xref: UMLS:C0014124 xref: VHOG:0000084 xref: XAO:0000066 xref: ZFA:0001320 xref: galen:Endocardium xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6c/Gray493.png/200px-Gray493.png xref: ncithesaurus:Endocardium is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0005983 ! heart layer relationship: develops_from UBERON:0003084 ! heart primordium relationship: develops_from UBERON:0007280 ! presumptive endocardium relationship: has_part UBERON:0001986 ! endothelium relationship: part_of UBERON:0000948 ! heart property_value: external_definition "Layer that lines the lumen of the heart.[TAO]" xsd:string property_value: external_definition "Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO]" xsd:string [Term] id: UBERON:0002166 name: endocardium of atrium namespace: uberon def: "Endocardium that is part of the atrium." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Cardiac atria endocardium" EXACT [OBOL:automatic] synonym: "atrial endocardium" EXACT [] synonym: "atrium endocardial tissue" RELATED [VHOG:0000606] synonym: "atrium endocardium" EXACT [] synonym: "atrium of heart endocardium" EXACT [OBOL:automatic] synonym: "cardiac atrium endocardium" EXACT [OBOL:automatic] synonym: "endocardium of Cardiac atria" EXACT [OBOL:automatic] synonym: "endocardium of atrium of heart" EXACT [OBOL:automatic] synonym: "endocardium of cardiac atrium" EXACT [OBOL:automatic] synonym: "endocardium of heart atrium" EXACT [OBOL:automatic] synonym: "heart atrium endocardium" EXACT [OBOL:automatic] xref: FMA:7284 xref: MA:0000077 xref: SCTID:192001005 xref: TAO:0002169 xref: VHOG:0000606 xref: ZFA:0001614 is_a: UBERON:0002165 ! endocardium relationship: part_of UBERON:0002081 ! cardiac atrium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0002167 name: right lung namespace: uberon def: "Lung which consists of the right upper lobe, middle lobe and right lower lobe.[FMA]" [FMA:FMA, Wikipedia:Right_lung] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EHDAA2:0001730 xref: EHDAA:4969 xref: EMAPA:17661 xref: FMA:7309 xref: MA:0000426 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: SCTID:361967000 xref: UMLS:C0225706 xref: VHOG:0000301 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Gray972.png/200px-Gray972.png xref: ncithesaurus:Right_Lung intersection_of: UBERON:0002048 ! lung intersection_of: in_right_side_of UBERON:0000170 ! pair of lungs property_value: homology_notes "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string [Term] id: UBERON:0002168 name: left lung namespace: uberon def: "Lung which consists of the left upper lobe and left lower lobe.[FMA]" [FMA:FMA, Wikipedia:Left_lung] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EHDAA2:0000943 xref: EHDAA:4947 xref: EMAPA:17653 xref: FMA:7310 xref: MA:0000425 xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: SCTID:361982005 xref: UMLS:C0225730 xref: VHOG:0000618 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dd/Gray973.png/200px-Gray973.png xref: ncithesaurus:Left_Lung intersection_of: UBERON:0002048 ! lung intersection_of: in_left_side_of UBERON:0000170 ! pair of lungs property_value: homology_notes "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string [Term] id: UBERON:0002169 name: alveolar sac namespace: uberon alt_id: UBERON:0008871 def: "the small terminal dilation of the alveolar ducts around which the alveoli form pocket-like clusters" [MP:0010902, Wikipedia:Alveolar_sac] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "air sac" RELATED [MP:0010902] synonym: "pulmonary alveolar sac" EXACT [MP:0010902] synonym: "sacculus alveolaris" EXACT [FMA:7317] xref: BTO:0000061 xref: FMA:7317 xref: MA:0000418 xref: OpenCyc:Mx4rwCvh75wpEbGdrcN5Y29ycA xref: SCTID:361964007 xref: UMLS:C0225691 xref: ncithesaurus:Alveolar_Sac is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0000117 ! respiratory tube relationship: part_of UBERON:0006524 ! alveolar system relationship: part_of UBERON:0008874 ! pulmonary acinus intersection_of: UBERON:0007499 ! epithelial sac intersection_of: part_of UBERON:0008874 ! pulmonary acinus [Term] id: UBERON:0002170 name: upper lobe of right lung namespace: uberon def: "The lobe of the right lung that is closest to the head." [UBERON:cjm] synonym: "lobus superior pulmonis dextri" EXACT LATIN [FMA:TA] synonym: "right cranial lobe of lung" EXACT [] synonym: "right lung cranial lobe" EXACT [MA:0000429] synonym: "right lung superior lobe" RELATED [MA:0000429] synonym: "right upper lobe" EXACT [FMA:7333] synonym: "right upper lobe of lung" EXACT [FMA:7333] synonym: "superior lobe of right lung" EXACT [FMA:7333] synonym: "upper lobe of right lung" EXACT [galen:UpperLobeOfRightLung] xref: EHDAA2:0001747 xref: EHDAA:4987 xref: EMAPA:17991 xref: FMA:7333 xref: MA:0000429 xref: SCTID:361969002 xref: UMLS:C1261074 xref: VHOG:0000859 xref: galen:UpperLobeOfRightLung xref: ncithesaurus:Upper_Lobe_of_the_Right_Lung is_a: UBERON:0006518 ! right lung lobe is_a: UBERON:0008948 ! upper lobe of lung intersection_of: UBERON:0008948 ! upper lobe of lung intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0002171 name: lower lobe of right lung namespace: uberon def: "The lobe of the right lung that is furtherst from the head." [UBERON:cjm] synonym: "inferior lobe of right lung" EXACT [FMA:7337] synonym: "lobus inferior pulmonis dextri" EXACT LATIN [FMA:7337, FMA:TA] synonym: "lower lobe of right lung" EXACT [galen:LowerLobeOfRightLung] synonym: "right caudal lobe of lung" EXACT [] synonym: "right lower lobe" EXACT [FMA:7337] synonym: "right lower lobe of lung" EXACT [FMA:7337] synonym: "right lung caudal lobe" RELATED [MA:0000428] synonym: "right lung inferior lobe" RELATED [MA:0000428] xref: EHDAA2:0001740 xref: EHDAA:4979 xref: EMAPA:17986 xref: FMA:7337 xref: MA:0000428 xref: SCTID:361976007 xref: UMLS:C1261075 xref: VHOG:0000857 xref: galen:LowerLobeOfRightLung xref: ncithesaurus:Lower_Lobe_of_the_Right_Lung is_a: UBERON:0006518 ! right lung lobe is_a: UBERON:0008949 ! lower lobe of lung intersection_of: UBERON:0008949 ! lower lobe of lung intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0002172 name: alveolar atrium namespace: uberon synonym: "alveolus of lung atrium" EXACT [OBOL:automatic] synonym: "atrium alveolare" EXACT [] synonym: "atrium of alveolus" EXACT [] synonym: "atrium of alveolus of lung" EXACT [OBOL:automatic] synonym: "atrium of lung alveolus" EXACT [OBOL:automatic] synonym: "lung alveolus atrium" EXACT [OBOL:automatic] xref: FMA:7340 xref: MA:0000419 xref: SCTID:201806004 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002299 ! alveolus of lung [Term] id: UBERON:0002173 name: alveolar duct namespace: uberon def: "Alveolar ducts are the tiny end ducts of the branching airways that fill the lungs. Each lung holds approximately 1.5 to 2 million of them. The tubules divide into two or three alveolar sacs at the distal end. They are formed from the confluence openings of several alveoli. Distal terminations of alveolar ducts are atria which then end in alveolar sacs. In human anatomy, respiratory bronchioles exists proximal to the alveolar ducts. The epithelial lining consists of smooth muscle knobs covered by nonciliated, simple cuboidal cells. The smooth muscle constricts under parasympathetic innervation and relax under sympathetic innervation. [WP,unvetted]." [Wikipedia:Alveolar_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:7341 xref: MA:0000417 xref: OpenCyc:Mx4rvXmfV5wpEbGdrcN5Y29ycA xref: UMLS:C0391892 xref: http://upload.wikimedia.org/wikipedia/commons/8/8f/Gray975.png xref: ncithesaurus:Alveolar_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0006524 ! alveolar system [Term] id: UBERON:0002174 name: middle lobe of right lung namespace: uberon def: "In the human, the right lung is divided into three lobes (as opposed to two lobes on the left), superior, middle, and inferior, by two interlobular fissures: [WP,unvetted]." [Wikipedia:Middle_lobe_of_right_lung] comment: Called 'middle lobe of lung' in FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intermediate lobe of right lung" EXACT [] synonym: "lobus medius pulmonis dextri" EXACT LATIN [FMA:7383, FMA:TA] synonym: "middle lobe of lung" BROAD [FMA:7383] synonym: "right lung middle lobe" EXACT [] synonym: "right lung, middle lobe" EXACT [] synonym: "right medial lobe" BROAD [] synonym: "right medial lobe of lung" EXACT [] synonym: "right middle lobe" BROAD [] synonym: "right middle lobe of lung" EXACT [] xref: EMAPA:17997 xref: FMA:7383 xref: MA:0000430 xref: SCTID:361973004 xref: UMLS:C0225757 xref: galen:MiddleLobeOfRightLung xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Gray972.png/200px-Gray972.png xref: ncithesaurus:Middle_Lobe_of_the_Right_Lung is_a: UBERON:0006518 ! right lung lobe intersection_of: UBERON:0008955 ! middle lobe of lung intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0002175 name: intermediolateral nucleus namespace: uberon def: "The intermediolateral nucleus is a region of gray matter found in Rexed lamina VII of the spinal column. Rexed Lamina VII contains several well defined nuclei including the nucleus dorsalis, the intermediolateral cell column (lateral gray horn), and the sacral autonomic nucleus. It extends from the first thoracic through the third lumbar segment, and contains the autonomic motor neurons that give rise to the preganglionic fibers of the sympathetic system. [WP,unvetted]." [Wikipedia:Intermediolateral_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intermediolateral nucleus of spinal cord" EXACT [] synonym: "nucleus intermediolateralis medullae spinalis" EXACT LATIN [FMA:73915, FMA:TA, Wikipedia:Intermediolateral_nucleus] synonym: "spinal cord intermediolateral nucleus" EXACT [] xref: FMA:73915 xref: MA:0002753 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Medulla_spinalis_-_Substantia_grisea_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Medulla_spinalis_-_Substantia_grisea_-_English.svg/200px-Medulla_spinalis_-_Substantia_grisea_-_English.svg.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0002176 name: lateral cervical nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:73921 xref: MA:0002755 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: UBERON:0002177 name: right main bronchus namespace: uberon def: "The main bronchus on the right side." [UBERON:cjm, Wikipedia:Right_main_bronchus] comment: Divides into 3 lobar bronchi in humans[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchus principalis dexter" RELATED LATIN [Wikipedia:Right_main_bronchus] synonym: "right bronchus" EXACT [] synonym: "right primary bronchus" EXACT [Wikipedia:Right_main_bronchus] synonym: "right principal bronchus" EXACT [Wikipedia:Right_main_bronchus] xref: FMA:7395 xref: MA:0001849 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvoIuvJwpEbGdrcN5Y29ycA xref: SCTID:361955002 xref: UMLS:C0225608 xref: http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Illu_conducting_passages.jpg/200px-Illu_conducting_passages.jpg xref: ncithesaurus:Right_Main_Bronchus intersection_of: UBERON:0002182 ! main bronchus intersection_of: continuous_with UBERON:0006518 ! right lung lobe [Term] id: UBERON:0002178 name: left main bronchus namespace: uberon def: "The main bronchus on the left side." [Wikipedia:Left_main_bronchus] comment: Divides into 2 lobar bronchi in humans[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchus principalis sinister" RELATED LATIN [Wikipedia:Left_main_bronchus] synonym: "left bronchus" EXACT [] synonym: "left primary bronchus" EXACT [Wikipedia:Left_main_bronchus] synonym: "left principal bronchus" EXACT [Wikipedia:Left_main_bronchus] xref: FMA:7396 xref: MA:0001843 xref: SCTID:361959008 xref: UMLS:C0225630 xref: http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Illu_conducting_passages.jpg/200px-Illu_conducting_passages.jpg xref: ncithesaurus:Left_Main_Bronchus intersection_of: UBERON:0002182 ! main bronchus intersection_of: continuous_with UBERON:0008951 ! left lung lobe [Term] id: UBERON:0002179 name: lateral funiculus namespace: uberon def: "The most lateral of the bundles of the anterior nerve roots is generally taken as a dividing line that separates the antero-lateral region into two parts, viz. , an anterior funiculus, between the anterior median fissure and the most lateral of the anterior nerve roots; and a lateral funiculus, between the exit of these roots and the postero-lateral sulcus. [WP,unvetted]." [Wikipedia:Lateral_funiculus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "funiculus lateralis medullae spinalis" RELATED LATIN [Wikipedia:Lateral_funiculus] synonym: "lateral funiculus of spinal cord" EXACT [] synonym: "lateral white column of spinal cord" EXACT [FMA:74000] xref: FMA:74000 xref: SCTID:362434006 xref: TAO:0000533 xref: ZFA:0000533 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Medulla_spinalis_-_Section_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Medulla_spinalis_-_Section_-_English.svg/200px-Medulla_spinalis_-_Section_-_English.svg.png is_a: UBERON:0006127 ! funiculus of spinal cord [Term] id: UBERON:0002180 name: ventral funiculus namespace: uberon def: "The most lateral of the bundles of the anterior nerve roots is generally taken as a dividing line that separates the antero-lateral region into two parts, viz. , an anterior funiculus, between the anterior median fissure and the most lateral of the anterior nerve roots; and a lateral funiculus, between the exit of these roots and the postero-lateral sulcus. [WP,unvetted]." [Wikipedia:Ventral_funiculus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior funiculus" EXACT [] synonym: "anterior funiculus of spinal cord" EXACT [] synonym: "anterior white column of spinal cord" EXACT [FMA:74003] synonym: "funiculus anterior medullae spinalis" EXACT LATIN [FMA:74003, FMA:TA] synonym: "ventral funiculus of spinal cord" EXACT [] synonym: "ventral white column of spinal cord" EXACT [FMA:74003] xref: FMA:74003 xref: SCTID:362429007 xref: TAO:0000605 xref: ZFA:0000605 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Medulla_spinalis_-_Section_-_English.svg/200px-Medulla_spinalis_-_Section_-_English.svg.png is_a: UBERON:0006127 ! funiculus of spinal cord relationship: in_lateral_side_of UBERON:0002318 ! white matter of spinal cord [Term] id: UBERON:0002181 name: substantia gelatinosa namespace: uberon def: "Gelatinous-appearing material in the dorsal horn of the spinal cord, consisting chiefly of Golgi type II neurons and some larger nerve cells." [MESH:A08.186.854.610.800, Wikipedia:Central_gelatinous_substance_of_spinal_cord_of_Rolando] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "central gelatinous substance of spinal cord" EXACT [] synonym: "gelatinous substance of Rolando" EXACT [FMA:74019] synonym: "gelatinous substance of dorsal horn of spinal cord" EXACT [] synonym: "gelatinous substance of posterior horn of spinal cord" EXACT [] synonym: "substantia gelatinosa cornu posterioris medullae spinalis" EXACT LATIN [FMA:74019, FMA:TA] xref: EV:0100318 xref: FMA:74019 xref: GAID:701 xref: MA:0001124 xref: MESH:A08.186.854.610.800 xref: UMLS:C0038588 xref: ncithesaurus:Substantia_Gelatinosa is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: UBERON:0002182 name: main bronchus namespace: uberon def: "One of two branches of the trachea." [Wikipedia:Main_bronchus] comment: In humans, histologically identical to trachea. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchus principalis" EXACT [FMA:7405] synonym: "extrapulmonary bronchus" EXACT [ISBN10:0123813611] synonym: "mainstem bronchus" EXACT [] synonym: "primary bronchus" EXACT [FMA:7405] synonym: "principal bronchus" EXACT [FMA:7405] synonym: "proximal bronchus" RELATED [] xref: EFO:0000932 xref: EHDAA2:0001044 xref: EHDAA:3072 xref: EMAPA:16849 xref: FMA:7405 xref: MA:0000438 xref: OpenCyc:Mx4rvoIuvJwpEbGdrcN5Y29ycA xref: SCTID:245508000 xref: UMLS:C0024496 xref: VHOG:0000370 xref: ncithesaurus:Main_Bronchus is_a: UBERON:0002185 ! bronchus relationship: develops_from UBERON:0008947 ! respiratory primordium relationship: distally_connected_to UBERON:0002183 ! lobar bronchus relationship: proximally_connected_to UBERON:0003126 ! trachea [Term] id: UBERON:0002183 name: lobar bronchus namespace: uberon def: "The lobar bronchus is the major airway within the respiratory tree that starts by division of the principal bronchi on both sides and ends at the point of its own subdivision into tertiary or segmental bronchi[GO]." [GO:0060482, Wikipedia:Secondary_bronchus] comment: Structure notes: They have relatively large lumens that are lined by respiratory epithelium. There is a smooth muscle layer below the epithelium arranged as two ribbons of muscle that spiral in opposite directions. This smooth muscle layer contains seromucous glands. Irregularly arranged plates of hyaline cartilage surround the smooth muscle. These plates give structural support to the bronchus and maintain the patency of the lumen. subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchi lobaris" EXACT LATIN [Wikipedia:Secondary_bronchus] synonym: "lobar bronchi" RELATED PLURAL [Wikipedia:Secondary_bronchus] synonym: "secondary bronchi" RELATED PLURAL [Wikipedia:Secondary_bronchus] synonym: "secondary bronchus" EXACT [FMA:7406, Wikipedia:Secondary_bronchus] xref: EHDAA:4955 xref: EHDAA:4963 xref: EHDAA:4977 xref: EHDAA:4985 xref: EHDAA:4993 xref: EHDAA:8175 xref: EHDAA:8187 xref: EHDAA:8203 xref: EHDAA:8213 xref: EHDAA:8225 xref: EMAPA:17998 xref: FMA:7406 xref: MA:0000437 xref: OpenCyc:Mx4rwQMLXJwpEbGdrcN5Y29ycA xref: SCTID:245509008 xref: UMLS:C0225653 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Illu_quiz_lung05.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Illu_quiz_lung05.jpg/200px-Illu_quiz_lung05.jpg xref: ncithesaurus:Lobar_Bronchus is_a: UBERON:0002185 ! bronchus relationship: distally_connected_to UBERON:0002184 ! segmental bronchus relationship: part_of UBERON:0000101 ! lobe of lung [Term] id: UBERON:0002184 name: segmental bronchus namespace: uberon def: "The tertiary bronchi (also known as the segmental bronchi) arise from the secondary bronchi. The respiratory epithelium lining their lumen is surrounded by a layer of smooth muscle. This layer is composed of two ribbons of smooth muscle that spiral in opposite directions. The smooth muscle layer is surrounded by irregular plates of hyaline cartilage which help maintain the patency of the airway. Each of the tertiary bronchi serves a specific bronchopulmonary segment. There are 10 tertiary bronchi in the right lung, and eight in the left. The tertiary bronchi get smaller and divide into primary bronchioles. [WP,unvetted]." [Wikipedia:Segmental_bronchus] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tertiary bronchus" EXACT [] xref: EHDAA:7043 xref: EHDAA:7049 xref: EHDAA:7058 xref: EHDAA:7064 xref: EHDAA:7070 xref: FMA:7407 xref: MA:0000439 xref: OpenCyc:Mx4rwQGFgZwpEbGdrcN5Y29ycA xref: SCTID:245513001 xref: UMLS:C0444439 xref: VHOG:0001446 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/df/Illu_quiz_lung05.jpg/200px-Illu_quiz_lung05.jpg xref: ncithesaurus:Segmental_Bronchus is_a: UBERON:0002185 ! bronchus relationship: part_of UBERON:0000101 ! lobe of lung relationship: proximally_connected_to UBERON:0002183 ! lobar bronchus [Term] id: UBERON:0002185 name: bronchus namespace: uberon def: "A portion of the airway that connects to the lungs[GO]." [Wikipedia:Bronchus] comment: In humans, the main bronchus is histologically identical to trachea; 2ary and 3ary bronchi are not; epithelium becomes simple columnar, goblet cell number decreases, elastic fibers in lamina propria increases, distribution more uniform. Muscular layer between mucosa and submucosa appears. cartilage rings become discontinuous plates connected by fibrous connective tissue subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchi" EXACT PLURAL [] synonym: "bronchial tissue" RELATED [BTO:0001340] synonym: "bronchial trunk" EXACT [FMA:7409] xref: BTO:0001340 xref: EFO:0000932 xref: EV:0100041 xref: FMA:7409 xref: GAID:346 xref: MA:0000436 xref: MAT:0000133 xref: MESH:A04.411.125 xref: MIAA:0000133 xref: SCTID:181215002 xref: UMLS:C0006255 xref: VHOG:0000262 xref: XAO:0000121 xref: http://upload.wikimedia.org/wikipedia/commons/1/18/Respiratory_system_complete_numbered.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/18/Respiratory_system_complete_numbered.svg/200px-Respiratory_system_complete_numbered.svg.png xref: ncithesaurus:Bronchus is_a: UBERON:0001005 ! respiratory airway is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005178 ! thoracic cavity organ relationship: located_in UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0007196 ! tracheobronchial tree property_value: external_definition "Each of the two primary divisions of the trachea leading respectively into the right and the left lung. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: has_relational_adjective "bronchial" xsd:string [Term] id: UBERON:0002186 name: bronchiole namespace: uberon def: "the first airway branch that no longer contains cartilage; it is a branch of the bronchus[GO]." [Wikipedia:Bronchiole] comment: Structure notes: lacks submucosa and cartilage plates; they have 3 layers: mucosa, muscular layer and outer layer[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchioli" RELATED PLURAL [] synonym: "bronchiolus" RELATED [BTO:0002375] synonym: "lobular bronchiole" EXACT [FMA:7410] xref: BTO:0002375 xref: EHDAA:8171 xref: EHDAA:8183 xref: EHDAA:8199 xref: EHDAA:8221 xref: FMA:7410 xref: MA:0000422 xref: OpenCyc:Mx4rvl9iDpwpEbGdrcN5Y29ycA xref: SCTID:278982001 xref: UMLS:C0006270 xref: VHOG:0000675 xref: http://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png xref: ncithesaurus:Bronchiole is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0000117 ! respiratory tube is_a: UBERON:0002031 ! epithelium of bronchus is_a: UBERON:0003914 ! epithelial tube relationship: branch_of UBERON:0002185 ! bronchus relationship: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0007196 ! tracheobronchial tree relationship: part_of UBERON:0010368 ! pulmonary lobule property_value: has_relational_adjective "bronchiolar" xsd:string [Term] id: UBERON:0002187 name: terminal bronchiole namespace: uberon def: "A terminal bronchiole is a bronchiole at the end of the conducting zone. At the transition into the respiratory zone, alveoli become present. The terminal bronchiole is the most distal segment of the conducting zone. Each of the terminal bronchioles divides to form respiratory bronchioles which contain a small number of alveoli. Terminal bronchioles are lined with simple cuboidal epithelium containing Clara cells. Terminal bronchioles contain a limited number of ciliated cells and no goblet cells. Clara cells are non-ciliated, rounded protein secreting cells. Their secretions are a nonsticky, proteinaceous compound to maintain the airway in the smallest bronchioles. The secretion, called surfactant, reduces surface tension allowing for bronchioles to expand during inspiration and keeping the bronchioles from collapsing during expiration. Clara cells, a stem cell of the respiratory system, produce enzymes that detoxify substances dissolved in the respiratory fluid. [WP,unvetted]." [Wikipedia:Terminal_bronchiole] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchioli terminalis" RELATED LATIN [Wikipedia:Terminal_bronchiole] synonym: "bronchiolus terminalis" EXACT LATIN [] xref: BTO:0003223 xref: FMA:7411 xref: MA:0000424 xref: OpenCyc:Mx4rwS7IU5wpEbGdrcN5Y29ycA xref: SCTID:278981008 xref: UMLS:C0225666 xref: http://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png xref: ncithesaurus:Terminal_Bronchiole is_a: UBERON:0002186 ! bronchiole [Term] id: UBERON:0002188 name: respiratory bronchiole namespace: uberon def: "A bronchiole that is the first segment of the respiratory zone." [ISBN10:0123813611, Wikipedia:Respiratory_bronchiole] comment: Taxon notes: mice have few or none of these structures, with the terminal bronchioles transitioning directly to the alveolary ducts[ISBN10:0123813611] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "bronchiolus respiratorii" EXACT LATIN [Wikipedia:Respiratory_bronchiole] synonym: "bronchiolus respiratorius" EXACT LATIN [FMA:7412] xref: BTO:0003222 xref: FMA:7412 xref: MA:0000423 xref: OpenCyc:Mx4rwS6ki5wpEbGdrcN5Y29ycA xref: SCTID:128517006 xref: UMLS:C1261270 xref: http://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png xref: ncithesaurus:Respiratory_Bronchiole is_a: UBERON:0002186 ! bronchiole relationship: distally_connected_to UBERON:0002173 ! alveolar duct relationship: part_of UBERON:0008874 ! pulmonary acinus relationship: proximally_connected_to UBERON:0002187 ! terminal bronchiole [Term] id: UBERON:0002189 name: outer cortex of kidney namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "kidney outer cortex" EXACT [MA:0001649] synonym: "outer renal cortex" EXACT [] xref: FMA:74285 xref: MA:0001649 is_a: UBERON:0001225 ! cortex of kidney [Term] id: UBERON:0002190 name: subcutaneous adipose tissue namespace: uberon def: "An adipose tissue that is part of a hypodermis." [OBOL:automatic] synonym: "fatty layer of subcutaneous tissue" EXACT [FMA:74315] synonym: "panniculus adiposus (tela subcutanea)" EXACT LATIN [FMA:74315, FMA:TA] synonym: "panniculus adiposus telae subcutaneae" EXACT LATIN [FMA:74315, FMA:TA] xref: BTO:0004042 xref: FMA:74315 xref: MA:0000473 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0002191 name: subiculum namespace: uberon def: "The subiculum is the most inferior component of the hippocampal formation. It lies between the entorhinal cortex and the CA1 subfield of the hippocampus proper. It receives input from CA1 and entorhinal cortical layer III pyramidal neurons and is the main output of the hippocampus. The pyramidal neurons send projections to the nucleus accumbens, septal nuclei, prefrontal cortex, lateral hypothalamus, nucleus reuniens, mammillary nuclei, entorhinal cortex and amygdala. The pyramidal neurons in the subiculum exhibit transitions between two modes of action potential output: bursting and single spiking. The transitions between these two modes is thought to be important for routing information out of the hippocampus. It is the site responsible for ictal activity in some cases of human epilepsy. It has also been implicated in working memory and drug addiction. [WP,unvetted]." [Wikipedia:Subiculum] comment: ABA:SUB is part of the retrohippocampal region, along with the entorhinal area. this is in the hippocampal formation but not the hippocampal region subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus parahippocampalis" RELATED [BTO:0003087] synonym: "subicular cortex" EXACT [NIF_GrossAnatomy:birnlex_1305] synonym: "subiculum cornu ammonis" RELATED [BTO:0003087] synonym: "subiculum hippocampi" EXACT [FMA:74414] xref: ABA:SUB xref: BM:Tel-Cx-SB xref: BTO:0003087 xref: FMA:74414 xref: MA:0000960 xref: NIF_GrossAnatomy:birnlex_1305 xref: SCTID:369097009 xref: UMLS:C0152316 xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Hippocampus_%28brain%29.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Hippocampus_%28brain%29.jpg/200px-Hippocampus_%28brain%29.jpg xref: ncithesaurus:Subiculum is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0002421 ! hippocampal formation property_value: spatially_disjoint_from UBERON:0001953 property_value: spatially_disjoint_from UBERON:0002728 property_value: spatially_disjoint_from UBERON:0004683 property_value: has_relational_adjective "subicular" xsd:string [Term] id: UBERON:0002192 name: ventricular system choroidal fissure namespace: uberon def: "The narrow cleft along the medial wall of the lateral ventricle along the margins of which the choroid plexus is attached; it lies between the upper surface of the thalamus and lateral edge of the fornix in the central part of the ventricle and between the terminal stria and fimbria hippocampi in the inferior horn[ZFA]." [ISBN:0815318960, ZFA:0001075] comment: Usage notes: not to be confused with optic fissure. the choroidal fissure is a subarachnoid space (via subarachnoid fissure in FMA). AO notes: Most ontologies appear to have switched to using less confusing primary terms for optic and choroidal fissues. Still need to check FMA - two possible terms? CARO notes: is this a groove or a space or a line? Structure notes: relate to lateral ventricle? subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chorioid fissure" RELATED [FMA:74512] synonym: "chorioidal fissure" RELATED [FMA:74512] synonym: "choroid fissure" RELATED INCONSISTENT [FMA:74512, TAO:0001075] synonym: "choroid invagination" RELATED [EHDAA2:0000250] synonym: "choroidal fissure" RELATED [FMA:74512] synonym: "choroidal fissure of lateral ventricle" EXACT [FMA:83715] synonym: "lateral ventricle choroid fissure" EXACT [EHDAA2:0000250] synonym: "ventricular system choroid fissure" EXACT [VHOG:0001756] xref: EHDAA2:0000250 xref: EHDAA:7567 xref: EMAPA:17548 xref: EMAPA:17768 xref: FMA:74512 xref: FMA:83715 xref: TAO:0001075 xref: UMLS:C0262212 xref: VHOG:0001756 xref: ZFA:0001075 xref: ncithesaurus:Choroidal_Fissure is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0005358 ! ventricle of nervous system disjoint_from: UBERON:0005412 ! optic fissure [Term] id: UBERON:0002193 name: hemolymphoid system namespace: uberon def: "Anatomical cluster consisting of the hematopoietic system and the lymphoid system, or its analogs." [] synonym: "haemolymphoid system" RELATED [] synonym: "hematolymphoid system" EXACT [] synonym: "lymphomyeloid complex" EXACT [] xref: EHDAA2:0004615 xref: EMAPA:18534 xref: EMAPA:18765 xref: FMA:74562 xref: MA:0000013 is_a: UBERON:0000467 ! anatomical system [Term] id: UBERON:0002194 name: capsule of lymph node namespace: uberon def: "Capsule surrounding lymph node composed of connective tissue with some plain muscle fibers. from its internal surface are given off a number of membranous processes or trabeculae, consisting, in man, of connective tissue, with a small admixture of plain muscle fibers; but in many of the lower animals composed almost entirely of involuntary muscle[WP]." [Wikipedia:Lymph_node_capsule] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lymph node capsule" EXACT [] xref: FMA:74604 xref: MA:0000739 xref: SCTID:327532004 xref: UMLS:C0229699 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bb/Lymphknoten_%28Schwein%29.jpg/200px-Lymphknoten_%28Schwein%29.jpg xref: ncithesaurus:Lymph_Node_Capsule is_a: UBERON:0003893 ! capsule relationship: has_part UBERON:0002384 ! connective tissue relationship: surrounds UBERON:0000029 ! lymph node intersection_of: UBERON:0003893 ! capsule intersection_of: surrounds UBERON:0000029 ! lymph node [Term] id: UBERON:0002195 name: trabecula of lymph node namespace: uberon def: "Membranous process coming from capsule of lymph node[WP]." [Wikipedia:Lymph_node_trabeculae] comment: This class was created automatically from a combination of ontologies synonym: "lymph node trabecula" EXACT [] synonym: "lymph node trabeculum" EXACT [] xref: FMA:74605 xref: MA:0000746 xref: UMLS:C1184179 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Gray598.png/200px-Gray598.png xref: ncithesaurus:Lymph_Node_Trabecula is_a: UBERON:0000440 ! trabecula relationship: part_of UBERON:0000029 ! lymph node [Term] id: UBERON:0002196 name: adenohypophysis namespace: uberon def: "The glandular, anterior lobe of the pituitary gland. The anterior pituitary regulates several physiological processes including stress, growth, and reproduction[WP]. The anterior lobe of the hypophysis (pituitary gland). This lobe contains cells that produce prolactin, growth hormone, thyroid-stimulating hormone, follicle-stimulating hormone and proopiomelanocortin. In contrast to mammalian vertebrates, the adenohypophysis remains in a subepithelial position and there exists no equivalent of Rathke's pouch in zebrafish[ZFA]." [Wikipedia:Adenohypophysis, ZFIN:curator] comment: note that BTO may contain an error here. Also note we may need to introduce taxon-specific developmental relationships: \"While in most basal fish and tetrapods the adenohypophyseal anlagen invaginates to form Rathkebs pouch, in teleost fish the adenohypophyseal placode does not invaginate but rather maintains its initial organization forming a solid structure in the head\"[NBK53175] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior hypophysis" EXACT [ZFA:0001282] synonym: "anterior lobe (hypophysis)" EXACT [] synonym: "anterior lobe of hypophysis" EXACT [] synonym: "anterior lobe of pituitary" EXACT [] synonym: "anterior lobe of pituitary gland" EXACT [] synonym: "anterior pituitary" EXACT [] synonym: "anterior pituitary gland" RELATED [BTO:0000040] synonym: "lobus anterior (glandula pituitaria)" EXACT LATIN [FMA:74627, FMA:TA] synonym: "lobus anterior hypophysis" EXACT LATIN [FMA:74627, FMA:TA] synonym: "pituitary gland, anterior lobe" EXACT [] xref: AAO:0010540 xref: BM:AHy xref: BTO:0000040 xref: BTO:0000496 xref: EFO:0000230 xref: EHDAA2:0000109 xref: EMAPA:17514 xref: FMA:74627 xref: MA:0000177 xref: MESH:A06.407.747.608 xref: NIF_GrossAnatomy:birnlex_1581 xref: SCTID:245532007 xref: TAO:0001282 xref: UMLS:C0032008 xref: VHOG:0000141 xref: ZFA:0001282 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/Gray1181.png/200px-Gray1181.png xref: ncithesaurus:Anterior_Lobe_of_the_Pituitary_Gland is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0009122 ! adenohypophyseal placode relationship: has_part CL:0000295 ! somatotropin secreting cell relationship: has_part CL:0000439 ! prolactin secreting cell relationship: has_part CL:0000467 ! adrenocorticotropic hormone secreting cell relationship: has_part CL:0002312 ! somatotroph relationship: part_of UBERON:0000007 ! pituitary gland property_value: external_definition "Region of the pituitary gland derived from the buccal protrusion consisting of three regions.[AAO]" xsd:string property_value: external_definition "The anterior lobe of the hypophysis (pituitary gland). This lobe contains cells that produce prolactin, growth hormone, thyroid-stimulating hormone, follicle-stimulating hormone and proopiomelanocortin. In contrast to mamalian vertebrates, the adenohypophysis remains in a subepithelial position and there exists no equivalent of Rathke's pouch in zebrafish. Herzog et al, 2004.[TAO]" xsd:string property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002197 name: median eminence of neurohypophysis namespace: uberon def: "The median eminence is part of the inferior boundary for the hypothalamus part of the human brain. A small swelling on the tuber cinereum posterior to the infundibulum - atop the pituitary stalk - the median eminence lies in the area roughly bounded on its posterolateral region by the cerebral peduncles, and on its anterolateral region by the optic chiasm. The median eminence is one of the seven areas of the brain devoid of a blood-brain barrier. [WP,unvetted]." [Wikipedia:Median_eminence] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "eminentia mediana hypothalami" EXACT LATIN [FMA:74634, FMA:TA, Wikipedia:Median_eminence] synonym: "median eminence" EXACT [] synonym: "median eminence of hypothalamus" EXACT [] synonym: "median eminence of posterior lobe of pituitary gland" EXACT [] synonym: "median eminence of tuber cinereum" EXACT [] xref: AAO:0010539 xref: BM:ME xref: BTO:0001954 xref: EHDAA2:0001080 xref: EHDAA:7540 xref: EMAPA:17521 xref: FMA:74634 xref: GAID:463 xref: MA:0000859 xref: MESH:A06.407.747.734.500 xref: NIF_GrossAnatomy:birnlex_925 xref: SCTID:369121004 xref: VHOG:0001179 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/HypothalamicNuclei.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005408 ! circumventricular organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002198 ! neurohypophysis property_value: external_definition "Region of the neurohypophysis.[AAO]" xsd:string property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002198 name: neurohypophysis namespace: uberon def: "comprises the posterior lobe of the pituitary gland and is part of the endocrine system[WP]." [Wikipedia:Neurohypophysis] comment: Editor note - request magnocellular cell from CL. Request oxytocin secretion from GO. Notes: \"The hypophysis or pituitary gland is derived, in part from an ectodermal outpocketing of the stomodeum (Rathke's Pouch) and in part from the floor of the diencephalon\" [http://syllabus.med.unc.edu/courseware/embryo_images/] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "infundibular process" EXACT [FMA:74628] synonym: "lobus nervosus neurohypophysis" EXACT LATIN [FMA:74628, FMA:TA] synonym: "lobus posterior (glandula pituitaria)" EXACT LATIN [FMA:74628, FMA:TA] synonym: "lobus posterior hypophysis" EXACT LATIN [FMA:74628, FMA:TA] synonym: "neural lobe" EXACT [FMA:74628] synonym: "neural lobe of pituitary" EXACT [NIF_GrossAnatomy:birnlex_1586] synonym: "neural lobe of pituitary gland" EXACT [FMA:74628] synonym: "neurohypophysis" EXACT [] synonym: "pituitary gland, posterior lobe" EXACT [] synonym: "posterior lobe of pituitary" EXACT [] synonym: "posterior lobe of pituitary gland" EXACT [FMA:74628] synonym: "posterior pituitary" EXACT [] synonym: "posterior pituitary gland" RELATED [BTO:0000937] xref: AAO:0010537 xref: BM:NY xref: BTO:0000937 xref: EHDAA2:0001271 xref: EHDAA:7536 xref: EMAPA:17519 xref: FMA:74628 xref: MA:0000178 xref: MESH:A06.407.747.734 xref: NIF_GrossAnatomy:birnlex_1586 xref: SCTID:245527006 xref: TAO:0001271 xref: UMLS:C0032009 xref: VHOG:0000142 xref: ZFA:0001271 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b9/Pituitary_gland_representation.PNG/200px-Pituitary_gland_representation.PNG xref: ncithesaurus:Posterior_Lobe_of_the_Pituitary_Gland is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0003296 ! gland of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010134 ! secretory circumventricular organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: capable_of GO:0001992 ! regulation of systemic arterial blood pressure by vasopressin relationship: capable_of GO:0008217 ! regulation of blood pressure relationship: capable_of GO:0030103 ! vasopressin secretion relationship: develops_from UBERON:0002346 ! neurectoderm relationship: develops_from UBERON:0006250 ! infundibular recess of 3rd ventricle relationship: part_of UBERON:0000007 ! pituitary gland property_value: external_definition "The infundibular part of the pituitary gland consisting of two regions.[AAO]" xsd:string property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002199 name: integument namespace: uberon def: "The dermis, epidermis and hypodermis." [Wikipedia:Integument] comment: Usage notes: in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term 'integument' used in invertebrates. Note that the VSAO class appears to include adnexa by its definition. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Hautsystem" RELATED [BTO:0000634] synonym: "dermal system" RELATED [BTO:0000634] synonym: "dermoid system" RELATED [BTO:0000634] synonym: "integumentum commune" EXACT LATIN [FMA:74657, FMA:TA] synonym: "skin" RELATED [] synonym: "tegument" RELATED [BTO:0000634] synonym: "the integument" EXACT [FMA:74657] xref: AAO:0000239 xref: BTO:0000634 xref: EHDAA2:0001844 xref: FMA:74657 xref: MESH:A17.815 xref: TAO:0000368 xref: VSAO:0000029 xref: ZFA:0000368 xref: galen:Integument is_a: UBERON:0003102 ! surface structure relationship: has_part UBERON:0002072 ! hypodermis relationship: has_part UBERON:0002097 ! skin of body relationship: part_of UBERON:0002416 ! integumental system relationship: surrounds UBERON:0000468 ! multi-cellular organism property_value: external_definition "Anatomical system that protects the body from damage, comprising the skin and its appendages.[AAO]" xsd:string property_value: external_definition "Surface structure that is the outer protective covering of the body.[VSAO]" xsd:string property_value: external_definition "The outer protective barrier that separates the animal from its aquatic environment. Le Guellec et al, 2004.[TAO]" xsd:string property_value: has_relational_adjective "integumental" xsd:string property_value: has_relational_adjective "integumentary" xsd:string [Term] id: UBERON:0002200 name: vasculature of head namespace: uberon def: "Vasculature that is part of a head [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adult head vascular network" EXACT [OBOL:automatic] synonym: "adult head vasculature" EXACT [OBOL:automatic] synonym: "cranial vasculature" EXACT [] synonym: "head vascular network" EXACT [OBOL:automatic] synonym: "head vasculature" RELATED [] synonym: "vascular network of adult head" EXACT [OBOL:automatic] synonym: "vascular network of head" EXACT [OBOL:automatic] synonym: "vasculature of adult head" EXACT [OBOL:automatic] xref: EFO:0003656 xref: FMA:74710 xref: TAO:0001267 xref: XAO:0004152 xref: ZFA:0001267 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0002201 name: vasculature of trunk namespace: uberon def: "A vasculature that is part of a trunk [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "torso vascular network" EXACT [OBOL:automatic] synonym: "torso vasculature" EXACT [OBOL:automatic] synonym: "trunk vascular network" EXACT [OBOL:automatic] synonym: "trunk vasculature" EXACT [] synonym: "vascular network of torso" EXACT [OBOL:automatic] synonym: "vascular network of trunk" EXACT [OBOL:automatic] synonym: "vasculature of torso" EXACT [OBOL:automatic] xref: FMA:74712 xref: TAO:0005024 xref: ZFA:0005024 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0002202 name: submucosa of trachea namespace: uberon def: "A submucosa that is part of a trachea." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "submucosa of windpipe" EXACT [OBOL:automatic] synonym: "trachea submucosa" EXACT [] synonym: "tracheal submucosa" EXACT [] synonym: "windpipe submucosa" EXACT [OBOL:automatic] xref: BTO:0002115 xref: FMA:7472 xref: MA:0001860 xref: SCTID:4419000 xref: UMLS:C0225586 xref: ncithesaurus:Trachea_Submucosa is_a: UBERON:0000009 ! submucosa is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004777 ! respiratory system submucosa intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0002203 name: vasculature of eye namespace: uberon def: "Vasculature that is part of the eye region." [OBOL:automatic, https://sourceforge.net/tracker/?func=detail&aid=3489658&group_id=76834&atid=994726] comment: not part of the eye in ZFA. Note this changed to a blood vessel in ZFA subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "eye vascular network" EXACT [OBOL:automatic] synonym: "eye vasculature" RELATED [] synonym: "ocular blood vessel" EXACT [ZFA:0007057] synonym: "ocular vasculature" EXACT [] synonym: "optic vasculature" RELATED [] synonym: "vascular network of eye" EXACT [OBOL:automatic] xref: FMA:74743 xref: SCTID:123846009 xref: TAO:0007057 xref: ZFA:0007057 is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0006876 ! vasculature of organ relationship: part_of UBERON:0000019 ! camera-type eye intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0002204 name: musculoskeletal system namespace: uberon def: "Anatomical system that consists of the muscular and skeletal systems." [VSAO:0000031, Wikipedia:Musculoskeletal_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculo-skeletal system" EXACT [] xref: AAO:0010546 xref: EV:0100139 xref: FMA:7482 xref: GAID:98 xref: MA:0002418 xref: MESH:A02 xref: OpenCyc:Mx4rQRpVNgAKEdyHxgDggVfs8g xref: SCTID:278858007 xref: UMLS:C0026860 xref: VHOG:0001275 xref: VSAO:0000031 xref: XAO:0000168 xref: ncithesaurus:Musculoskeletal_System is_a: UBERON:0000467 ! anatomical system relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: has_function_in GO:0040011 ! locomotion relationship: has_part UBERON:0000383 ! musculature of body disjoint_from: UBERON:0002294 ! biliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "Anatomical system that provides locomotion and physical support to the organism.[AAO]" xsd:string property_value: has_relational_adjective "musculoskeletal" xsd:string property_value: homology_notes "There are more than 50,000 extant vertebrate species, representing over 500 million years of evolution. During that time, the vertebrate musculoskeletal systems have adapted to aquatic, terrestrial, fossorial, and arboreal lifestyles, while simultaneously retaining functionally integrated axial and appendicular skeletal systems.[well established][VHOG]" xsd:string [Term] id: UBERON:0002205 name: manubrium of sternum namespace: uberon def: "broad, upper part of the sternum. Located ventrally with a quadrangular shape, wider superiorly and narrower inferiorly, it articulates with the clavicles and the first two ribs[WP]." [Wikipedia:Manubrium] comment: May be cartilage in some species. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "manubrium" BROAD [] synonym: "manubrium of sternum" EXACT [] synonym: "manubrium sterni" EXACT [EMAPA:18723] synonym: "sternal manubrium" EXACT [MA:0001332] xref: EMAPA:18723 xref: FMA:7486 xref: GAID:247 xref: MA:0001332 xref: MESH:A02.835.232.904.766.442 xref: OpenCyc:Mx4rvXOLAZwpEbGdrcN5Y29ycA xref: SCTID:182014008 xref: UMLS:C1710195 xref: http://upload.wikimedia.org/wikipedia/commons/2/23/Gray116.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/23/Gray116.png/200px-Gray116.png xref: ncithesaurus:Sternal_Manubrium is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0010363 ! endochondral element relationship: develops_from UBERON:0011301 ! manubrium sternum pre-cartilage condensation relationship: part_of UBERON:0000975 ! sternum relationship: serially_homologous_to UBERON:0002208 ! sternebra disjoint_from: UBERON:0006722 ! manubrium of malleus [Term] id: UBERON:0002206 name: mammillary body namespace: uberon def: "The mammilary body is a protrusion at the posterior end of the hypothalamus that contains hypothalamic nuclei[GO]." [Wikipedia:Mammillary_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "corpus mamillare" EXACT LATIN [Wikipedia:Mammillary_body, ZFA:0000334] xref: ABA:MBO xref: FMA:74877 xref: GAID:652 xref: MA:0000174 xref: MESH:A08.186.211.730.385.357.362.500 xref: NIF_GrossAnatomy:birnlex_865 xref: SCTID:279306001 xref: TAO:0000334 xref: UMLS:C0024670 xref: ZFA:0000334 xref: http://upload.wikimedia.org/wikipedia/commons/9/97/Gray1180.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray1180.png/200px-Gray1180.png xref: ncithesaurus:Mamillary_Body is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0002272 ! medial zone of hypothalamus relationship: part_of UBERON:0002770 ! posterior hypothalamic region property_value: spatially_disjoint_from UBERON:0001935 property_value: spatially_disjoint_from UBERON:0002035 property_value: spatially_disjoint_from UBERON:0002634 property_value: spatially_disjoint_from UBERON:0002706 [Term] id: UBERON:0002207 name: xiphoid process namespace: uberon def: "A cartilaginous extension to the distal part of the sternum." [Wikipedia:Xiphoid_process, https://sourceforge.net/tracker/?func=detail&aid=3153001&group_id=76834&atid=1205376] comment: this class may represent a mixed bony-cartilage element, or it may be the superclass of either purely cartilage or purely ossified elements. Taxon notes: usually ossified in the adult human. By age 15 to 29, the xiphoid usually fuses to the body of the sternum with a fibrous joint. Unlike the synovial articulation of major joints, this is non-movable. Much the way the first seven ribs articulate with the sternum, the cartilage in the celiac plexus joins on the xiphoid process, reinforcing it, and indirectly attaches the costal cartilage to the sternum. [WP,unvetted] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "metasternum" RELATED [Wikipedia:Xiphoid_process] synonym: "processus xiphoideus" RELATED LATIN [Wikipedia:Xiphoid_process] synonym: "xiphisternum" EXACT [Wikipedia:Xiphoid_process] synonym: "xiphoid" RELATED [Wikipedia:Xiphoid_process] synonym: "xiphoid process" EXACT [FMA:7488, Wikipedia:Xiphoid_process] synonym: "xiphoid process of sternum" EXACT [] synonym: "xiphoideus" RELATED [Wikipedia:Xiphoid_process] synonym: "xiphosternal junction" RELATED [Wikipedia:Xiphoid_process] synonym: "xyphoid" RELATED [Wikipedia:Xiphoid_process] xref: FMA:7488 xref: MA:0001334 xref: SCTID:272711000 xref: UMLS:C0043356 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray117.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray117.png/200px-Gray117.png xref: ncithesaurus:Xiphoid_Process is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004529 ! anatomical projection relationship: part_of UBERON:0000975 ! sternum relationship: serially_homologous_to UBERON:0002208 ! sternebra [Term] id: UBERON:0002208 name: sternebra namespace: uberon def: "one of the bony segments of the sternum[TFD]." [Wikipedia:Sternebra, http://medical-dictionary.thefreedictionary.com/sternebra] comment: Note that some definitions state that this a segment of the primordial sternum. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sternebral bone" RELATED [EMAPA:18724] xref: EMAPA:18724 xref: FMA:7489 xref: MA:0001333 xref: SCTID:95955004 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/12/Illu_thoracic_cage.jpg/200px-Illu_thoracic_cage.jpg is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003827 ! thoracic segment bone is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0006295 ! sternebral bone pre-cartilage condensation relationship: part_of UBERON:0000975 ! sternum [Term] id: UBERON:0002209 name: fibrous joint namespace: uberon def: "Nonsynovial joint in which the articulating bones or cartilages are connected by ligaments. Examples: sagittal suture, inferior tibiofibular syndesmosis, gomphosis.[FMA]" [FMA:FMA, Wikipedia:Fibrous_joint] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "articulatio fibrosa" EXACT [] synonym: "junctura fibrosa" RELATED LATIN [Wikipedia:Fibrous_joint] xref: AEO:0000178 xref: EHDAA2:0003178 xref: FMA:7492 xref: MA:0000321 xref: SCTID:37772004 xref: TAO:0005156 xref: ZFA:0005156 is_a: UBERON:0011134 ! nonsynovial joint relationship: has_part CL:0002320 ! connective tissue cell property_value: external_definition "A joint where fibrous tissue such as ligament connects two calcified tissues.[TAO]" xsd:string [Term] id: UBERON:0002210 name: syndesmosis namespace: uberon def: "Fibrous joint in which the articulating bones or cartilages of the vertebral column and the limbs as well as articulating ossicles, are connected by skeletal ligaments or membranes. Examples: Intervertebral syndesmosis, inferior tibiofibular joint.[FMA]" [FMA:FMA, Wikipedia:Syndesmosis] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:7494 xref: MA:0001500 xref: SCTID:89358004 is_a: UBERON:0002209 ! fibrous joint is_a: UBERON:0002213 ! cartilaginous joint [Term] id: UBERON:0002211 name: nerve root namespace: uberon comment: we make nerve root continuous_with nerve to avoid inconsistencies with the spatial disjointness constraint between PNS and CNS, with nerves part_of CNS. FMA has segment of nerve with subtypes: segment of sympathetic trunk, nerve root, nerve rootlet, nerve root proper subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0000883 xref: FMA:5981 xref: SCTID:362295007 xref: UMLS:C0228084 xref: ncithesaurus:Nerve_Root is_a: UBERON:0000063 ! organ segment relationship: continuous_with UBERON:0001021 ! nerve [Term] id: UBERON:0002212 name: macula of saccule of membranous labyrinth namespace: uberon def: "The saccule is the smaller of the two vestibular sacs; it is globular in form, and lies in the recessus sphC&ricus near the opening of the scala vestibuli of the cochlea. Its anterior part exhibits an oval thickening, the macula of saccule (or saccular macula), to which are distributed the saccular filaments of the acoustic nerve. [WP,unvetted]." [Wikipedia:Macula_of_saccule] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "macula of membranous labyrinth saccule" EXACT [OBOL:automatic] synonym: "macula of saccule" EXACT [] synonym: "macula of sacculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "macula saccule" EXACT [ZFA:0007000] synonym: "macula sacculi" EXACT LATIN [FMA:74944, FMA:TA, Wikipedia:Macula_of_saccule] synonym: "membranous labyrinth saccule macula" EXACT [OBOL:automatic] synonym: "saccular macula" EXACT [ZFA:0007000] synonym: "saccular macula of membranous labyrinth" EXACT [] synonym: "saccular maculs" RELATED [] synonym: "saccule macula" EXACT [OBOL:automatic] synonym: "saccule of membranous labyrinth macula" EXACT [OBOL:automatic] synonym: "sacculus (labyrinthus vestibularis) macula" EXACT [OBOL:automatic] xref: FMA:74944 xref: MA:0001201 xref: SCTID:362572004 xref: TAO:0007000 xref: UMLS:C0229468 xref: XAO:0004136 xref: ZFA:0007000 xref: ncithesaurus:Macula_of_Saccule is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001854 ! saccule of membranous labyrinth intersection_of: UBERON:0000054 ! macula intersection_of: part_of UBERON:0001854 ! saccule of membranous labyrinth [Term] id: UBERON:0002213 name: cartilaginous joint namespace: uberon def: "Nonsynovial joint in which the articulating bones or cartilages are connected by cartilage. Examples: Spheno-occipital synchondrosis, first sternocostal joint, pubic symphysis.[FMA]" [FMA:FMA, Wikipedia:Cartilaginous_joint] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "articulatio cartilaginea" EXACT [] synonym: "junctura cartilaginea" RELATED LATIN [Wikipedia:Cartilaginous_joint] xref: FMA:7496 xref: MA:0000320 xref: SCTID:58442004 xref: TAO:0005155 xref: ZFA:0005155 is_a: UBERON:0011134 ! nonsynovial joint [Term] id: UBERON:0002214 name: macula of utricle of membranous labyrinth namespace: uberon def: "The portion of the utricle which is lodged in the recess forms a sort of pouch or cul-de-sac, the floor and anterior wall of which are thickened, and form the macula of utricle (or utricular macula), which receives the utricular filaments of the vestibulocochlear nerve. [WP,unvetted]." [Wikipedia:Macula_of_utricle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "macula of membranous labyrinth utricle" EXACT [OBOL:automatic] synonym: "macula of utricle" EXACT [] synonym: "macula of utriculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "macula utricle" EXACT [ZFA:0000030] synonym: "macula utriculi" EXACT LATIN [FMA:74960, FMA:TA, Wikipedia:Macula_of_utricle] synonym: "membranous labyrinth utricle macula" EXACT [OBOL:automatic] synonym: "utricle macula" EXACT [OBOL:automatic] synonym: "utricle of membranous labyrinth macula" EXACT [OBOL:automatic] synonym: "utricular macula" RELATED [] synonym: "utriculus (labyrinthus vestibularis) macula" EXACT [OBOL:automatic] xref: EFO:0003474 xref: FMA:74960 xref: MA:0001203 xref: SCTID:362568003 xref: TAO:0000030 xref: UMLS:C0229451 xref: ZFA:0000030 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Bigotolith.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Bigotolith.jpg/200px-Bigotolith.jpg xref: ncithesaurus:Macula_of_Utricle is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0000054 ! macula intersection_of: part_of UBERON:0001853 ! utricle of membranous labyrinth [Term] id: UBERON:0002215 name: synchondrosis namespace: uberon def: "Cartilaginous joint in which the articulating bones or cartilages are connected by hyaline cartilage. Examples: spheno-occipital synchondrosis, first sternocostal joint.[FMA]" [FMA:FMA, Wikipedia:Synchondrosis] comment: Editor's note: WP considers epiphyseal plates as subtypes of this // consider adding link to hyaline cartilage subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilago epiphysialis" EXACT LATIN [FMA:7497, FMA:TA] synonym: "epiphysial cartilage" RELATED [FMA:7497] synonym: "primary cartilaginous joint" EXACT [FMA:7497] xref: FMA:7497 xref: MA:0001501 xref: SCTID:42903008 xref: http://upload.wikimedia.org/wikipedia/commons/7/76/Gray297.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/76/Gray297.png/200px-Gray297.png is_a: UBERON:0002209 ! fibrous joint is_a: UBERON:0002213 ! cartilaginous joint [Term] id: UBERON:0002216 name: symphysis namespace: uberon def: "Cartilaginous joint in which the articulating bones or cartilages are connected by fibrocartilage. Examples: pubic symphysis, intervertebral symphysis, manubriosternal joint.[FMA]" [FMA:FMA, Wikipedia:Symphysis] comment: Editors note: consider adding fibrocartilage class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "secondary cartilaginous joint" EXACT [FMA:7498] xref: FMA:7498 xref: MA:0001504 xref: SCTID:1584001 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Gray298.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b1/Gray298.png/200px-Gray298.png is_a: UBERON:0002209 ! fibrous joint is_a: UBERON:0002213 ! cartilaginous joint [Term] id: UBERON:0002217 name: synovial joint namespace: uberon def: "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]" [FMA:FMA, Wikipedia:Synovial_joint] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "articulatio synoviale" EXACT [] synonym: "diarthrodial joints" RELATED PLURAL [ZFA:0005153] synonym: "diarthroses" EXACT PLURAL [ZFA:0005153] synonym: "diarthrosis" EXACT [] synonym: "diarthrosis joint" EXACT [] xref: AEO:0000183 xref: EHDAA2:0003183 xref: FMA:7501 xref: MA:0000322 xref: OpenCyc:Mx4rv2bBV5wpEbGdrcN5Y29ycA xref: SCTID:113234001 xref: TAO:0005153 xref: ZFA:0005153 xref: galen:SynovialJoint is_a: UBERON:0000982 ! skeletal joint disjoint_from: UBERON:0011134 ! nonsynovial joint property_value: external_definition "Is a joint that is located at the point of contact of articulating bones allowing movement. The joint has a capsule containing synovial fluid surrounding the articulating bone surfaces.[TAO]" xsd:string [Term] id: UBERON:0002218 name: tympanic ring namespace: uberon def: "a C-shaped membranous bone that provides physical support to the tympanic membrane. The tympanic ring develops sequentially from an initial primordium in the first branchial arch growing in a circumferential fashion around the first pharyngeal cleft into the second branchial arch (Mallo and Gridley, 1996). In most mammals, the tympanic ring exists only during embryonic life, when it coordinates proper development and positioning of the eardrum (see below), and then becomes integrated into the temporal bone[PMID]." [MP:0000030, PMID:11237469] comment: AO notes: in FMA, the tympanic ring is an anatomical line. Howevever PMID:11237469 states: \"the tympanic ring, which serves as support for the tympanic membrane, directs invagination of the first pharingeal cleft ectoderm to form the external acoustic meatus (EAM), which provides the outer layer of the membrane\". Taxon notes: check amphibians - in AAO \"Funnel-like ring structure located lateral to the ventral ramus of the squamosal, beneath the skin; it provides support to the tympanic membrane\". Gene notes: Gsc and Prx1 are essential for tympanic ring development synonym: "ectotympanic ring" RELATED [Wikipedia:Ectotympanic_ring] synonym: "os tympanicum" RELATED [EMAPA:19197] synonym: "tympanic annulus" RELATED [] synonym: "tympanic anulus" RELATED [] synonym: "tympanic membrane annulus" RELATED [] xref: AAO:0000615 xref: EMAPA:19197 xref: MA:0001225 xref: SCTID:95952001 is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0003457 ! head bone relationship: part_of UBERON:0001756 ! middle ear property_value: axiom_lost_from_external_ontology "relationship loss: part_of plectral apparatus (AAO:0000443)[AAO]" xsd:string property_value: external_definition "Funnel-like ring structure located lateral to the ventral ramus of the squamosal, beneath the skin; it provides support to the tympanic membrane.[AAO]" xsd:string [Term] id: UBERON:0002219 name: subfornical organ namespace: uberon def: "Group of neurons situated on the ventral surface of the fornix at the level of the foramen of Monro in the third ventricle (adapted from Wikipedia via NIF)." [NIF_GrossAnatomy:nlx_anat_100314, Wikipedia:Subfornical_organ] comment: Function notes: induces drinking behavior after stimulation with angiotensin II[MESH]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "organum subfornicale" RELATED LATIN [Wikipedia:Subfornical_organ] xref: ABA:SFO xref: FMA:75260 xref: GAID:795 xref: MA:0000940 xref: MESH:A08.713.840 xref: NIF_GrossAnatomy:nlx_anat_100314 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray715.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray715.png/200px-Gray715.png is_a: UBERON:0002663 ! septal nuclear complex is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0010135 ! sensory circumventricular organ property_value: spatially_disjoint_from UBERON:0001934 property_value: spatially_disjoint_from UBERON:0002034 property_value: spatially_disjoint_from UBERON:0002625 property_value: spatially_disjoint_from UBERON:0002689 property_value: spatially_disjoint_from UBERON:0002690 property_value: spatially_disjoint_from UBERON:0007626 [Term] id: UBERON:0002221 name: fontanelle namespace: uberon def: "Anatomical structure that is a membranous gap between bones of the skull[TAO]. In humans: Fontanelles are soft spots on a baby's head which, during birth, enable the bony plates of the skull to flex, allowing the child's head to pass through the birth canal. The ossification of the bones of the skull cause the fontanelles to close over by a child's second birthday. The closures eventually form the sutures of the neurocranium. Although there are the two anterior and posterior fontanelles, there are two more fontanelles of interest, the mastoid fontanelle, and the sphenoidal fontanelle[WP]." [Wikipedia:Fontanelle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "fontanel" EXACT [] synonym: "fontanelles" EXACT PLURAL [TAO:0001738] synonym: "fontanels" EXACT PLURAL [TAO:0001738] synonym: "fonticuli cranii" RELATED LATIN [Wikipedia:Fontanelle] xref: FMA:75438 xref: MA:0001465 xref: SCTID:272681004 xref: TAO:0001738 xref: UMLS:C0224548 xref: ZFA:0005536 xref: http://upload.wikimedia.org/wikipedia/commons/b/b3/Gray197.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Gray197.png/200px-Gray197.png xref: ncithesaurus:Fontanelle is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure relationship: adjacent_to UBERON:0003685 ! cranial suture relationship: part_of UBERON:0001703 ! neurocranium property_value: external_definition "Anatomical structure that is a membranous gap between bones of the skull.[TAO]" xsd:string [Term] id: UBERON:0002222 name: perichondrium namespace: uberon def: "Fibrous connective tissue that surrounds cartilage." [VSAO:0000036, Wikipedia:Perichondrium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cartilage connective tissue" RELATED [] synonym: "perichondral region of cartilage" RELATED [] synonym: "perichondral region of cartilage element" RELATED [] xref: AAO:0010445 xref: BTO:0005089 xref: FMA:75446 xref: MA:0003008 xref: SCTID:11881003 xref: TAO:0001643 xref: VSAO:0000036 xref: XAO:0004049 xref: ZFA:0001634 is_a: UBERON:0002384 ! connective tissue relationship: surrounds UBERON:0007844 ! cartilage element property_value: external_definition "Portion of connective tissue which surrounds cartilage.[TAO]" xsd:string [Term] id: UBERON:0002223 name: endolymphatic sac namespace: uberon def: "From the posterior wall of the saccule a canal, the ductus endolymphaticus, is given off; this duct is joined by the ductus utriculosaccularis, and then passes along the aquaeductus vestibuli and ends in a blind pouch, the endolymphatic sac, on the posterior surface of the petrous portion of the temporal bone, where it is in contact with the dura mater. Studies suggest that the endolymphatic duct and endolymphatic sac perform both absorptive and secretory, as well as phagocytic and immunodefensive,functions . [WP,unvetted]." [Wikipedia:Endolymphatic_sac] comment: Editor's note: EHDAA2 structure is embryonic subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "saccus endolymphaticus" EXACT LATIN [AAO:0000551, Wikipedia:Endolymphatic_sac] xref: AAO:0000551 xref: EHDAA2:0000441 xref: EHDAA:7761 xref: EMAPA:17593 xref: FMA:75639 xref: GAID:887 xref: MA:0001188 xref: MESH:A09.246.631.909.957.360.701 xref: SCTID:279810008 xref: VHOG:0000791 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0006226 ! endolymphatic appendage relationship: part_of UBERON:0001846 ! internal ear property_value: external_definition "The blind extremity of the endolymphatic duct. [TFD][VHOG]" xsd:string property_value: homology_notes "Many adult anamniotes have an endolymphatic duct that opens onto the surface of the head. In other vertebrates, it either is lost or forms a small, deeply seated endolymphatic sac.[well established][VHOG]" xsd:string [Term] id: UBERON:0002224 name: thoracic cavity namespace: uberon def: "Body cavity subdivision which is enclosed by the thoracic wall and the diaphragm[FMA]." [FMA:7565, Wikipedia:Thoracic_cavity] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cavitas thoracis" RELATED LATIN [Wikipedia:Thoracic_cavity] synonym: "cavity of chest" EXACT [] synonym: "cavity of thorax" EXACT [] synonym: "chest cavity" EXACT [] synonym: "pectoral cavity" EXACT [] synonym: "space of thoracic compartment" EXACT [FMA:7565] xref: FMA:7565 xref: GAID:93 xref: MA:0000032 xref: MESH:A01.911.800 xref: OpenCyc:Mx4rmvyleLfEEduAAAACs6hRXg xref: OpenCyc:Mx4rvhU_TpwpEbGdrcN5Y29ycA xref: SCTID:243949006 xref: UMLS:C0230139 xref: http://upload.wikimedia.org/wikipedia/commons/c/ce/Gray846.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/Scheme_body_cavities-en.svg/200px-Scheme_body_cavities-en.svg.png xref: ncithesaurus:Thoracic_Cavity is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0002225 name: costal arch namespace: uberon def: "The costal margin, sometimes referred to as the costal arch, is the medial margin formed by the false ribs -- specifically, from the eighth rib to the tenth rib." [Wikipedia:Costal_margin] comment: todo - split? check part_of relationship synonym: "arcus costae" RELATED [Wikipedia:Costal_margin] synonym: "arcus costalis" RELATED LATIN [Wikipedia:Costal_margin] synonym: "costal margin" RELATED [Wikipedia:Costal_margin] synonym: "subcostal arch" RELATED [Wikipedia:Costal_margin] xref: FMA:7569 xref: FMA:7570 xref: MA:0001396 xref: SCTID:367767002 xref: UMLS:C0230143 xref: http://upload.wikimedia.org/wikipedia/commons/3/3d/Gray115.png xref: ncithesaurus:Costal_Arch is_a: UBERON:0006800 ! anatomical line relationship: part_of UBERON:0002228 ! rib [Term] id: UBERON:0002226 name: basilar membrane of cochlea namespace: uberon def: "a stiff structural element that separates two liquid-filled tubes that run along the coil of the cochlea, the scala media and the scala tympani[WP]." [Wikipedia:Basilar_membrane] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "basilar membrane" EXACT [MA:0001190] synonym: "lamina basilaris ductus cochlearis" RELATED LATIN [Wikipedia:Basilar_membrane] xref: FMA:75706 xref: GAID:872 xref: MA:0001190 xref: MESH:A09.246.631.246.125 xref: NIF_GrossAnatomy:birnlex_2521 xref: SCTID:362574003 xref: UMLS:C0004816 xref: http://upload.wikimedia.org/wikipedia/commons/9/9b/Organ_of_corti.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/0/0c/Cochlea-crosssection.png/250px-Cochlea-crosssection.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Organ_of_corti.svg/200px-Organ_of_corti.svg.png xref: ncithesaurus:Basilar_Membrane is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005764 ! acellular membrane is_a: UBERON:0010313 ! neural crest-derived structure relationship: adjacent_to UBERON:0001864 ! scala tympani relationship: adjacent_to UBERON:0002295 ! scala media relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002227 name: spiral organ of cochlea namespace: uberon def: "The organ of Corti (or spiral organ) is the organ in the inner ear of mammals that contains auditory sensory cells, or 'hair cells.' [WP,unvetted]." [Wikipedia:Organ_of_Corti] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Corti's organ" RELATED [BTO:0001691] synonym: "basilar papilla" RELATED [BTO:0001691] synonym: "cochlear spiral organ" EXACT [] synonym: "organ of Corti" RELATED [] synonym: "organum spirale" EXACT LATIN [Wikipedia:Organ_of_Corti] synonym: "papilla basilaris" EXACT [XAO:0003145] synonym: "spiral organ" EXACT [] synonym: "spiral organ of Corti" EXACT [] xref: AAO:0011018 xref: BTO:0001691 xref: EFO:0001364 xref: EMAPA:19061 xref: EMAPA:19151 xref: EV:0100364 xref: FMA:75715 xref: GAID:772 xref: MA:0001193 xref: NIF_GrossAnatomy:birnlex_2526 xref: SCTID:279841009 xref: UMLS:C0029207 xref: VHOG:0001567 xref: XAO:0003145 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Cochlea-crosssection.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c7/Cochlea-crosssection.png/200px-Cochlea-crosssection.png xref: ncithesaurus:Organ_of_Corti xref: ncithesaurus:Spiral_Organ_of_Corti is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: capable_of GO:0050910 ! detection of mechanical stimulus involved in sensory perception of sound relationship: has_part CL:0000202 ! auditory hair cell relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth property_value: external_definition "A sensory structure in the lagenar portion of an amphibian's membranous labyrinth between the oval and round windows.[AAO]" xsd:string property_value: homology_notes "The auditory hair cells in tetrapods are located in the inner ear in a structure known as the basilar papilla. In mammals this structure (along with some related structure) is called the organ of Corti.[well established][VHOG]" xsd:string [Term] id: UBERON:0002228 name: rib namespace: uberon def: "An intersegmental rod-shaped bone that forms in the peritoneal membrane and attach to the vertebral parapophyses. They protect and support internal organs. In most vertebrates, ribs surround the chest. they enable lungs to expand by expanding the chest, they also protect the lungs, heart, and other internal organs of the thorax. In some animals, especially snakes, ribs may provide support and protection for the entire body." [Wikipedia:Rib, ZFIN:curator] comment: Humans have 24 ribs (12 pairs). The first seven sets of ribs, known as \"true ribs\", are directly attached to the sternum through the costal cartilage. The following five sets are known as \"false ribs\", three of these sharing a common cartilaginous connection to the sternum, while the last two (eleventh and twelfth ribs) are termed floating ribs (costae fluitantes) or vertebral ribs. They are attached to the vertebrae only, and not to the sternum or cartilage coming off of the sternum. Some people are missing one of the two pairs of floating ribs, while others have a third pair. Rib removal is the surgical excision of ribs for therapeutic or cosmetic reasons. In fish, there are often two sets of ribs attached to the vertebral column. One set, the dorsal ribs, are found in the dividing septum between the upper and lower parts of the main muscle segments, projecting roughly sideways from the vertebral column. The second set, of ventral ribs arise from the vertebral column just below the dorsal ribs, and enclose the lower body, often joining at the tips. Not all species possess both types of rib, with the dorsal ribs being most commonly absent. Sharks, for example, have no dorsal ribs, and only very short ventral ribs, while lampreys have no ribs at all. In some teleosts, there may be additional rib-like bones within the muscle mass. Tetrapods, however, only ever have a single set of ribs which are probably homologous with the dorsal ribs of fishes. In the early tetrapods, every vertebra bore a pair of ribs, although those on the thoracic vertebrae are typically the longest. The sacral ribs were stout and short, since they formed part of the pelvis, connecting the backbone to the hip bones.[1] In most subsequent forms, many of these early ribs have been lost, and in living amphibians and reptiles, there is great variation in rib structure and number. For example, turtles have only eight pairs of ribs, which are developed into a bony or cartilagenous carapace and plastron, while snakes have numerous ribs running along the full length of their trunk. Frogs typically have no ribs, aside from a sacral pair, which form part of the pelvis.[1]. In birds, ribs are present as distinct bones only on the thoracic region, although small fused ribs are present on the cervical vertebrae. The thoracic ribs of birds possess a wide projection to the rear; this uncinate process is an attachment for the shoulder muscles.[1]. Mammals usually also only have distinct ribs on the thoracic vertebra, although fixed cervical ribs are also present in monotremes. In marsupials and placental mammals, the cervical and lumbar ribs are found only as tiny remnants fused to the vertebrae, where they are referred to as transverse processes. In general, the structure and number of the true ribs in humans is similar to that in other mammals. Unlike reptiles, caudal ribs are never found in mammals.[1] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal rib" RELATED [] synonym: "pleural rib" RELATED [] synonym: "ribs" RELATED PLURAL [TAO:0000538] xref: AAO:0000545 xref: EFO:0003066 xref: EMAPA:18010 xref: FMA:7574 xref: GAID:245 xref: MA:0000315 xref: MESH:A02.835.232.904.567 xref: OpenCyc:Mx4rvVjNoZwpEbGdrcN5Y29ycA xref: SCTID:302523002 xref: TAO:0000538 xref: UMLS:C0035561 xref: VHOG:0001154 xref: ZFA:0000538 xref: galen:Rib xref: ncithesaurus:Rib is_a: UBERON:0002495 ! long bone is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003827 ! thoracic segment bone is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0006288 ! rib cartilage condensation relationship: in_lateral_side_of UBERON:0003252 ! rib cage relationship: part_of UBERON:0003252 ! rib cage disjoint_from: UBERON:0010898 ! gastralium property_value: external_definition "Endochondral bone that is intersegmental and rod-shaped, forming in the peritoneal membrane and attached to the vertebral parapophyses. Ribs protect and support internal organs.[TAO]" xsd:string property_value: external_definition "Endochondral, rodlike element that articulates with the transverse process and parapophysis (double-headed rib), or with the transverse process only (single-headed rib); it extends into the body wall and provides a site for muscle attachment.[AAO]" xsd:string property_value: has_relational_adjective "costal" xsd:string [Term] id: UBERON:0002229 name: interparietal bone namespace: uberon def: "the bone of the cranium that lies above and anterior to the occipital bone in some mammals." [MP:0000077, Wikipedia:Interparietal_bone] comment: Taxon notes: rarely present in humans[PMID:3654370]. Editor notes: consider splitting classes for inter-parietal and post-parietal. postparietals paired in reptiles, fused in mammals. synonym: "inca bone" RELATED [Wikipedia:Interparietal_bone] synonym: "inter-parietal bone" EXACT [EMAPA:19017] synonym: "interparietal" EXACT [EHDAA:9530] synonym: "os interparietale" RELATED [Wikipedia:Interparietal_bone] synonym: "ossicle of Goethe" RELATED [Wikipedia:Interparietal_bone] synonym: "post-parietal bone" RELATED [VHOG:0001327] synonym: "postparietal" RELATED [VHOG:0001327] synonym: "postparietal bone" RELATED [VHOG:0001327] xref: EHDAA:9530 xref: EMAPA:19017 xref: FMA:75748 xref: MA:0001467 xref: SCTID:369438005 xref: VHOG:0001327 is_a: UBERON:0001474 ! bone element is_a: UBERON:0011164 ! neurocranium bone relationship: anterior_to UBERON:0001676 ! occipital bone relationship: develops_from UBERON:0006251 ! interparietal bone primordium relationship: homologous_to UBERON:0004865 ! actinopterygian parietal bone relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0004339 ! vault of skull property_value: homology_notes "The homologization of cranial bones of actinopterygians with those of sarcopterygians based on the bone names established in human anatomy is favored in order to permit the building of phylogenetic relationship schemes beyond the taxonomic boundaries of osteichthyans (including tetrapods). (...) In actinopterygians, the terms parietal and postparietal bones have to replace the commonly used terms 'frontal' and 'parietal' bones for the two paired bones on the skull roof.[well established][VHOG]" xsd:string [Term] id: UBERON:0002230 name: head of rib namespace: uberon def: "The head of the rib is the end of a rib closest to the vertebral column, with which it articulates with. It is marked by a kidney-shaped articular surface, divided by a horizontal crest into two facets for articulation with the depression formed on the bodies of two adjacent thoracic vertebrae; the upper facet is the smaller; to the crest is attached the interarticular ligament. [WP,unvetted]." [Wikipedia:Head_of_rib] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caput costae" RELATED LATIN [Wikipedia:Head_of_rib] synonym: "rib head" EXACT [] xref: FMA:7575 xref: MA:0001415 xref: SCTID:263358001 xref: UMLS:C0222806 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray122.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5c/Gray122.png/200px-Gray122.png xref: ncithesaurus:Rib_Head is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0005913 ! zone of bone organ relationship: connected_to UBERON:0002412 ! vertebra relationship: part_of UBERON:0010388 ! proximal segment of rib [Term] id: UBERON:0002231 name: body of rib namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "rib body" EXACT [] synonym: "rib shaft" EXACT [] synonym: "shaft of rib" EXACT [] xref: FMA:7577 xref: MA:0001416 xref: SCTID:263361000 xref: UMLS:C0448161 xref: ncithesaurus:Rib_Shaft is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0010388 ! proximal segment of rib [Term] id: UBERON:0002232 name: olfactory gland namespace: uberon def: "Bowman's glands (aka olfactory glands, glands of Bowman) are situated in the olfactory mucosa, beneath the olfactory epithelium, in the lamina propria, a connective tissue also containing fibroblasts, blood vessels, and bundles of fine axons from the olfactory neurons. The structure of the Bowman's glands consists of an acinus in the lamina propria and a secretory duct going out through the olfactory epithelium. Electron microscopy studies show that Bowman's glands contain cells with large secretory vesicles.[2] Bowman's glands might secrete proteins such as Lysozyme, amylase and IgA similarly to serous glands. The exact composition of the secretions from Bowman's glands is unclear, but there is evidence that Bowman's glands do not produce odorant binding protein[WP]." [Wikipedia:Olfactory_glands] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "Bowman's gland" RELATED [] synonym: "glandulae olfactoriae" RELATED LATIN [Wikipedia:Olfactory_glands] synonym: "olfactory gland of Bowman" EXACT [] xref: AAO:0010162 xref: BTO:0001697 xref: FMA:75801 xref: MA:0000287 xref: SCTID:368891001 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray857.png is_a: UBERON:0002530 ! gland is_a: UBERON:0012278 ! nasal gland relationship: part_of UBERON:0001997 ! olfactory epithelium property_value: external_definition "Multicellular mucous glands of the olfactory epithelium, present only in adults.[AAO]" xsd:string [Term] id: UBERON:0002233 name: tectorial membrane of cochlea namespace: uberon def: "The tectorial membrane (TM) is one of two acellular gels in the cochlea of the inner ear, the other being the basilar membrane (BM). The TM is located above the sulcus spiralis internus and the spiral organ of Corti and extends along the longitudinal length of the cochlea parallel to the BM. Radially the TM is divided into three zones, the limbal, middle and marginal zones. Of these the limbal zone is the thinnest (transversally) and overlies the auditory teeth of Huschke with its inside edge attached to the spiral limbus. The marginal zone is the thickest (transversally) and is divided from the middle zone by Hensen's Stripe. It overlies the sensory inner hair cells and electrically-motile outer hair cells of the organ of Corti and during acoustic stimulation stimulates the inner hair cells through fluid coupling, and the outer hair cells via direct connection to their tallest stereocilia." [Wikipedia:Tectorial_membrane_%28cochlea%29] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tectorial membrane" EXACT [] synonym: "tectorial membrane of spiral organ of cochlea" EXACT [] xref: FMA:75805 xref: GAID:876 xref: MA:0001199 xref: MESH:A09.246.631.246.292.906 xref: NIF_GrossAnatomy:birnlex_2531 xref: SCTID:368960006 xref: UMLS:C0039432 xref: ncithesaurus:Tectorial_Membrane is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005764 ! acellular membrane is_a: UBERON:0010313 ! neural crest-derived structure relationship: attaches_to UBERON:0002276 ! lamina of spiral limbus relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002234 name: proximal phalanx of manus namespace: uberon def: "A proximal phalanx that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "hand proximal phalanx" EXACT [MA:0001395] synonym: "proximal manual phalanx" EXACT [] synonym: "proximal phalanx of finger" EXACT [FMA:75816] synonym: "proximal phalanx of fore digit" EXACT [] synonym: "proximal phalanx of hand" EXACT [] synonym: "proximal phalanx of manual digit" EXACT [] xref: FMA:75816 xref: MA:0001395 xref: SCTID:181986000 xref: SCTID:361325003 xref: UMLS:C0730117 xref: ncithesaurus:Proximal_Phalanx_of_Hand is_a: UBERON:0001436 ! phalanx of manus relationship: proximally_connected_to UBERON:0002374 ! metacarpal bone intersection_of: UBERON:0004302 ! proximal phalanx intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0002235 name: tubercle of rib namespace: uberon def: "The tubercle of a rib is an eminence on the posterior surface, at the junction of the neck and body of the rib, and nearer the lower than the upper border. It consists of an articular and a non-articular portion. The articular portion, the lower and more medial of the two, presents a small, oval surface for articulation with the end of the transverse process of the lower of the two vertebrae to which the head is connected. The non-articular portion is a rough elevation, and affords attachment to the ligament of the tubercle. The tubercle is much more prominent in the upper than in the lower ribs[WP]." [Wikipedia:Tubercle_(rib)] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "rib tubercle" EXACT [] xref: FMA:7583 xref: MA:0001417 xref: SCTID:361104005 xref: UMLS:C0222809 xref: ncithesaurus:Rib_Tubercle is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002231 ! body of rib relationship: part_of UBERON:0010388 ! proximal segment of rib intersection_of: UBERON:0005813 ! tubercle intersection_of: part_of UBERON:0002231 ! body of rib disjoint_from: UBERON:0011652 ! dorsal head of rib [Term] id: UBERON:0002236 name: costal cartilage namespace: uberon def: "The costal cartilages are bars of hyaline cartilage which serve to prolong the ribs forward and contribute very materially to the elasticity of the walls of the thorax. [WP,unvetted]." [Wikipedia:Costal_cartilage] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilagines costales" RELATED LATIN [Wikipedia:Costal_cartilage] synonym: "cartilago costalis" RELATED [BTO:0001721] synonym: "sternal cartilage" RELATED [BTO:0001721] xref: BTO:0001721 xref: FMA:7591 xref: MA:0000106 xref: OpenCyc:Mx4rwP1g3pwpEbGdrcN5Y29ycA xref: SCTID:244703004 xref: UMLS:C0222787 xref: http://upload.wikimedia.org/wikipedia/commons/c/cc/Gray315.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cc/Gray315.png/200px-Gray315.png xref: ncithesaurus:Costal_Cartilage is_a: UBERON:0002418 ! cartilage tissue is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002228 ! rib [Term] id: UBERON:0002237 name: true rib namespace: uberon def: "A rib that is ventrally connected to the sternum." [ISBN10:0073040584, Wikipedia:True_ribs] synonym: "costa vera" EXACT [] synonym: "costae verae" RELATED PLURAL [Wikipedia:True_ribs] xref: FMA:7592 xref: MA:0001419 xref: OpenCyc:Mx4rv4-iWJwpEbGdrcN5Y29ycA xref: SCTID:368044009 xref: http://upload.wikimedia.org/wikipedia/commons/3/3d/Gray115.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3d/Gray115.png/200px-Gray115.png intersection_of: UBERON:0002228 ! rib intersection_of: connected_to UBERON:0000975 ! sternum disjoint_from: UBERON:0002238 ! false rib [Term] id: UBERON:0002238 name: false rib namespace: uberon def: "A rib that is not directly ventrally connected to the sternum." [ISBN10:0073040584, Wikipedia:False_rib] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "asternal ribs" RELATED [Wikipedia:False_ribs] synonym: "costa spuria" EXACT [] synonym: "costae spuriae" RELATED PLURAL [Wikipedia:False_ribs] xref: FMA:7594 xref: MA:0001398 xref: OpenCyc:Mx4rwLzzTZwpEbGdrcN5Y29ycA xref: SCTID:368045005 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3d/Gray115.png/200px-Gray115.png is_a: UBERON:0002228 ! rib [Term] id: UBERON:0002239 name: floating rib namespace: uberon def: "A rib that is not connected to sternum or sternal cartilage." [ISBN10:0073040584, Wikipedia:Floating_rib] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "costa fluitante" EXACT LATIN [] synonym: "costae fluctuantes" RELATED LATIN [Wikipedia:Floating_rib] synonym: "costae fluitantes" RELATED LATIN [Wikipedia:Floating_rib] synonym: "vertebral rib" EXACT [] xref: FMA:7595 xref: MA:0001399 xref: OpenCyc:Mx4rvaPCWZwpEbGdrcN5Y29ycA xref: SCTID:368046006 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Skeleton_woman_back.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f7/Skeleton_woman_back.png/200px-Skeleton_woman_back.png is_a: UBERON:0002238 ! false rib [Term] id: UBERON:0002240 name: spinal cord namespace: uberon def: "Elongated, approximately cylindrical part of the central nervous system that lies in the vertebral canal and from which the spinal nerves emerge." [OMD:spinal+cord, Wikipedia:Spinal_cord] comment: TODO: add superclass to unify with VNC? subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "medulla spinalis" RELATED LATIN [BTO:0001279, Wikipedia:Spinal_cord] synonym: "spinal cord structure" RELATED [ZFA:0000075] synonym: "spinal medulla" RELATED [BTO:0001279] xref: AAO:0010151 xref: BM:SpC xref: BTO:0001279 xref: EFO:0000110 xref: EHDAA2:0001255 xref: EHDAA:2863 xref: EMAPA:17577 xref: EMAPA:17700 xref: EV:0100316 xref: FMA:7647 xref: GAID:695 xref: MA:0000216 xref: MAT:0000183 xref: MESH:A08.186.854 xref: MIAA:0000183 xref: NIF_GrossAnatomy:birnlex_1709 xref: OpenCyc:Mx4rvVjjk5wpEbGdrcN5Y29ycA xref: SCTID:180959008 xref: TAO:0000075 xref: UMLS:C0037925 xref: VHOG:0000601 xref: XAO:0000020 xref: ZFA:0000075 xref: http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg xref: ncithesaurus:Spinal_Cord is_a: UBERON:0000489 ! cavitated compound organ is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005174 ! back organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003076 ! posterior neural tube relationship: has_developmental_contribution_from UBERON:0003853 ! spinal cord neural crest relationship: has_part CL:0005000 ! spinal cord interneuron relationship: immediate_transformation_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001137 ! dorsum property_value: spatially_disjoint_from UBERON:0000955 property_value: external_definition "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002241 name: chondrocranium namespace: uberon def: "Endoskeletal elements that encase the brain, nose, inner ear[cjm]. that part of the neurocranium formed by endochondral ossification and comprising the bones of the base of the skull[TFD]." [Wikipedia:Chondrocranium, http://medical-dictionary.thefreedictionary.com/chondrocranium] comment: Editor/AO notes: we follow the standard evolutionary classification and treat this as endoskeletal. This means what MA calls 'chondrocranium' must in fact be neurocranium, as it includes parts of the dermatocranium (e.g. frontal, parietal). Taxon notes: covers the brain dorsally in chondrichthyans subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "calvarium" RELATED [MA:0000317] synonym: "neurocranium" RELATED INCONSISTENT [MA:0000317] xref: AAO:0010169 xref: EHDAA2:0000243 xref: EMAPA:17681 xref: TAO:0001424 xref: VHOG:0000288 xref: ZFA:0001424 is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system relationship: overlaps UBERON:0001703 ! neurocranium property_value: external_definition "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[AAO]" xsd:string property_value: external_definition "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[TAO]" xsd:string property_value: has_relational_adjective "chondrocranial" xsd:string [Term] id: UBERON:0002242 name: nucleus pulposus namespace: uberon def: "a jelly-like connective tissue in the middle of the spinal disc. It is the remnant of the notochord. It functions to distribute hydraulic pressure in all directions within each disc under compressive loads. The nucleus pulposus consists of chondrocytes, collagen fibrils, and proteoglycan aggrecans that have hyaluronic long chains which attract water. Attached to each hyaluronic chain are side chains of chondroitin sulfate and keratan sulfate[WP]." [Wikipedia:Nucleus_pulposus] comment: AO notes: we group two FMA classes together subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus propulsus" RELATED [Wikipedia:Nucleus_pulposus] synonym: "nucleus propulsus of intervertebral disk" RELATED [Wikipedia:Nucleus_pulposus] synonym: "nucleus pulposus (diskus intervertebralis)" EXACT [FMA:13550] synonym: "nucleus pulposus of intervertebral disk" RELATED [FMA:13550] synonym: "pulpy nucleus" EXACT [] xref: BTO:0003626 xref: FMA:13550 xref: FMA:76703 xref: MA:0000112 xref: SCTID:316586000 xref: http://upload.wikimedia.org/wikipedia/commons/d/d9/Cervical_vertebra_english.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d9/Cervical_vertebra_english.png/200px-Cervical_vertebra_english.png is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0002328 ! notochord relationship: part_of UBERON:0001066 ! intervertebral disk [Term] id: UBERON:0002243 name: cutaneous vein namespace: uberon def: "one of a number of veins in the subcutaneous tissue that empty into deep veins" [http://www.thefreedictionary.com/cutaneous+vein] comment: AO notes: GAT in FMA xref: FMA:76720 xref: MA:0002098 xref: UMLS:C1185726 xref: ncithesaurus:Cutaneous_Vein is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0002244 name: premaxilla namespace: uberon alt_id: UBERON:0002253 def: "One of the bones of the upper jaw situated between and in front of the maxillae[VHOG]." [VHOG:0000426, Wikipedia:Incisive_bone, Wikipedia:Premaxilla] comment: _:comment___:_:@___:_:source__EHDAA2___:.__Editors note: requires checking embryonic vs adult; isa fetal organ part in FMA; adult bone of upper jaw in AAO and ZFA; split. Note that we have loops if we add develops_from UBERON:0005620 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "incisive bone" RELATED [Wikipedia:Incisive_bone] synonym: "os incisivum" RELATED [Wikipedia:Premaxilla] synonym: "premaxilla bone" RELATED [Wikipedia:Premaxilla] synonym: "premaxillae" EXACT PLURAL [] synonym: "premaxillary" EXACT [PHENOSCAPE:ad] synonym: "premaxillary bone" RELATED [Wikipedia:Premaxilla] xref: AAO:0000461 xref: EHDAA:6962 xref: EHDAA:8033 xref: EMAPA:17641 xref: EMAPA:17933 xref: EMAPA:19033 xref: FMA:76869 xref: FMA:77231 xref: MA:0001493 xref: SCTID:308884009 xref: TAO:0000567 xref: VHOG:0000426 xref: ZFA:0000567 xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Gray160.png is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0011597 ! bone of upper jaw relationship: develops_from UBERON:0011628 ! early premaxilla relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0003277 ! skeleton of upper jaw relationship: part_of UBERON:0011156 ! facial skeleton property_value: axiom_lost_from_external_ontology "relationship loss: overlaps inter-premaxillary joint (TAO:0001950)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps mesethmoid-premaxillary joint (TAO:0001676)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps premaxillary-maxillary joint (TAO:0002260)[TAO]" xsd:string property_value: external_definition "Dermal bone that forms the anteriormost element of the upper jaw. It articulates with the maxilla posterodorsally and its antimere medially. The premaxilla is paired.[TAO]" xsd:string property_value: external_definition "One of the bones of the upper jaw situated between and in front of the maxillae. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: external_definition "Paired, intramembranous bones located at the anterior end of the skull; they form the anterior-most segment of the maxillary arch.[AAO]" xsd:string property_value: homology_notes " (...) in all higher vertebrates a premaxilla is present (...) (reference 1); Although the presence of a tooth-bearing outer buccal arcade (premaxilla, maxilla, dentary) is cited as a common character of Osteichthyes, dipnoans lack all three bones (...) (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002245 name: hemisphere of cerebellum namespace: uberon def: "A paired regions of the cerebellum that lie outside and lateral to the central vermis[MP]. The cerebellum consists of three parts, a median and two lateral, which are continuous with each other, and are substantially the same in structure. The median portion is constricted, and is called the vermis, from its annulated appearance which it owes to the transverse ridges and furrows upon it; the lateral expanded portions are named the hemispheres. The lateral hemisphere is considered the portion of the cerebellum to develop most recently. [WP,unvetted]." [MP:0009959, Wikipedia:Cerebellar_hemisphere] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebellar hemisphere" EXACT [] synonym: "cerebellar hemispheres" RELATED PLURAL [] synonym: "cerebellum hemisphere" EXACT [] synonym: "hemisphere of cerebellum [H II - H X]" EXACT [] synonym: "hemispherium cerebelli" RELATED LATIN [Wikipedia:Cerebellar_hemisphere] synonym: "hemispherium cerebelli [hII-hX]" EXACT LATIN [FMA:76925, FMA:TA] xref: ABA:HEM xref: FMA:76925 xref: MA:0000200 xref: NIF_GrossAnatomy:birnlex_1575 xref: SCTID:362411002 xref: UMLS:C0228465 xref: http://upload.wikimedia.org/wikipedia/commons/4/43/CerebellumDiv.png xref: ncithesaurus:Hemisphere_of_the_Cerebellum is_a: UBERON:0002749 ! regional part of cerebellar cortex is_a: UBERON:0002946 ! regional part of cerebellum relationship: in_lateral_side_of UBERON:0002037 ! cerebellum relationship: part_of UBERON:0002129 ! cerebellar cortex [Term] id: UBERON:0002246 name: dorsal thoracic nucleus namespace: uberon def: "." [Wikipedia:Clarke's_column] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Clarke's column" EXACT [] synonym: "Clarke's nucleus" EXACT [] synonym: "Stilling-Clarke's column" EXACT [] synonym: "Stilling-Clarke's nucleus" EXACT [] synonym: "nucleus thoracicus posterior" EXACT LATIN [FMA:77023, FMA:TA] synonym: "posterior thoracic nucleus" EXACT [] synonym: "spinal cord dorsal nucleus" EXACT [] xref: FMA:77023 xref: MA:0001121 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: UBERON:0002247 name: uterine horn namespace: uberon def: "The uterine horns are the points where the uterus and the fallopian tubes meet. It is one of the points of attachment for the round ligament of uterus (the other being the mons pubis). The uterine horns are far more prominent in other animals than they are in humans[WP,unvetted]." [Wikipedia:Uterine_horns] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0004235 xref: EMAPA:18985 xref: FMA:77053 xref: MA:0000393 xref: SCTID:245480007 xref: http://upload.wikimedia.org/wikipedia/commons/2/27/Illu_female_pelvis.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/27/Illu_female_pelvis.jpg/200px-Illu_female_pelvis.jpg is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure relationship: connected_to UBERON:0003889 ! fallopian tube relationship: in_lateral_side_of UBERON:0000995 ! uterus relationship: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0002248 name: transverse pericardial sinus namespace: uberon def: "The passage between the venous and arterial mesocardia bi.e., between the aorta and pulmonary artery in front and the superior vena cava behind. Also, the sinus that forms in the pericardial cavity where the dorso-mesentary pericardium reside.[WP,unvetted]." [Wikipedia:Pericardial_sinus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Thiele's canal" EXACT [FMA:77132] synonym: "transverse sinus" BROAD [] synonym: "transverse sinus of pericardial cavity" EXACT [FMA:77132] xref: EHDAA2:0002077 xref: EHDAA:796 xref: EMAPA:16214 xref: FMA:77132 xref: MA:0001880 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Gray489.png/200px-Gray489.png is_a: UBERON:0010279 ! pericardial sinus relationship: part_of UBERON:0005601 ! dorsal mesocardium [Term] id: UBERON:0002249 name: median artery namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:77142 xref: MA:0001999 xref: UMLS:C0687034 xref: ncithesaurus:Median_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0002250 name: popliteal artery namespace: uberon def: "In human anatomy, the popliteal artery is defined as the extension of the 'superficial' femoral artery after passing through the adductor canal and adductor hiatus above the knee. The termination of the popliteal artery is its bifurcation into the anterior tibial artery and posterior tibial artery. The popliteal artery, through numerous smaller branches, supplies blood to the knee joint and muscles in the thigh and calf. It is accompanied, along its length, by the popliteal vein. [WP,unvetted]." [Wikipedia:Popliteal_artery] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria poplitea" RELATED LATIN [Wikipedia:Popliteal_artery] xref: FMA:77155 xref: GAID:504 xref: MA:0002021 xref: MESH:A07.231.114.681 xref: OpenCyc:Mx4rvduV6pwpEbGdrcN5Y29ycA xref: SCTID:181350008 xref: UMLS:C0032649 xref: http://upload.wikimedia.org/wikipedia/commons/a/a2/Popliteal_artery.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a2/Popliteal_artery.png/200px-Popliteal_artery.png xref: ncithesaurus:Popliteal_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0002251 name: iliocostalis muscle namespace: uberon def: "The iliocostalis is the muscle immediately lateral to the longissimus that is the nearest to the furrow that separates the epaxial muscles from the hypaxial. It lies very deep to the fleshy portion of the serratus ventralis (serratus anterior). [WP,unvetted]." [Wikipedia:Iliocostalis] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "iliocostal muscle" EXACT [] synonym: "iliocostalis" EXACT [] synonym: "lateral column of erector spinae" RELATED [] synonym: "musculus iliocostalis" EXACT LATIN [Wikipedia:Iliocostalis] xref: FMA:77177 xref: MA:0002319 xref: SCTID:244854008 xref: UMLS:C0224304 xref: http://upload.wikimedia.org/wikipedia/commons/8/89/Iliostalis.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/89/Iliostalis.png/200px-Iliostalis.png xref: ncithesaurus:Iliocostal_Muscle is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0001076 ! spinous process of vertebra relationship: has_muscle_origin UBERON:0003690 ! sacrum relationship: innervated_by UBERON:0006839 ! posterior ramus of spinal nerve relationship: part_of UBERON:0002462 ! erector spinae muscle group [Term] id: UBERON:0002252 name: splenius namespace: uberon def: "." [Wikipedia:Splenius] comment: Muscle of neck in NA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "splenius muscle" EXACT [] xref: FMA:77180 xref: MA:0002382 xref: UMLS:C1185944 xref: ncithesaurus:Splenius is_a: UBERON:0004518 ! muscle of vertebral column [Term] id: UBERON:0002254 name: thyroglossal duct namespace: uberon def: "The thyroglossal duct is an embryological anatomical structure forming an open connection between the initial area of development of the thyroid gland and its final position. The thyroid gland starts developing in the oropharynx in the fetus and descends to its final position taking a path through the tongue, hyoid bone and neck muscles. The connection between its original position and its final position is the thyroglossal duct. This duct normally atrophies and closes off before birth but can remain open in some people. [WP,unvetted]." [Wikipedia:Thyroglossal_duct] comment: FMA treats this as vestigial subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ductus thyreoglossus" EXACT [Wikipedia:Thyroglossal_duct] synonym: "ductus thyroglossalis" RELATED LATIN [Wikipedia:Thyroglossal_duct] xref: EMAPA:17070 xref: EMAPA:18833 xref: FMA:77274 xref: MA:0000130 xref: SCTID:308822005 xref: UMLS:C0231104 xref: VHOG:0000746 xref: http://upload.wikimedia.org/wikipedia/commons/f/fd/Illu08_thyroid.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fd/Illu08_thyroid.jpg/200px-Illu08_thyroid.jpg xref: ncithesaurus:Thyroglossal_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0006590 ! vestigial embryonic structure relationship: part_of UBERON:0002046 ! thyroid gland property_value: external_definition "An embryonic duct extending between the thyroid primordium and the posterior tongue. [TFD][VHOG]" xsd:string property_value: homology_notes "A duct, called the thyroglossal duct in mammals, is considered to be characteristic of thyroid development. The thyroglossal duct, degenerating in many species during late development, marks the way the thyroid primordium relocates during embryonic development from the pharynx to its position deep in the cervical mesenchyme. We cannot exclude that the duct of the endostyle and the thyroglossal duct may have evolved independently, but as they both represent a more or less persistent connection of the organ to the pharynx, it is likely that they are homologous structures.[well established][VHOG]" xsd:string [Term] id: UBERON:0002255 name: vomeronasal organ namespace: uberon def: "The vomeronasal organ (VNO), or Jacobson's organ, is an auxiliary olfactory sense organ that is found in many animals. It was discovered by Ludwig Jacobson in 1813. During embryological development, it forms from the nasal (olfactory) placode, at the anterior edge of the neural plate. It is a chemoreceptor organ which is completely separated from the nasal cavity the majority of the time, being enclosed in a separate bony or cartilaginous capsule which opens into the base of the nasal cavity. It is a tubular crescent shape and split into two pairs, separated by the nasal septum. It is the first processing stage of the accessory olfactory system, after which chemical stimuli go to the accessory olfactory bulb, then to targets in the amygdala and hypothalamus. The vomeronasal organ is mainly used to detect pheromones, chemical messengers that carry information between individuals of the same species, hence is sometimes referred to as the 'sixth sense. ' The VNO has two separate types of neuronal receptors, V1R and V2R, which are seven-transmembrane receptors that are coupled to G proteins. The receptors are distinct from each other and form the large family of receptors in the main olfactory system. Evidence shows that the VNO responds to nonvolatile cues which stimulate the receptor neurons. Information is then transferred to the accessory olfactory bulb as well as other centres of the brain such as the anterior part of the hypothalamus. Its presence in many animals has been widely studied and the importance of the vomeronasal system to the role of reproduction and social behavior (through influence on anterior hypothalamus) has been shown in many studies. Its presence and functionality in humans is widely controversial, though most studies agree the organ regresses during fetal development. [WP,unvetted]." [Wikipedia:Vomeronasal_organ] comment: Taxon notes: Generally formed only in tetrapods; lungfish have rudimentary VN organs; true VN organs are not normally found in recent fishes, birds, aquatic reptiles, aquatic mammals (Bertmar 1980). Humans: Its presence in many animals has been widely studied and the importance of the vomeronasal system to the role of reproduction and social behavior (through influence on anterior hypothalamus) has been shown in many studies. Its presence and functionality in humans was controversial, though most studies agree the organ regresses during fetal development. Many genes essential for VNO function in animals (such as TRPC2) are non-functional in humans (Liman ER. Use it or lose it: molecular evolution of sensory signaling in primates. Pflugers Arch. 2006;453(2):125-31.) subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Jacobson's organ" EXACT [XAO:0000272] synonym: "VNO" RELATED [VHOG:0000665] synonym: "organ of Jacobsen" RELATED [] synonym: "organon vomeronasale" EXACT [] synonym: "organum vomeronasale" EXACT LATIN [BTO:0002608, Wikipedia:Vomeronasal_organ] xref: AAO:0000997 xref: BTO:0002608 xref: EFO:0001934 xref: EHDAA2:0002211 xref: EHDAA:7865 xref: EMAPA:17612 xref: FMA:77280 xref: GAID:354 xref: MA:0000289 xref: MESH:A04.531.591.940 xref: SCTID:361346007 xref: VHOG:0000665 xref: XAO:0000272 xref: http://upload.wikimedia.org/wikipedia/commons/8/84/Gray51.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Gray51.png/200px-Gray51.png is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: capable_of GO:0043695 ! detection of pheromone relationship: develops_from UBERON:0003050 ! olfactory placode relationship: has_developmental_contribution_from UBERON:0009714 ! intermaxillary process relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0009954 ! vomeronasal system property_value: external_definition "An organ thought to supplement the olfactory system in receiving pheromonic communication. The sensory part of the organ is in two long, thin sacs, situated on either side of the nasal septum at its base. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) the vomeronasal organ is known only in some tetrapods. It is absent in most turtles, crocodiles, birds, some bats, and aquatic mammals. In amphibians, it is in a recessed area off the main nasal cavity. (...) In mammals possesing this organ, it is an isolated area of olfactory membrane within the nasal cavity that is usually connected to the mouth via the nasopalatine duct (reference 1); The opinions concerning the presence and functioning of the vomeronasal organ in humans are controversial. The vomeronasal cavities appear early in human foetuses. (...) Historical examination of the nasal septum revealed the presence of vomeronasal cavities in approximately 70% of adults. In contrast to the situation in other mammals, the organ is not supported by a rigid tube of bone or cartilage (reference 2); (...) the best evidence for the homology of the human VNO to that of other primates (and of mammals in general) is ontogenetic in nature, based on a common embryonic origin from a thickening (vomeronasal primordium) on the medial aspect of each olfactory pit (reference 3); (...) suggesting that lungfish possess a region homologous to the accessory olfactory bulb of tetrapods. Based on these results, it seems appropriate to refer to the recess epithelium as a primordium of the vomeronasal organ (reference 4). [debated][VHOG]" xsd:string [Term] id: UBERON:0002256 name: dorsal horn of spinal cord namespace: uberon def: "the pronounced, dorsolaterally oriented ridge of grey matter in each lateral half of the spinal cord[MP]. the dorsal (more towards the back) grey matter of the spinal cord. It receives several types of sensory information from the body, including light touch, proprioception, and vibration. This information is sent from receptors of the skin, bones, and joints through sensory neurons whose cell bodies lie in the dorsal root ganglion[WP]. The dorsal region of the mature spinal cord contains neurons that process and relay sensory input[GO]." [GO:0021516, MP:0006282, Wikipedia:Posterior_horn_of_spinal_cord, https://sourceforge.net/tracker/?group_id=36855&atid=440764] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cornu dorsale" EXACT [ZFA:0000649] synonym: "cornu posterius medullae spinalis" EXACT LATIN [Wikipedia:Posterior_horn_of_spinal_cord] synonym: "dorsal gray column of spinal cord" EXACT [FMA:256530] synonym: "dorsal gray horn" EXACT [NIF_GrossAnatomy:birnlex_2667] synonym: "dorsal gray matter of spinal cord" EXACT [FMA:256530] synonym: "dorsal grey column of spinal cord" EXACT [] synonym: "dorsal grey horn" BROAD [EMAPA:18574] synonym: "dorsal horn" BROAD [ZFA:0000649] synonym: "dorsal horn spinal cord" EXACT [ZFA:0000649] synonym: "dorsal region of mature spinal cord" BROAD [] synonym: "dorsal region of spinal cord" BROAD [] synonym: "dorsal spinal cord" BROAD [] synonym: "posterior gray column of spinal cord" EXACT [FMA:256530] synonym: "posterior gray horn of spinal cord" EXACT [FMA:256530] synonym: "posterior grey column of spinal cord" EXACT [] synonym: "posterior horn of spinal cord" EXACT [Wikipedia:Posterior_horn_of_spinal_cord] synonym: "spinal cord dorsal horn" EXACT [] synonym: "spinal cord dorsal horns" RELATED PLURAL [] synonym: "spinal cord posterior horn" EXACT [NIF_GrossAnatomy:birnlex_2667] xref: BM:SpC-DH xref: EMAPA:18574 xref: FMA:256530 xref: MA:0001119 xref: NIF_GrossAnatomy:birnlex_2667 xref: SCTID:180961004 xref: TAO:0000649 xref: UMLS:C0228575 xref: VHOG:0001287 xref: ZFA:0000649 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Medulla_spinalis_-_Section_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Medulla_spinalis_-_Section_-_English.svg/200px-Medulla_spinalis_-_Section_-_English.svg.png xref: ncithesaurus:Dorsal_Horn_of_the_Spinal_Cord is_a: UBERON:0001948 ! regional part of spinal cord relationship: has_function_in GO:0019230 ! proprioception relationship: has_part CL:0000101 ! sensory neuron relationship: in_lateral_side_of UBERON:0002315 ! gray matter of spinal cord relationship: part_of UBERON:0002315 ! gray matter of spinal cord [Term] id: UBERON:0002257 name: ventral horn of spinal cord namespace: uberon def: "the ventral grey column of the spinal cord[MP]. The neurons of the ventral region of the mature spinal cord participate in motor output[GO]." [GO:0021517, MP:0005112, Wikipedia:Anterior_horn_of_spinal_cord, https://sourceforge.net/tracker/?group_id=36855&atid=440764] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior column" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "anterior column of the spinal cord" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "anterior gray column of spinal cord" EXACT [FMA:256541] synonym: "anterior gray horn of spinal cord" EXACT [FMA:256541] synonym: "anterior grey column of spinal cord" EXACT [] synonym: "anterior horn" EXACT [NIF_GrossAnatomy:birnlex_2668] synonym: "anterior horn (spinal cord)" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "cornu anterius medullae spinalis" RELATED LATIN [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "spinal cord anterior horn" EXACT [NIF_GrossAnatomy:birnlex_2668] synonym: "spinal cord ventral horn" EXACT [] synonym: "ventral gray column of spinal cord" EXACT [FMA:256541] synonym: "ventral gray matter of spinal cord" EXACT [FMA:256541] synonym: "ventral grey column of spinal cord" EXACT [] synonym: "ventral grey horn" EXACT [NIF_GrossAnatomy:birnlex_2668] synonym: "ventral horn spinal cord" EXACT [ZFA:0000702] synonym: "ventral horns spinal cord" RELATED PLURAL [VHOG:0001288] synonym: "ventral region of spinal cord" EXACT [] synonym: "ventral spinal cord" EXACT [] xref: EMAPA:18575 xref: FMA:256541 xref: MA:0001134 xref: NIF_GrossAnatomy:birnlex_2668 xref: SCTID:279443000 xref: TAO:0000702 xref: UMLS:C0228590 xref: VHOG:0001288 xref: ZFA:0000702 xref: ncithesaurus:Ventral_Horn_of_the_Spinal_Cord is_a: UBERON:0001948 ! regional part of spinal cord relationship: has_part CL:0000100 ! motor neuron relationship: in_lateral_side_of UBERON:0002315 ! gray matter of spinal cord relationship: part_of UBERON:0002315 ! gray matter of spinal cord property_value: external_definition "The anterior horn of the spinal cord (or anterior cornu, or anterior column, or ventral horn) is the ventral (front) grey matter section of the spinal cord. The anterior horn contains motor neurons that affect the axial muscles while the posterior horn receives information regarding touch and sensation. The anterior horn is where the cell bodies of alpha motorneurons are located[Wikipedia:Anterior_horn_of_spinal_cord]." xsd:string [Term] id: UBERON:0002258 name: dorsal funiculus namespace: uberon def: "The portion of the medulla spinalis which lies between the posterolateral sulcus and the posterior median sulcus is named the posterior funiculus. This area includes the dorsal columns (also called the posterior columns) which contains the fasciculus gracilis and, higher in the body, the fasciculus cuneatus, which are separated by a partition of glial cells. Histologically, these two fasciculi are on other sides of the dorsal intermediate sulcus. [WP,unvetted]." [Wikipedia:Dorsal_funiculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal funiculus of spinal cord" EXACT [] synonym: "dorsal white column of spinal cord" EXACT [FMA:77461] synonym: "funiculus dorsalis" EXACT [ZFA:0000501] synonym: "funiculus posterior medullae spinalis" EXACT LATIN [FMA:77461, FMA:TA] synonym: "posterior funiculus" EXACT [] synonym: "posterior funiculus of spinal cord" EXACT [] synonym: "posterior white column of spinal cord" EXACT [FMA:77461] xref: FMA:77461 xref: SCTID:362432005 xref: TAO:0000501 xref: ZFA:0000501 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Medulla_spinalis_-_Section_-_English.svg/200px-Medulla_spinalis_-_Section_-_English.svg.png is_a: UBERON:0006127 ! funiculus of spinal cord relationship: in_lateral_side_of UBERON:0002318 ! white matter of spinal cord [Term] id: UBERON:0002259 name: corpora quadrigemina namespace: uberon def: "In the brain, the corpora quadrigemina (Latin for 'quadruplet bodies') are the four colliculibtwo inferior, two superiorblocated on the tectum the dorsal aspect of the midbrain. The corpora quadrigemina are reflex centers involving vision and hearing. [WP,unvetted]. Two pairs of colliculi on the dorsal surface of the midbrain composed of white matter externally and gray matter within, the superior pair containing correlation centers for optic reflexes and the inferior pair containing correlation centers for auditory reflexes[BTO]." [BTO:0001710, Wikipedia:Corpora_quadrigemina] comment: editor note: this section needs worked on for pan-vertebrate consistency. for now we include a mammal specific definition, even though the child terms are applicable across vertebrates subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "colliculi" EXACT [MP:0000899] synonym: "corpora quadrigemina" EXACT [] synonym: "set of colliculi" RELATED [FMA:242157] xref: BTO:0001710 xref: EV:0100244 xref: FMA:242157 xref: GAID:574 xref: MA:0002567 xref: MESH:A08.186.211.132.659.237 xref: SCTID:361579006 xref: UMLS:C0010087 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Gray709.png/200px-Gray709.png xref: ncithesaurus:Corpora_Quadrigemina is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0006777 ! tectal plate relationship: part_of UBERON:0002314 ! midbrain tectum [Term] id: UBERON:0002260 name: ventral root of spinal cord namespace: uberon def: "The efferent motor root of a spinal nerve. At its distal end, the ventral root joins with the dorsal root to form a mixed spinal nerve." [Wikipedia:Anterior_root_of_spinal_nerve] comment: FMA:77516 xref is a 'general anatomical term'. We xref both to ensure equivalence. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior nerve root" RELATED [Wikipedia:Anterior_root_of_spinal_nerve] synonym: "anterior root" RELATED [Wikipedia:Anterior_root_of_spinal_nerve] synonym: "anterior root of spinal nerve" RELATED [FMA:5979] synonym: "anterior spinal root" EXACT [BTO:0000865] synonym: "motor root of spinal nerve" RELATED [FMA:5979] synonym: "radix anterior (nervus spinalis)" RELATED [FMA:5979] synonym: "radix anterior nervi spinalis" RELATED LATIN [Wikipedia:Anterior_root_of_spinal_nerve] synonym: "radix motoria (nervus spinalis)" RELATED [FMA:5979] synonym: "ventral root" BROAD [NIF_GrossAnatomy:nlx_anat_20090209] synonym: "ventral root of spinal nerve" RELATED [FMA:5979] synonym: "ventral spinal nerve root" RELATED [FMA:5979] xref: BTO:0000865 xref: FMA:5979 xref: FMA:77516 xref: NIF_GrossAnatomy:nlx_anat_20090209 xref: TAO:0000705 xref: UMLS:C0205956 xref: ZFA:0000705 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Spinal_nerve.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Spinal_nerve.svg/200px-Spinal_nerve.svg.png xref: ncithesaurus:Ventral_Nerve_Root is_a: UBERON:0009623 ! spinal nerve root [Term] id: UBERON:0002261 name: dorsal root of spinal cord namespace: uberon def: "In anatomy and neurology, the dorsal root (or posterior root) is the afferent sensory root of a spinal nerve. At the distal end of the dorsal root is the dorsal root ganglion, which contains the neuron cell bodies of the nerve fibres conveyed by the root. If the dorsal root of a spinal nerve were severed it would lead to numbness in certain areas of the body. The lateral division of the dorsal root contains lightly myelinated and unmyelinated axons of small diameter. These transmit pain and temperature sensation from the body. These fibers cross through the anterior white commissure to form the Anterior lateral system in the lateral funiculus. The medial division of the dorsal root contains myelinated axons of larger diameter. These transmit information of discriminative touch, pressure, vibration, and conscious proprioception originating from spinal levels C2 through S5. These fibers are pushed in towards the posterior medial sulcus to form the fasciculus gracilis and the fasciculus cuneatus. [WP,unvetted]." [Wikipedia:Posterior_root_of_spinal_nerve] comment: FMA xref is 'general anatomical term'. We xref both to ensure equivalence. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal root" EXACT [ZFA:0000652] synonym: "dorsal root of spinal nerve" EXACT [FMA:5980] synonym: "dorsal spinal nerve root" EXACT [FMA:5980] synonym: "posterior root of spinal nerve" EXACT [Wikipedia:Posterior_root_of_spinal_nerve] synonym: "radix dorsalis" EXACT [ZFA:0000652] synonym: "radix posterior" RELATED LATIN [Wikipedia:Posterior_root_of_spinal_nerve] synonym: "radix posterior (nervus spinalis)" EXACT [FMA:5980] synonym: "radix sensoria (nervus spinalis)" EXACT [FMA:5980] synonym: "sensory root of spinal nerve" EXACT [FMA:5980] xref: BTO:0000360 xref: FMA:5980 xref: NIF_GrossAnatomy:nlx_anat_20090208 xref: SCTID:362436008 xref: TAO:0000652 xref: UMLS:C0205955 xref: ZFA:0000652 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Spinal_nerve.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Spinal_nerve.svg/200px-Spinal_nerve.svg.png xref: ncithesaurus:Dorsal_Root_of_the_Spinal_Nerve is_a: UBERON:0009623 ! spinal nerve root relationship: has_function_in GO:0019230 ! proprioception [Term] id: UBERON:0002262 name: celiac ganglion namespace: uberon def: "The celiac ganglia are two large irregularly shaped masses of nerve tissue in the upper abdomen. Part of the sympathetic subdivision of the autonomic nervous system (ANS), the two celiac ganglia are the largest ganglia in the ANS, and they innervate most of the digestive tract. They have the appearance of lymph glands and are placed on either side of the midline in front of the crura of the diaphragm, close to the suprarenal glands (also called adrenal glands). The ganglion on the right side is placed behind the inferior vena cava. They are sometimes referred to as the semilunar ganglia or the solar ganglia. [WP,unvetted]." [Wikipedia:Celiac_ganglia] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "coeliac ganglion" RELATED [] xref: EHDAA2:0000266 xref: EHDAA:8946 xref: EMAPA:19321 xref: FMA:77570 xref: MA:0001158 xref: SCTID:362492008 xref: UMLS:C0007571 xref: http://upload.wikimedia.org/wikipedia/commons/6/63/Gray848.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/63/Gray848.png/200px-Gray848.png xref: ncithesaurus:Coeliac_Ganglion is_a: UBERON:0003964 ! prevertebral ganglion [Term] id: UBERON:0002263 name: lentiform nucleus namespace: uberon def: "The lentiform nucleus or lenticular nucleus comprises the putamen and the globus pallidus within the basal ganglia. It is a large, cone-shaped mass of gray matter just lateral to the internal capsule. [WP,unvetted]. The part of the corpus striatum somewhat resembling a biconvex lens, divided into an external, larger, lateral part (putamen) and an internal, smaller, lighter colored medial part (globus pallidus), which is in turn subdivided into a smaller, medial, and a larger, lateral part by the medial medullary lamina[BTO]." [BTO:0002250, Wikipedia:Lentiform_nucleus] comment: AO notes: the EMAPA class is unclear. Editor notes: TODO - add parts subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lenticular nucleus" RELATED [BTO:0002250] synonym: "nucleus lenticularis" EXACT [BTO:0002250] synonym: "nucleus lentiformis" EXACT LATIN [BTO:0002250, Wikipedia:Lentiform_nucleus] xref: BTO:0002250 xref: EMAPA:18208 xref: EMAPA:19147 xref: EV:0100186 xref: FMA:77615 xref: MA:0000896 xref: OpenCyc:Mx4rvvyH2ZwpEbGdrcN5Y29ycA xref: SCTID:279319002 xref: UMLS:C0162342 xref: http://upload.wikimedia.org/wikipedia/commons/f/fc/Gray741.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fc/Gray741.png/200px-Gray741.png xref: ncithesaurus:Lenticular_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0001874 ! putamen relationship: has_part UBERON:0001875 ! globus pallidus relationship: part_of UBERON:0000369 ! corpus striatum relationship: part_of UBERON:0005403 ! ventral striatum [Term] id: UBERON:0002264 name: olfactory bulb namespace: uberon def: "A bulbous anterior projection of the olfactory lobe that is the place of termination of the olfactory nerves and is especially well developed in lower vertebrates (as fishes)[BTO]. Segment of neural tree organ which is continuous with a set of olfactory nerves and an olfactory tract. In most vertebrates, the olfactory bulb is the most rostral (forward) part of the brain. In humans, however, the olfactory bulb is on the inferior (bottom) side of the brain. The olfactory bulb is supported and protected by the cribriform plate which in mammals, separates it from the olfactory epithelium, and which is perforated by olfactory nerve axons. The bulb is divided into two distinct structures, the main olfactory bulb, and the accessory olfactory bulb[WP]." [BTO:0000961, Wikipedia:Olfactory_bulb] comment: Note that in uberon 'main olfactory bulb' is a separate class, but some ontologies may treat this as partially synonymous. The distinction may only make sense in tetrapods with a vomeronasal organ (olfactory nerves terminate in OB in fishes and in main OB in tetrapods - Butler and Hodos). Development notes: the olfactory bulbs develop as bilateral evaginations from a region of the prosencephalic neural plate intercalated between the septal and the cortical anlagen (Cobos et al. 2001b, Rubenstein et al. 1998). Comparing the structure of the olfactory bulb among vertebrate species, such as the leopard frog and the lab mouse, reveals that they all share the same fundamental layout(WP). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bulbus olfactorius" EXACT LATIN [Wikipedia:Olfactory_bulb] synonym: "olfactory lobe" RELATED [ZFA:0000402] xref: AAO:0010165 xref: ABA:OLF xref: BM:Tel-OB xref: BTO:0000961 xref: EHDAA2:0004705 xref: EV:0100173 xref: FMA:77624 xref: GAID:633 xref: MA:0000194 xref: MESH:A08.186.211.577.699.573 xref: NIF_GrossAnatomy:birnlex_1137 xref: SCTID:279394006 xref: TAO:0000402 xref: UMLS:C0028936 xref: VHOG:0000033 xref: XAO:0004180 xref: ZFA:0000402 xref: http://upload.wikimedia.org/wikipedia/commons/f/f9/1543,Vesalius%27OlfactoryBulbs.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/1543%2CVesalius%27OlfactoryBulbs.jpg/200px-1543%2CVesalius%27OlfactoryBulbs.jpg xref: ncithesaurus:Olfactory_Bulb is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: capable_of GO:0007608 ! sensory perception of smell relationship: has_part CL:0000626 ! olfactory granule cell relationship: in_lateral_side_of UBERON:0001893 ! telencephalon relationship: part_of UBERON:0005366 ! olfactory lobe property_value: spatially_disjoint_from UBERON:0001950 property_value: spatially_disjoint_from UBERON:0002421 property_value: external_definition "Part of the rostral part of the cerebrum where axons of olfactory cells from the nasal mucosa terminate. Projects onto olfactory parts of pallium via olfactory tracts" xsd:string property_value: external_definition "Part of the telencephalon comprised of anterior outgrowths of either of the cerebral hemispheres in which the olfactory nerve exits.[AAO]" xsd:string property_value: external_definition "Segment of neural tree organ which is continuous with a set of olfactory nerves and an olfactory tract[FMA:77624]." xsd:string property_value: external_definition "The part of the forebrain in which the olfactory nerves end and the olfactory tracts originate. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG]" xsd:string [Term] id: UBERON:0002265 name: olfactory tract namespace: uberon def: "White matter tract that contains projections from the olfactory bulb to the olfactory cortex (Maryann Martone)" [ISBN10:0471888893, NIF_GrossAnatomy:birnlex_1663, Wikipedia:Olfactory_tract] comment: AO notes: sources differ as to whether this is part of the bulb (BTO), or cortex (MA). We represent this as the connection between the two, and is thus entirely part of neither, yet overlaps both. Note that the NIF class has been retired subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "olfactory peduncle" RELATED [BTO:0003647] synonym: "tractus olfactorius" RELATED LATIN [BTO:0003647, Wikipedia:Olfactory_tract] xref: BTO:0003647 xref: FMA:77626 xref: MA:0000975 xref: NIF_GrossAnatomy:birnlex_1663 xref: SCTID:362356008 xref: UMLS:C0162435 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png xref: ncithesaurus:Olfactory_Tract relationship: part_of UBERON:0001893 ! telencephalon intersection_of: UBERON:0007702 ! tract of brain intersection_of: overlaps UBERON:0002264 ! olfactory bulb intersection_of: overlaps UBERON:0002894 ! olfactory cortex property_value: external_definition "A nervelike, white band composed primarily of nerve fibres originating from the mitral cells and tufted cells of the olfactory bulb but also containing the scattered cells of the anterior olfactory nucleus[BTO:0003647]." xsd:string property_value: external_definition "The olfactory tract is a bundle of axons connecting the mitral and tufted cells of the olfactory bulb to several target regions in the brain, including piriform cortex, amygdala, and entorhinal cortex. It is a narrow white band, triangular on coronal section, the apex being directed upward. It lies in the olfactory sulcus on the inferior surface of the frontal lobe, and divides posteriorly into two striC&, a medial olfactory stria and a lateral olfactory stria.[Wikipedia]." xsd:string property_value: external_definition "Tract of brain which is continuous with olfactory bulb and the cerebral cortex.[FMA]" xsd:string property_value: external_definition "White matter tract that contains projections from the olfactory bulb to the olfactory cortex (Maryann Martone)" xsd:string [Term] id: UBERON:0002266 name: anterior olfactory nucleus namespace: uberon def: "The anterior olfactory nucleus (AON; also called the anterior olfactory cortex) is a portion of the forebrain of vertebrates. [WP,unvetted]." [Wikipedia:Anterior_olfactory_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "AON" RELATED [BTO:0003649] synonym: "anterior olfactory cortex" RELATED [BTO:0003649] synonym: "nucleus olfactorius anterior" RELATED LATIN [Wikipedia:Anterior_olfactory_nucleus] synonym: "nucleus retrobulbaris [a8]" EXACT LATIN [FMA:77628, FMA:TA] synonym: "retrobulbar nucleus [a8]" EXACT [] xref: ABA:AON xref: BM:Tel-OAN xref: BTO:0003649 xref: EV:0100174 xref: FMA:77628 xref: MA:0000968 xref: NIF_GrossAnatomy:birnlex_1085 xref: UMLS:C0175225 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Human_brainstem_anterior_view_2_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b1/Human_brainstem_anterior_view_2_description.JPG/200px-Human_brainstem_anterior_view_2_description.JPG xref: ncithesaurus:Anterior_Olfactory_Nucleus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0002264 ! olfactory bulb relationship: part_of UBERON:0002894 ! olfactory cortex property_value: spatially_disjoint_from UBERON:0002590 property_value: spatially_disjoint_from UBERON:0002893 property_value: spatially_disjoint_from UBERON:0004069 [Term] id: UBERON:0002267 name: laterodorsal tegmental nucleus namespace: uberon def: "The laterodorsal tegmental nucleus (or lateroposterior tegmental nucleus) is a nucleus situated in the brainstem, spanning the midbrain tegmentum and the pontine tegmentum. [WP,unvetted]." [Wikipedia:Laterodorsal_tegmental_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateroposterior tegmental nucleus" EXACT [] synonym: "nucleus tegmentalis posterolateralis" EXACT LATIN [FMA:77654, FMA:TA, Wikipedia:Laterodorsal_tegmental_nucleus] xref: ABA:LDT xref: BTO:0004016 xref: FMA:77654 xref: MA:0001016 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons property_value: spatially_disjoint_from UBERON:0002047 property_value: spatially_disjoint_from UBERON:0002148 property_value: spatially_disjoint_from UBERON:0002587 property_value: spatially_disjoint_from UBERON:0003004 [Term] id: UBERON:0002268 name: olfactory organ namespace: uberon comment: note - fma general anatomical term. xao has no subtypes (but Johnstons organ develops from this). An olfactory organ overlaps with the olfactory system, because some parts of the nose (e.g. nasal skeleton) are parts of the skeletal system, which is spatially disjoint subset: functional_classification ! functional_classification synonym: "olfactory neuroepithelium" RELATED [BTO:0001772] synonym: "organ olfactus" RELATED [BTO:0001772] synonym: "organum olfactorium" RELATED [BTO:0001772] xref: AAO:0010180 xref: BTO:0001772 xref: FMA:77659 xref: VHOG:0000287 xref: XAO:0000273 relationship: overlaps UBERON:0005725 ! olfactory system intersection_of: UBERON:0000020 ! sense organ intersection_of: has_function_in GO:0007608 ! sensory perception of smell [Term] id: UBERON:0002269 name: pupillary membrane namespace: uberon def: "The pupillary membrane in mammals exists in the fetus as a source of blood supply for the lens. It normally atrophies from the time of birth to the age of four to eight weeks." [Wikipedia:Persistent_pupillary_membrane] comment: This class was created automatically from a combination of ontologies xref: FMA:77663 xref: MA:0001293 is_a: UBERON:0000158 ! membranous layer is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010312 ! immature eye relationship: located_in UBERON:0001771 ! pupil relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001769 ! iris [Term] id: UBERON:0002270 name: hyaloid artery namespace: uberon def: "The hyaloid artery is a branch of the ophthalmic artery, which is itself a branch of the internal carotid artery. It is contained within the optic stalk of the eye and extends from the optic disc through the vitreous humor to the lens. Usually fully regressed before birth, its purpose is to supply nutrient to the developing lens in the growing fetus. During the tenth week of development in humans (time varies depending on species), the lens grows independent of a blood supply and the hyaloid artery usually regresses. Its proximal portion remains as the central artery of the retina. Regression of the hyaloid artery leaves a clear central zone through the vitreous called the hyaloid canal or Cloquet's canal. Cloquet's canal is named after the man who first described it, French physician Jules Germain Cloquet (1790b1883). Occasionally the artery may not fully regress, resulting in the condition persistent hyaloid artery. More commonly, small remnants of the artery may remain. Free remnants can sometimes be seen as \"floaters\". An anterior remnant of the hyaloid artery can be seen in some people as Mittendorf's dot, a small pinpoint-like scar on the posterior surface of the lens. A posterior remnant may be seen where the artery left the optic disc, and is known as Bergmeister's papilla." [Wikipedia:Hyaloid_artery] comment: ZFA def is: Artery that is internal to the eye; this is more general than the human-centric definition here.. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Cloquet's canal" RELATED [Wikipedia:Hyaloid_artery] synonym: "Cloquets canal" RELATED [Wikipedia:Hyaloid_artery] synonym: "arteria hyaloidea" RELATED LATIN [Wikipedia:Hyaloid_artery] synonym: "central artery of retina" RELATED [EMAPA:19242] xref: EHDAA2:0004072 xref: EMAPA:19242 xref: FMA:77670 xref: SCTID:308790003 xref: TAO:0005045 xref: VHOG:0001478 xref: XAO:0004155 xref: ZFA:0005045 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Schematic_diagram_of_the_human_eye_en.svg/200px-Schematic_diagram_of_the_human_eye_en.svg.png is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0001637 ! artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0003499 ! brain blood vessel is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010312 ! immature eye relationship: develops_into UBERON:0006010 ! hyaloid canal relationship: part_of UBERON:0003098 ! optic stalk relationship: part_of UBERON:0005492 ! hyaloid vessel property_value: external_definition "Artery that is internal to the eye. Isogai et al. 2001.[TAO]" xsd:string [Term] id: UBERON:0002271 name: periventricular zone of hypothalamus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "hypothalamus periventricular zone" EXACT [] xref: ABA:PVZ xref: FMA:77682 xref: MA:0000846 xref: VHOG:0000623 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0002272 name: medial zone of hypothalamus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "hypothalamus medial zone" EXACT [] xref: ABA:MEZ xref: FMA:77683 xref: MA:0000837 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0002273 name: lateral zone of hypothalamus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "hypothalamus lateral zone" EXACT [] xref: ABA:LZ xref: FMA:77684 xref: MA:0000833 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0002274 name: perifornical nucleus namespace: uberon comment: This class was created automatically from a combination of ontologies xref: FMA:77688 xref: MA:0000836 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002273 ! lateral zone of hypothalamus [Term] id: UBERON:0002275 name: reticular formation namespace: uberon comment: note that this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:77719 xref: MESH:A08.186.211.132.772 xref: SCTID:361552007 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Gray701.png/200px-Gray701.png is_a: UBERON:0000073 ! regional part of nervous system [Term] id: UBERON:0002276 name: lamina of spiral limbus namespace: uberon def: "The osseous spiral lamina consists of two plates of bone, and between these are the canals for the transmission of the filaments of the acoustic nerve. On the upper plate of that part of the lamina which is outside the vestibular membrane, the periosteum is thickened to form the limbus spiralis (or limbus laminC& spiralis), this ends externally in a concavity, the sulcus spiralis internus, which represents, on section, the form of the letter C. [WP,unvetted]." [Wikipedia:Limbus_laminae_spiralis] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "limbus lamina spiralis" EXACT [MA:0001191] synonym: "limbus laminae spiralis" EXACT [FMA:77721] synonym: "spiral limbus" RELATED [] synonym: "spiral limbus lamina" EXACT [FMA:77721] xref: FMA:77721 xref: MA:0001191 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a5/Gray930.png/200px-Gray930.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002277 name: spiral sulcus namespace: uberon def: "A concavity in the floor of the cochlear duct, formed by either the overhanging vestibular lip (inner spiral sulcus) or the spiral prominence and the spiral organ (outer spiral sulcus)." [] synonym: "sulcus spiralis" EXACT [] xref: FMA:77744 xref: MA:0001195 is_a: UBERON:0000093 ! sulcus relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002278 name: perilymphatic space namespace: uberon def: "The fluid-filled space separating the membranous from the osseous labyrinth." [Dorlands_Medical_Dictionary:MerckSource] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Retzius space" RELATED [] synonym: "spatium perilymphaticum" RELATED [] xref: BTO:0002083 xref: FMA:77745 xref: SCTID:362576001 xref: ZFA:0005459 is_a: UBERON:0002553 ! anatomical cavity relationship: located_in UBERON:0001839 ! bony labyrinth relationship: part_of UBERON:0001846 ! internal ear relationship: surrounds UBERON:0001849 ! membranous labyrinth [Term] id: UBERON:0002279 name: vestibular aqueduct namespace: uberon def: "At the hinder part of the medial wall of the vestibule is the orifice of the vestibular aqueduct, which extends to the posterior surface of the petrous portion of the temporal bone. It transmits a small vein, and contains a tubular prolongation of the membranous labyrinth, the ductus endolymphaticus, which ends in a cul-de-sac between the layers of the dura mater within the cranial cavity. [WP,unvetted]." [Wikipedia:Vestibular_aqueduct] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "aqueductus vestibuli" RELATED LATIN [Wikipedia:Vestibular_aqueduct] xref: FMA:77821 xref: GAID:885 xref: MA:0001186 xref: MESH:A09.246.631.909.957 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray921.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray921.png/200px-Gray921.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005744 ! cranial conduit is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0005236 ! osseus labyrinth vestibule [Term] id: UBERON:0002280 name: otolith namespace: uberon def: "Acellular structure composed of calcium carbonate located in the otolith organ." [Wikipedia:Otolith, ZFIN:curator] comment: Currently represented as part of the otolith membrane, but they may also be considered to be embedded in this membrane subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "immature otolith" RELATED [] synonym: "immature otoliths" RELATED [] synonym: "otoconia" EXACT PLURAL [] synonym: "otoconial crystal" RELATED [MP:0002894] synonym: "otoconium" EXACT [] synonym: "otoliths" EXACT PLURAL [] synonym: "statoconium" EXACT [] synonym: "statolith" RELATED [] xref: ANISEED:777311 xref: ANISEED:874485 xref: FMA:77826 xref: SCTID:368951003 xref: TAO:0001621 xref: UMLS:C0029894 xref: ZFA:0001617 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Bigotolith.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Bigotolith.jpg/200px-Bigotolith.jpg xref: ncithesaurus:Otolith is_a: UBERON:0000476 ! acellular anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: composed_primarily_of CHEBI:3311 ! calcium carbonate relationship: has_function_in GO:0009590 ! detection of gravity relationship: part_of UBERON:0002519 ! otolithic membrane property_value: axiom_lost_from_external_ontology "relationship loss: develops_from immature otolith (TAO:0000139)[TAO]" xsd:string property_value: external_definition "Portion of organism substance composed of calcium carbonate located in the otolith organ.[TAO]" xsd:string property_value: has_relational_adjective "otoconial" xsd:string property_value: has_relational_adjective "otolithic" xsd:string [Term] id: UBERON:0002281 name: vestibular membrane of cochlear duct namespace: uberon def: "a membrane inside the cochlea of the inner ear. It separates scala media from scala vestibuli. Together with the basilar membrane it creates a compartment in the cochlea filled with endolymph, which is important for the function of the organ of Corti. It primarily functions as a diffusion barrier, allowing nutrients to travel from the perilymph to the endolymph of the membranous labyrinth. Histologically, the membrane is composed of two layers of flattened epithelium, separated by a basal lamina. Its structure suggests that its function is transport of fluid and electrolytes." [Wikipedia:Reissner's_membrane] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Reissner's membrane" EXACT [FMA:77829] synonym: "membrana vestibularis ductus cochlearis" EXACT [MP:0006021] synonym: "paries vestibularis ductus cochlearis" EXACT [MP:0006021] synonym: "superior wall of cochlear duct" EXACT [FMA:77829] synonym: "vestibular membrane" EXACT [MA:0001200, MP:0006021] synonym: "vestibular membrane of Reissner" EXACT [FMA:77829] synonym: "vestibular wall of cochlear duct" EXACT [MP:0006021] xref: FMA:77829 xref: MA:0001200 xref: SCTID:362575002 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/0/0c/Cochlea-crosssection.png/250px-Cochlea-crosssection.png is_a: UBERON:0000094 ! membrane organ is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006585 ! vestibular organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: adjacent_to UBERON:0001863 ! scala vestibuli relationship: adjacent_to UBERON:0002295 ! scala media relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002282 name: stria vascularis of cochlear duct namespace: uberon def: "The upper portion of the spiral ligament contains numerous capillary loops and small blood vessels, and is termed the stria vascularis. It produces endolymph for the scala media, one of the three fluid-filled compartments of the cochlea. [WP,unvetted]." [Wikipedia:Stria_vascularis] comment: AO notes: represented as a wall in FMA. MESH def implies part of spiral ligament but better represented as adjacency / overlaps subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "psalterial cord" EXACT [MP:0000048] synonym: "stria vascularis" EXACT [] synonym: "stria vascularis ductus cochlearis" RELATED LATIN [BTO:0001819] synonym: "stria vascularis of cochlea" EXACT [FMA:77832] synonym: "vascular stria of cochlear duct" RELATED [BTO:0001819] synonym: "vascular stripe of cochlear duct" EXACT [MP:0000048] xref: BTO:0001819 xref: EFO:0001644 xref: FMA:77832 xref: GAID:875 xref: MA:0001198 xref: MESH:A09.246.631.246.292.876 xref: NIF_GrossAnatomy:birnlex_2525 xref: SCTID:279842002 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c7/Cochlea-crosssection.png/200px-Cochlea-crosssection.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0002283 name: nail matrix namespace: uberon def: "Portion of tissue (or germinal matrix) upon which the nail rests, the part of the nail bed that extends beneath the nail root and contains nerves, lymph and blood vessels. The matrix is responsible for the production of the cells that become the nail plate. The width and thickness of the nail plate is determined by the size, length, and thickness of the matrix, while the shape of the fingertip itself determines if the nail plate is flat, arched, or hooked. The matrix will continue to grow as long as it receives nutrition and remains in a healthy condition. As new nail plate cells are incubated, they emerge from the matrix round and white to push older nail plate cells forward; and in this way yet older cells become compressed, flat, and translucent, making the pink colour of the capillaries in the nail bed below visible[WP]." [UBERON:cjm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "keratogenous membrane" EXACT [Wikipedia:Nail_(anatomy)#Parts_of_the_nail] synonym: "matrix unguis" EXACT [Wikipedia:Nail_(anatomy)#Parts_of_the_nail] synonym: "onychostroma" EXACT [Wikipedia:Nail_(anatomy)#Parts_of_the_nail] xref: FMA:77856 xref: MA:0002707 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001705 ! nail [Term] id: UBERON:0002284 name: hyponychium namespace: uberon def: "Epithelium located beneath the nail plate at the junction between the free edge and the skin of the fingertip. It forms a seal that protects the nail bed." [Wikipedia:Hyponychium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:77860 xref: MA:0002705 xref: SCTID:300918002 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: adjacent_to UBERON:0001705 ! nail relationship: part_of UBERON:0002097 ! skin of body [Term] id: UBERON:0002285 name: telencephalic ventricle namespace: uberon def: "A brain ventricle that is part of a telencephalon. In mammals and species with an evaginated telencephalon, this is one of a pair of lateral structures, one in each hemisphere" [UBERON:cjm, Wikipedia:Lateral_ventricle] comment: modeled as space in EHDAA2 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "forebrain ventricle" RELATED [] synonym: "lateral ventricle" EXACT [MA:0000192] synonym: "lateral ventricle of brain" RELATED [BTO:0000879] synonym: "tectal ventricle" RELATED [] synonym: "telencephalic ventricle" EXACT [VHOG:0000643, ZFA:0000696] synonym: "telencephalic vesicle" RELATED [ZFA:0000696] synonym: "telencephalon lateral ventricle" EXACT [EHDAA2:0001984] xref: BM:Tel-LV xref: BTO:0000879 xref: EFO:0001961 xref: EHDAA2:0001984 xref: EHDAA:3502 xref: EHDAA:6576 xref: EV:0100307 xref: FMA:78448 xref: GAID:611 xref: MA:0000192 xref: MESH:A08.186.211.276.650 xref: NIF_GrossAnatomy:birnlex_1263 xref: OpenCyc:Mx4rvYsFdZwpEbGdrcN5Y29ycA xref: SCTID:180930008 xref: TAO:0000696 xref: UMLS:C0152279 xref: VHOG:0000643 xref: ZFA:0000696 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray734.png/200px-Gray734.png xref: ncithesaurus:Lateral_Ventricle relationship: develops_from UBERON:0009676 ! early telencephalic vesicle intersection_of: UBERON:0004086 ! brain ventricle intersection_of: part_of UBERON:0001893 ! telencephalon property_value: external_definition "The lateral ventricles are part of the ventricular system of the brain. Classified as part of the telencephalon, they are the largest of the ventricles. The lateral ventricles connect to the central third ventricle through the interventricular foramina of Monro[WP]." xsd:string property_value: external_definition "The two lateral ventricles are a cavity in each of the cerebral hemispheres derived from the cavity of the embryonic neural tube. They are separated from each other by the septum pellucidum, and each communicates with the third ventricle by the foramen of Monro, through which also the choroid plexuses of the lateral ventricles become continuous with that of the third ventricle[GO]." xsd:string property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002286 name: third ventricle namespace: uberon def: "Part of the ventricular system of the brain, forming a single large cavity in the midline of the diencephalon; it is continuous with the lateral ventricles through the interventricular foramen and the fourth ventricle through the cerebral aqueduct (Maryann Martone). A narrow cleft inferior to the corpus callosum, within the diencephalon, between the paired thalami. Its floor is formed by the HYPOTHALAMUS, its anterior wall by the lamina terminalis, and its roof by EPENDYMA. It communicates with the FOURTH VENTRICLE by the CEREBRAL AQUEDUCT, and with the LATERAL VENTRICLES by the interventricular foramina[GAID]." [GAID:614, NIF_GrossAnatomy:birnlex_714, Wikipedia:Third_ventricle] comment: Editor's note: consider adding class for secondary vesicle precursor subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "3rd ventricle" EXACT [] synonym: "diencephalic ventricle" RELATED [] synonym: "diencephalic vesicle" NARROW [] synonym: "ventriculus diencephali" EXACT [ZFA:0000161] synonym: "ventriculus tertius cerebri" RELATED LATIN [Wikipedia:Third_ventricle] xref: BM:Die-3V xref: EHDAA2:0000084 xref: EMAPA:16900 xref: EV:0100308 xref: FMA:78454 xref: GAID:614 xref: MA:0000182 xref: MESH:A08.186.211.276.840 xref: NIF_GrossAnatomy:birnlex_714 xref: OpenCyc:Mx4rvakhcJwpEbGdrcN5Y29ycA xref: SCTID:180931007 xref: TAO:0000161 xref: UMLS:C0149555 xref: VHOG:0000007 xref: ZFA:0000161 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray734.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray734.png/200px-Gray734.png xref: ncithesaurus:Third_Ventricle_of_Brain is_a: UBERON:0004086 ! brain ventricle relationship: develops_from UBERON:0006284 ! early prosencephalic vesicle relationship: part_of UBERON:0001894 ! diencephalon property_value: axiom_lost_from_external_ontology "relationship loss: develops_from forebrain ventricle (TAO:0001259)[TAO]" xsd:string property_value: external_definition "Fluid-filled brain cavity. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002287 name: optic recess of third ventricle namespace: uberon def: "At the junction of the floor and anterior wall of the third ventricle, immediately above the optic chiasma, the ventricle presents a small angular recess or diverticulum, the optic recess (or supraoptic recess). [WP,unvetted]." [Wikipedia:Optic_recess] comment: TODO - check taxonomic grouping subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "optic recess" EXACT [] synonym: "optic recesses" RELATED [VHOG:0000595] synonym: "preoptic recess" EXACT [] synonym: "recessus supraopticus" EXACT LATIN [FMA:78455, FMA:TA, Wikipedia:Optic_recess] synonym: "supraoptic recess" EXACT [] xref: EHDAA2:0001317 xref: EHDAA:1343 xref: EHDAA:1973 xref: EHDAA:2649 xref: EHDAA:3478 xref: EMAPA:16644 xref: EMAPA:16902 xref: FMA:78455 xref: SCTID:369279008 xref: TAO:0000049 xref: VHOG:0000595 xref: ZFA:0000049 xref: http://upload.wikimedia.org/wikipedia/commons/f/fa/Gray721.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fa/Gray721.png/200px-Gray721.png is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001893 ! telencephalon relationship: part_of UBERON:0002286 ! third ventricle property_value: external_definition "The optic recess of the third ventricle, i.e. the pouch of the ventricle penetrating into the interval between the initial optic tracts. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string [Term] id: UBERON:0002288 name: choroid plexus of third ventricle namespace: uberon def: "A choroid plexus that is part of a third ventricle [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "3rd ventricle choroid plexus" RELATED [] synonym: "chorioid plexus of cerebral hemisphere of third ventricle" EXACT [OBOL:automatic] synonym: "chorioid plexus of third ventricle" EXACT [] synonym: "choroid plexus third ventricle" EXACT [ZFA:0001444] synonym: "diencephalic choroid plexus " EXACT [ZFA:0001444] synonym: "third ventricle chorioid plexus of cerebral hemisphere" EXACT [OBOL:automatic] synonym: "third ventricle choroid plexus" EXACT [] xref: FMA:78462 xref: MA:0000879 xref: SCTID:61576002 xref: TAO:0001444 xref: UMLS:C0152291 xref: VHOG:0001374 xref: ZFA:0001444 xref: ncithesaurus:Choroid_Plexus_of_the_Third_Ventricle is_a: UBERON:0001886 ! choroid plexus relationship: part_of UBERON:0002286 ! third ventricle intersection_of: UBERON:0001886 ! choroid plexus intersection_of: part_of UBERON:0002286 ! third ventricle [Term] id: UBERON:0002289 name: midbrain cerebral aqueduct namespace: uberon alt_id: UBERON:0005684 def: "The mesencephalic duct, also known as the aqueductus mesencephali, aqueduct of Sylvius or the cerebral aqueduct, contains cerebrospinal fluid (CSF), is within the mesencephalon (or midbrain) and connects the third ventricle in the diencephalon to the fourth ventricle, which is between the pons and cerebellum. [WP,unvetted]." [Wikipedia:Cerebral_aqueduct] comment: AO notes: Two distinct classes in ncit. We classify this as a brain ventricle even though it is not classifically regarded as one (3rd = diencephalon, 4th = hindbrains) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Sylvian aqueduct" EXACT [Wikipedia:Cerebral_aqueduct] synonym: "aqueduct (Sylvius)" EXACT [] synonym: "aqueduct of Sylvius" EXACT [] synonym: "aqueduct of midbrain" EXACT [] synonym: "aqueductus mesencephali" EXACT LATIN [FMA:78467, FMA:TA, Wikipedia:Cerebral_aqueduct] synonym: "cerebral aquaduct" EXACT [ZFA:0000159] synonym: "cerebral aqueduct" EXACT [MA:0000208] synonym: "cerebral aqueduct of Sylvius" EXACT [] synonym: "medial tectal ventricle" EXACT [ZFA:0000159] synonym: "mesencephalic duct" EXACT [Wikipedia:Cerebral_aqueduct] synonym: "mesencephalic ventricle" EXACT [ZFA:0000159] synonym: "mesencephalic vesicle" RELATED [ZFA:0000159] synonym: "midbrain cerebral aqueduct" EXACT [EHDAA2:0001163] synonym: "midbrain ventricle" EXACT [ZFA:0000159] synonym: "tectal ventricle" EXACT [ZFA:0000159] xref: BM:MB-AQ xref: EFO:0003501 xref: EHDAA2:0001163 xref: EHDAA:3696 xref: EMAPA:17795 xref: EV:0100309 xref: FMA:78467 xref: GAID:583 xref: MA:0000208 xref: MESH:A08.186.211.132.659.822.187 xref: NIF_GrossAnatomy:birnlex_1261 xref: SCTID:279249003 xref: TAO:0000159 xref: UMLS:C0007769 xref: VHOG:0000832 xref: ZFA:0000159 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Cn3nucleus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png xref: ncithesaurus:Aqueduct_of_Sylvius xref: ncithesaurus:Cerebral_Aqueduct is_a: UBERON:0004086 ! brain ventricle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0013148 ! early midbrain vesicle relationship: part_of UBERON:0001891 ! midbrain property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002290 name: choroid plexus of fourth ventricle namespace: uberon def: "A choroid plexus that is part of a fourth ventricle [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "4th ventricle choroid plexus" RELATED [] synonym: "chorioid plexus of cerebral hemisphere of fourth ventricle" EXACT [OBOL:automatic] synonym: "chorioid plexus of fourth ventricle" EXACT [] synonym: "choroid plexus fourth ventricle" EXACT [ZFA:0001446] synonym: "fourth ventricle chorioid plexus of cerebral hemisphere" EXACT [OBOL:automatic] synonym: "fourth ventricle choroid plexus" EXACT [] xref: FMA:78492 xref: MA:0000983 xref: SCTID:42214001 xref: TAO:0001446 xref: UMLS:C0152293 xref: VHOG:0001375 xref: ZFA:0001446 xref: ncithesaurus:Choroid_Plexus_of_the_Fourth_Ventricle is_a: UBERON:0001886 ! choroid plexus is_a: UBERON:0006694 ! cerebellum vasculature relationship: part_of UBERON:0002037 ! cerebellum intersection_of: UBERON:0001886 ! choroid plexus intersection_of: part_of UBERON:0002422 ! fourth ventricle [Term] id: UBERON:0002291 name: central canal namespace: uberon alt_id: UBERON:0002220 def: "Spinal cord structure that is part of the ventricular system and is filled with cerebral-spinal fluid and runs the length of the spinal cord." [ZFIN:curator] comment: previously mapped to FMA:75364. Note some ontologies (NIF, SNOMED) subdivide this into lumbar, thoracic, etc. Note we follow FMA in distinguishing between the canal and the lumen subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "canalis centralis" EXACT [ZFA:0000938] synonym: "central canal of spinal cord" EXACT [] synonym: "neural lumen" RELATED [] synonym: "spinal cord central canal" EXACT [] synonym: "ventricle of spinal cord" EXACT [FMA:78497] xref: EHDAA2:0004361 xref: FMA:78497 xref: MA:0001117 xref: NIF_GrossAnatomy:birnlex_1409 xref: SCTID:279447004 xref: TAO:0000938 xref: UMLS:C0459414 xref: ZFA:0000938 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Medulla_spinalis_-_Section_-_English.svg/200px-Medulla_spinalis_-_Section_-_English.svg.png xref: ncithesaurus:Central_Canal is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0001049 ! neural tube relationship: has_part UBERON:0001359 ! cerebrospinal fluid relationship: part_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0005281 ! ventricular system of central nervous system [Term] id: UBERON:0002292 name: costovertebral joint namespace: uberon def: "The costovertebral joints are the articulations that connect the heads of the ribs with the bodies of the thoracic vertebrae. Joining of ribs to the vertebrae occurs at two places, the head and the tubercle of the rib. Two convex facets from the head attach to two adjacent vertebrae. This forms a trochoid joint, which is strengthened by the ligament of the head and the intercapital ligament. Articulation of the tubercle is to the transverse process of the adjacent vertebrae. This articulation is reinforced by the dorsal costotransverse ligament. [WP,unvetted]." [Wikipedia:Costovertebral_joint] comment: AO notes: FMA has both this and joint of head of rib subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "costal head joint" RELATED [FMA:7951] synonym: "costocorporeal joint" RELATED [FMA:7951] synonym: "costovertebral synovial joint" EXACT [FMA:10382] synonym: "joint of costal head" RELATED [FMA:7951] synonym: "joint of head of rib" RELATED [FMA:7951] xref: EMAPA:19020 xref: EMAPA:19208 xref: FMA:10382 xref: MA:0001510 xref: SCTID:263315000 xref: UMLS:C0224681 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c7/Gray312.png/200px-Gray312.png xref: ncithesaurus:Costovertebral_Joint is_a: UBERON:0002001 ! joint of rib is_a: UBERON:0002217 ! synovial joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0002230 ! head of rib intersection_of: connects UBERON:0002347 ! thoracic vertebra [Term] id: UBERON:0002293 name: costochondral joint namespace: uberon def: "A bars of hyaline cartilage located between the distal part of a rib and a costal cartilage, connecting the ribs to the sternum ." [HP:0000920, Wikipedia:Costochondral_joint] comment: Taxon notes: In humans, Joints between costal cartilages of ribs 6-9 are plane synovial joints. Articulation between costal cartilage of rib 9 and rib 10 is fibrous subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "articulatio costochondralis" EXACT [FMA:7956, FMA:TA] synonym: "articulationes costochondrales" RELATED LATIN [Wikipedia:Costochondral_joint] synonym: "chondrocostal synchondrosis" EXACT [FMA:7956] synonym: "costochondral junction" EXACT [FMA:7956, HP:0000920] synonym: "costochondral synchondrosis" EXACT [FMA:7956] xref: FMA:7956 xref: MA:0001509 xref: OpenCyc:Mx4rvfy27JwpEbGdrcN5Y29ycA xref: SCTID:282413008 xref: UMLS:C0224683 xref: ncithesaurus:Costochondral_Joint is_a: UBERON:0002001 ! joint of rib is_a: UBERON:0002215 ! synchondrosis relationship: connects UBERON:0002236 ! costal cartilage relationship: connects UBERON:0010424 ! distal segment of rib [Term] id: UBERON:0002294 name: biliary system namespace: uberon def: "Anatomical system that consists of the organs and ducts (bile ducts, gallbladder, and associated structures) that are involved in the production and transportation of bile." [Wikipedia:Biliary_system] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "biliary apparatus" EXACT [] xref: FMA:79646 xref: SCTID:361354009 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Digestive_system_showing_bile_duct.png/200px-Digestive_system_showing_bile_duct.png is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system [Term] id: UBERON:0002295 name: scala media namespace: uberon def: "An endolymph filled cavity inside the cochlea, located in between the scala tympani and the scala vestibuli, separated by the basilar membrane and Reissner's membrane (the vestibular membrane) respectively. Scala media houses the organ of Corti. [WP,unvetted]." [Wikipedia:Scala_media] comment: TODO: check cochlear duct vs cochlear aqueduct vs scala media subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cochlear duct" RELATED [] xref: EHDAA2:0000262 xref: FMA:79789 xref: MA:0002458 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bc/Gray928.png/200px-Gray928.png is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001844 ! cochlea [Term] id: UBERON:0002296 name: dorsal mesentery namespace: uberon def: "The mesentery that originates from the dorsal side of the peritoneal cavity[ZFA]." [Wikipedia:Dorsal_mesentery, Wikipedia:Mesentery#Development, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal mesogastrium" RELATED [Wikipedia:Dorsal_mesentery] synonym: "mesenterium dorsale commune" RELATED LATIN [Wikipedia:Dorsal_mesentery] xref: EHDAA2:0004560 xref: EHDAA:3019 xref: EHDAA:3033 xref: EHDAA:3921 xref: EHDAA:3934 xref: EHDAA:3957 xref: EHDAA:3971 xref: FMA:79795 xref: SCTID:308823000 xref: TAO:0005130 xref: ZFA:0005130 xref: http://upload.wikimedia.org/wikipedia/commons/8/85/Gray985.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/85/Gray985.png/200px-Gray985.png is_a: UBERON:0002050 ! embryonic structure relationship: develops_into UBERON:0002095 ! mesentery relationship: part_of UBERON:0009664 ! gut mesentery property_value: external_definition "The mesentery that originates from the dorsal side of the peritoneal cavity.[TAO]" xsd:string [Term] id: UBERON:0002297 name: cerumen namespace: uberon def: "The yellow or brown waxy secretions produced by vestigial apocrine sweat glands in the external ear canal[MESH]." [MESH:A12.200.147, Wikipedia:Cerumen] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ear wax" EXACT [] xref: ENVO:02000028 xref: FMA:79869 xref: GAID:1158 xref: MA:0002506 xref: MESH:A12.200.147 xref: UMLS:C0740486 xref: ncithesaurus:Cerumen is_a: UBERON:0000456 ! bodily secretion relationship: located_in UBERON:0001352 ! external acoustic meatus property_value: has_relational_adjective "cerumenal" xsd:string property_value: has_relational_adjective "cerumenous" xsd:string [Term] id: UBERON:0002298 name: brainstem namespace: uberon def: "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted]." [ISBN10:0471888893, Wikipedia:Brainstem, ZFA:0001707] comment: 'brainstem' is a loose term that sometimes refers to the ventral parts o the brain except for any part of the telencephalon - sometimes it includes the diencephalon or subpallial telencephalon structures (ISBN10:0471888893). Here we use it in a more restriced sense, to include only the medulla oblongata, pons (when present) and the midbrain tegmentum (following the ZFA definitions). subset: loose_concept ! loose concept subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "brain stem" EXACT [ABA:BS] synonym: "truncus encephali" EXACT LATIN [Wikipedia:Brainstem] synonym: "truncus encephalicus" RELATED [BTO:0000146] xref: ABA:BS xref: BTO:0000146 xref: EFO:0001962 xref: EV:0100241 xref: FMA:79876 xref: MA:0000169 xref: MESH:A08.186.211.132 xref: NIF_GrossAnatomy:birnlex_1565 xref: SCTID:180925009 xref: TAO:0002156 xref: UMLS:C0006121 xref: VHOG:0001457 xref: ZFA:0001707 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray719.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b7/Gray719.png/200px-Gray719.png xref: ncithesaurus:Brain_Stem is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0002240 ! spinal cord relationship: has_part UBERON:0001896 ! medulla oblongata relationship: has_part UBERON:0001943 ! midbrain tegmentum relationship: part_of UBERON:0000955 ! brain property_value: spatially_disjoint_from UBERON:0001890 property_value: spatially_disjoint_from UBERON:0002037 property_value: spatially_disjoint_from UBERON:0002314 property_value: external_definition "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" xsd:string [Term] id: UBERON:0002299 name: alveolus of lung namespace: uberon def: "Spherical outcropping of the respiratory bronchioles and primary site of gas exchange with the blood. Alveoli are particular to mammalian lungs. Different structures are involved in gas exchange in other vertebrates[WP]." [Wikipedia:Pulmonary_alveolus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "alveoli" RELATED PLURAL [BTO:0000060] synonym: "alveolus" BROAD [] synonym: "alveolus pulmonis" EXACT LATIN [Wikipedia:Pulmonary_alveolus] synonym: "lung alveolus" EXACT [] synonym: "pulmonary alveolus" EXACT [FMA:7318] xref: BTO:0000060 xref: EFO:0001985 xref: EV:0100043 xref: FMA:7318 xref: GAID:349 xref: MA:0000420 xref: MESH:A04.411.715 xref: SCTID:361364000 xref: VHOG:0001445 xref: http://upload.wikimedia.org/wikipedia/commons/4/46/Alveolus_diagram.svg is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002169 ! alveolar sac relationship: part_of UBERON:0006524 ! alveolar system relationship: site_of GO:0007585 ! respiratory gaseous exchange intersection_of: UBERON:0003215 ! alveolus intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0002300 name: obsolete ventricle namespace: uberon def: "A chamber of an organ with cavitated organ parts. Examples: right ventricle of heart, lateral ventricle of brain." [Wikipedia:Ventricle_of_the_larynx] is_obsolete: true consider: FMA:82553 [Term] id: UBERON:0002301 name: layer of neocortex namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "cerebral cortex layer" RELATED [MA:0000186] synonym: "cortical layer" EXACT [] synonym: "neocortex layer" EXACT [] xref: ABA:CTX1-6b xref: FMA:83138 xref: MA:0000186 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0002302 name: myocardium of atrium namespace: uberon def: "A myocardium that is part of a cardiac atrium [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Cardiac atria cardiac muscle" EXACT [OBOL:automatic] synonym: "Cardiac atria heart muscle" EXACT [OBOL:automatic] synonym: "Cardiac atria heart myocardium" EXACT [OBOL:automatic] synonym: "Cardiac atria muscle of heart" EXACT [OBOL:automatic] synonym: "Cardiac atria myocardium" EXACT [OBOL:automatic] synonym: "atrial myocardium" EXACT [] synonym: "atrium cardiac muscle" RELATED [VHOG:0000602] synonym: "atrium myocardium" EXACT [] synonym: "atrium of heart cardiac muscle" EXACT [OBOL:automatic] synonym: "atrium of heart heart muscle" EXACT [OBOL:automatic] synonym: "atrium of heart heart myocardium" EXACT [OBOL:automatic] synonym: "atrium of heart muscle of heart" EXACT [OBOL:automatic] synonym: "atrium of heart myocardium" EXACT [OBOL:automatic] synonym: "cardiac atrium cardiac muscle" EXACT [OBOL:automatic] synonym: "cardiac atrium heart muscle" EXACT [OBOL:automatic] synonym: "cardiac atrium heart myocardium" EXACT [OBOL:automatic] synonym: "cardiac atrium muscle of heart" EXACT [OBOL:automatic] synonym: "cardiac atrium myocardium" EXACT [OBOL:automatic] synonym: "cardiac muscle of Cardiac atria" EXACT [OBOL:automatic] synonym: "cardiac muscle of atrium of heart" EXACT [OBOL:automatic] synonym: "cardiac muscle of cardiac atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart atrium" EXACT [OBOL:automatic] synonym: "heart atrium cardiac muscle" EXACT [OBOL:automatic] synonym: "heart atrium heart muscle" EXACT [OBOL:automatic] synonym: "heart atrium heart myocardium" EXACT [OBOL:automatic] synonym: "heart atrium muscle of heart" EXACT [OBOL:automatic] synonym: "heart atrium myocardium" EXACT [OBOL:automatic] synonym: "heart muscle of Cardiac atria" EXACT [OBOL:automatic] synonym: "heart muscle of atrium of heart" EXACT [OBOL:automatic] synonym: "heart muscle of cardiac atrium" EXACT [OBOL:automatic] synonym: "heart muscle of heart atrium" EXACT [OBOL:automatic] synonym: "heart myocardium of Cardiac atria" EXACT [OBOL:automatic] synonym: "heart myocardium of atrium of heart" EXACT [OBOL:automatic] synonym: "heart myocardium of cardiac atrium" EXACT [OBOL:automatic] synonym: "heart myocardium of heart atrium" EXACT [OBOL:automatic] synonym: "muscle of heart of Cardiac atria" EXACT [OBOL:automatic] synonym: "muscle of heart of atrium of heart" EXACT [OBOL:automatic] synonym: "muscle of heart of cardiac atrium" EXACT [OBOL:automatic] synonym: "muscle of heart of heart atrium" EXACT [OBOL:automatic] synonym: "myocardium of Cardiac atria" EXACT [OBOL:automatic] synonym: "myocardium of atrium of heart" EXACT [OBOL:automatic] synonym: "myocardium of cardiac atrium" EXACT [OBOL:automatic] synonym: "myocardium of heart atrium" EXACT [OBOL:automatic] xref: EFO:0003087 xref: FMA:83509 xref: MA:0000081 xref: SCTID:191910002 xref: TAO:0001374 xref: VHOG:0000602 xref: ZFA:0001374 is_a: UBERON:0002349 ! myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0002081 ! cardiac atrium property_value: homology_notes "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002303 name: juxtaglomerular apparatus namespace: uberon def: "An anatomical structure which consists of juxtaglomerular cells, extraglomerular mesangial cells and the macula densa. The juxtaglomerular apparatus lies adjacent to the glomerulus and regulates kidney function by maintaining the blood flow to the kidney and the filtration rate[GO]. a microscopic structure in the kidney, which regulates the function of each nephron. The juxtaglomerular apparatus is named for its proximity to the glomerulus: it is found between the vascular pole of the renal corpuscle and the returning distal convoluted tubule of the same nephron. This location is critical to its function in regulating renal blood flow and glomerular filtration rate. The three cellular components of the apparatus are the macula densa, extraglomerular mesangial cells, and juxtaglomerular cells (also known as granular cells)[WP]." [GO:0072206, Wikipedia:Juxtaglomerular_apparatus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "complexus juxtaglomerularis" RELATED LATIN [] synonym: "juxtaglomerular complex" EXACT [] xref: EMAPA:30449 xref: FMA:83599 xref: GAID:432 xref: MA:0002546 xref: MESH:A05.810.453.736.520.520 xref: SCTID:362219002 xref: UMLS:C0022445 xref: ncithesaurus:Juxtaglomerular_Apparatus is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0006554 ! urinary system structure relationship: capable_of GO:0003093 ! regulation of glomerular filtration relationship: has_part CL:0000648 ! kidney granular cell relationship: part_of UBERON:0001225 ! cortex of kidney [Term] id: UBERON:0002304 name: layer of dentate gyrus namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "dentate gyrus layer" EXACT [] xref: FMA:83678 xref: MA:0002429 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001885 ! dentate gyrus of hippocampal formation [Term] id: UBERON:0002305 name: layer of hippocampus namespace: uberon def: "the layers of the laminar structure of the hippocampus." [MP:0000813, Wikipedia:Hippocampus_anatomy#Hippocampal_Cells_and_Layers] comment: TODO - check NIF xref synonym: "cytoarchitectural fields of hippocampal formation" EXACT [NIF_GrossAnatomy:birnlex_1192] synonym: "hippocampus layer" EXACT [] xref: FMA:83679 xref: MA:0002427 xref: NIF_GrossAnatomy:birnlex_1192 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: UBERON:0002306 name: nasal mucus namespace: uberon def: "In the respiratory system mucus aids in the protection of the lungs by trapping foreign particles that enter it, particularly through the nose, during normal breathing. Phlegm is a specialized term for mucus that is restricted to the respiratory tract, while the term mucus more globally describes secretions of the nasal passages as well." [Wikipedia:Nasal_mucus#Respiratory_system] comment: TODO - split nasal vs respiratory tract? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "respiratory mucus" EXACT [BTO:0003603] xref: BTO:0003603 xref: FMA:83688 xref: MA:0002535 xref: UMLS:C0225392 xref: ncithesaurus:Nasal_Mucus intersection_of: UBERON:0000912 ! mucus intersection_of: secreted_by UBERON:0004785 ! respiratory system mucosa [Term] id: UBERON:0002307 name: choroid plexus of lateral ventricle namespace: uberon def: "A choroid plexus that is part of a lateral ventricle [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "chorioid plexus of cerebral hemisphere of lateral ventricle" EXACT [OBOL:automatic] synonym: "chorioid plexus of lateral ventricle" EXACT [] synonym: "choroid plexus telencephalic ventricle" EXACT [ZFA:0001447] synonym: "lateral ventricle chorioid plexus of cerebral hemisphere" EXACT [OBOL:automatic] synonym: "lateral ventricle choroid plexus" EXACT [] xref: EHDAA2:0004449 xref: FMA:83711 xref: MA:0000961 xref: SCTID:70064002 xref: TAO:0001447 xref: UMLS:C0152289 xref: VHOG:0001376 xref: ZFA:0001447 xref: ncithesaurus:Choroid_Plexus_of_the_Lateral_Ventricle is_a: UBERON:0001886 ! choroid plexus relationship: part_of UBERON:0002285 ! telencephalic ventricle intersection_of: UBERON:0001886 ! choroid plexus intersection_of: part_of UBERON:0002285 ! telencephalic ventricle [Term] id: UBERON:0002308 name: nucleus of brain namespace: uberon def: "Nucleus of neuraxis which is located within the brain. Example: pontobulbar nucleus, globose nucleus[FMA]. brain structure consisting of a relatively compact cluster of neurons. It is one of the two most common forms of nerve cell organization, the other being layered structures such as the cerebral cortex or cerebellar cortex. In anatomical sections, a nucleus shows up as a region of gray matter, often bordered by white matter. The vertebrate brain contains hundreds of distinguishable nuclei, varying widely in shape and size. A nucleus may itself have a complex internal structure, with multiple types of neurons arranged in clumps (subnuclei) or layers.[Wikipedia]" [FMA:83840, Wikipedia:Nucleus_(neuroanatomy)] comment: We considered merging with 'neural nucleus' synonym: "brain nucleus" EXACT [] xref: FMA:83840 xref: MA:0000811 xref: SCTID:426465002 xref: UMLS:C1706993 xref: ZFA:0005575 xref: ncithesaurus:Brain_Nucleus is_a: UBERON:0002616 ! regional part of brain relationship: part_of UBERON:0003528 ! brain grey matter intersection_of: UBERON:0000125 ! neural nucleus intersection_of: part_of UBERON:0000955 ! brain [Term] id: UBERON:0002309 name: medial longitudinal fasciculus namespace: uberon def: "The medial longitudinal fasciculus (MLF) is a pair of crossed fiber tracts, one on each side of the brainstem. These bundles of axons are situated near the midline of the brainstem and are composed of both ascending and descending fibers that arise from a number of sources and terminate in different areas. [WP,unvetted]." [Wikipedia:Medial_longitudinal_fasciculus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "MLF" RELATED [ZFA:0000543] synonym: "fasciculus longitudinalis medialis" RELATED LATIN [Wikipedia:Medial_longitudinal_fasciculus] xref: BTO:0003951 xref: FMA:83846 xref: SCTID:362397001 xref: TAO:0000543 xref: ZFA:0000543 xref: http://upload.wikimedia.org/wikipedia/commons/2/26/Gray711.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/26/Gray711.png/200px-Gray711.png is_a: UBERON:0005838 ! fasciculus of brain [Term] id: UBERON:0002310 name: hippocampus fimbria namespace: uberon def: "A prominent band of white matter along the medial edge of the hippocampus[WP]." [Wikipedia:Fimbria_of_hippocampus] comment: This class was created automatically from a combination of ontologies synonym: "fimbria" EXACT [NIF_GrossAnatomy:birnlex_1502] synonym: "fimbria hippocampi" RELATED LATIN [Wikipedia:Fimbria_of_hippocampus] synonym: "fimbria hippocampus" EXACT [] synonym: "fimbria of hippocampus" EXACT [FMA:83866] synonym: "fimbria of the fornix" EXACT [NIF_GrossAnatomy:birnlex_1502] synonym: "fimbria-fornix" EXACT [NIF_GrossAnatomy:birnlex_1502] synonym: "hippocampal fimbria" EXACT [MP:0009324] synonym: "neuraxis fimbria" EXACT [] xref: BM:Tel-FI xref: FMA:83866 xref: MA:0000949 xref: NIF_GrossAnatomy:birnlex_1502 xref: SCTID:369096000 xref: UMLS:C0152315 xref: http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray749.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Gray749.png/200px-Gray749.png xref: ncithesaurus:Fimbria is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: UBERON:0002311 name: obsolete nodulus of cerebellum namespace: uberon is_obsolete: true replaced_by: UBERON:0004083 ! cerebellum vermis lobule X [Term] id: UBERON:0002313 name: hippocampus pyramidal layer namespace: uberon alt_id: UBERON:0005369 def: "A cytoarchitectural term denoting the layer of the hippocampus in which pyramidal cells are predominant. Its location is superficial to the Stratum oriens; it is deep to the Stratum radiatum in area CA1 and area CA2 and deep to the Stratum lucidum in area CA3 (Stephan-75) (NeuroNames)." [NIF_GrossAnatomy:birnlex_1444] synonym: "hippocampus stratum pyramidale" RELATED [] synonym: "pyramidal cell layer of the hippocampus" EXACT [NIF_GrossAnatomy:birnlex_1444] synonym: "pyramidal layer of hippocampus" EXACT [FMA:83895] synonym: "stratum pyramidale" EXACT [NIF_GrossAnatomy:birnlex_1444] synonym: "stratum pyramidale hippocampi" EXACT [NIF_GrossAnatomy:birnlex_1444] xref: BTO:0001066 xref: FMA:83895 xref: MA:0000956 xref: NIF_GrossAnatomy:birnlex_1444 is_a: UBERON:0002305 ! layer of hippocampus [Term] id: UBERON:0002314 name: midbrain tectum namespace: uberon def: "Dorsal part of the midbrain, consisting of the superior and inferior colliculi and the pretectal nuclei [MM, NIF]. The tectum is a region of the brain, specifically the dorsal part of the mesencephalon (midbrain). This is contrasted with the tegmentum, which refers to the region ventral to the ventricular system. It is derived in embryonic development from the alar plate of the neural tube. [WP,unvetted]." [NIF_GrossAnatomy:birnlex_1032, Wikipedia:Midbrain_tectum] comment: In adult humans it is present only in the mesencephalon as the inferior and the superior colliculi[WP]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "mesencephalic tectum" EXACT [ZFA:0000445] synonym: "neuraxis tectum" EXACT [] synonym: "t. mesencephali" RELATED LATIN [Wikipedia:Midbrain_tectum] synonym: "tectum" EXACT [] synonym: "tectum mesencephali" EXACT [BTO:0001793] xref: BM:MB-Tec xref: BTO:0001793 xref: EFO:0000920 xref: EHDAA2:0004474 xref: EMAPA:19051 xref: FMA:83902 xref: MA:0000211 xref: MAT:0000451 xref: NIF_GrossAnatomy:birnlex_1032 xref: SCTID:362394008 xref: TAO:0001353 xref: UMLS:C0039433 xref: VHOG:0001388 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Gray685.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Gray685.png/200px-Gray685.png xref: ncithesaurus:Tectum_Mesencephali is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002950 ! regional part of midbrain relationship: develops_from UBERON:0005882 ! alar plate relationship: part_of UBERON:0001891 ! midbrain property_value: homology_notes "The tectum - a multisensory, topologically mapped structure in the roof of the midbrain presents a remarkable degree of conservation in all vertebrate radiations; although it varies in the extent of its development in different vertebrate classes, there is considerable evidence now to deem its layered structure, its cell types, and its hodological pattern as homologous in all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002315 name: gray matter of spinal cord namespace: uberon def: "the ridge-shaped grey matter of the spinal cord that extends longitudunally through the center of each half of the spinal cord, and are largely or entirely composed of nerve cell bodies and their dendrites and some supportive tissue." [MP:0008503] synonym: "gray matter of neuraxis of spinal cord" EXACT [OBOL:automatic] synonym: "gray substance of spinal cord" EXACT [FMA:256580] synonym: "grey matter of spinal cord" EXACT [] synonym: "grey substance of spinal cord" EXACT [] synonym: "spinal cord gray matter" EXACT [OBOL:automatic] synonym: "spinal cord gray matter of neuraxis" EXACT [OBOL:automatic] synonym: "spinal cord grey matter" EXACT [] synonym: "spinal cord grey substance" EXACT [OBOL:automatic] xref: FMA:256580 xref: MA:0000002 xref: NIF_GrossAnatomy:nlx_anat_100204 xref: SCTID:279441003 xref: UMLS:C0475853 xref: ncithesaurus:Gray_Matter_of_the_Spinal_Cord is_a: UBERON:0002020 ! gray matter of neuraxis relationship: part_of UBERON:0002240 ! spinal cord intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0002316 name: white matter namespace: uberon def: "Neural tissue consisting of myelinated axons connecting grey matter areas of the central nervous system." [UBERON:cjm, Wikipedia:White_matter] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "CNS tracts and commissures" RELATED [TAO:0000145] synonym: "CNS white matter" RELATED [TAO:0002143] synonym: "neuronal white matter" EXACT [AEO:0001011] synonym: "substantia alba" RELATED LATIN [Wikipedia:White_matter] synonym: "white mater" RELATED [VHOG:0001764] synonym: "white matter of neuraxis" EXACT [FMA:83929] synonym: "white substance" EXACT [] xref: AEO:0000139 xref: AEO:0001011 xref: FMA:83929 xref: MA:0001135 xref: NIF_GrossAnatomy:Class_2 xref: OpenCyc:Mx4rwOAsDZwpEbGdrcN5Y29ycA xref: TAO:0000145 xref: TAO:0002142 xref: TAO:0002143 xref: UMLS:C0682708 xref: VHOG:0001764 xref: ZFA:0001682 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Grey_matter_and_white_matter_-_very_high_mag.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Spinal_nerve.svg/200px-Spinal_nerve.svg.png xref: ncithesaurus:White_Matter is_a: UBERON:0003714 ! neural tissue is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: has_part GO:0030424 ! axon relationship: has_part UBERON:0000347 ! myelin sheath relationship: has_part UBERON:0006135 ! myelinated nerve fiber relationship: part_of UBERON:0001017 ! central nervous system property_value: external_definition "Cell part cluster consisting predominantly of neurites in the brain and the spinal cord[FMA:83929]." xsd:string property_value: external_definition "Multi-tissue structure comprised largely of myelinated axons.[TAO]" xsd:string property_value: homology_notes "The myelination of axons by glial cells was the last major step in the evolution of cells in the vertebrate nervous system, and white-matter tracts are key to the architecture of the mammalian brain.[well established][VHOG]" xsd:string [Term] id: UBERON:0002317 name: white matter of cerebellum namespace: uberon comment: note that in NIF this is a composite structure; in MA and FMA it is explicitly part of cerebellum. This leads to consistency problems with strict parcellation schemes like ABA, see cerebellar peduncles. In NIF this is a composite structure, this is followed partially here in weakening the relationship to overlaps subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cerebellar white matter" EXACT [] synonym: "cerebellum white matter" EXACT [] xref: FMA:83943 xref: MA:0002430 xref: NIF_GrossAnatomy:birnlex_1562 xref: SCTID:362412009 xref: TAO:0002183 xref: UMLS:C0152381 xref: ZFA:0001708 xref: ncithesaurus:Cerebellum_White_Matter is_a: UBERON:0002316 ! white matter relationship: overlaps UBERON:0002037 ! cerebellum property_value: external_definition "CNS white matter that is part of the cerebellum.[TAO]" xsd:string [Term] id: UBERON:0002318 name: white matter of spinal cord namespace: uberon def: "the regions of the spinal cord that are largely or entirely composed of myelinated nerve cell axons and contain few or no neural cell bodies or dendrites." [MP:0008027] comment: This class was created automatically from a combination of ontologies synonym: "spinal cord white matter" EXACT [] synonym: "spinal cord white matter of neuraxis" EXACT [OBOL:automatic] synonym: "spinal cord white substance" EXACT [OBOL:automatic] synonym: "white matter of neuraxis of spinal cord" EXACT [OBOL:automatic] synonym: "white substance of spinal cord" EXACT [OBOL:automatic] xref: FMA:83945 xref: MA:0000910 xref: SCTID:279436006 xref: UMLS:C0458457 xref: ncithesaurus:White_Matter_of_the_Spinal_Cord is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0002240 ! spinal cord intersection_of: UBERON:0002316 ! white matter intersection_of: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0002319 name: mesangium namespace: uberon def: "inner layer of the glomerulus, within the basement membrane surrounding the glomerular capillaries." [Wikipedia:Mesangium, http://sourceforge.net/tracker/?group_id=76834&atid=974957] comment: WP considers this the same as glomerular mesangium. In MA, glomerular and extraglomerular are distingsuished. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0002494 xref: EMAPA:28248 xref: FMA:84139 xref: MA:0002617 xref: MESH:A05.810.453.736.520.380 xref: UMLS:C0017655 xref: ncithesaurus:Mesangium is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003567 ! abdomen connective tissue is_a: UBERON:0003891 ! stroma is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0000074 ! renal glomerulus relationship: part_of UBERON:0005215 ! kidney interstitium property_value: has_relational_adjective "mesangial" xsd:string [Term] id: UBERON:0002320 name: glomerular mesangium namespace: uberon def: "A thin membrane which helps to support the capillary loops in a renal glomerulus. It is connective tissue composed of mesangial cells - myofibroblasts phenotypically related to vascular smooth muscle cells (MUSCLE, SMOOTH, VASCULAR), PHAGOCYTES and the mesangial EXTRACELLULAR MATRIX." [MESH:A05.810.453.736.520.380, Wikipedia:Glomerular_mesangium] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EMAPA:27961 xref: EMAPA:28248 xref: FMA:84140 xref: GAID:430 xref: MA:0002606 xref: MESH:A05.810.453.736.520.380 xref: SCTID:244574009 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003567 ! abdomen connective tissue is_a: UBERON:0003891 ! stroma is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002319 ! mesangium relationship: part_of UBERON:0004190 ! glomerulus vasculature [Term] id: UBERON:0002321 name: extraglomerular mesangium namespace: uberon comment: editor note - check MA part_ofs - should be spatially disjoint from renal glomerulus? xref: EMAPA:28278 xref: FMA:84141 xref: MA:0002602 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003567 ! abdomen connective tissue is_a: UBERON:0003891 ! stroma is_a: UBERON:0006554 ! urinary system structure relationship: overlaps UBERON:0000074 ! renal glomerulus relationship: part_of UBERON:0001229 ! renal corpuscle relationship: part_of UBERON:0002303 ! juxtaglomerular apparatus relationship: part_of UBERON:0002319 ! mesangium [Term] id: UBERON:0002322 name: periventricular nucleus namespace: uberon def: "." [Wikipedia:Periventricular_nucleus] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ventral zone of periventricular hypothalamus" EXACT [ZFA:0000260] xref: FMA:84354 xref: TAO:0000260 xref: ZFA:0000260 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0002323 name: coelemic cavity lumen namespace: uberon alt_id: UBERON:0000169 def: "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities." [BTO:0001707] comment: Taxon notes: In mammals it forms the peritoneal, pleural, and pericardial cavities. editor note: check the FMA placement here; ncit placement of body cavity here probably not correct subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "celom" RELATED [BTO:0001707] synonym: "coelom" RELATED [] synonym: "coelome" RELATED [BTO:0001707] synonym: "coelomic cavity" EXACT [EHDAA2:0000267] synonym: "coelomic cavity lumen" EXACT [EHDAA2:0000267] synonym: "hemocoel" RELATED [FBbt:00005060] synonym: "space of body compartment" EXACT [FMA:85006] synonym: "ventral body cavity" NARROW [] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 xref: FBbt:00005060 xref: FMA:85006 xref: MA:0002447 xref: RETIRED_EHDAA2:0003186 xref: SCTID:361348008 xref: TAO:0001438 xref: UMLS:C0333343 xref: ZFA:0001438 xref: galen:BodyCavity xref: ncithesaurus:Cavity is_a: UBERON:0002553 ! anatomical cavity is_a: UBERON:0004458 ! body cavity or lining relationship: develops_from UBERON:0003886 ! body cavity precursor property_value: external_definition "Anatomical space, part of the trunk that contains the pericardial and pleuroperitoneal cavities[ZFA]." xsd:string property_value: external_definition "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities[BTO]." xsd:string [Term] id: UBERON:0002324 name: muscle of back namespace: uberon def: "A muscle organ that is part of a back [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "back muscle" EXACT [] synonym: "back muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of back" EXACT [OBOL:automatic] xref: FMA:85216 xref: MA:0000496 is_a: UBERON:0001774 ! muscle of trunk is_a: UBERON:0005174 ! back organ relationship: part_of UBERON:0001137 ! dorsum intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0002325 name: epithelium of urethra namespace: uberon def: "The urethra is a renal system organ that carries urine from the bladder to outside the body. The epithelium is the tubular, planar layer of cells through which the urine passes.." [GO:0061071] comment: This class was created automatically from a combination of ontologies synonym: "epithelial tissue of urethra" EXACT [OBOL:automatic] synonym: "urethra epithelial tissue" EXACT [OBOL:automatic] synonym: "urethra epithelium" EXACT [] synonym: "urethral epithelium" RELATED [] xref: FMA:85275 xref: MA:0001686 xref: UMLS:C1710584 xref: ncithesaurus:Urethra_Epithelium is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0006555 ! excretory tube is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000057 ! urethra [Term] id: UBERON:0002326 name: lamina propria of urethra namespace: uberon def: "A lamina propria that is part of a urethra [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "lamina propria mucosa of urethra" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of urethra" EXACT [OBOL:automatic] synonym: "urethra lamina propria" EXACT [] synonym: "urethra lamina propria mucosa" EXACT [OBOL:automatic] synonym: "urethra lamina propria mucosae" EXACT [OBOL:automatic] synonym: "urethral lamina propria" RELATED [] xref: FMA:85276 xref: MA:0001689 is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0000057 ! urethra [Term] id: UBERON:0002327 name: trunk of intercostal nerve namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "intercostal nerve trunk" EXACT [] synonym: "intercostal neural trunk" EXACT [] xref: FMA:85315 xref: MA:0001176 is_a: UBERON:0001147 ! trunk of peripheral nerve [Term] id: UBERON:0002328 name: notochord namespace: uberon def: "a flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube." [ISBN:0815318960, Wikipedia:Notochord, http://purl.obolibrary.org/obo/uberon/tracker/25, http://tolweb.org/Chordata/2499] comment: Development notes: In between vertebra the notochord becomes the nucleus pulposus, under it degenerates, and at anterior end in some species its tissue merges with some of the cranial bones.. Some organisms retain a post-embryonic notochord. // The notochord appears early in embryogeny and plays an important role in promoting or organizing the embryonic development of nearby structures. In most adult chordates the notochord disappears or becomes highly modified. In some non-vertebrate chordates and fishes the notochord persists as a laterally flexible but incompressible skeletal rod that prevents telescopic collapse of the body during swimming[TOLWEB] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "embryonic notocord" EXACT [] synonym: "notochorda" RELATED LATIN [Wikipedia:Notochord] synonym: "notocord" EXACT [ZFA:0000135] xref: AAO:0000327 xref: BTO:0001768 xref: EHDAA2:0001277 xref: EHDAA:1241 xref: EHDAA:6021 xref: EMAPA:16191 xref: EV:0100002 xref: FMA:85521 xref: GAID:1311 xref: MAT:0000281 xref: MESH:A16.254.610 xref: SCTID:308820002 xref: TAO:0000135 xref: UMLS:C0028439 xref: VHOG:0000199 xref: VSAO:0000032 xref: XAO:0000055 xref: ZFA:0000135 xref: http://evolution.berkeley.edu/evolibrary/images/history/notochords.jpg xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Notochord is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0004880 ! chordamesoderm relationship: develops_from UBERON:0006267 ! notochordal plate relationship: dorsal_to UBERON:0001049 ! neural tube relationship: existence_starts_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0011137 ! axial skeletal system relationship: ventral_to UBERON:0001555 ! digestive tract property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]" xsd:string property_value: external_definition "Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]" xsd:string property_value: external_definition "Rod-like principal supportive element of the embryo and larva, present in the midline just ventral to the neural tube, and differentiating during the segmentation period to form large vacuolated epithelial cells and a surrounding a sheath of fibrous and elastic layers. Layering of the sheath may differ in structure, thickness and development among groups; in cypriniforms there are actually three very thin layers to the sheath. A functional, well developed notochord is present throughout life in certain basal fish groups but not in cypriniforms. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Slender rod of fibrous connective tissue surrounding a core of fluid-filled cells of mesodermal origin; it lies above the gut and directly beneath the spinal cord. The notochord is present during early development and in a few cases it is retained through life; however, usually the notochord is replaced by the vertebral column.[AAO]" xsd:string property_value: has_relational_adjective "notochordal" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (3) a stiff, longitudinal rod of turgid cells along the dorsal part of the body that is called a notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0002329 name: somite namespace: uberon def: "Somites are spheres of epithelial cells that form sequentially along the anteriorbposterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm." [Wikipedia:Somite, doi:10.1111/j.1439-0426.2012.01987.x] comment: Editor notes: currently classified as an epithelial vesicle, consistent with EHDAA2 and UBERONREF:0000002. Consider making \"somitic mesoderm\" a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk // When the somite becomes segmented from the segmental plate, it is composed of an epithelial sac enclosing mesenchymal somitocoel cells. Thereafter the somite differentiates into two parts, the ventro-medial mesenchymal sclerotome and the dorso-lateral epithelial dermomyotome. This change in the epithelial somite depends on surrounding tissue [PMID:15906248] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial somite" RELATED [UBERONREF:0000002] synonym: "mesodermal cluster" EXACT [GO:0001756] synonym: "somites" RELATED PLURAL [] synonym: "somitic mesoderm" RELATED [] synonym: "somitus" RELATED LATIN [Wikipedia:Somite] xref: AAO:0010569 xref: AEO:0001015 xref: BTO:0001558 xref: EHDAA2:0003436 xref: EHDAA:366 xref: EHDAA:699 xref: FMA:85522 xref: GAID:1306 xref: MAT:0000068 xref: MESH:A16.254.425.660.750 xref: MIAA:0000068 xref: TAO:0000155 xref: UMLS:C0376449 xref: VHOG:0000191 xref: XAO:0000058 xref: ZFA:0000155 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Somite is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007503 ! epithelial vesicle is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0003059 ! presomitic mesoderm property_value: never_in_taxon NCBITaxon:7712 property_value: axiom_lost_from_external_ontology "relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: OBO_REL:part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[AAO]" xsd:string property_value: external_definition "Post-cranial axial segments which form sclerotome and dermomyotome.[AAO]" xsd:string property_value: external_definition "Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. Kimmel et al, 1995.[TAO]" xsd:string property_value: has_relational_adjective "somitic" xsd:string property_value: homology_notes " (...) cephalocordates and craniates belong to a group known as Somitichordata. Somitichordate synapomorphies include (1) somites (...) (reference 1); The idea that the last common ancestor of bilaterian animals (Urbilateria) was segmented has been raised recently on evidence coming from comparative molecular embryology (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002330 name: exocrine system namespace: uberon def: "Anatomical system that consists of the glands and parts of glands that produce exocrine secretions and help to integrate and control bodily metabolic activity. Exocrine glands are glands that secrete their products (hormones) into ducts (duct glands). They are the counterparts to endocrine glands, which secrete their products (hormones) directly into the bloodstream (ductless glands) or release hormones (paracrines) that affect only target cells nearby the release site. [Wikipedia]." [Wikipedia:Exocrine_gland] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "exocrine glandular system" EXACT [EHDAA2:0002225] xref: EHDAA2:0002225 xref: FMA:85539 xref: MA:0002411 xref: UMLS:C1516995 xref: WikipediaCategory:Exocrine_system xref: ncithesaurus:Exocrine_System is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system [Term] id: UBERON:0002331 name: umbilical cord namespace: uberon def: "The connecting cord from the developing embryo or fetus to the placenta. During prenatal development, the umbilical cord comes from the same zygote as the fetus and (in humans) normally contains two arteries (the umbilical arteries) and one vein (the umbilical vein), buried within Wharton's jelly. The umbilical vein supplies the fetus with oxygenated, nutrient-rich blood from the placenta. Conversely, the umbilical arteries return the deoxygenated, nutrient-depleted blood[WP]." [Wikipedia:Umbilical_cord] comment: See notes for connecting stalk subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "birth cord" RELATED [Wikipedia:Umbilical_cord] synonym: "connecting stalk" RELATED [] synonym: "funiculus umbilicalis" RELATED LATIN [Wikipedia:Umbilical_cord] synonym: "yolk stalk" RELATED [BTO:0001415] xref: BTO:0001415 xref: EFO:0001415 xref: EHDAA2:0000312 xref: EHDAA:158 xref: EMAPA:26115 xref: EV:0100127 xref: FMA:85541 xref: GAID:517 xref: MAT:0000280 xref: MESH:A16.254.789 xref: MIAA:0000280 xref: OpenCyc:Mx4rvyewDJwpEbGdrcN5Y29ycA xref: SCTID:280644003 xref: UMLS:C0041633 xref: http://upload.wikimedia.org/wikipedia/commons/f/f3/Umbilicalcord.jpg xref: ncithesaurus:Umbilical_Cord is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: connects UBERON:0000922 ! embryo relationship: connects UBERON:0001987 ! placenta relationship: develops_from UBERON:0007806 ! connecting stalk property_value: has_relational_adjective "umbilical" xsd:string [Term] id: UBERON:0002333 name: pulmonary trunk namespace: uberon def: "Pulmonary arterial trunk which is continuous with the right ventricle.[FMA]" [FMA:FMA, Wikipedia:Pulmonary_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vessel_or_tree ! A term classified differently in FMA due to its treatment of branching structures - to be reviewed and revised by editors synonym: "pulmonary artery (trunk)" EXACT [] synonym: "trunk of pulmonary arterial tree" EXACT [] xref: EFO:0001399 xref: EHDAA2:0001576 xref: EHDAA:9831 xref: EMAPA:17015 xref: EMAPA:18240 xref: FMA:8612 xref: MA:0002033 xref: OpenCyc:Mx4rv-6d0ZwpEbGdrcN5Y29ycA xref: VHOG:0001134 xref: galen:PulmonaryTrunk xref: http://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/db/Alveoli_diagram.png/200px-Alveoli_diagram.png is_a: UBERON:0001637 ! artery relationship: continuous_with UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0001009 ! circulatory system property_value: external_definition "An arterial trunk with origin from the right ventricle of the heart, and dividing into the right and left pulmonary arteries, which enter the corresponding lungs and branch with the bronchi. [TFD][VHOG]" xsd:string property_value: homology_notes "As in birds, the conus arteriosus split during embryonic development in mammals to produce the pulmonary trunk and single aortic trunk of the adult.[well established][VHOG]" xsd:string [Term] id: UBERON:0002334 name: submandibular duct namespace: uberon def: "The submandibular duct (Wharton's duct, submaxillary duct) is one of the salivary ducts. It is about 5 cm. long, and its wall is much thinner than that of the parotid duct. It begins by numerous branches from the deep surface of the gland, and runs forward between the mylohyoideus, hyoglossus, and genioglossus, then between the sublingual gland and the genioglossus, and opens by a narrow orifice on the summit of a small at the side of the frenulum linguC&. On the hyoglossus it lies between the lingual and hypoglossal nerves, but at the anterior border of the muscle it is crossed laterally by the lingual nerve; the terminal branches of the lingual nerve ascend on its medial side. It drains saliva from the submandibular glands and sublingual glands to the sublingual caruncle at the base of the tongue. It was initially described by the English anatomist Thomas Wharton and sometimes referred to by his name. [WP,unvetted]." [Wikipedia:Submandibular_duct] comment: AO notes: FMA also has 'main submandibular duct' (FMA:59899) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Wharton's duct" RELATED INCONSISTENT [FMA:59899, Wikipedia:Submandibular_duct] synonym: "ductus submaxillaris" RELATED LATIN [Wikipedia:Submandibular_duct] synonym: "submandibular salivary duct" RELATED [] synonym: "submaxillary duct" RELATED [] xref: BTO:0004556 xref: FMA:86266 xref: MA:0002698 xref: SCTID:181237009 xref: UMLS:C0227472 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray1024.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray1024.png/200px-Gray1024.png xref: ncithesaurus:Submandibular_Duct is_a: UBERON:0001837 ! duct of salivary gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: channels_from UBERON:0001736 ! submandibular gland relationship: part_of UBERON:0001736 ! submandibular gland [Term] id: UBERON:0002335 name: macula densa namespace: uberon def: "The macula densa is an area of specialized cells in the distal tubule that makes contact with the vascular pole of the glomerulus[GO]." [GO:0072024, Wikipedia:Macula_densa] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0003940 xref: FMA:86333 xref: MA:0002603 xref: SCTID:244657003 xref: UMLS:C0227662 xref: ncithesaurus:Macula_Densa is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002303 ! juxtaglomerular apparatus [Term] id: UBERON:0002336 name: corpus callosum namespace: uberon def: "The corpus callosum is a thick bundle of nerve fibers comprising a commissural plate connecting the two cerebral hemispheres. It consists of contralateral axon projections that provides communications between the right and left cerebral hemispheres[GO]." [Wikipedia:Corpus_callosum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BM:Tel-CC xref: BTO:0000615 xref: EFO:0001390 xref: EV:0100305 xref: FMA:86464 xref: GAID:683 xref: MA:0000188 xref: MAT:0000286 xref: MESH:A08.186.211.730.885.362 xref: MIAA:0000286 xref: NIF_GrossAnatomy:birnlex_1087 xref: OpenCyc:Mx4rvbNzdZwpEbGdrcN5Y29ycA xref: SCTID:362354006 xref: UMLS:C0010090 xref: VHOG:0001608 xref: http://upload.wikimedia.org/wikipedia/commons/a/aa/Gray733.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/aa/Gray733.png/200px-Gray733.png xref: ncithesaurus:Corpus_Callosum is_a: UBERON:0002473 ! intercerebral commissure is_a: UBERON:0005340 ! dorsal telencephalic commissure property_value: never_in_taxon NCBITaxon:9255 property_value: external_definition "The largest commissure of the brain connecting the cerebral hemispheres. [TFD][VHOG]" xsd:string property_value: homology_notes "In addition to the anterior commissure, placental mammals have a phylogenetically new forebrain commissure, the corpus callosum, which primarily interconnects the neocortex of the cerebral hemispheres.[well established][VHOG]" xsd:string property_value: taxon_notes "The corpus callosum is found only in placental mammals. other groups do have other brain structures that allow for communication between the two hemispheres, such as the anterior commissure, which serves as the primary mode of interhemispheric communication in marsupials." xsd:string [Term] id: UBERON:0002337 name: endometrial stroma namespace: uberon comment: This class was created automatically from a combination of ontologies synonym: "endometrium stroma" EXACT [] synonym: "stroma of endometrium" EXACT [] xref: FMA:86487 xref: MA:0002734 xref: SCTID:254115004 xref: UMLS:C0227849 xref: ncithesaurus:Endometrial_Stroma is_a: UBERON:0003891 ! stroma is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0001295 ! endometrium [Term] id: UBERON:0002338 name: lamina propria of bronchus namespace: uberon def: "A lamina propria that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchi lamina propria" EXACT [OBOL:automatic] synonym: "bronchi lamina propria mucosa" EXACT [OBOL:automatic] synonym: "bronchi lamina propria mucosae" EXACT [OBOL:automatic] synonym: "bronchial trunk lamina propria" EXACT [OBOL:automatic] synonym: "bronchial trunk lamina propria mucosa" EXACT [OBOL:automatic] synonym: "bronchial trunk lamina propria mucosae" EXACT [OBOL:automatic] synonym: "bronchus lamina propria" EXACT [] synonym: "bronchus lamina propria mucosa" EXACT [OBOL:automatic] synonym: "bronchus lamina propria mucosae" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of bronchi" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of bronchial trunk" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of bronchus" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of bronchi" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of bronchial trunk" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of bronchus" EXACT [OBOL:automatic] synonym: "lamina propria of bronchi" EXACT [OBOL:automatic] synonym: "lamina propria of bronchial trunk" EXACT [OBOL:automatic] xref: FMA:86619 xref: MA:0001836 xref: UMLS:C1707054 xref: ncithesaurus:Bronchus_Lamina_Propria is_a: UBERON:0000030 ! lamina propria is_a: UBERON:0000031 ! lamina propria of trachea is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0000410 ! bronchial mucosa relationship: part_of UBERON:0002185 ! bronchus intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0002339 name: epithelium of lobar bronchus namespace: uberon def: "the tissue made up of epithelial cells that lines the inside of the lobar bronchus." [GO:0060481] synonym: "epithelial tissue of lobar bronchus" EXACT [OBOL:automatic] synonym: "epithelial tissue of secondary bronchus" EXACT [OBOL:automatic] synonym: "epithelium of secondary bronchus" EXACT [OBOL:automatic] synonym: "lobar bronchial epithelium" EXACT [] synonym: "lobar bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "lobar bronchus epithelium" EXACT [] synonym: "secondary bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "secondary bronchus epithelium" EXACT [OBOL:automatic] xref: EMAPA:17390 xref: EMAPA:17658 xref: EMAPA:17666 xref: EMAPA:17984 xref: EMAPA:17989 xref: EMAPA:17994 xref: EMAPA:18000 xref: FMA:86624 xref: MA:0001842 is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0002031 ! epithelium of bronchus intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002183 ! lobar bronchus [Term] id: UBERON:0002340 name: epithelium of main bronchus namespace: uberon alt_id: UBERON:0003245 def: "An epithelium that is part of a main bronchus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "bronchus principalis epithelial tissue" EXACT [OBOL:automatic] synonym: "bronchus principalis epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of bronchus principalis" EXACT [OBOL:automatic] synonym: "epithelial tissue of main bronchus" EXACT [OBOL:automatic] synonym: "epithelial tissue of primary bronchus" EXACT [OBOL:automatic] synonym: "epithelial tissue of principal bronchus" EXACT [OBOL:automatic] synonym: "epithelium of bronchus principalis" EXACT [OBOL:automatic] synonym: "epithelium of primary bronchus" EXACT [OBOL:automatic] synonym: "epithelium of principal bronchus" EXACT [OBOL:automatic] synonym: "main bronchial epithelium" EXACT [] synonym: "main bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "main bronchus epithelium" EXACT [] synonym: "primary bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "primary bronchus epithelium" EXACT [OBOL:automatic] synonym: "principal bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "principal bronchus epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001047 xref: EHDAA:5003 xref: EMAPA:16851 xref: FMA:86625 xref: MA:0001847 xref: VHOG:0001034 is_a: UBERON:0002031 ! epithelium of bronchus relationship: part_of UBERON:0002182 ! main bronchus intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0002341 name: epithelium of segmental bronchus namespace: uberon def: "An epithelium that is part of a segmental bronchus [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "epithelial tissue of segmental bronchus" EXACT [OBOL:automatic] synonym: "epithelial tissue of tertiary bronchus" EXACT [OBOL:automatic] synonym: "epithelium of tertiary bronchus" EXACT [OBOL:automatic] synonym: "segmental bronchial epithelium" EXACT [] synonym: "segmental bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "segmental bronchus epithelium" EXACT [] synonym: "tertiary bronchus epithelial tissue" EXACT [OBOL:automatic] synonym: "tertiary bronchus epithelium" EXACT [OBOL:automatic] xref: FMA:86626 xref: MA:0001850 is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0002031 ! epithelium of bronchus relationship: part_of UBERON:0002184 ! segmental bronchus intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002184 ! segmental bronchus [Term] id: UBERON:0002342 name: neural crest namespace: uberon def: "The neural crest, a transient component of the ectoderm, is located in between the neural tube and the epidermis (or the free margins of the neural folds) of an embryo during neural tube formation. Neural crest cells quickly migrate during or shortly after neurulation, an embryological event marked by neural tube closure." [Wikipedia:Neural_crest] comment: Editor note: consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams). Taxon notes: A well developed neural crest population is present in lampreys (Horigome et al. 1999 ; Tomsa & Langeland, 1999) and gnathostomes. chordate fossils from the early Cambrian (Yunnanozoan and Haikouella) with apparent neural-crest derived structures (pharyngeal denticles and pharyngeal skeletons resembling the striped mucocartilage of the branchial bars in lamprey ammocoete larvae), suggests that neural crest arose very early in vertebrate evolution (Chen et al. 1999; Holland & Chen, 2001). The invertebrate chordates apparently lack defini- tive neural crest. One marker of migrating neural crest in some vertebrates, the antibody HNK1, does not recognize any cells in amphioxus embryos (Holland, unpublished). Even so, in both amphioxus and tunicates, cells at the edges of the neural plate and adjacent nonneural ectoderm share some properties of neural crest[PMID:11523831]. Gene notes: Many factors and genes, such as Pax3 (Tremblay et al., 1995), slug (Nieto et al., 1994), AP-2 (Zhang et al., 1996; Schorle et al., 1996), and Wnt-1/3a (Ikeya et al., 1997) are expressed in the dorsal most region of the neural tube, and have been shown to be involved in the generation of neural crest cells. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "crista neuralis" RELATED LATIN [Wikipedia:Neural_crest] synonym: "neural crest material" RELATED [VHOG:0000057] xref: AAO:0010578 xref: BTO:0001764 xref: EHDAA2:0004419 xref: FMA:86666 xref: GAID:1310 xref: MAT:0000066 xref: MESH:A16.254.600 xref: MIAA:0000066 xref: SCTID:361462002 xref: TAO:0000045 xref: UMLS:C0027789 xref: VHOG:0000057 xref: XAO:0000048 xref: ZFA:0000045 xref: http://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5f/Gray644.png/200px-Gray644.png xref: ncithesaurus:Neural_Crest is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010316 ! germ layer / neural crest relationship: composed_primarily_of CL:0000333 ! migratory neural crest cell relationship: develops_from UBERON:0003075 ! neural plate relationship: develops_from UBERON:0005062 ! neural fold relationship: existence_starts_during UBERON:0000110 ! neurula stage relationship: part_of UBERON:0002346 ! neurectoderm property_value: axiom_lost_from_external_ontology "relationship type change: differentiates_from ectoderm (AAO:0000137) CHANGED TO: develops_from ectoderm (UBERON:0000924)[AAO]" xsd:string property_value: external_definition "A cell population arising from the dorsolateral aspect of the central nervous system primordium during the segmentation period, and later migrating along stereotyped pathways to give rise to a diverse and well-defined set of cell types including pigment cells, peripheral neurons and glia, and head cartilage. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Migratory cell population which delaminates from neural tube, borders surface ectoderm and neural ectoderm, and gives rise to many different tissue types.[AAO]" xsd:string property_value: homology_notes "We conclude that the neural crest is a vertebrate novelty, but that neural crest cells and their derivatives evolved and diversified in a step-wise fashion - first by elaboration of neural plate border cells, then by the innovation or co-option of new or ancient metazoan cell fates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002343 name: abdomen musculature namespace: uberon def: "Set of all muscles in abdomen." [OBOL:automatic] comment: note distinction between abdomen muscle and abdomen musculature subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "abdominal musculature" EXACT [] synonym: "muscle group of abdomen" EXACT [FMA:71294] synonym: "muscles of abdomen" EXACT [FMA:71294] synonym: "musculature of abdomen" EXACT [] synonym: "musculature of abdominal wall" EXACT [FMA:86917] synonym: "set of muscles of abdomen" EXACT [FMA:71294] xref: FMA:71294 xref: FMA:86917 xref: TAO:0001327 xref: ZFA:0001327 is_a: UBERON:0001015 ! musculature is_a: UBERON:0004479 ! musculature of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0002345 name: descending thoracic aorta namespace: uberon def: "the part of the aorta that extends from the arch of the aorta to the diaphragm, and from which arises numerous branches that supply oxygenated blood to the chest cage and the organs within the chest." [MP:0009868] comment: This class was created automatically from a combination of ontologies xref: EFO:0002527 xref: EMAPA:18605 xref: FMA:87217 xref: MA:0002572 xref: SCTID:181301002 is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001514 ! descending aorta relationship: part_of UBERON:0001515 ! thoracic aorta [Term] id: UBERON:0002346 name: neurectoderm namespace: uberon def: "Embryonic ectoderm that gives rise to nervous tissue." [Wikipedia:Neuroectoderm] comment: Terminology notes: we prefer neurectoderm to neural ectoderm since placodal ectoderm is not classified here subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelium tubi neuralis; neuroectoderma" RELATED LATIN [Wikipedia:Neuroectoderm] synonym: "neuaral ectoderm" RELATED [] synonym: "neural ectoderm" EXACT [] synonym: "neuroectoderm" EXACT [] synonym: "presumptive central nervous system" RELATED [] synonym: "ventral neurogenic region" RELATED [VHOG:0000150] xref: AAO:0011074 xref: BILA:0000039 xref: EHDAA2:0001248 xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 xref: FBbt:00001061 xref: FMA:87657 xref: MAT:0000176 xref: MIAA:0000176 xref: TAO:0001120 xref: UMLS:C1518271 xref: VHOG:0000150 xref: XAO:0000042 xref: ZFA:0001120 xref: ncithesaurus:Neuroectoderm is_a: UBERON:0000923 ! germ layer is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000924 ! ectoderm relationship: has_part CL:0000133 ! neurectodermal cell relationship: has_part CL:0000530 ! primary neuron property_value: has_relational_adjective "neurectodermal" xsd:string property_value: homology_notes "(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]" xsd:string [Term] id: UBERON:0002347 name: thoracic vertebra namespace: uberon def: "In humans, the 12 thoracic vertebrae compose the middle segment of the vertebral column, between the cervical vertebrae and the lumbar vertebrae. They are intermediate in size between those of the cervical and lumbar regions; they increase in size as one proceeds down the spine, the upper vertebrae being much smaller than those in the lower part of the region. They are distinguished by the presence of facets on the sides of the bodies for articulation with the heads of the ribs, and facets on the transverse processes of all, except the eleventh and twelfth, for articulation with the tubercles of the ribs. [WP,unvetted]." [Wikipedia:Thoracic_vertebrae] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal vertebra" EXACT [] synonym: "thorax vertebra" EXACT [OBOL:automatic] synonym: "vertebra of thorax" EXACT [OBOL:automatic] synonym: "vertebra thoracica" EXACT [] xref: EMAPA:18011 xref: FMA:9139 xref: GAID:244 xref: MA:0000314 xref: MESH:A02.835.232.834.892 xref: OpenCyc:Mx4rvdZIBpwpEbGdrcN5Y29ycA xref: SCTID:181821009 xref: UMLS:C0039987 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Gray90.png/200px-Gray90.png xref: ncithesaurus:Thoracic_Vertebra is_a: UBERON:0003827 ! thoracic segment bone is_a: UBERON:0004247 ! back bone relationship: develops_from UBERON:0013507 ! thoracic vertebra cartilaginous condensation relationship: part_of UBERON:0000915 ! thoracic segment of trunk intersection_of: UBERON:0002412 ! vertebra intersection_of: part_of UBERON:0006073 ! thoracic region of vertebral column [Term] id: UBERON:0002348 name: epicardium namespace: uberon def: "Region of visceral serous pericardium which has as its part, the mesothelium, subepicardial layer of epicardium and the fibroelastic connective tissue that is attached to the myocardium and is continuous with the parietal serous pericardium[FMA]. External layer of the heart[ZFA]." [Wikipedia:Epicardium, ZFIN:curator] comment: TODO - check links with UBERON:0002425 visceral serous pericardium. develops from proepicardium. WP:Epicardium -- When considered as a part of the pericardium, it is the inner layer, or visceral pericardium, continuous with the serous layer. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "heart epicardium" EXACT [] synonym: "lamina visceralis pericardii serosi" RELATED LATIN [Wikipedia:Epicardium] synonym: "visceral serous pericardium of heart" EXACT [] synonym: "visceral serous pericardium proper" EXACT [FMA:9461] xref: AAO:0010409 xref: EHDAA2:0002202 xref: FMA:9461 xref: TAO:0005057 xref: UMLS:C0225968 xref: VHOG:0000119 xref: XAO:0000316 xref: ZFA:0005057 xref: galen:Epicardium xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png xref: ncithesaurus:Epicardium is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0004160 ! proepicardium relationship: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0002425 ! visceral serous pericardium property_value: external_definition "External layer of the heart.[TAO]" xsd:string property_value: external_definition "The inner layer of the pericardium that is in contact with the surface of the heart.[AAO]" xsd:string [Term] id: UBERON:0002349 name: myocardium namespace: uberon def: "middle muscular layer of the heart wall[M-W]. Muscle layer of organ which has as its parts the myocardium proper and the conducting system of the heart[FMA]." [Wikipedia:Myocardium] comment: TODO - check 'Myocardum proper' in FMA. We superclass the more generic class for now. FMA has is_a muscle layer - should we add this? ZFA and BTO both have is_a 'cardiac muscle' (tissue?). But in U we also follow FMA and have cardiac muscle tissue of myocardium (there is also Fibrocollagenous connective tissue of myocardium), which would be identical (see issue-10). Note that GO also treats left/right ventricular cardiac muscle tissue synonymous with ventricular myocardium subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac muscle" RELATED [ZFA:0001319] synonym: "heart muscle" RELATED [FMA:9462] synonym: "heart muscle " RELATED [ZFA:0001319] synonym: "heart myocardium" EXACT [] synonym: "muscle of heart" EXACT [FMA:9462] xref: AAO:0010410 xref: BTO:0000901 xref: EFO:0000819 xref: EHDAA2:0004150 xref: EV:0100022 xref: FMA:9462 xref: GAID:173 xref: MA:0000164 xref: MAT:0000453 xref: MESH:A02.633.580 xref: OpenCyc:Mx4ro36AFrCvEduAAAAOpmP6tw xref: RETIRED_EHDAA2:0001220 xref: SCTID:362012001 xref: TAO:0001319 xref: UMLS:C0027061 xref: VHOG:0000083 xref: XAO:0000065 xref: ZFA:0001319 xref: galen:Myocardium xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6e/Glanzstreifen.jpg/200px-Glanzstreifen.jpg xref: ncithesaurus:Myocardium is_a: UBERON:0005983 ! heart layer relationship: part_of UBERON:0000383 ! musculature of body relationship: part_of UBERON:0000948 ! heart property_value: external_definition "Robust muscular tunic of the heart which forms the basic part of its walls. Its external surface is covered by the pericardium and its internal one by the endocardium. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: external_definition "The middle layer of the heart, consisting of cardiac muscle.[AAO]" xsd:string property_value: has_relational_adjective "myocardial" xsd:string [Term] id: UBERON:0002350 name: conducting system of heart namespace: uberon def: "The cardiac conduction system consists of specialized cardiomyocytes that regulate the frequency of heart beat[GO]" [GO:0003161] comment: Editor notes: EHDAA2 divides the system from the tissue subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cardiac conducting system" EXACT [VHOG:0001271] synonym: "cardiac conduction system" EXACT [] synonym: "cardiac impulse conducting system" EXACT [GO:0003161] synonym: "cardionector" EXACT [] synonym: "central conduction system" RELATED [] synonym: "heart conduction system" EXACT [GO:0003161] synonym: "impulse conducting system" EXACT [MA:0000094] xref: EFO:0003909 xref: EHDAA2:0004185 xref: EV:0100025 xref: FMA:9476 xref: MA:0000094 xref: MESH:A07.541.409 xref: SCTID:281489000 xref: TAO:0005063 xref: VHOG:0001271 xref: ZFA:0005063 is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium is_a: UBERON:0010131 ! conducting tissue of heart relationship: has_part CL:0002068 ! Purkinje myocyte relationship: has_part CL:0002073 ! transitional myocyte relationship: has_part CL:0002074 ! myocardial endocrine cell relationship: has_part CL:1000409 ! myocyte of sinoatrial node relationship: has_part CL:1000410 ! myocyte of atrioventricular node relationship: part_of UBERON:0002349 ! myocardium property_value: homology_notes "The fish heart displays clear polarity of contraction in a posterior-to-anterior direction. The contraction waves originate in the sinus venosus and terminate in the conus arteriosus. The nodal phenotype persists in the inflow region of the heart, varying from the venosinus to the sinoatrial junctional areas in different species . Similar to the mammalian situation, pacemaker tissue with a lower intrinsic rhythmicity is also found at the atrioventricular junction.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002351 name: sinoatrial node namespace: uberon def: "The part of the cardiac conduction system that controls the timing of heart muscle contraction. It relays electrical signals to the AV node[GO]. Subdivision of conducting system of heart at the junction of the right atrium and the superior vena cava, around the sinoatrial nodal branch of right coronary artery and is continuous with the internodal tract[FMA]." [GO:0003163, Wikipedia:Sinoatrial_node] comment: WP:Heart states: \"The SA node is found in all amniotes but not in more primitive vertebrates. In these animals, the muscles of the heart are relatively continuous and the sinus venosus coordinates the beat which passes in a wave through the remaining chambers. Indeed, since the sinus venosus is incorporated into the right atrium in amniotes, it is likely homologous with the SA node. In teleosts, with their vestigial sinus venosus, the main centre of coordination is, instead, in the atrium.\". Note however that ZFA has SA node. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Koch's node" EXACT [FMA:9477] synonym: "SA nodal muscle tissue" EXACT [FMA:9477] synonym: "SA node" EXACT [FMA:9477] synonym: "cardiac pacemaker" EXACT [FMA:9477] synonym: "node of Keith-Flack" EXACT [FMA:9477] synonym: "nodus sinuatrialis" EXACT LATIN [FMA:9477, FMA:TA, Wikipedia:Sinoatrial_node] synonym: "sinoatrial node" EXACT [FMA:9477] synonym: "sinu-atrial node" EXACT [FMA:9477] synonym: "sinuatrial nodal muscle tissue" EXACT [FMA:9477] synonym: "sinuatrial node" EXACT [FMA:9477] synonym: "sinus node" EXACT [FMA:9477] synonym: "sinus node of Keith and Flack" EXACT [FMA:9477] xref: BTO:0004358 xref: EHDAA2:0004184 xref: FMA:9477 xref: GAID:561 xref: MA:0000097 xref: MESH:A07.541.409.819 xref: OpenCyc:Mx4rOhejDGMcEd2AAABQjYGu0g xref: SCTID:277687007 xref: TAO:0005069 xref: UMLS:C0037189 xref: ZFA:0005069 xref: http://upload.wikimedia.org/wikipedia/commons/d/de/Sinoatrial_node_2_low_mag.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d2/Sinoatrial_node_low_mag.jpg/200px-Sinoatrial_node_low_mag.jpg xref: ncithesaurus:Sinoatrial_Node is_a: UBERON:0001133 ! cardiac muscle tissue is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium relationship: capable_of GO:0002027 ! regulation of heart rate relationship: has_function_in GO:0060048 ! cardiac muscle contraction relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0002352 name: atrioventricular node namespace: uberon def: "Subdivision of conducting system of heart which is located in the muscular part of the interatrial septum that is continuous with the atrioventricular bundle.[FMA]" [FMA:FMA, Wikipedia:Atrioventricular_node] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "aschoff-tawara node" EXACT [] synonym: "atrioventricular nodal muscle tissue" EXACT [] synonym: "atriovetricular node" RELATED [TAO:0005070] synonym: "av nodal muscle tissue" EXACT [] synonym: "av node" EXACT [] synonym: "node of tawara" EXACT [] synonym: "nodus atrioventricularis" RELATED LATIN [Wikipedia:Atrioventricular_node] xref: EFO:0000276 xref: EHDAA2:0004183 xref: FMA:9478 xref: GAID:558 xref: MA:0000095 xref: MAT:0000498 xref: MESH:A07.541.409.147 xref: OpenCyc:Mx4rMfD91mMcEd2AAABQjYGu0g xref: SCTID:277688002 xref: TAO:0005070 xref: UMLS:C0004247 xref: VHOG:0001474 xref: ZFA:0005070 xref: http://upload.wikimedia.org/wikipedia/commons/5/50/ConductionsystemoftheheartwithouttheHeart.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/92/Gray501.png/200px-Gray501.png xref: ncithesaurus:Atrioventricular_Node is_a: UBERON:0001133 ! cardiac muscle tissue is_a: UBERON:0004490 ! cardiac muscle tissue of atrium is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium relationship: part_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002350 ! conducting system of heart property_value: homology_notes "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus. Furthermore, within the ventricular component a compact outer myocardial component and an interiorly localized extensive trabecular component can be distinguished. The specific activation of the ventricle adds to its complexity as follows. The depolarizing impulse travels rapidly from the atrioventricular node toward the apex and then toward the conal region, achieving activation from apex to base.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002353 name: atrioventricular bundle namespace: uberon def: "A part of the His-Purkinje system that transmits signals from the AV node to the cardiac Purkinje fibers[GO]" [GO:0003166, GOC:mtg_heart, Wikipedia:Bundle_of_His] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "His bundle" EXACT [] synonym: "atrioventricular bundle muscle tissue" EXACT [FMA:9484] synonym: "atrioventricular fasciculus" EXACT [FMA:9484] synonym: "bundle of His" EXACT [FMA:9484, GO:0003166] synonym: "fasciculus atrioventricularis" EXACT LATIN [Wikipedia:Bundle_of_His] xref: FMA:9484 xref: GAID:559 xref: MA:0002576 xref: MESH:A07.541.409.273 xref: OpenCyc:Mx4rUv1WcGPJEd2AAABQjYGu0g xref: SCTID:362022007 xref: UMLS:C0006382 xref: galen:BundleOfHis xref: http://upload.wikimedia.org/wikipedia/commons/5/50/ConductionsystemoftheheartwithouttheHeart.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b6/ECG_Principle_fast.gif/200px-ECG_Principle_fast.gif xref: ncithesaurus:Atrioventricular_Bundle is_a: UBERON:0001133 ! cardiac muscle tissue is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium relationship: has_part CL:1000410 ! myocyte of atrioventricular node relationship: part_of UBERON:0002350 ! conducting system of heart relationship: part_of UBERON:0004146 ! His-Purkinje system [Term] id: UBERON:0002354 name: purkinje fiber namespace: uberon def: "Conducting tissue of heart which consists of Purkinje myocytes.[FMA]" [FMA:FMA, Wikipedia:Purkinje_fiber] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "myofibra conducens cardiacus" EXACT [] xref: FMA:9492 xref: GAID:560 xref: MA:0000096 xref: MESH:A07.541.409.683 xref: UMLS:C0034144 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/96/Gray498.png/200px-Gray498.png xref: ncithesaurus:Purkinje_Fiber is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium is_a: UBERON:0010131 ! conducting tissue of heart relationship: has_part CL:0002068 ! Purkinje myocyte relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0002355 name: pelvis namespace: uberon def: "Subdivision of abdomen, which is demarcated from the abdomen proper by the plane of the superior pelvic aperture, and from the perineum by the inferior surface of the pelvic diaphragm; together with the abdomen proper, it constitutes the abdomen[FMA]." [FMA:9578, Wikipedia:Pelvis] comment: Note that MA and FMA differ in what they consider to be parts of the pelvis. MA includes ureter, urethra, urinary bladder, reproductive organs subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lesser pelvis" EXACT [FMA:9578] synonym: "pelvic region" EXACT [] synonym: "pelvis region" EXACT [] synonym: "true pelvis" EXACT [FMA:9578] xref: BTO:0001006 xref: EFO:0002805 xref: EV:0100012 xref: FMA:9578 xref: GAID:87 xref: MA:0000030 xref: MESH:A01.673 xref: OpenCyc:Mx4rvVjiTJwpEbGdrcN5Y29ycA xref: SCTID:229765004 xref: UMLS:C0030797 xref: galen:Pelvis xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Gray242.png/200px-Gray242.png xref: ncithesaurus:Pelvis is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0002417 ! abdominal segment of trunk property_value: has_relational_adjective "pelvic" xsd:string [Term] id: UBERON:0002356 name: perineum namespace: uberon def: "Subdivision of trunk proper, which is demarcated from the pelvis by the inferior surface of the pelvic diaphragm and from the lower limbs by the perineofemoral lines; together with the thorax, abdomen, and pelvis, it constitutes the trunk[FMA]." [FMA:9579, Wikipedia:Perineum] comment: AO Note: FMA has class anal part of perineum, which may be the same as what EHDAA2 calls perineum subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "perineal region" EXACT [] synonym: "regio perinealis" EXACT LATIN [FMA:9579, FMA:TA] xref: EFO:0004141 xref: EHDAA2:0004015 xref: EV:0100013 xref: FMA:9579 xref: GAID:90 xref: MA:0002466 xref: MESH:A01.719 xref: OpenCyc:Mx4rvcHSh5wpEbGdrcN5Y29ycA xref: SCTID:243990009 xref: UMLS:C0031066 xref: galen:Perineum xref: http://upload.wikimedia.org/wikipedia/commons/e/ef/Gray406.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ef/Gray406.png/200px-Gray406.png xref: ncithesaurus:Perineum is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0009569 ! subdivision of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0012469 ! external anal region property_value: has_relational_adjective "perianal" xsd:string [Term] id: UBERON:0002357 name: serous pericardium namespace: uberon def: "Serous membrane which has as its parts the epicardium and parietal serous pericardium that surrounds pericardial cavity." [Wikipedia:Serous_pericardium] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pericardium serosum" RELATED LATIN [Wikipedia:Serous_pericardium] synonym: "serous portion of pericardium" EXACT [] xref: FMA:9582 xref: MA:0002739 xref: SCTID:243954002 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0005983 ! heart layer relationship: part_of UBERON:0002406 ! pericardial sac [Term] id: UBERON:0002358 name: peritoneum namespace: uberon def: "A serous membrane that forms the lining of the abdominal cavity or the coelom b it covers most of the intra-abdominal (or coelomic) organs b in higher vertebrates and some invertebrates (annelids, for instance). It is composed of a layer of mesothelium supported by a thin layer of connective tissue. The peritoneum both supports the abdominal organs and serves as a conduit for their blood and lymph vessels and nerves[WP]. The smooth transparent serous membrane that lines the cavity of the abdomen of a mammal and is folded inward over the abdominal and pelvic viscera[BTO]. The endothelial lining of the ABDOMINAL CAVITY. The parietal peritoneum covers the inside of the ABDOMINAL WALL and the visceral peritoneum covers the bowel, the MESENTERY, and certain of the organs. The portion that covers the bowel becomes the serosal layer of the bowel wall[GAID]." [Wikipedia:Peritoneum, ZFIN:curator] comment: TODO - in ZFA is_a epithelium subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "peritonaeum" RELATED [VHOG:0001257] xref: AAO:0010814 xref: BTO:0001472 xref: EV:0100087 xref: FMA:9584 xref: GAID:18 xref: MESH:A01.047.025.600 xref: OpenCyc:Mx4rvjJ72ZwpEbGdrcN5Y29ycA xref: TAO:0005120 xref: UMLS:C0031153 xref: VHOG:0001257 xref: XAO:0000139 xref: ZFA:0005120 xref: galen:Peritoneum xref: http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5f/Gray1040.png/200px-Gray1040.png xref: ncithesaurus:Peritoneum is_a: UBERON:0000042 ! serous membrane relationship: develops_from UBERON:0000926 ! mesoderm relationship: located_in UBERON:0003684 ! abdominal cavity relationship: part_of UBERON:0003697 ! abdominal wall property_value: external_definition "An epithelium that lines the peritoneal cavity.[TAO]" xsd:string property_value: external_definition "Serous membrane that forms the lining of the abdominal cavity or the coelom. It covers most of the intra-abdominal organs, supports the abdominal organs, and serves as a conduit for their blood and lymph vessels and nerves. It is composed of a layer of mesothelium.[AAO]" xsd:string property_value: has_relational_adjective "peritoneal" xsd:string [Term] id: UBERON:0002359 name: fibrous pericardium namespace: uberon def: "Membrane organ which is attached to the pericardial sac proper and the central tendon of diaphragm and is continuous with the pretracheal fascia.[FMA]" [FMA:FMA, Wikipedia:Fibrous_pericardium] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fibrous portion of pericardium" EXACT [] synonym: "pericardium fibrosum" RELATED LATIN [Wikipedia:Fibrous_pericardium] xref: EMAPA:19029 xref: FMA:9586 xref: MA:0002738 xref: SCTID:243953008 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png is_a: UBERON:0000094 ! membrane organ is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002407 ! pericardium [Term] id: UBERON:0002360 name: meninx namespace: uberon def: "Membrane organ that surrounds the brain and the spinal cord." [FMA:9589, Wikipedia:Meninx, http://www.shsu.edu/~bio_mlt/Chap15.html] comment: Editor note: consider separate term for meninges aka collection of meninges. Note in EHDAA2 pia mater etc are part of the meninges. Also consider a new class for primary/primitive meninx. AO notes: Not consider part of the CNS/neuraxis in FMA. Taxon notes: Whereas cyclostomes and fishes only have a single envelope called the primitive meninx, amphibians have two layers, consisting of an outer dura mater which is extremely dense and protective, and a pia-arachnoid or secondary meninx which is more delicate and vascular. Mammals have three meninges: pia mater (which follows all the convolutions of the brain and is the most interior), the arachnoid layer (which is delicate and sends strands to the pia mater), and the dura mater (the outer, more protective meninx). subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "layer of meninges" EXACT [] synonym: "meningeal layer" EXACT [] synonym: "meninx primitiva" NARROW [VHOG:0001295] xref: BTO:0000144 xref: EFO:0000584 xref: EFO:0000867 xref: EV:0100312 xref: FMA:9589 xref: GAID:687 xref: MA:0001113 xref: MAT:0000113 xref: MESH:A08.186.566 xref: NIF_GrossAnatomy:nlx_anat_090204 xref: OpenCyc:Mx4rwDOl8JwpEbGdrcN5Y29ycA xref: TAO:0001355 xref: UMLS:C0025285 xref: VHOG:0001295 xref: ZFA:0001355 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/48/Illu_meninges.jpg/200px-Illu_meninges.jpg xref: ncithesaurus:Meninges is_a: UBERON:0000094 ! membrane organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010743 ! meningeal cluster property_value: external_definition "Membrane covering the brain and spinal cord. It is represented by a single layer in fishes, two in amphibians, reptiles and birds and three in mammals (named dura mater, arachnoid and pia mater). [TFD][VHOG]" xsd:string property_value: has_relational_adjective "meningeal" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0002361 name: pia mater namespace: uberon def: "delicate innermost layer of the meningesbthe membranes surrounding the brain and spinal cord. The thin, mesh-like pia mater closely envelops the entire surface of the brain, running down into the fissures of the cortex. It joins with the ependyma which lines the ventricles to form choroid plexuses that produce cerebrospinal fluid. In the spinal cord, the pia mater attaches to the dura mater by the denticular ligaments through the arachnoid membrane. The pia mater is a neural crest derivative." [Wikipedia:Pia_mater] comment: Editor note: consider adding adjacency relationship to neuraxis (brain+spinal cord); however note that at this time the meninges may be considered part of the nervous system subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pia mater of neuraxis" EXACT [] synonym: "pial membrane" EXACT [NIF_GrossAnatomy:nlx_anat_090209] xref: BTO:0001635 xref: EHDAA2:0004318 xref: EHDAA:1367 xref: EHDAA:1961 xref: EHDAA:2001 xref: EHDAA:2099 xref: EHDAA:2685 xref: EHDAA:2833 xref: EHDAA:2867 xref: EHDAA:3692 xref: EHDAA:3710 xref: EHDAA:6566 xref: EHDAA:6583 xref: EV:0100315 xref: FMA:9590 xref: GAID:693 xref: MA:0001116 xref: MESH:A08.186.566.731 xref: NIF_GrossAnatomy:nlx_anat_090209 xref: OpenCyc:Mx4rvtesBZwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001464 xref: SCTID:362305004 xref: UMLS:C0031869 xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray770-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Gray770.png/200px-Gray770.png xref: ncithesaurus:Pia_Mater is_a: UBERON:0000391 ! leptomeninx [Term] id: UBERON:0002362 name: arachnoid mater namespace: uberon def: "A think avascular meningeal layer, between the pia mater and the dural mater. It is separated from the pia mater by the subarachnoid space." [ISBN10:0471888893, Wikipedia:Arachnoid_mater] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arachnoid" EXACT [] synonym: "arachnoid mater of neuraxis" EXACT [] synonym: "arachnoid membrane" EXACT [NIF_GrossAnatomy:nlx_anat_090208] synonym: "arachnoidea mater" RELATED [BTO:0001636] xref: BTO:0001636 xref: EV:0100314 xref: FMA:9591 xref: GAID:688 xref: MA:0001114 xref: MESH:A08.186.566.166 xref: NIF_GrossAnatomy:nlx_anat_090208 xref: OpenCyc:Mx4rve5HlJwpEbGdrcN5Y29ycA xref: SCTID:362304000 xref: UMLS:C1510935 xref: http://upload.wikimedia.org/wikipedia/commons/a/a0/Gray767.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a0/Gray767.png/200px-Gray767.png xref: ncithesaurus:Arachnoid_Membrane is_a: UBERON:0000391 ! leptomeninx property_value: spatially_disjoint_from UBERON:0002049 [Term] id: UBERON:0002363 name: dura mater namespace: uberon def: "the outermost of the three layers of the meninges surrounding the brain and spinal cord. The other two meningeal layers are the pia mater and the arachnoid mater. The dura surrounds the brain and the spinal cord and is responsible for keeping in the cerebrospinal fluid." [Wikipedia:Dura_mater] comment: Function notes: capable of inducing chondrogenesis - requires contact with an epithelium - PMID:16496288. AO notes: in ncit this is divided into periosteal layer and meningeal layer subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dura" RELATED [BTO:0001637] synonym: "dura mater of neuraxis" EXACT [] synonym: "pachymeninges" EXACT [NIF_GrossAnatomy:nlx_anat_090206] xref: BTO:0001637 xref: EMAPA:17776 xref: EV:0100313 xref: FMA:9592 xref: GAID:691 xref: MA:0001115 xref: MESH:A08.186.566.395 xref: NIF_GrossAnatomy:nlx_anat_090206 xref: OpenCyc:Mx4rvvmzqZwpEbGdrcN5Y29ycA xref: SCTID:362301008 xref: UMLS:C0013313 xref: http://upload.wikimedia.org/wikipedia/commons/8/8e/Meninges-en.svg xref: ncithesaurus:Dura_Mater is_a: UBERON:0002360 ! meninx is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0001773 ! sclera relationship: develops_from UBERON:0007647 ! ectomeninx relationship: immediate_transformation_of UBERON:0010115 ! future dura mater property_value: never_in_taxon NCBITaxon:32443 [Term] id: UBERON:0002364 name: tympanic membrane namespace: uberon def: "A thin membrane that separates the external ear from the middle ear, consisting of two epithelia (one part of the the external accoustic meatus epithelium, the other part of the tympanic cavity epithelium) with a fibrous layer between them. Its function is to transmit sound from the air to the ossicles inside the middle ear. The malleus bone bridges the gap between the eardrum and the other ossicles. Rupture or perforation of the eardrum can lead to conductive hearing loss. [WP,unvetted]." [PMID:11237469, Wikipedia:Tympanic_membrane] comment: most AOs consider this part of the middle ear, so we go with this and place it in the middle ear as a border to the external, although it could be considered to overlap the external ear in that it has an EAM layer as part - for this reason we do not consider middle and external ear to be spatially disjoint. Development notes: The tympanic membrane (TM) has three layers, two epithelia provided by the external acoustic meatus (EAM) and the MEC, derived respectively from the first pharyngeal cleft and pouch, and a mesenchymally derived fibrous stratum[PMID:11237469] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Rivinus' membrane" EXACT [] synonym: "ear drum" EXACT [] synonym: "eardrum" EXACT [] synonym: "lateral wall of tympanic cavity" EXACT [] synonym: "membranous wall of tympanic cavity" EXACT [] synonym: "myrinx" EXACT [] synonym: "paries membranaceus cavi tympani" EXACT LATIN [FMA:9595, FMA:TA] synonym: "tympanum" RELATED [Wikipedia:Tympanic_membrane] xref: EV:0100358 xref: FMA:9595 xref: GAID:870 xref: MA:0000257 xref: MESH:A09.246.397.873 xref: SCTID:181180005 xref: UMLS:C0041445 xref: VHOG:0001146 xref: XAO:0000212 xref: ncithesaurus:Tympanic_Membrane is_a: UBERON:0000094 ! membrane organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: adjacent_to UBERON:0004114 ! tympanic cavity relationship: develops_from UBERON:0009213 ! pharyngeal membrane of 1st arch relationship: has_part UBERON:0005042 ! inner epithelial layer of tympanic membrane relationship: has_part UBERON:0010069 ! outer epithelial layer of tympanic membrane relationship: has_part UBERON:0010070 ! intermediate layer of tympanic membrane relationship: overlaps UBERON:0001352 ! external acoustic meatus relationship: overlaps UBERON:0001691 ! external ear relationship: part_of UBERON:0001756 ! middle ear property_value: external_definition "The thin membrane which closes externally the cavity of the middle ear and is deeply sited at the bottom of the external auditory meatus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes "In particular, a tympanic membrane was not present in the earliest tetrapods (...). An ear utilizing a tympanic membrane evolved independently at least three times in tetrapods: (1) in the lineage that leads to anurans (frogs), (2) in the line of evolution to turtles and diapsids, and (3) in the late synapsid lineage that gave rise to mammals.[well established][VHOG]" xsd:string [Term] id: UBERON:0002365 name: exocrine gland namespace: uberon def: "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas" [Wikipedia:Exocrine_gland] comment: Editor's note: Currently this is logically defined by the system it belongs to, but a better system may be base this on presence/absence of ducts. However, the dual nature of the liver should be taken into consideration here. Consider adding subclasses subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ducted gland" EXACT [AEO:0000097] synonym: "glandula exocrina" EXACT LATIN [Wikipedia:Exocrine_gland] xref: AEO:0000097 xref: BTO:0000765 xref: EHDAA2:0003097 xref: FMA:9596 xref: GAID:34 xref: MA:0002564 xref: MESH:A10.336 xref: UMLS:C0015282 xref: ncithesaurus:Exocrine_Gland relationship: has_part UBERON:0000058 ! duct intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system [Term] id: UBERON:0002366 name: bulbo-urethral gland namespace: uberon def: "Any of the small paired racemose glands below the apex of the prostate in males, located posterolateral to the membranous portion of the urethra at the base of the penis, between the two layers of the fascia of the urogenital diaphragm, in the deep perineal pouch, and enclosed by transverse fibers of the sphincter urethrae membranaceae muscle; homologous to the greater vestibular (Bartholin's) glands in the female[MP]" [MP:anna, Wikipedia:Bulbourethral_gland] comment: Structure notes: The bulbourethral glands are compound tubulo-alveolar glands. AO notes: see comments for paraurethral gland - ncita placement may not be correct subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Cowper's gland" EXACT [FMA:9599] synonym: "Cowper's glands" EXACT PLURAL [FMA:9599] synonym: "MC)ry gland" EXACT [MP:anna] synonym: "Mery's gland" EXACT [] synonym: "bulbourethral gland" EXACT [FMA:9599] synonym: "glandula bulbourethralis" EXACT LATIN [MP:anna] xref: BTO:0001698 xref: EMAPA:19286 xref: FMA:9599 xref: GAID:387 xref: MA:0000401 xref: MESH:A05.360.444.123 xref: SCTID:278918009 xref: UMLS:C0006366 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Male_anatomy.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/35/Male_anatomy.png/200px-Male_anatomy.png xref: ncithesaurus:Cowper_s_Gland is_a: UBERON:0006868 ! seminal fluid secreting gland is_a: UBERON:0010147 ! male accessory sex gland is_a: UBERON:0010186 ! male urethral gland relationship: homologous_to UBERON:0000460 ! major vestibular gland relationship: part_of UBERON:0001333 ! male urethra relationship: part_of UBERON:0002330 ! exocrine system relationship: secretes UBERON:0004691 ! bulbourethral gland secretion property_value: external_definition "Either of two small racemose glands that are located below the prostate and discharge a component of the seminal fluid into the urethra. They are homologous to the Bartholin's glands in the female[BTO]." xsd:string property_value: external_definition "Lobular organ the parenchyma of which consists of glandular acini which communicate the bulbar part of the urethra. Examples: There only two instances, right and left bulbo-urethral glands[FMA]" xsd:string property_value: external_definition "any of the small paired racemose (compound tubulo-alveolar) glands below the apex of the prostate in males, located posterolateral to the membranous portion of the urethra at the base of the penis, between the two layers of the fascia of the urogenital diaphragm, in the deep perineal pouch, and enclosed by transverse fibers of the sphincter urethrae membranaceae muscle; they secrete a clear fluid known as pre-ejaculate (Cowper's fluid), and are homologous to the greater vestibular (Bartholin's) glands in the female[MP]." xsd:string [Term] id: UBERON:0002367 name: prostate gland namespace: uberon def: "The prostate gland is a partly muscular, partly glandular body that is situated near the base of the mammalian male urethra and secretes an alkaline viscid fluid which is a major constituent of the ejaculatory fluid." [GO:0030850, Wikipedia:Prostate] comment: TODO - FMA treats the gland as part of the prostate - see also FMA:74119. subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "male prostate" EXACT [PMID:10668204] synonym: "prostata" RELATED LATIN [Wikipedia:Prostate] synonym: "prostate" EXACT [] xref: BTO:0001129 xref: EFO:0000858 xref: EMAPA:19287 xref: EV:0100104 xref: FMA:9600 xref: GAID:392 xref: MA:0000404 xref: MAT:0000078 xref: MESH:A05.360.444.575 xref: MIAA:0000078 xref: OpenCyc:Mx4rv6trqZwpEbGdrcN5Y29ycA xref: SCTID:181422007 xref: UMLS:C0033572 xref: VHOG:0001261 xref: galen:ProstateGland xref: http://upload.wikimedia.org/wikipedia/commons/a/a1/Prostatelead.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a1/Prostatelead.jpg/200px-Prostatelead.jpg xref: ncithesaurus:Prostate_Gland is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0010147 ! male accessory sex gland relationship: develops_from UBERON:0003820 ! prostate bud property_value: has_relational_adjective "prostatic" xsd:string [Term] id: UBERON:0002368 name: endocrine gland namespace: uberon def: "Endocrine glands are glands of the endocrine system that secrete their products, hormones, directly into the blood rather than through a duct. The main endocrine glands include the pituitary gland, pancreas, ovaries, testes, thyroid gland, and adrenal glands. The hypothalamus is a neuroendocrine organ. Other organs which are not so well known for their endocrine activity include the stomach, which produces such hormones as ghrelin[WP]." [Wikipedia:Endocrine_gland] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ductless gland" EXACT [AEO:0000098, Wikipedia:Ductless_gland] synonym: "glandula endocrina" EXACT [] synonym: "glandulae endocrinae" RELATED LATIN [Wikipedia:Endocrine_gland] xref: AEO:0000098 xref: BTO:0001488 xref: EHDAA2:0003098 xref: FMA:9602 xref: GAID:335 xref: MA:0002563 xref: MESH:A06.407 xref: OpenCyc:Mx4rvbkiRZwpEbGdrcN5Y29ycA xref: SCTID:40818001 xref: UMLS:C0014133 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Illu_endocrine_system.png xref: ncithesaurus:Endocrine_Gland relationship: capable_of GO:0060986 ! endocrine hormone secretion intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000949 ! endocrine system [Term] id: UBERON:0002369 name: adrenal gland namespace: uberon def: "Either of a pair of complex endocrine organs near the anterior medial border of the kidney consisting of a mesodermal cortex that produces glucocorticoid, mineralocorticoid, and androgenic hormones and an ectodermal medulla that produces epinephrine and norepinephrine[BTO]." [BTO:0000047, Wikipedia:Adrenal_gland] comment: Taxon notes: The origin of the adrenal gland is still controversial. It is thought to share the same origin as the kidney and gonads, derived from coelomic epithelium of the urogenital ridge and/or the underlying mesenchyme (Keegan and Hammer, 2002; Morohashi, 1997). We follow Kardong and state homology at the level of the cortex and medulla rather than gland as a whole subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "adrenal" RELATED [BTO:0000047] synonym: "adrenal capsule" RELATED [BTO:0000047] synonym: "adrenal medulla cell" RELATED [] synonym: "atrabiliary capsule" RELATED [BTO:0000047] synonym: "epinephric gland" RELATED [Wikipedia:Adrenal_gland] synonym: "epinephros" RELATED [BTO:0000047] synonym: "glandula adrenalis" EXACT LATIN [Wikipedia:Adrenal_gland] synonym: "glandula suprarenalis" EXACT LATIN [BTO:0000047, Wikipedia:Adrenal_gland] synonym: "interrenal gland" RELATED HOMOLOGY [GO:0030325] synonym: "suprarenal capsule" RELATED [BTO:0000047] synonym: "suprarenal gland" RELATED [Wikipedia:Adrenal_gland] xref: AAO:0010551 xref: BTO:0000047 xref: EFO:0000238 xref: EMAPA:18426 xref: EV:0100135 xref: FMA:9604 xref: GAID:446 xref: MA:0000116 xref: MAT:0000071 xref: MESH:A06.407.071 xref: MIAA:0000071 xref: OpenCyc:Mx4rvXYiz5wpEbGdrcN5Y29ycA xref: SCTID:181127006 xref: UMLS:C0001625 xref: VHOG:0001141 xref: XAO:0000164 xref: galen:AdrenalGland xref: http://upload.wikimedia.org/wikipedia/commons/9/9d/Illu_endocrine_system_New.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c6/Illu_endocrine_system.jpg/200px-Illu_endocrine_system.jpg xref: ncithesaurus:Adrenal_Gland is_a: UBERON:0006858 ! adrenal/interrenal gland is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: in_lateral_side_of UBERON:0000949 ! endocrine system relationship: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000949 ! endocrine system property_value: external_definition "Anatomical structure which is found on the surface of the kidney and secretes various hormones including epinephrine, norephinephrine, aldosterone, corticosterone, and cortisol.[AAO]" xsd:string property_value: homology_notes "All craniates have groups of cells homologous to the mammalian adrenocortical and chromaffin tissues, but they are scattered in and near the kidneys in fishes. (...) The cortical and chromaffin tissues come together to form adrenal glands in tetrapods.[well established][VHOG]" xsd:string [Term] id: UBERON:0002370 name: thymus namespace: uberon def: "Anatomical structure of largely lymphoid tissue that functions in cell-mediated immunity by being the site where T cells develop." [NLM:thymus, Wikipedia:Thymus] comment: check - a subtype of gland? not in GO. NCIT has thymus and thymus gland. EHDAA2 has ductless gland. subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "thymus gland" EXACT [] xref: AAO:0010548 xref: BTO:0001374 xref: EFO:0000860 xref: EHDAA2:0002017 xref: EHDAA:9119 xref: EMAPA:18768 xref: EV:0100138 xref: FMA:9607 xref: GAID:464 xref: MA:0000142 xref: MAT:0000080 xref: MESH:A06.407.850 xref: MIAA:0000080 xref: OpenCyc:Mx4rvpIympwpEbGdrcN5Y29ycA xref: SCTID:118507000 xref: TAO:0001078 xref: UMLS:C0040113 xref: VHOG:0000253 xref: XAO:0000163 xref: ZFA:0001078 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Illu_thymus.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Illu_thymus.jpg/200px-Illu_thymus.jpg xref: ncithesaurus:Thymus_Gland is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0004177 ! hemopoietic organ is_a: UBERON:0005057 ! immune organ is_a: UBERON:0005058 ! hemolymphoid system gland relationship: develops_from UBERON:0005562 ! thymus primordium relationship: has_part CL:0000827 ! pro-T cell relationship: part_of UBERON:0000949 ! endocrine system relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002405 ! immune system relationship: part_of UBERON:0009113 ! thymic region relationship: site_of GO:0030217 ! T cell differentiation property_value: external_definition "Anatomical structure which originates as several paired thickenings on the dorsal side of the pharyngeal pouches and secretes thymosin.[AAO]" xsd:string property_value: has_relational_adjective "thymic" xsd:string property_value: homology_notes "A thymus develops in all vertebrates from the endodermal epithelium of certain pharyngeal pouches and from the adjacent ectodermal epithelium. In fishes, all the pouches, or the first four, contribute to thymus formation, but in tetrapods, the number is more restricted. In mammals, only the third and fourth are involved, and the contribution of the third is by far the greater.[well established][VHOG]" xsd:string [Term] id: UBERON:0002371 name: bone marrow namespace: uberon def: "flexible tissue found in the hollow interior of bones. In adults, marrow in large bones produces new blood cells[WP]." [Wikipedia:Bone_marrow] comment: TODO - create superclass for bone marrow / head kidney. both are portions of tissue in the hematopoetic system. also consider adding as subclass of zone of bone organ for consistency with FMA. See also: Leydig and epigonal organs subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior kidney" RELATED [] synonym: "head kidney" BROAD [] synonym: "kidney marrow" RELATED [] synonym: "medulla of bone" RELATED [BTO:0000141] synonym: "medulla ossea" EXACT [] synonym: "medulla ossium" RELATED LATIN [BTO:0000141, Wikipedia:Bone_marrow] xref: AAO:0011007 xref: BTO:0000141 xref: BTO:0000829 xref: EFO:0000868 xref: EV:0100046 xref: FMA:9608 xref: GAID:1287 xref: MA:0000134 xref: MAT:0000084 xref: MESH:A15.382.216 xref: MIAA:0000084 xref: OpenCyc:Mx4rvVm-FpwpEbGdrcN5Y29ycA xref: SCTID:421320006 xref: UMLS:C0005953 xref: VHOG:0001218 xref: XAO:0000123 xref: galen:BoneMarrow xref: http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg xref: ncithesaurus:Bone_Marrow is_a: UBERON:0000479 ! tissue is_a: UBERON:0012429 ! hemopoietic tissue relationship: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002405 ! immune system relationship: site_of GO:0030097 ! hemopoiesis property_value: homology_notes "The bone marrow is the hematopoietic organ in all vertebrates but fishes, in which hematopoiesis occurs in the kidney.[well established][VHOG]" xsd:string [Term] id: UBERON:0002372 name: tonsil namespace: uberon def: "Portion of lymphoid tissue on either side of the throat." [Wikipedia:Tonsil] comment: Usage notes: the term 'tonsil' can be ambiguous, sometimes refering specifically to the palatine tonsil, sometimes generically to include the cecal tonsils of avians. This class represents lymphoid tissue that is part of the tonsillar ring, in the mouth/throat region subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Mandel" RELATED [BTO:0001387] xref: BTO:0001387 xref: EFO:0001401 xref: EV:0100052 xref: FMA:9609 xref: GAID:341 xref: MA:0000143 xref: MESH:A03.867.603.925 xref: OpenCyc:Mx4rvVivrZwpEbGdrcN5Y29ycA xref: UMLS:C0836921 xref: UMLS:C1519547 xref: UMLS:C1519548 xref: VHOG:0001139 xref: ncithesaurus:Tonsil xref: ncithesaurus:Tonsilar_Tissue xref: ncithesaurus:Tonsillar_Lymphoid_Tissue is_a: UBERON:0001961 ! mucosa-associated lymphoid tissue is_a: UBERON:0001962 ! gut-associated lymphoid tissue relationship: located_in UBERON:0000167 ! oral cavity relationship: part_of UBERON:0001735 ! tonsillar ring disjoint_from: UBERON:0005351 ! paraflocculus [Term] id: UBERON:0002373 name: palatine tonsil namespace: uberon def: "tonsils on the left and right sides at the back of the throat. one of the mucosa-associated lymphoid tissues (MALT), located at the entrance to the upper respiratory and gastrointestinal tracts to protect the body from the entry of exogenous material through mucosal sites[WP]." [Wikipedia:Palatine_tonsil] comment: Development notes: tonsillar fossa develops from dorsal portion of pouch 2. Note that pharyngeal and lingual tonsils do not develop from pharyngeal pouches[ISBN10:1607950324] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "faucial tonsil" EXACT [] synonym: "tonsil" BROAD [] synonym: "tonsilla palatina" RELATED LATIN [Wikipedia:Palatine_tonsil] xref: BTO:0004714 xref: EFO:0001977 xref: EV:0100393 xref: FMA:9610 xref: MA:0000775 xref: MAT:0000291 xref: MIAA:0000291 xref: SCTID:265787001 xref: UMLS:C0040421 xref: VHOG:0001140 xref: http://upload.wikimedia.org/wikipedia/commons/f/f6/Illu_mouth.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f6/Illu_mouth.jpg/200px-Illu_mouth.jpg xref: ncithesaurus:Palatine_Tonsil is_a: UBERON:0002372 ! tonsil is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0002539 ! pharyngeal arch relationship: develops_from UBERON:0010023 ! dorsal part of pharyngeal pouch 2 [Term] id: UBERON:0002374 name: metacarpal bone namespace: uberon def: "A bone that is part of the metacarpal skeleton." [UBERON:cjm, Wikipedia:Metacarpal_bone] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "metacarpal" EXACT [] xref: EFO:0003886 xref: FMA:9612 xref: MA:0000302 xref: OpenCyc:Mx4rv1Bk45wpEbGdrcN5Y29ycA xref: SCTID:181977005 xref: SCTID:425761003 xref: UMLS:C0025526 xref: galen:Metacarpal xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2f/Metacarpals_numbered-en.svg/200px-Metacarpals_numbered-en.svg.png xref: ncithesaurus:Metacarpal_Bone is_a: UBERON:0003607 ! forelimb long bone is_a: UBERON:0003821 ! metapodium bone is_a: UBERON:0012358 ! manual digitopodium bone relationship: connected_to UBERON:0001435 ! carpal bone relationship: connected_to UBERON:0001436 ! phalanx of manus relationship: part_of UBERON:0010544 ! metacarpus skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0004453 ! metacarpus region [Term] id: UBERON:0002375 name: cricoid cartilage namespace: uberon def: "The cricoid cartilage, or simply cricoid (from the Greek krikoeides meaning 'ring-shaped'), is the only complete ring of cartilage around the trachea. [WP,unvetted]." [Wikipedia:Cricoid_cartilage] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilaginis cricoideae" RELATED PLURAL [Wikipedia:Cricoid_cartilage] synonym: "cartilago cricoidea" EXACT LATIN [Wikipedia:Cricoid_cartilage] synonym: "cartilago cricotrachealis" RELATED [AAO:0000675] synonym: "cricoid" RELATED [Wikipedia:Cricoid_cartilage] synonym: "cricoidea" RELATED [Wikipedia:Cricoid_cartilage] synonym: "innominate cartilage" RELATED [VHOG:0001308] synonym: "krykoid cartilage" RELATED [Wikipedia:Cricoid_cartilage] xref: AAO:0000675 xref: EHDAA2:0000326 xref: EHDAA:9393 xref: EMAPA:18696 xref: FMA:9615 xref: GAID:110 xref: MA:0001762 xref: MESH:A02.165.507.211 xref: SCTID:263484006 xref: UMLS:C0010323 xref: VHOG:0001308 xref: http://upload.wikimedia.org/wikipedia/commons/5/54/Gray1194.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/54/Gray1194.png/200px-Gray1194.png xref: ncithesaurus:Cricoid_Cartilage is_a: UBERON:0001739 ! laryngeal cartilage is_a: UBERON:0001994 ! hyaline cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003583 ! larynx connective tissue relationship: develops_from UBERON:0010214 ! cricoid pre-cartilage condensation property_value: external_definition "Cartilaginous ring that provides support for the arytenoid cartilages. Its ventral part is bent posteriorly to form a V.[AAO]" xsd:string property_value: external_definition "The ringlike cartilage forming the caudal part of the larynx. [TFD][VHOG]" xsd:string property_value: homology_notes " (In anura) a dorsal pair of arytenoid cartilages (...), which support vocal cords, and a ventral pair (often fused) of cricoid cartilage (...). These cartilages are regarded as derivatives of posterior visceral arches of ancestors. Together they constitute the larynx, a structure characteristic of tetrapods. (...) (In mammals) Paired arytenoid cartilages help support and control the vocal cords. The cricoid cartilage is single. Two additional cartilages are present that are lacking in other vertebrates: a large ventral thyroid cartilage (...) and a cartilage in the epiglottis.[well established][VHOG]" xsd:string [Term] id: UBERON:0002376 name: muscle of head namespace: uberon def: "Any muscle that is part of a head[Automatically generated definition]." [OBOL:automatic] comment: TODO - check ZFA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "adult head muscle organ" EXACT [OBOL:automatic] synonym: "cephalic muscle" EXACT [ZFA:0001652] synonym: "cephalic musculature" EXACT [] synonym: "cranial muscle " RELATED [ZFA:0001652] synonym: "head muscle" EXACT [MA:0000578] synonym: "head muscle organ" EXACT [OBOL:automatic] synonym: "head muscles" RELATED [] synonym: "muscle organ of adult head" EXACT [OBOL:automatic] synonym: "muscle organ of head" EXACT [OBOL:automatic] synonym: "musculus caput" EXACT [] xref: AAO:0000107 xref: BTO:0000021 xref: EFO:0003524 xref: EHDAA2:0000322 xref: EMAPA:18171 xref: FMA:9616 xref: MA:0000578 xref: TAO:0000328 xref: ZFA:0000328 xref: ZFA:0001652 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010959 ! craniocervical muscle relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0004461 ! musculature of head intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0002377 name: muscle of neck namespace: uberon def: "Muscle organ which is a part of the neck. Examples: platysma, sternocleidomastoid, cricothyroid muscle.[FMA]" [FMA:9617] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "muscle organ of neck" EXACT [OBOL:automatic] synonym: "muscle organ of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) muscle organ" EXACT [OBOL:automatic] synonym: "neck muscle" EXACT [] synonym: "neck muscle organ" EXACT [OBOL:automatic] xref: FMA:9617 xref: GAID:149 xref: MA:0000587 xref: MESH:A02.633.567.650 xref: UMLS:C0027532 xref: ncithesaurus:Neck_Muscle is_a: UBERON:0010959 ! craniocervical muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0002378 name: muscle of abdomen namespace: uberon def: "Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis." [Wikipedia:Abdominal_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "abdomen muscle" EXACT [] synonym: "abdomen muscle organ" EXACT [OBOL:automatic] synonym: "abdominal muscle" EXACT [] synonym: "abdominal wall muscle" EXACT [] synonym: "muscle organ of abdomen" EXACT [OBOL:automatic] xref: BTO:0001261 xref: FMA:9620 xref: GAID:89 xref: MA:0000520 xref: MESH:A02.633.567.050 xref: OpenCyc:Mx4rvlygNJwpEbGdrcN5Y29ycA xref: SCTID:361352008 xref: UMLS:C0000739 xref: ncithesaurus:Abdominal_Muscle is_a: UBERON:0003833 ! abdominal segment muscle is_a: UBERON:0005172 ! abdomen organ relationship: part_of UBERON:0003697 ! abdominal wall intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0002379 name: perineal muscle namespace: uberon def: "A muscle organ that is part of a perineum [Automatically generated definition]." [OBOL:automatic] comment: This class was created automatically from a combination of ontologies synonym: "muscle of perineum" EXACT [] synonym: "muscle organ of perineal region" EXACT [OBOL:automatic] synonym: "muscle organ of perineum" EXACT [OBOL:automatic] synonym: "perineal region muscle organ" EXACT [OBOL:automatic] synonym: "perineum muscle organ" EXACT [OBOL:automatic] xref: FMA:9623 xref: MA:0000538 xref: UMLS:C0224382 xref: ncithesaurus:Perineal_Muscle is_a: UBERON:0001325 ! muscle of pelvis is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002356 ! perineum [Term] id: UBERON:0002380 name: trapezius namespace: uberon def: "In human anatomy, the trapezius is a large superficial muscle that extends longitudinally from the occipital bone to the lower thoracic vertebrae and laterally to the spine of the scapula (shoulder blade). Its functions are to move the scapulae and support the arm. The trapezius has three functional regions: the superior region (descending part), which supports the weight of the arm; the intermediate region (transverse part), which retracts the scapulae; and the inferior region (ascending part), which medially rotates and depresses the scapulae. [WP,unvetted]." [Wikipedia:Trapezius_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus trapezius" RELATED LATIN [Wikipedia:Trapezius_muscle] synonym: "trapezius muscle" EXACT [] xref: EMAPA:18183 xref: FMA:9626 xref: MA:0002398 xref: SCTID:181740005 xref: UMLS:C0224361 xref: VHOG:0000834 xref: http://upload.wikimedia.org/wikipedia/commons/6/60/Trapezius.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/60/Trapezius.png/200px-Trapezius.png xref: ncithesaurus:Trapezius_Muscle is_a: UBERON:0001482 ! muscle of shoulder is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0010955 ! trapezius pre-muscle mass relationship: has_muscle_antagonist UBERON:0001112 ! latissimus dorsi muscle relationship: has_muscle_antagonist UBERON:0001125 ! serratus anterior relationship: has_muscle_insertion UBERON:0002497 ! acromion relationship: has_muscle_insertion UBERON:0007173 ! lateral border of scapula relationship: has_muscle_origin UBERON:0000351 ! nuchal ligament relationship: has_muscle_origin UBERON:0001076 ! spinous process of vertebra property_value: homology_notes "The sternomastoid and the three parts of the trapezius are branchiomeric muscles that have secondarily acquired an attachment to the pectoral girdle. They evolved from the fish cucullaris.[well established][VHOG]" xsd:string [Term] id: UBERON:0002381 name: pectoralis major namespace: uberon def: "The pectoralis major is a thick, fan-shaped muscle, situated at the upper front of the chest wall. It makes up the bulk of the chest muscles in the male and lies under the breast in the female. Underneath the pectoralis major is the pectoralis minor, a thin, triangular muscle. [WP,unvetted]." [Wikipedia:Pectoralis_major_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Musculus pectoralis major" RELATED LATIN [Wikipedia:Pectoralis_major_muscle] synonym: "pectoralis major muscle" EXACT [] synonym: "pectoralis major muscle structure" EXACT [SCTID:60005003] xref: EHDAA2:0001424 xref: EHDAA:8311 xref: EMAPA:18179 xref: FMA:9627 xref: MA:0002354 xref: SCTID:181624003 xref: SCTID:60005003 xref: UMLS:C0585574 xref: VHOG:0000895 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Pectoralis_major.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6c/Pectoralis_major.png/200px-Pectoralis_major.png xref: ncithesaurus:Pectoralis_Major is_a: UBERON:0001495 ! pectoral muscle relationship: has_muscle_insertion UBERON:0000976 ! humerus relationship: has_muscle_origin UBERON:0000975 ! sternum relationship: has_muscle_origin UBERON:0001105 ! clavicle relationship: innervated_by UBERON:0003726 ! thoracic nerve [Term] id: UBERON:0002382 name: rectus abdominis muscle namespace: uberon def: "The rectus abdominis muscle is a paired muscle running vertically on each side of the anterior wall of the human abdomen (and in some other animals). There are two parallel muscles, separated by a midline band of connective tissue called the linea alba (white line). It extends from the pubic symphysis/pubic crest inferiorly to the xiphisternum/xiphoid process and lower costal cartilages (5b7) superiorly. It is contained in the Rectus sheath. The rectus is usually crossed by three fibrous bands licked by the tendinous inscriptions. While the 'sixpack' is by far the most common configuration of the muscle bellies of the rectus, there exist rare anatomic variations which result in the appearance of eight ('eightpack'), ten, orbeven rarerbasymmetrically arranged segments. All these variations are functionally equivalent. [WP,unvetted]." [Wikipedia:Rectus_abdominis_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "m. rectus abdominis" EXACT [AAO:0010789] synonym: "musculus rectus abdominis" EXACT [AAO:0010789] synonym: "rectus abdominis" EXACT [MA:0002364] synonym: "six pack" RELATED [] xref: AAO:0010789 xref: EHDAA2:0001595 xref: EHDAA:8252 xref: EMAPA:18164 xref: FMA:9628 xref: GAID:142 xref: MA:0002364 xref: MESH:A02.633.567.050.800 xref: SCTID:256672008 xref: UMLS:C0206066 xref: VHOG:0000863 xref: XAO:0004128 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/95/Rectus_abdominis.png/200px-Rectus_abdominis.png xref: ncithesaurus:Rectus_Abdominis is_a: UBERON:0002378 ! muscle of abdomen is_a: UBERON:0002461 ! anterior abdominal wall muscle is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_muscle_insertion UBERON:0000975 ! sternum relationship: has_muscle_origin UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0006635 ! anterior abdominal wall relationship: part_of UBERON:0008777 ! hypaxial musclulature [Term] id: UBERON:0002383 name: supraspinatus muscle namespace: uberon def: "The supraspinatus is a relatively small muscle of the upper limb that takes its name from its origin from the supraspinous fossa superior to the spine of the scapula. It is one of the four rotator cuff muscles and also abducts the arm at the shoulder. The spine of the scapula separates the supraspinatus muscle from the infraspinatus muscle, which originates below the spine. [WP,unvetted]." [Wikipedia:Supraspinatus_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus supraspinatus" EXACT LATIN [Wikipedia:Supraspinatus_muscle] synonym: "supraspinatus" EXACT [MA:0002389] xref: EHDAA2:0001967 xref: EHDAA:8319 xref: EMAPA:18182 xref: FMA:9629 xref: MA:0002389 xref: SCTID:181626001 xref: UMLS:C0584869 xref: VHOG:0000848 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Arm_muscles_back_numbers.png/200px-Arm_muscles_back_numbers.png xref: ncithesaurus:Supraspinatus is_a: UBERON:0001482 ! muscle of shoulder relationship: has_muscle_insertion UBERON:0011187 ! greater tubercle of humerus relationship: has_muscle_origin UBERON:0006849 ! scapula relationship: part_of UBERON:0003683 ! rotator cuff [Term] id: UBERON:0002384 name: connective tissue namespace: uberon def: "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibres and ground substance." [VSAO:0000017] comment: AO notes: MA also has set of connective tissues subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Bindegewebe" RELATED [BTO:0000421] synonym: "portion of connective tissue" EXACT [FMA:9640] synonym: "textus connectivus" EXACT [] xref: AAO:0000098 xref: BTO:0000421 xref: EFO:0000952 xref: FMA:9640 xref: GAID:100 xref: MA:0000011 xref: MAT:0000301 xref: MESH:A10.165 xref: MIAA:0000301 xref: OpenCyc:Mx4rv-aBgZwpEbGdrcN5Y29ycA xref: SCTID:361919005 xref: TAO:0001641 xref: UMLS:C0009780 xref: VSAO:0000017 xref: XAO:0001017 xref: ZFA:0001632 xref: galen:ConnectiveTissue xref: ncithesaurus:Connective_Tissue is_a: UBERON:0000479 ! tissue property_value: external_definition "One of the four types of tissue in traditional classifications. It is largely a category of exclusion rather than one with a precise definition, but there are certain characteristics shared by all or most tissues in this category, such as involvement in structure and support, derived from mesoderm, and characterized largely by the traits of non-living tissue.[AAO]" xsd:string property_value: external_definition "Portion of tissue that consists of mesodermally derived cells and intercellular matrix comprised of protein fibers and carbohydrates, which supports, ensheathes and binds together other tissues.[TAO]" xsd:string property_value: external_definition "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.[VSAO]" xsd:string [Term] id: UBERON:0002385 name: muscle tissue namespace: uberon def: "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." [GO:0060537, Wikipedia:Muscle_tissue, https://sourceforge.net/tracker/index.php?func=detail&aid=2801266&group_id=36855&atid=440764] comment: Vertebrate muscle is categorized into three major muscle types defined by their structural and functional properties: skeletal, cardiac and smooth. In Dmel the counterparts are somatic, heart/cardiac and visceral. Here we take a cell type based approach. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "muscular tissue" EXACT SENSU [] synonym: "portion of muscle tissue" EXACT [FMA:9641] synonym: "textus muscularis" EXACT [] xref: AAO:0000306 xref: AEO:0000122 xref: EHDAA2:0003122 xref: FMA:9641 xref: MA:0002437 xref: MESH:A02.633 xref: SCTID:91727004 xref: UMLS:C2328219 xref: galen:MuscleTissue xref: ncithesaurus:Muscle_Tissue is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of GO:0006936 ! muscle contraction relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0001015 ! musculature intersection_of: UBERON:0000479 ! tissue intersection_of: has_part CL:0000187 ! muscle cell disjoint_from: UBERON:0003714 ! neural tissue property_value: spatially_disjoint_from UBERON:0003714 property_value: external_definition "One of the four types of tissue in traditional classifications. Tissue that contains cells with contractile filaments that move past each other and change the size of the cell. Muscle tissue also is separated into three distinct categories.[AAO]" xsd:string [Term] id: UBERON:0002386 name: forelimb zeugopod namespace: uberon def: "The middle limb segment of the pectoral free limb, between the autopod and stylopod segments. Includes as parts the forelimb zeugopodial skeleton, which includes as parts the radius and ulna, or their cartilage precursors, or evolutionary variants." [PHENOSCAPE:curators, Wikipedia:Forearm] comment: Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "antebrachial region" EXACT [] synonym: "antebrachium" EXACT LATIN [VSAO:0005058, Wikipedia:Forearm] synonym: "antibrachium" EXACT [] synonym: "arm middle limb segment" EXACT [OBOL:automatic] synonym: "arm zeugopod" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "brachial region zeugopod" EXACT [OBOL:automatic] synonym: "fore epipodium" RELATED [] synonym: "forearm" EXACT [] synonym: "forelimb epipodium" EXACT [] synonym: "forelimb zeugopodium" EXACT [] synonym: "forelimb zygopod" EXACT [] synonym: "intermediate segment of free upper limb" EXACT [] synonym: "lower arm" EXACT [] synonym: "lower segment of arm" EXACT [] synonym: "middle limb segment of arm" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "middle limb segment of forelimb" EXACT [UBERON:cjm] synonym: "middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "regio antebrachialis" EXACT LATIN [FMA:9663, FMA:TA] synonym: "wing zeugopod" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] synonym: "zeugopod of arm" EXACT [] synonym: "zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "zeugopod of forelimb" EXACT [] synonym: "zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] xref: BTO:0001447 xref: CALOHA:TS-2205 xref: EFO:0003053 xref: EHDAA2:0000553 xref: EHDAA:4172 xref: EHDAA:6218 xref: EMAPA:17417 xref: FMA:9663 xref: GAID:55 xref: MA:0000034 xref: MESH:A01.378.800.585 xref: OpenCyc:Mx4rvVjnmpwpEbGdrcN5Y29ycA xref: SCTID:362741001 xref: UMLS:C0016536 xref: VHOG:0000341 xref: VSAO:0005058 xref: galen:Forearm xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Veins.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/50/Forearm_labeled.png/200px-Forearm_labeled.png xref: ncithesaurus:Forearm is_a: UBERON:0008785 ! upper limb segment relationship: part_of UBERON:0001460 ! arm intersection_of: UBERON:0002471 ! zeugopod intersection_of: part_of UBERON:0002102 ! forelimb property_value: external_definition "The middle forelimb region. [Evolution, Fourth_Edition_(2006)_Boston_etc.:_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.321, see_Kardong_KV][VHOG]" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0002387 name: pes namespace: uberon def: "distal portion of the hind limb, including tarsal region, metatarsal region and digits." [Wikipedia:Foot, Wikipedia:Pes_(anatomy)] comment: Editors note: consider renaming using less human-centric terminology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "foot" EXACT [MA:0000044] synonym: "hind foot" NARROW [] synonym: "hind limb autopodium" RELATED [VHOG:0000350] synonym: "hind paw" NARROW SENSU [EMAPA:17428, OBOL:automatic] synonym: "hind-paw" NARROW SENSU [EMAPA:17428] synonym: "hindfoot" NARROW [] synonym: "hindfoot of quadruped" NARROW [] synonym: "hindlimb autopod" EXACT [OBOL:automatic] synonym: "hindlimb autopodium" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "pes" EXACT [UBERON:cjm] synonym: "terminal segment of free lower limb" EXACT [] xref: BTO:0000476 xref: EFO:0003065 xref: EHDAA2:0000546 xref: EMAPA:17459 xref: FMA:9664 xref: GAID:40 xref: MA:0000044 xref: MESH:A01.378.610.250 xref: OpenCyc:Mx4rvVi-k5wpEbGdrcN5Y29ycA xref: SCTID:302545001 xref: UMLS:C0016504 xref: VHOG:0000350 xref: galen:Foot xref: http://upload.wikimedia.org/wikipedia/commons/a/ae/Male_Right_Foot_1.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ae/Male_Right_Foot_1.jpg/200px-Male_Right_Foot_1.jpg xref: ncithesaurus:Foot is_a: UBERON:0008784 ! lower limb segment relationship: develops_from UBERON:0006871 ! footplate intersection_of: UBERON:0002470 ! autopod region intersection_of: part_of UBERON:0002103 ! hindlimb property_value: has_relational_adjective "pedal" xsd:string [Term] id: UBERON:0002389 name: manual digit namespace: uberon alt_id: UBERON:0000028 def: "A digit that is part of a manus (hand)." [Wikipedia:Finger] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "digit of hand" EXACT [FMA:9666] synonym: "digit of manus" EXACT [] synonym: "digitus manus" EXACT [] synonym: "finger" EXACT [FMA:9666] synonym: "fore digit" EXACT [AAO:0000857, XAO:0003036] synonym: "forelimb digit" EXACT [] synonym: "hand digit" EXACT [MA:0000041] xref: AAO:0000857 xref: BTO:0004669 xref: EHDAA2:0000404 xref: FMA:9666 xref: GAID:57 xref: MA:0000041 xref: MESH:A01.378.800.667.430 xref: NIF_GrossAnatomy:nlx_anat_20090602 xref: OpenCyc:Mx4rvVi_f5wpEbGdrcN5Y29ycA xref: SCTID:283992002 xref: UMLS:C0016129 xref: XAO:0003036 xref: galen:Finger xref: ncithesaurus:Finger is_a: UBERON:0008785 ! upper limb segment relationship: part_of UBERON:0002398 ! manus relationship: part_of UBERON:0012141 ! manual digitopodium region intersection_of: UBERON:0002544 ! digit intersection_of: part_of UBERON:0002102 ! forelimb property_value: external_definition "One of the fingers of the manus.[AAO]" xsd:string [Term] id: UBERON:0002390 name: hematopoietic system namespace: uberon def: "The tissues concerned in production of the blood, including the bone marrow, liver, lymph nodes, spleen, and thymus[BTO]. Anatomical system that consists of the blood and blood forming tissues. The bodily system of organs and tissues, primarily the bone marrow, spleen, tonsils, and lymph nodes, involved in the production of blood[FD]." [BTO:0000570, OMD:haematological, Wikipedia:Hematopoietic_system, http://www.thefreedictionary.com/hematopoietic+system] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Blutbildungssystem" RELATED [BTO:0000570] synonym: "haematological system" EXACT [] synonym: "haematopoietic system" RELATED [] synonym: "haemopoietic system" EXACT [] synonym: "hematological system" RELATED [] synonym: "hematolymphoid system" RELATED [] synonym: "hemopoietic system" RELATED [] synonym: "organa haemopoietica" EXACT [] xref: AAO:0011002 xref: BTO:0000570 xref: EFO:0000798 xref: EV:0100045 xref: FMA:9667 xref: GAID:1008 xref: MA:0002434 xref: MAT:0000022 xref: MESH:A15.378 xref: MIAA:0000022 xref: SCTID:362587009 xref: TAO:0005023 xref: UMLS:C0018957 xref: VHOG:0001624 xref: XAO:0000122 xref: ZFA:0005023 xref: ncithesaurus:Hematopoietic_System is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0003061 ! blood island relationship: part_of UBERON:0002193 ! hemolymphoid system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "Anatomical system that consists of the blood and blood forming tissues.[AAO]" xsd:string property_value: has_relational_adjective "hematopoietic" xsd:string property_value: homology_notes "Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]" xsd:string [Term] id: UBERON:0002391 name: lymph namespace: uberon def: "Transudate contained in the lumen of lymphatic vessel[FMA]. Lymph is the fluid that is formed when interstitial fluid enters the conduits of the lymphatic system[WP]." [FMA:9671, Wikipedia:Lymph] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lympha" RELATED LATIN [Wikipedia:Lymph] xref: BTO:0000855 xref: EFO:0000871 xref: ENVO:02000041 xref: EV:0100049 xref: FMA:9671 xref: GAID:1186 xref: MA:0002520 xref: MAT:0000055 xref: MESH:A12.207.630 xref: MIAA:0000055 xref: OpenCyc:Mx4rvpDOU5wpEbGdrcN5Y29ycA xref: UMLS:C0024202 xref: VHOG:0001590 xref: ZFA:0005658 xref: galen:Lymph xref: http://upload.wikimedia.org/wikipedia/commons/1/19/Illu_lymph_capillary.png xref: ncithesaurus:Lymph is_a: UBERON:0000179 ! haemolymphatic fluid relationship: develops_from UBERON:0000913 ! interstitial fluid [Term] id: UBERON:0002392 name: nasolacrimal duct namespace: uberon def: "The nasolacrimal duct (sometimes called tear duct) carries tears from the lacrimal sac into the nasal cavity. Excess tears flow through nasolacrimal duct which opens in the nose. This is the reason the nose starts to run when a person is crying or has watery eyes from an allergy, and why one can sometimes taste eye drops. Like the lacrimal sac, the duct is lined by stratified columnar epithelium containing mucus-secreting goblet cells, and is surrounded by connective tissue. Obstruction of the nasolacrimal duct leads to the excess overflow of tears called epiphora. A congenital obstruction can cause cystic expansion of the duct and is called a dacrocystocele or Timo cyst. Persons with dry eye conditions can be fitted with punctal plugs that seal the ducts to limit the amount of fluid drainage and retain moisture. The canal containing the nasolacrimal duct is called the nasolacrimal canal. [WP,unvetted]." [Wikipedia:Nasolacrimal_duct] comment: todo - resolve canaliculus vs tear duct vs lacrimal vs nasolacrimal subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "d. nasolacrimalis" RELATED LATIN [Wikipedia:Nasolacrimal_duct] synonym: "nasolacrimal duct - posterior naris" BROAD [VHOG:0000664] xref: AAO:0000643 xref: EHDAA2:0001237 xref: EHDAA:7849 xref: EHDAA:9094 xref: EMAPA:17853 xref: FMA:9703 xref: GAID:902 xref: MA:0001299 xref: MESH:A09.371.463.640 xref: OpenCyc:Mx4rv6PJy5wpEbGdrcN5Y29ycA xref: SCTID:280643009 xref: UMLS:C0027437 xref: VHOG:0000664 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Gray896.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Gray896.png/200px-Gray896.png xref: ncithesaurus:Nasolacrimal_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0006266 ! nasolacrimal groove relationship: part_of UBERON:0001850 ! lacrimal duct property_value: homology_notes "The nasolacrimal duct is probably homologous to the posterior (excurrent) naris of actinopterygian fishes.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002393 name: pharyngotympanic tube namespace: uberon def: "Organ with organ cavity which connects the cavity of the middle ear to the cavity of the pharynx. Examples: There are only two pharyngotympanic tubes, the right and the left pharyngotympanic tubes.[FMA]" [FMA:FMA, Wikipedia:Eustachian_tube] comment: Editor notes: we follow FMA in making this an organ, but include a separate class for the part that is epithelium, which is equivalent to the EHDAA2 structure. From this we infer the developmental relationship subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "auditory tube" EXACT [MA:0000255] synonym: "eustachian tube" RELATED [] synonym: "internal auditory tube" EXACT [] synonym: "tuba auditiva" EXACT LATIN [FMA:9705, FMA:TA] synonym: "tuba auditiva; tuba auditoria; tuba auditivea" RELATED LATIN [Wikipedia:Eustachian_tube] synonym: "tuba auditoria" EXACT LATIN [FMA:9705, FMA:TA] synonym: "tuba pharyngotympanica" RELATED LATIN [] xref: AAO:0000146 xref: AAO:0011016 xref: EMAPA:17601 xref: EV:0100359 xref: FMA:9705 xref: GAID:869 xref: MA:0000255 xref: UMLS:C0015183 xref: VHOG:0001145 xref: XAO:0000213 xref: http://upload.wikimedia.org/wikipedia/commons/4/40/Ear-anatomy-text-small-en.svg xref: ncithesaurus:Eustachian_Tube is_a: UBERON:0000062 ! organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0010020 ! tubotympanic recess epithelium relationship: has_part UBERON:0010062 ! pharyngotympanic tube epithelium relationship: part_of UBERON:0001756 ! middle ear property_value: axiom_lost_from_external_ontology "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" xsd:string property_value: external_definition "Furrow on the ventral surface of the otic capsule, and occasionally also the parasphenoid, that houses the Eustachian tube.[AAO]" xsd:string property_value: external_definition "The narrow channel connecting the nasopharynx and the middle ear. [TFD][VHOG]" xsd:string property_value: homology_notes "The tympanic cavity and auditory tube of an amniote develop from the first embryonic pharyngeal pouch, so they are homologous to the first gill pouch, or spiracle, of a fish. We are uncertain whether this homology strictly applies to the middle ear cavity and auditory tube of lissamphibians, which show certain peculiarities in their development.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002394 name: bile duct namespace: uberon def: "Duct that carries bile from the liver to the small intestine." [Wikipedia:Bile_duct, ZFA:0001100] comment: The path is as follows: Bile canaliculi b Canals of Hering b interlobular bile ducts b intrahepatic bile ducts b left and right hepatic ducts merge to form b common hepatic duct exits liver and joins b cystic duct (from gall bladder) forming b common bile duct b joins with pancreatic duct b forming ampulla of Vater b enters duodenum [WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "biliary duct" RELATED [FMA:9706] synonym: "gall duct" RELATED [BTO:0000122] synonym: "hepatic duct" RELATED [] xref: AAO:0011019 xref: BTO:0000122 xref: EHDAA2:0000741 xref: EV:0100091 xref: FMA:9706 xref: GAID:280 xref: MA:0000354 xref: MESH:A03.159.183 xref: OpenCyc:Mx4rvdCds5wpEbGdrcN5Y29ycA xref: SCTID:276157007 xref: UMLS:C0005400 xref: VHOG:0000212 xref: XAO:0000134 xref: http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Digestive_system_showing_bile_duct.png/200px-Digestive_system_showing_bile_duct.png xref: ncithesaurus:Bile_Duct is_a: UBERON:0000058 ! duct is_a: UBERON:0003928 ! digestive system duct is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0008835 ! hepatic diverticulum relationship: part_of UBERON:0001173 ! biliary tree relationship: part_of UBERON:0002294 ! biliary system intersection_of: UBERON:0000058 ! duct intersection_of: channel_for UBERON:0001970 ! bile property_value: external_definition "Any of the excretory ducts in the liver that convey bile between the liver and the intestine. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) the amphibian liver has characteristics in common with both fish and terrestrial vertebrates. (...) The histological structure of the liver is similar to that in other vertebrates, with hepatocytes arranged in clusters and cords separated by a meshwork of sinusoids and the presence of the traditional triad of portal venule, hepatic arteriole, and bile duct.[well established][VHOG]" xsd:string [Term] id: UBERON:0002395 name: talus namespace: uberon def: "proximal tarsal bone resulting from fusion of intermedium and fibulare." [Wikipedia:Talus_bone] comment: Taxon notes: The talus is apparently derived from the fusion of three separate bones in the feet of primitive amphibians; the tibiale, articulating with tibia, the intermedium, between the bases of the tibia and fibula, and the fourth centrale, lying in the mid-part of the tarsus. These bones are still partially separate in modern amphibians, which therefore do not have a true talus. The talus forms a considerably more flexible joint in mammals than it does in reptiles. This reaches its greatest extent in artiodactyls, where the distal surface of the bone has a smooth keel to allow greater freedom of movement of the foot, and thus increase running speed[WP] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Os trigonum, Astralagus" RELATED LATIN [Wikipedia:Talus_bone] synonym: "astragaloid bone" RELATED [BTO:0002354] synonym: "astragalus" RELATED [ISBN10:0073040584, MA:000135, Wikipedia:Talus_bone] synonym: "astragalus bone" RELATED [ISBN10:0073040584, Wikipedia:Talus_bone] synonym: "os tarsi tibiale" RELATED [BTO:0002354] synonym: "os trigonum" RELATED [Wikipedia:Talus_bone] xref: BTO:0002354 xref: EMAPA:18503 xref: EMAPA:19135 xref: FMA:9708 xref: GAID:196 xref: MA:0001351 xref: MESH:A02.835.232.300.710.780 xref: SCTID:182098005 xref: UMLS:C0039277 xref: galen:Talus xref: http://upload.wikimedia.org/wikipedia/commons/a/a9/Subtalar_Joint.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a9/Subtalar_Joint.PNG/250px-Subtalar_Joint.PNG xref: ncithesaurus:Talus is_a: UBERON:0011679 ! proximal tarsal bone relationship: connected_to UBERON:0000979 ! tibia relationship: has_fused_element UBERON:0011678 ! hindlimb intermedium [Term] id: UBERON:0002396 name: vomer namespace: uberon def: "." [Wikipedia:Vomer] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "prevomer" RELATED [TAO:0000308] synonym: "vomer bone" EXACT [] xref: AAO:0000633 xref: FMA:9710 xref: MA:0001496 xref: OpenCyc:Mx4rv6jKWZwpEbGdrcN5Y29ycA xref: SCTID:272678009 xref: TAO:0000308 xref: UMLS:C0242403 xref: ZFA:0000308 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Illu_facial_bones.jpg/200px-Illu_facial_bones.jpg xref: ncithesaurus:Vomer is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone is_a: UBERON:0012071 ! palate bone relationship: part_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0012072 ! palatal part of dermatocranium property_value: axiom_lost_from_external_ontology "relationship loss: overlaps autopalatine-vomer joint (TAO:0001784)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps mesethmoid-vomer joint (TAO:0001680)[TAO]" xsd:string property_value: external_comment "The vomer is paired in some taxa (e.g., Amia) while unpaired in others (e.g., teleosts).[TAO]" xsd:string property_value: external_definition "Dermal bone that underlies the mesethmoid and inserts in a fossa on the anteroventral surface of the parasphenoid.[TAO]" xsd:string property_value: external_definition "Paired, palatal bones of intramembranous origin that lie ventral to the olfactory region and help to floor the nasal capsules.[AAO]" xsd:string property_value: homology_notes "In bony fish, the vomers are flattened, paired, bones forming the anterior part of the roof of the mouth, just behind the premaxillary bones. In many species, they have teeth, supplementing those in the jaw proper; in some extinct species the teeth on the vomers were actually larger than the primary set. In amphibians and reptiles, the vomers become narrower, due to the presence of the enlarged choanae (the inner part of the nostrils) on either side, and they may extend further back in the jaw. They are typically small in birds, where they form the upper hind part of the beak, again being located between the choanae. In mammals, the vomers have become narrower still, and are fused into a single, vertically oriented bone. The development of the hard palate beneath the vomer means that the bone is now located in a nasal chamber, separate from the mouth[WP]" xsd:string [Term] id: UBERON:0002397 name: maxilla namespace: uberon def: "The bone which normally forms the lateral upper jaw in osteichthyans, including tetrapods." [Wikipedia:Maxilla, http://palaeos.com/vertebrates/glossary/glossaryM.html] comment: Fusion of maxilla + premaxilla subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "maxillae" RELATED PLURAL [] synonym: "maxillary bone" RELATED [Wikipedia:Maxilla] synonym: "upper jaw bone" BROAD [] xref: AAO:0000285 xref: EHDAA2:0001068 xref: EHDAA:8043 xref: EMAPA:17639 xref: EMAPA:17928 xref: FMA:9711 xref: GAID:220 xref: MA:0001491 xref: MESH:A02.835.232.781.324.502.645 xref: SCTID:181813003 xref: TAO:0000270 xref: UMLS:C0024947 xref: VHOG:0001021 xref: VSAO:0000207 xref: ZFA:0000270 xref: galen:Maxilla xref: http://upload.wikimedia.org/wikipedia/commons/a/a7/Gray189.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a7/Gray189.png/200px-Gray189.png xref: ncithesaurus:Maxilla is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0008193 ! pneumatized bone is_a: UBERON:0008907 ! dermal bone is_a: UBERON:0011597 ! bone of upper jaw relationship: adjacent_to UBERON:0002244 ! premaxilla relationship: develops_from UBERON:0010334 ! maxillary process mesenchyme from neural crest relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0003277 ! skeleton of upper jaw property_value: axiom_lost_from_external_ontology "relationship loss: overlaps autopalatine-maxillary joint (TAO:0001942)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps premaxillary-maxillary joint (TAO:0002260)[TAO]" xsd:string property_value: external_comment "In some teleosts, the maxilla is located postero-ventral to the supramaxilla. Commonly, the articular process of the maxilla articulates with the autopalatine and ethmoidal region antero-medially. The maxilla is usually the largest bone in the upper jaw assemblage.[TAO]" xsd:string property_value: external_definition "Dermal bone that forms part of the upper jaw, located antero-ventral to the premaxilla. The maxilla is a paired bone.[TAO]" xsd:string property_value: external_definition "Paired, intramembranous bone located on the lateral sides of the skull, posterior to the premaxillae.[AAO]" xsd:string property_value: has_relational_adjective "maxillary" xsd:string [Term] id: UBERON:0002398 name: manus namespace: uberon def: "distal segment of the fore limb, including carpal region, metacarpal region and digits." [Wikipedia:Hand, Wikipedia:Manus_(anatomy)] comment: Usage notes: like all limb segments, this class encompasses both the unformed hand region of the embryo to the fully formed structure complete with skeleton subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fore foot" NARROW INCONSISTENT [] synonym: "fore paw" NARROW SENSU [EMAPA:17428, OBOL:automatic] synonym: "fore-paw" NARROW SENSU [EMAPA:17428] synonym: "forefoot" NARROW INCONSISTENT [] synonym: "forefoot of quadruped" NARROW [] synonym: "forelimb autopod" EXACT [OBOL:automatic] synonym: "forelimb autopodium" EXACT [OBOL:automatic] synonym: "hand" EXACT [MA:0000037] synonym: "hand region" EXACT [EHDAA2:0000728] synonym: "terminal segment of free upper limb" EXACT [] xref: AAO:0010803 xref: BTO:0004668 xref: EHDAA2:0000728 xref: EMAPA:17428 xref: FMA:9712 xref: GAID:56 xref: MA:0000037 xref: MESH:A01.378.800.667 xref: NIF_GrossAnatomy:nlx_anat_20090603 xref: OpenCyc:Mx4rvViGVZwpEbGdrcN5Y29ycA xref: SCTID:302539009 xref: UMLS:C0018563 xref: VHOG:0000344 xref: galen:Hand xref: http://upload.wikimedia.org/wikipedia/commons/7/76/LeftHand0.jpg xref: ncithesaurus:Hand is_a: UBERON:0008785 ! upper limb segment relationship: develops_from UBERON:0006875 ! handplate intersection_of: UBERON:0002470 ! autopod region intersection_of: part_of UBERON:0002102 ! forelimb property_value: has_relational_adjective "manual" xsd:string [Term] id: UBERON:0002399 name: lesser omentum namespace: uberon def: "The double layer of peritoneum that extends from the liver to the lesser curvature of the stomach and the start of the duodenum. [WP,unvetted]." [Wikipedia:Lesser_omentum] comment: editor note: exact part of and develops from relationships need to be established subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gastrohepatic omentum" RELATED [Wikipedia:Lesser_omentum] synonym: "omentum minus" RELATED LATIN [Wikipedia:Lesser_omentum] synonym: "small omentum" RELATED [Wikipedia:Lesser_omentum] xref: EHDAA2:0000991 xref: EHDAA:4858 xref: EMAPA:17890 xref: EMAPA:18909 xref: EV:0100086 xref: FMA:9715 xref: MA:0001623 xref: SCTID:362712005 xref: UMLS:C0230260 xref: VHOG:0000357 xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Gray984.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Gray984.png/200px-Gray984.png xref: ncithesaurus:Lesser_Omentum is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003688 ! omentum is_a: UBERON:0009034 ! stomach region relationship: develops_from UBERON:0005626 ! ventral mesogastrium relationship: part_of UBERON:0001178 ! visceral peritoneum relationship: part_of UBERON:0005626 ! ventral mesogastrium property_value: external_definition "A membranous extension of the peritoneum from the peritoneal layers covering the ventral and the dorsal surfaces of the stomach and the first part of the duodenum. The lesser omentum extends from the portal fissure of the liver to the diaphragm, where the layers separate to enclose the end of the esophagus. It also forms two ligaments, one associated with the liver, the hepatogastric ligament, and the other, the heptatoduodenal ligament, with the duodenum. [TFD][VHOG]" xsd:string [Term] id: UBERON:0002400 name: parietal pleura namespace: uberon def: "Parietal serous membrane which is continuous with the visceral pleura and is attached to the dome of the diaphragm.[FMA]" [FMA:FMA, Wikipedia:Parietal_pleura] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pleura parietalis" RELATED LATIN [Wikipedia:Parietal_pleura] xref: FMA:9733 xref: MA:0002488 xref: OpenCyc:Mx4rvv2Uq5wpEbGdrcN5Y29ycA xref: SCTID:361998003 xref: UMLS:C0225777 xref: VHOG:0001495 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png xref: ncithesaurus:Parietal_Pleura is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000977 ! pleura relationship: part_of UBERON:0000977 ! pleura [Term] id: UBERON:0002401 name: visceral pleura namespace: uberon def: "Visceral serous membrane which is continuous with the parietal pleura and is attached to the parenchyma of lobe of lung.[FMA]" [FMA:FMA, Wikipedia:Visceral_pleura] comment: See comments for pleura subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lung mesothelium" RELATED [EHDAA2:0002205] synonym: "lung pleura" RELATED [] synonym: "pleura pulmonalis" EXACT LATIN [FMA:9734, FMA:TA] synonym: "pleura visceralis" EXACT LATIN [Wikipedia:Visceral_pleura] synonym: "pleura visceralis (pulmonalis)" EXACT [] synonym: "pulmonary pleura" EXACT [] xref: EHDAA2:0002205 xref: FMA:9734 xref: MA:0002489 xref: OpenCyc:Mx4rwNFqppwpEbGdrcN5Y29ycA xref: SCTID:361997008 xref: UMLS:C0225776 xref: VHOG:0001496 xref: http://upload.wikimedia.org/wikipedia/commons/1/16/Gray968.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png xref: ncithesaurus:Visceral_Pleura is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000977 ! pleura relationship: attaches_to UBERON:0008946 ! lung parenchyma relationship: part_of UBERON:0000977 ! pleura relationship: part_of UBERON:0002048 ! lung property_value: external_definition "Each lung is invested by an exceedingly delicate serous membrane, the pleura, which is arranged in the form of a closed invaginated sac. A portion of the serous membrane covers the surface of the lung and dips into the fissures between its lobes; it is called the pulmonary pleura (or visceral pleura). The visceral pleura is attached directly to the lungs[Wikipedia:Visceral_pleura]." xsd:string [Term] id: UBERON:0002402 name: pleural cavity namespace: uberon def: "Cavity of serous sac surropunded by the pleura.[FMA]" [FMA:FMA, Wikipedia:Pleural_cavity] comment: Note the EHDAA2 class is not quite equivalent. See http://purl.obolibrary.org/obo/uberon/tracker/86 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cavitas pleurallis" RELATED LATIN [Wikipedia:Pleural_cavity] xref: BTO:0004422 xref: EHDAA2:0001475 xref: EMAPA:18462 xref: FMA:9740 xref: GAID:95 xref: MA:0000055 xref: MESH:A01.911.800.650 xref: OpenCyc:Mx4rwCKAppwpEbGdrcN5Y29ycA xref: SCTID:361999006 xref: UMLS:C0178802 xref: VHOG:0000581 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ab/Gray965.png/200px-Gray965.png xref: ncithesaurus:Pleural_Cavity relationship: develops_from UBERON:0003887 ! intraembryonic coelom relationship: part_of UBERON:0009778 ! pleural sac intersection_of: UBERON:0002323 ! coelemic cavity lumen intersection_of: part_of UBERON:0009778 ! pleural sac property_value: homology_notes "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string [Term] id: UBERON:0002403 name: internal intercostal muscle namespace: uberon def: "Intercostal muscles are several groups of muscles that run between the ribs, and help form and move the chest wall. There are three principal layers; the external intercostal muscles, which aid in quiet and forced inhalation. They originate on ribs 1-11 and have their insertion on ribs 2-12. The external intercostals are responsible for the elevation of the ribs, and expanding the transverse dimensions of the thoracic cavity. Located around the ribs the internal intercostal muscles, which aid in forced expiration (quiet expiration is a passive process). They originate on ribs 2-12 and have their insertions on ribs 1-11. The internal intercostals are responsible for the depression of the ribs decreasing the transverse dimensions of the thoracic cavity. the innermost intercostal muscle, the deep layers of the internal intercostal muscles which are separated from them by the neurovascular bundle. Both the external and internal muscles are innervated by the intercostal nerves, and are provided by the intercostal arteries and intercostal veins. Their fibers run in opposite directions. [WP,unvetted]." [Wikipedia:Intercostal_muscle] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intercostal muscle internal layer" RELATED [] synonym: "intercostales internus" EXACT [] xref: EHDAA2:0000875 xref: FMA:9757 xref: MA:0002326 xref: OpenCyc:Mx4rvlj6HZwpEbGdrcN5Y29ycA xref: SCTID:244890001 xref: UMLS:C1744536 xref: VHOG:0000905 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f2/Gray411.png/200px-Gray411.png xref: ncithesaurus:Internal_Intercostal_Muscle is_a: UBERON:0001111 ! intercostal muscle relationship: develops_from UBERON:0010981 ! internal intercostal pre-muscle mass property_value: homology_notes "Behind the thorax, the lateral group (of muscles in reptiles and mammals) remains essentially as for amphibians. (It breaks into three sheet-like layers: external oblique muscle, the internal oblique, and the transversus). More anteriorly, however, the ribs, now enlarged, penetrate and alter this group of muscles. The transversus is excluded from the thorax and the external and internal obliques become, respectively, the external and internal intercostal muscles, which contribute to the new function of ventilation of the lungs.[well established][VHOG]" xsd:string [Term] id: UBERON:0002404 name: transversus thoracis namespace: uberon def: "The tranversus thoracis lies internal to the thoracic cage, anteriorly. It is a thin plane of muscular and tendinous fibers, situated upon the inner surface of the front wall of the chest. It is in the same layer as the subcostal muscles. It arises on either side from the lower third of the posterior surface of the body of the sternum, from the posterior surface of the xiphoid process, and from the sternal ends of the costal cartilages of the lower three or four true ribs. Its fibers diverge upward and lateralward, to be inserted by slips into the lower borders and inner surfaces of the costal cartilages of the second, third, fourth, fifth, and sixth ribs. The lowest fibers of this muscle are horizontal in their direction, and are continuous with those of the Transversus abdominis; the intermediate fibers are oblique, while the highest are almost vertical. This muscle varies in its attachments, not only in different subjects, but on opposite sides of the same subject. [WP,unvetted]." [Wikipedia:Transversus_thoracis] comment: This class was created automatically from a combination of ontologies subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EMAPA:19267 xref: FMA:9760 xref: MA:0002397 xref: SCTID:244933000 xref: UMLS:C1744608 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ef/Transversus_thoracis.png/200px-Transversus_thoracis.png xref: ncithesaurus:Transversus_Thoracis is_a: UBERON:0002426 ! chest muscle [Term] id: UBERON:0002405 name: immune system namespace: uberon def: "Anatomical system that protects the body from foreign substances, cells, and tissues by producing the immune response and that includes especially the thymus, spleen, lymphoid tissue, lymphocytes including the B cells and T cells, and antibodies." [NLM:immune+system, Wikipedia:Immune_system] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0011003 xref: BILA:0000104 xref: FMA:9825 xref: GAID:328 xref: MA:0002711 xref: MESH:A15.382 xref: OpenCyc:Mx4rvWNkm5wpEbGdrcN5Y29ycA xref: SCTID:362590003 xref: TAO:0001159 xref: UMLS:C0020962 xref: VHOG:0001247 xref: XAO:0003152 xref: ZFA:0001159 xref: ncithesaurus:Immune_System is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: homology_notes "The antibody-based immune system defined by the presence of the major histocompatibility complex (MHC), T cell receptor (TCR), B cell receptor (BCR) or recombination activating genes (RAGs) is known beginning from jawed fishes.[well established][VHOG]" xsd:string [Term] id: UBERON:0002406 name: pericardial sac namespace: uberon def: "Serous sac, which has as parts the serous pericardium and the pericardial cavity [FMA]." [FMA:9868] comment: We follow FMA in dividing pericardial sac in pericardium and pericardial cavity subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "pericardium" RELATED [] xref: FMA:9868 xref: RETIRED_EHDAA2:0001443 xref: SCTID:361326002 xref: TAO:0000054 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Gray489.png/200px-Gray489.png is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001009 ! circulatory system relationship: part_of UBERON:0002407 ! pericardium relationship: surrounded_by UBERON:0002359 ! fibrous pericardium intersection_of: UBERON:0005906 ! serous sac intersection_of: has_part UBERON:0001074 ! pericardial cavity intersection_of: has_part UBERON:0002357 ! serous pericardium [Term] id: UBERON:0002407 name: pericardium namespace: uberon def: "The outer membrane/wall of the developing heart, surrounding the myocardium. " [Wikipedia:Pericardium] comment: We follow FMA in dividing pericardial sac in pericardium and pericardial cavity subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0010817 xref: BTO:0000717 xref: EFO:0000820 xref: EHDAA:5376 xref: EMAPA:17174 xref: EV:0100023 xref: FMA:9869 xref: GAID:569 xref: MA:0000099 xref: MAT:0000454 xref: MESH:A07.541.795 xref: OpenCyc:Mx4rvoCLgJwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001443 xref: SCTID:181295003 xref: TAO:0000054 xref: UMLS:C0031050 xref: VHOG:0001280 xref: XAO:0004182 xref: ZFA:0000054 xref: galen:Pericardium xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Gray489.png/200px-Gray489.png xref: ncithesaurus:Pericardium is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004457 ! cavity lining is_a: UBERON:0005983 ! heart layer is_a: UBERON:0006914 ! squamous epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: has_part UBERON:0002359 ! fibrous pericardium relationship: has_part UBERON:0002406 ! pericardial sac relationship: part_of UBERON:0000948 ! heart relationship: surrounds UBERON:0002349 ! myocardium property_value: external_definition "Peritoneum that surrounds the heart.[AAO]" xsd:string property_value: has_relational_adjective "pericardial" xsd:string [Term] id: UBERON:0002408 name: parietal serous pericardium namespace: uberon def: "Parietal serous membrane which is continuous with the visceral serous pericardium and is attached to the central tendon of diaphragm.[FMA]" [FMA:FMA, Wikipedia:Parietal_pericardium] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lamina parietalis (pericardii serosum)" EXACT [] synonym: "lamina parietalis pericardii" EXACT LATIN [FMA:9870, FMA:TA] synonym: "parietal layer of serous pericardium" EXACT [] synonym: "parietal pericardium" EXACT [] xref: EHDAA:3422 xref: EHDAA:5378 xref: EMAPA:17175 xref: EMAPA:19031 xref: FMA:9870 xref: MA:0000483 xref: SCTID:243956000 xref: UMLS:C0225969 xref: VHOG:0000537 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Gray489.png/200px-Gray489.png xref: ncithesaurus:Parietal_Pericardium is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0005983 ! heart layer relationship: part_of UBERON:0002357 ! serous pericardium [Term] id: UBERON:0002409 name: pericardial fluid namespace: uberon def: "Transudate contained in the pericardial cavity.[FMA]" [FMA:9887, Wikipedia:Pericardial_fluid] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001016 xref: FMA:9887 xref: MA:0002530 is_a: UBERON:0007794 ! serous fluid intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0002425 ! visceral serous pericardium [Term] id: UBERON:0002410 name: autonomic nervous system namespace: uberon def: "The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands[GO]." [Wikipedia:Autonomic_nervous_system] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ANS" RELATED [] synonym: "divisio autonomica systematis nervosi peripherici" RELATED LATIN [Wikipedia:Autonomic_nervous_system] synonym: "visceral nervous system" EXACT [] xref: AAO:0000033 xref: BTO:0002507 xref: EHDA:10095 xref: EHDAA:3767 xref: EMAPA:16984 xref: FMA:9905 xref: GAID:706 xref: MA:0000219 xref: MESH:A08.800.050 xref: NIF_GrossAnatomy:birnlex_1123 xref: SCTID:362481007 xref: TAO:0001574 xref: UMLS:C0004388 xref: VHOG:0000396 xref: ZFA:0001574 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f7/Gray839.png/200px-Gray839.png xref: ncithesaurus:Autonomic_Nervous_System is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 ! organ system subdivision relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: external_definition "Nervous system including a portion of the central and peripheral systems and presiding over the control and coordination of the vegetative functions of the organism. It innervates smooth and cardiac muscles and glandular tissues and is responsible for many actions which are more or less automatic (e.g. secretion, vasoconstriction etc.). It consists of the sympathetic and parasympathetic nervous systems. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: external_definition "Part of the peripheral nervous system which regulates involuntary functions of the body and consists of the sympathetic and parasympathetic system.[AAO]" xsd:string property_value: homology_notes "From comparative analyses of craniate brains, a morphotype of the brain in the earliest craniate stock can be constructed. In marked contrast to cephalochordates, the ancestral craniate morphotype had a plethora of unique features, which included a telencephalon with pallial and subpallial parts, paired olfactory bulbs with substantial projections to most or all of the telencephalic pallium, paired lateral eyes and ears, a lateral line system for both electroreception and mechanoreception, spinal cord dorsal root ganglia, and an autonomic nervous system.[well established][VHOG]" xsd:string [Term] id: UBERON:0002411 name: clitoris namespace: uberon def: "The clitoris is a sexual organ that is present only in female mammals. In humans, the visible button-like portion is located near the anterior junction of the labia minora, above the opening of the urethra and vagina. Unlike the penis, which is homologous to the clitoris, the clitoris does not contain the distal portion of the urethra. The only known exception to this is in the Spotted Hyena. In this species, the urogenital system is unique in that the female urinates, mates and gives birth via an enlarged, erectile clitoris, known as a pseudo-penis. In humans, the clitoris is the most sensitive erogenous zone of a woman, the stimulation of which may produce sexual excitement and clitoral erection; its continuing stimulation may produce sexual pleasure in the woman and orgasm. [WP,unvetted]." [Wikipedia:Clitoris] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0002020 xref: EHDAA2:0000255 xref: EHDAA:9360 xref: EMAPA:30819 xref: FMA:9909 xref: GAID:385 xref: MA:0000382 xref: MESH:A05.360.319.887.436 xref: OpenCyc:Mx4rvVjr6ZwpEbGdrcN5Y29ycA xref: SCTID:181442003 xref: UMLS:C0008984 xref: VHOG:0000700 xref: galen:Clitoris xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Clitoris_anatomy_labeled-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Clitoris_anatomy_labeled-en.svg/200px-Clitoris_anatomy_labeled-en.svg.png xref: ncithesaurus:Clitoris is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure relationship: develops_from UBERON:0005876 ! undifferentiated genital tubercle relationship: part_of UBERON:0000997 ! mammalian vulva property_value: has_relational_adjective "clitoral" xsd:string [Term] id: UBERON:0002412 name: vertebra namespace: uberon def: "Irregular bone that articulates with other vertebrae, or with one other vertebra and the skull or the sacrum[FMA]. All serially repeated ossified, cartilaginous, and ligamentous elements around the notochord (Schultze and Arratia, 1988)[ZFA]." [FMA:9914, Wikipedia:Vertebra, ZFIN:curator] comment: Editor notes: Consider changing name to make distinction from inferred superclass 'vertebral element' clear // note we follow FMA in making this an irregular bone - however vertebra have epiphyses which are currently classified as belonging to long bones subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "vertebra bone" EXACT [] synonym: "vertebrae" EXACT PLURAL [PHENOSCAPE:ad] xref: AAO:0000691 xref: CALOHA:TS-2352 xref: EFO:0001371 xref: FMA:9914 xref: MA:0000309 xref: OpenCyc:Mx4rvt2Dh5wpEbGdrcN5Y29ycA xref: SCTID:181817002 xref: TAO:0001189 xref: UMLS:C0549207 xref: VHOG:0001143 xref: XAO:0004019 xref: ZFA:0001189 xref: galen:Vertebra xref: ncithesaurus:Vertebra is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0008001 ! irregular bone is_a: UBERON:0010913 ! vertebral element relationship: develops_from UBERON:0011094 ! vertebra cartilaginous condensation relationship: part_of UBERON:0001130 ! vertebral column property_value: external_definition "Endochondral bone that forms around the notochord and is part of the vertebral column.[TAO]" xsd:string property_value: external_definition "Main component of the vertebral column. It consists of two essential parts, a dorsal neural arch and a ventral centrum.[AAO]" xsd:string property_value: homology_notes "In contrast to lampreys and jawed vertebrates, hagfishes were thought to lack vertebrae. Now, long overlooked vertebral rudiments have been analysed in hagfish, suggesting that vertebrae existed in the last common ancestor of all vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002413 name: cervical vertebra namespace: uberon def: "A vertebra immediately inferior to the skull[WP]." [Wikipedia:Cervical_vertebrae] comment: In some species, some parts of the skull may be composed of vertebra-like elements, e.g. the occipital bone in humans is composed of four vertebra-like segments. In many vertebrate species, cervical vertebrae are variable in number; however, almost all mammals have seven (including those with very short necks relative to body size, such as elephants or whales, and those with very long necks, such as giraffes). The few exceptions include the manatee and the sloths, of which the two-toed sloth has six cervical vertebrae and the three-toed sloth has up to nine cervical vertebrae. In many species, though not in mammals, the cervical vertebrae bear ribs. In many other groups, such as lizards and saurischian dinosaurs, the cervical ribs are large; in birds they are small and completely fused to the vertebrae. The transverse processes of mammals are homologous to the cervical ribs of other amniotes. Thoracic vertebrae in all species are defined as those vertebrae which also carry a pair of ribs, and lie caudal to the cervical vertebrae. n humans, cervical vertebrae are the smallest of the true vertebrae, and can be readily distinguished from those of the thoracic or lumbar regions by the presence of a foramen (hole) in each transverse process, through which passes the vertebral artery. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cervical vertebrae" EXACT PLURAL [] synonym: "vertebrae cervicales" RELATED LATIN [Wikipedia:Cervical_vertebrae] xref: EMAPA:17674 xref: FMA:9915 xref: GAID:235 xref: MA:0000311 xref: MESH:A02.835.232.834.151 xref: SCTID:181820005 xref: XAO:0003076 xref: galen:CervicalVertebra xref: http://upload.wikimedia.org/wikipedia/commons/f/f8/Illu_vertebral_column.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f8/Illu_vertebral_column.jpg/200px-Illu_vertebral_column.jpg xref: ncithesaurus:Cervical_Vertebra is_a: UBERON:0003458 ! neck bone is_a: UBERON:0004247 ! back bone is_a: UBERON:0004451 ! trunk or cervical vertebra relationship: develops_from UBERON:0013505 ! cervical vertebra cartilaginous condensation relationship: part_of UBERON:0000974 ! neck intersection_of: UBERON:0002412 ! vertebra intersection_of: part_of UBERON:0006072 ! cervical region of vertebral column [Term] id: UBERON:0002414 name: lumbar vertebra namespace: uberon def: "Large vertebra of the movable part of the vertebral column, characterized by the absence of the foramen transversarium within the transverse process, and by the absence of facets on the sides of the body." [Wikipedia:Lumbar_vertebrae] comment: Whereas all rats had six lumbar vertebrae, variable patterns in mice included mostly five vertebrae in DBA/2J, mostly six vertebrae in C57BL/6J, and a mix in B6129PF2/J - http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2700063/ subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: EMAPA:18007 xref: FMA:9921 xref: GAID:240 xref: MA:0000312 xref: MESH:A02.835.232.834.519 xref: OpenCyc:Mx4rvaOek5wpEbGdrcN5Y29ycA xref: SCTID:181822002 xref: UMLS:C0024091 xref: galen:LumbarVertebra xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c8/Gray93.png/200px-Gray93.png xref: ncithesaurus:Lumbar_Vertebra is_a: UBERON:0003828 ! abdominal segment bone is_a: UBERON:0004247 ! back bone relationship: develops_from UBERON:0013509 ! lumbar vertebra cartilaginous condensation intersection_of: UBERON:0002412 ! vertebra intersection_of: part_of UBERON:0006074 ! lumbar region of vertebral column [Term] id: UBERON:0002415 name: tail namespace: uberon def: "section at the rear end of an animal's body; in general, the term refers to a distinct, flexible appendage to the torso[WP]." [ISBN:0471209627, OMD:tail, Wikipedia:Tail, ZFIN:curator] comment: Editor notes: Note we also have a subclass post-anal tail, for the chordate specific structure. currently defined very generally, inclusive of caudal fin subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "caudal subdivision" EXACT [UBERON:cjm] xref: AEO:0000109 xref: BILA:0000117 xref: BTO:0001348 xref: EFO:0000963 xref: EHDAA:9198 xref: GAID:1245 xref: MAT:0000094 xref: MESH:A13.895 xref: MIAA:0000094 xref: OpenCyc:Mx4rvVjiC5wpEbGdrcN5Y29ycA xref: WBbt:0005741 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000154 ! posterior region of body [Term] id: UBERON:0002416 name: integumental system namespace: uberon def: "organ system that protects the body from damage, comprising the skin and its adnexa (including hair, scales, and nails). The integumentary system has a variety of functions; it may serve to waterproof, cushion and protect the deeper tissues, excrete wastes, regulate temperature and is the location of receptors for pain, sensation, pressure and temperature. In humans the integumentary system additionally provides vitamin D synthesis[WP]." [Wikipedia:Integumentary_system] comment: in FMA, integumentary system = integument + certain glands. Note that here we use integumental system in a general sense, covering a variety of metazoans subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "dermal system" RELATED [MIAA:0000033] synonym: "integumentary system" EXACT [FMA:72979] synonym: "integumentum commune" RELATED LATIN [Wikipedia:Integumentary_system] xref: EFO:0000807 xref: EHDAA2:0000836 xref: EHDAA:6520 xref: EMAPA:17524 xref: EV:0100151 xref: FBbt:00004969 xref: FMA:72979 xref: HAO:0000421 xref: MA:0000014 xref: MAT:0000033 xref: MESH:A17 xref: MIAA:0000033 xref: SCTID:361692004 xref: TADS:0000108 xref: UMLS:C0037267 xref: VHOG:0000403 xref: XAO:0000176 xref: ncithesaurus:Integumentary_System is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002423 ! hepatobiliary system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: homology_notes " (...) the integument of many tetrapods is reinforced by a morphologically and structurally diverse assemblage of skeletal elements. These elements are widely understood to be derivatives of the once all-encompassing dermal skeleton of stem-gnathostomes (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0002417 name: abdominal segment of trunk namespace: uberon def: "the abdominal segment of the torso." [Wikipedia:Lumbar] synonym: "abdomen/pelvis/perineum" RELATED [MA:0000021] synonym: "lower body" RELATED [MA:0000021] synonym: "lumbar region" RELATED [UBERON:cjm] xref: FMA:259211 xref: MA:0000021 xref: SCTID:362875007 is_a: UBERON:0009569 ! subdivision of trunk is_a: UBERON:0011676 ! axial subdivision of organism [Term] id: UBERON:0002418 name: cartilage tissue namespace: uberon def: "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts[VSAO]." [VSAO:0000040, Wikipedia:Cartilage, http://sourceforge.net/tracker/?func=detail&atid=2257941&aid=3396584&group_id=76834] comment: Previous: \"A portion of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate[GO]. Regular connective tissue, which consists of chondrocytes and related cells, the intercellular matrix of which is chondrified. Examples: hyaline cartilage, fibrocartilage, elastic cartilage[FMA]. an avascular supporting and articular skeletal tissue. It also functions as the primary endoskeletal support in vertebrate embryos. Cartilage is deposited by and is composed of chondroblasts and chondrocytes separated by an extracellular matrix, which may or may not mineralize depending on cartilage type, age, or taxon[Hall and Witten].\" See also FMA:71500 Set of cartilages, FMA:55107 Cartilage organ, FMA:12264 Articular cartilage. // elements made from cartilage, cartilage-like, or chondroid tissues evolved in invertebrates[H&W] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cartilage" RELATED [] synonym: "cartilage tissue" EXACT [FMA:37377] synonym: "cartilages" RELATED [VHOG:0001207] synonym: "cartilaginous tissue" EXACT [] synonym: "chondrogenic tissue" EXACT [VSAO:0000040] xref: AAO:0000060 xref: AEO:0000087 xref: BTO:0000206 xref: EFO:0000949 xref: EHDAA2:0003087 xref: EV:0100141 xref: FMA:37377 xref: GAID:99 xref: MA:0000104 xref: MAT:0000189 xref: MESH:A02.165 xref: MIAA:0000189 xref: OpenCyc:Mx4rvVjeOZwpEbGdrcN5Y29ycA xref: SCTID:309312004 xref: TAO:0001501 xref: UMLS:C0007301 xref: VHOG:0001207 xref: VSAO:0000040 xref: XAO:0000170 xref: ZFA:0005622 xref: galen:Cartilage xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg xref: ncithesaurus:Cartilage xref: ncithesaurus:Cartilagenous_Tissue is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0004755 ! skeletal tissue relationship: has_part CL:0000138 ! chondrocyte relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: axiom_lost_from_external_ontology "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string property_value: external_definition "A type of dense connective tissue. It is composed of cells called chondrocytes which are dispersed in a firm gel-like ground substance, called the matrix. Cartilage is avascular (contains no blood vessels) and nutrients are diffused through the matrix. Cartilage is found in the joints, the rib cage, the ear, the nose, in the throat and between intervertebral disks. It makes up virtually the entire skeleton in chondrichthyes.[AAO]" xsd:string property_value: external_definition "Portion of tissue which is connective tissue composed of collagen and/or elastin fibers and chondrocytes. Cartilage is avascular and provides both skeletal functions and a framework upon which bone is deposited.[TAO]" xsd:string property_value: external_definition "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts.[VSAO]" xsd:string property_value: homology_notes "Phylogenetic analysis suggests that cartilage arose independently in cnidarians, hemichordates, vertebrates, arthropods, annelids, brachiopods, and molluscs - or a common ancestor of brachiopods and molluscs (...). Analyses of cartilage as a tissue and of the development of invertebrate cartilages are consistent with homology between invertebrate and vertebrate cartilage. From the discussion above, it will be clear that understanding genetic changes underlying cartilage evolution is key to determining whether the multiple origins of cartilage represent parallel evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0002419 name: skin gland namespace: uberon def: "A gland that is part of a skin of body [Automatically generated definition]." [OBOL:automatic] comment: check FMA, use plural for now as general class not there subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "glandulae cutis" EXACT LATIN [FMA:71878, FMA:TA] synonym: "set of skin glands" RELATED [FMA:71878] synonym: "skin glands" RELATED PLURAL [] synonym: "skin glands set" RELATED PLURAL [] xref: FMA:71878 xref: MA:0000146 is_a: UBERON:0003297 ! gland of integumental system is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002097 ! skin of body [Term] id: UBERON:0002420 name: basal ganglion namespace: uberon def: "one of a group of nuclei in the brains of vertebrates, situated at the base of the forebrain and strongly connected with the cerebral cortex, thalamus and other areas.ganglion in the head. The main components of the basal ganglia are the striatum, pallidum, substantia nigra, and subthalamic nucleus[WP]. Subcortical masses of gray matter in the forebrain and midbrain that are richly interconnected and so viewed as a functional system. The nuclei usually included are the caudate nucleus (caudoputamen in rodents), putamen, globus pallidus, substantia nigra (pars compacta and pars reticulata) and the subthalamic nucleus. Some also include the nucleus accumbens and ventral pallidum[NIF]." [Wikipedia:Basal_ganglia] comment: Editor note: it is necessary to introduce two classes, one representing an individual basal ganglion, another representing the aggregate structure, in order to have consistent classification amongst AOs (e.g. in MA the aygdala is part of the BG, in FMA and BTO it is a subclass). Apart from achieving this consistency, the value of having two distinct classes is questionable, since the BG-plural is trivially the set of all BGs-singular. it would be better for all AOs to decide on one single way of doing this. Do not merge until this is done. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "basal ganglia" RELATED PLURAL [] synonym: "basal ganglion of telencephalon" EXACT [] synonym: "basal nucleus" RELATED [MA:0000184] synonym: "nuclei basales" RELATED LATIN [Wikipedia:Basal_ganglia] xref: BTO:0000235 xref: EFO:0000904 xref: FMA:62514 xref: SCTID:244434001 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/Basal_Ganglia_and_Related_Structures.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/Basal_Ganglia_and_Related_Structures.svg/200px-Basal_Ganglia_and_Related_Structures.svg.png is_a: UBERON:0007245 ! nuclear complex of neuraxis is_a: UBERON:0011300 ! gray matter of telencephalon relationship: part_of UBERON:0010011 ! collection of basal ganglia [Term] id: UBERON:0002421 name: hippocampal formation namespace: uberon def: "Hippocampus (proper) plus dentate gyrus and subiculum[definition derived from NIF comments and ontology alignment]." [UBERON:cjm] comment: Usage notes: The term hippocampus is often used synonymously with hippocampal formation which consists of the hippocampus proper or Cornu Ammonis, the dentate gyrus and the subiculum[NIF]. BTO:0000601 is placed here since it includes the DG. GO also includes dentate gyrus development as part of hippocampus development, so we assume when GO says \"hippocampus\" it means \"hippocampal formation\". In ABA HPF = (.. subiculum) + HIP, HIP = DG + AH. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "archipallium" RELATED [MA:0000189] synonym: "hippocampus" NARROW [BTO:0000601, GO:0021766] synonym: "hippocampus (crosby)" EXACT [] synonym: "major hippocampus" RELATED [BTO:0000601] synonym: "primal cortex" RELATED [MA:0000189] xref: ABA:HPF xref: BM:Tel-HF xref: BTO:0000601 xref: FMA:74038 xref: MA:0000189 xref: NIF_GrossAnatomy:birnlex_715 xref: SCTID:422867004 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0000203 ! pallium property_value: spatially_disjoint_from UBERON:0001950 property_value: spatially_disjoint_from UBERON:0002264 [Term] id: UBERON:0002422 name: fourth ventricle namespace: uberon def: "The fourth ventricle is an irregularly shaped cavity in the rhombencephalon, between the medulla oblongata, the pons, and the isthmus in front, and the cerebellum behind. It is continuous with the central canal of the cord below and with the cerebral aqueduct above, and through its lateral and median apertures it communicates with the subarachnoid space[GO]." [Wikipedia:Fourth_ventricle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "4th ventricle" RELATED [MA:0000196] synonym: "IVth ventricle" RELATED [VHOG:0000006] synonym: "hindbrain ventricle" RELATED [VHOG:0000006] synonym: "rhombencephalic ventricle" RELATED [VHOG:0000006] synonym: "rhombencephalic vesicle" NARROW [ZFA:0000110] synonym: "ventricle IV" EXACT [ZFA:0000110] synonym: "ventricle of hindbrain" RELATED [BTO:0003426] synonym: "ventricle of rhombencephalon" RELATED [BTO:0003426] synonym: "ventriculus quartus" RELATED LATIN [Wikipedia:Fourth_ventricle] xref: AAO:0011043 xref: BM:Pons-4V xref: BTO:0003426 xref: EHDAA2:0000100 xref: EHDAA:896 xref: EMAPA:16479 xref: EMAPA:16917 xref: EV:0100310 xref: FMA:78469 xref: GAID:610 xref: MA:0000196 xref: MESH:A08.186.211.276.500 xref: NIF_GrossAnatomy:birnlex_1256 xref: OpenCyc:Mx4rv-7Q6pwpEbGdrcN5Y29ycA xref: SCTID:180932000 xref: TAO:0000110 xref: UMLS:C0149556 xref: VHOG:0000006 xref: XAO:0003099 xref: ZFA:0000110 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/Gray734.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7d/Gray734.png/200px-Gray734.png xref: ncithesaurus:Fourth_Ventricle_of_the_Brain relationship: develops_from UBERON:0013149 ! hindbrain vesicle intersection_of: UBERON:0004086 ! brain ventricle intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "Fluid-filled brain cavity. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Irregularly shaped cavity in the rhombencephalon, between the medulla oblongata, the pons, and the isthmus in front, and the cerebellum behind. It is continuous with the central canal of the cord below and with the cerebral aqueduct above, and through its lateral and median apertures it communicates with the subarachnoid space.[AAO]" xsd:string property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002423 name: hepatobiliary system namespace: uberon def: "The hepaticobiliary system is responsible for metabolic and catabolic processing of small molecules absorbed from the blood or gut, hormones and serum proteins, detoxification, storage of glycogen, triglycerides, metals and lipid soluble vitamins and excretion of bile. Included are the synthesis of albumin, blood coagulation factors, complement, and specific binding proteins. The parts are: liver, bile duct, gall bladder and hepatic duct" [GO:0061008, Wikipedia:Hepatobiliary_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hepaticobiliary system" EXACT [GO:0061008] synonym: "liver and biliary system" EXACT [] synonym: "liver/biliary system" RELATED [] xref: AAO:0011056 xref: EFO:0000800 xref: EHDAA2:0000998 xref: EHDAA:2189 xref: EMAPA:16840 xref: EV:0100088 xref: MA:0000324 xref: MAT:0000024 xref: MIAA:0000024 xref: TAO:0000036 xref: UMLS:C1711359 xref: VHOG:0000294 xref: XAO:0000132 xref: ZFA:0000036 xref: ncithesaurus:Hepatobiliary_System is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0001007 ! digestive system disjoint_from: UBERON:0004456 ! entire sense organ system property_value: external_definition "System responsible for the production and movement of bile[ZFIN:curator]." xsd:string [Term] id: UBERON:0002424 name: oral epithelium namespace: uberon def: "Epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues" [UBERON:cjm] comment: Editor note: consider including separate class for developmental structure (adult human is stratified; in EHDAA2 is unilaminar). Development notes: the avian oral epithelium has the developmental capacity to initiate tooth developmental programs with underlying grafts of non-avian oral ectomesenchyme [PMID:16488870] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelium of mucosa of mouth" EXACT [FMA:265152] synonym: "epithelium of oral mucosa" EXACT [FMA:265152] xref: AAO:0010357 xref: BTO:0001775 xref: EHDAA2:0001325 xref: EHDAA:2187 xref: EMAPA:16839 xref: EMAPA:26942 xref: FMA:265152 xref: MA:0000344 xref: TAO:0000816 xref: UMLS:C1709332 xref: VHOG:0000187 xref: XAO:0003201 xref: ZFA:0000816 xref: ncithesaurus:Oral_Cavity_Epithelium is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0006915 ! stratified squamous epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: adjacent_to UBERON:0000167 ! oral cavity intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003729 ! mouth mucosa property_value: external_definition "The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]." xsd:string [Term] id: UBERON:0002425 name: visceral serous pericardium namespace: uberon def: "Visceral serous membrane which is continuous with the parietal serous pericardium and is attached to the myocardium[FMA]." [Wikipedia:Visceral_pericardium] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "epicardium" RELATED [MA:0000484] synonym: "lamina visceralis pericardii serosi" RELATED LATIN [Wikipedia:Epicardium] synonym: "serous visceral pericardium" EXACT [] synonym: "visceral lamina of serous pericardium" EXACT [] synonym: "visceral layer of serous pericardium" EXACT [] synonym: "visceral pericardium" EXACT [] xref: EMAPA:17176 xref: EMAPA:19032 xref: FMA:84882 xref: MA:0000484 xref: SCTID:243955001 xref: VHOG:0000538 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/16/Gray968.png/200px-Gray968.png is_a: UBERON:0002357 ! serous pericardium relationship: attaches_to UBERON:0002349 ! myocardium [Term] id: UBERON:0002426 name: chest muscle namespace: uberon def: "A muscle organ that is part of a chest [Automatically generated definition]." [OBOL:automatic] synonym: "anterior thoracic region muscle organ" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax muscle organ" EXACT [OBOL:automatic] synonym: "chest muscle organ" EXACT [OBOL:automatic] synonym: "front of thorax muscle organ" EXACT [OBOL:automatic] synonym: "muscle of thorax" EXACT [FMA:9619] synonym: "muscle organ of anterior thoracic region" EXACT [OBOL:automatic] synonym: "muscle organ of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "muscle organ of chest" EXACT [OBOL:automatic] synonym: "muscle organ of front of thorax" EXACT [OBOL:automatic] synonym: "musculus thoracicus" EXACT [] synonym: "thoracic muscle" EXACT [] xref: BTO:0000508 xref: FMA:9619 xref: MA:0000548 is_a: UBERON:0001774 ! muscle of trunk is_a: UBERON:0003830 ! thoracic segment muscle is_a: UBERON:0005175 ! chest organ relationship: part_of UBERON:0001443 ! chest intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0002427 name: arm skin namespace: uberon def: "A zone of skin that is part of an arm [Automatically generated definition]." [OBOL:automatic] synonym: "brachial region skin" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb skin" EXACT [OBOL:automatic] synonym: "skin of arm" EXACT [OBOL:automatic] synonym: "skin of brachial region" EXACT [OBOL:automatic] synonym: "skin of proximal segment of free upper limb" EXACT [OBOL:automatic] xref: EMAPA:18062 xref: FMA:37721 xref: MA:0000596 xref: UMLS:C0222204 xref: ncithesaurus:Arm_Skin is_a: UBERON:0003531 ! forelimb skin relationship: part_of UBERON:0001460 ! arm intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0002428 name: limb bone namespace: uberon def: "A bone that is part of a limb [Automatically generated definition]." [OBOL:automatic] comment: AO notes: NCITA includes clavicle. MA:'limb bone' is actually a bone of limb or girdle // Note that the formal definition is very inclusive, and includes sesamoids synonym: "bone of extremity" EXACT [] synonym: "bone of limb" EXACT [OBOL:automatic] synonym: "free limb bone" EXACT [UBERON:cjm, UBERONREF:0000003] xref: EFO:0000880 xref: EFO:0000945 xref: MAT:0000151 xref: MIAA:0000151 xref: SCTID:304149004 xref: UMLS:C0582791 xref: ncithesaurus:Bone_of_the_Extremity is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0004375 ! bone of free limb or fin relationship: develops_from UBERON:0010881 ! limb bone cartilaginous condensation relationship: part_of UBERON:0004381 ! skeleton of limb intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0002429 name: cervical lymph node namespace: uberon def: "Cervical lymph nodes are lymph nodes found in the neck. [WP,unvetted]." [Wikipedia:Cervical_lymph_node] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lymph node of neck" EXACT [] xref: FMA:61213 xref: MA:0000736 xref: SCTID:181757009 xref: UMLS:C0588054 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4c/Lymph_node_regions.jpg/200px-Lymph_node_regions.jpg xref: ncithesaurus:Cervical_Lymph_Node intersection_of: UBERON:0000029 ! lymph node intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0002430 name: lateral hypothalamic area namespace: uberon def: "The lateral hypothalamus or lateral hypothalamic area is a part of the hypothalamus. It is concerned with hunger. Damage to this area can cause reduced food intake. Stimulating the lateral hypothalamus causes a desire to eat, while stimulating the ventromedial hypothalamus causes a desire to stop eating. [WP,unvetted]." [Wikipedia:Lateral_hypothalamic_area] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "area hypothalamica lateralis" EXACT LATIN [FMA:62030, FMA:TA] synonym: "lateral division of hypothalamus" EXACT [] synonym: "lateral group of hypothalamic nuclei" EXACT [] synonym: "lateral hypothalamic group" EXACT [] synonym: "lateral hypothalamic nucleus" RELATED [MA:0000834] synonym: "lateral hypothalamic region" EXACT [FMA:62030] synonym: "lateral hypothalamic zone (crosby)" EXACT [] xref: ABA:LHA xref: BM:Die-Hy-HLA xref: FMA:62030 xref: GAID:640 xref: MA:0000834 xref: MESH:A08.186.211.730.385.357.300 xref: NIF_GrossAnatomy:birnlex_4037 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002273 ! lateral zone of hypothalamus property_value: spatially_disjoint_from UBERON:0001906 property_value: spatially_disjoint_from UBERON:0001907 property_value: spatially_disjoint_from UBERON:0001931 property_value: spatially_disjoint_from UBERON:0001933 [Term] id: UBERON:0002431 name: obsolete pars anterior namespace: uberon is_obsolete: true consider: UBERON:0006965 ! vascular cord [Term] id: UBERON:0002432 name: pars intermedia of adenohypophysis namespace: uberon def: "boundary between the anterior and posterior lobes of the pituitary. It contains three types of cells: basophils, chromophobes, and colloid-filled cysts. The cysts are the remainder of Rathke's pouch. In human fetal life, this area produces melanocyte stimulating hormone or MSH which causes the release of melanin pigment in skin melanocytes (pigment cells). However, the pars intermedia is normally either very small or entirely absent in adulthood. In lower vertebrates (fish, amphibians) MSH from the pars intermedia is responsible for darkening of the skin, often in response to changes in background color. This color change is due to MSH stimulating the dispersion of melanin pigment in dermal (skin) melanophore cells." [Wikipedia:Pars_intermedia] comment: The intermediate part of adenohypophysis: an ill-defined region between the two lobes of the hypophysis; some systems of nomenclature consider it part of the neurohypophysis. In humans a defined structure develops during embryogenesis, but only scattered cells are retained when the gland matures[BTO]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "intermediate lobe" RELATED [BTO:0001788] synonym: "intermediate lobe of adenohypophysis" EXACT [] synonym: "intermediate lobe of pituitary" EXACT [] synonym: "pars intermedia" EXACT [MA:0000855] synonym: "pars intermedia (glandula pituitaria)" EXACT LATIN [FMA:74632, FMA:TA] synonym: "pars intermedia adenohypophyseos" RELATED LATIN [BTO:0001788, Wikipedia:Pars_intermedia] synonym: "pars intermedia adenohypophysis" EXACT LATIN [FMA:74632, FMA:TA] synonym: "pars intermedia lobi anterior hypophyseos" RELATED [BTO:0001788] synonym: "pars intermedia of anterior lobe of pituitary gland" EXACT [FMA:74632] xref: BTO:0001788 xref: EHDAA2:0001417 xref: EHDAA:8765 xref: EMAPA:17516 xref: FMA:74632 xref: MA:0000855 xref: SCTID:245534008 xref: TAO:0001197 xref: VHOG:0001178 xref: ZFA:0001197 xref: http://upload.wikimedia.org/wikipedia/commons/f/fb/Gray1181.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/Gray1181.png/200px-Gray1181.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: adjacent_to UBERON:0002198 ! neurohypophysis relationship: adjacent_to UBERON:0006377 ! remnant of Rathke's pouch relationship: part_of UBERON:0002196 ! adenohypophysis property_value: never_in_taxon NCBITaxon:8782 property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002433 name: pars tuberalis of adenohypophysis namespace: uberon def: "The pars tuberalis is part of the anterior lobe of the pituitary gland, and wraps the pituitary stalk in a highly vascularized sheath. [WP,unvetted]." [Wikipedia:Pars_tuberalis] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "pars infundibularis of adenohypophysis" EXACT [FMA:74631] synonym: "pars tuberalis" EXACT [MA:0000856] synonym: "pars tuberalis (glandula pituitaria)" EXACT LATIN [FMA:74631, FMA:TA] synonym: "pars tuberalis adenohypophyseos" RELATED LATIN [Wikipedia:Pars_tuberalis] synonym: "pars tuberalis adenohypophysis" EXACT LATIN [FMA:74631, FMA:TA] synonym: "pars tuberalis of anterior lobe of pituitary gland" EXACT [FMA:74631] xref: BTO:0001739 xref: EHDAA2:0001419 xref: EHDAA:8767 xref: EMAPA:17517 xref: FMA:74631 xref: MA:0000856 xref: TAO:0001196 xref: VHOG:0001114 xref: http://upload.wikimedia.org/wikipedia/commons/b/b9/Pituitary_gland_representation.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b9/Pituitary_gland_representation.PNG/200px-Pituitary_gland_representation.PNG is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002196 ! adenohypophysis property_value: never_in_taxon NCBITaxon:7955 property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002434 name: pituitary stalk namespace: uberon alt_id: UBERON:0003014 def: "The pituitary stalk (also known as the infundibular stalk or simply the infundibulum) is the connection between the hypothalamus and the posterior pituitary. It carries axons from the magnocellular neurosecretory cells of the hypothalamus down to the posterior pituitary where they release their hormones into the blood. This connection is called the hypothalamohypophyseal tract, and is responsible for the release of oxytocin and antidiuretic hormone[WP]." [Wikipedia:Pituitary_stalk] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "hypophyseal stalk" EXACT [MP:0009463] synonym: "hypophysial stalk" RELATED [ZFA:0001199] synonym: "infundibular stem" BROAD [MP:0009463] synonym: "infundibular stem of neurohypophysis" EXACT [FMA:74635] synonym: "infundibulum" EXACT [MA:0000858, ZFA:0001199] synonym: "infundibulum (lobus posterior) (glandula pituitaria)" EXACT LATIN [FMA:74635, FMA:TA] synonym: "infundibulum hypophysis" EXACT LATIN [FMA:74635, FMA:TA] synonym: "infundibulum neurohypophyseos" RELATED LATIN [Wikipedia:Pituitary_stalk] synonym: "infundibulum of hypothalamus" RELATED [ZFA:0001199] synonym: "infundibulum of neurohypophysis" EXACT [FMA:74635] synonym: "infundibulum of pituitary gland" EXACT [FMA:74635] synonym: "infundibulum of posterior lobe of pituitary gland" EXACT [FMA:74635] synonym: "neurohypophysis infundibulum" EXACT [FMA:74635] synonym: "tuberal part of hypophysis" EXACT [FMA:74635] xref: BTO:0000768 xref: EHDAA2:0000828 xref: EHDAA:7538 xref: EMAPA:17520 xref: FMA:74635 xref: MA:0000858 xref: NIF_GrossAnatomy:birnlex_912 xref: SCTID:245529009 xref: TAO:0001199 xref: UMLS:C0751440 xref: VHOG:0000245 xref: XAO:0004210 xref: ZFA:0001199 xref: http://upload.wikimedia.org/wikipedia/commons/b/b9/Pituitary_gland_representation.PNG xref: ncithesaurus:Pituitary_Stalk is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001894 ! diencephalon relationship: part_of UBERON:0002198 ! neurohypophysis disjoint_from: UBERON:0005968 ! infundibulum of hair follicle property_value: external_definition "A short stalk connecting the pituitary with the brain. Axons of secretory cells in the floor of the diencephalon traverse the infundibulum and terminate in the neurohypophysis.[TAO]" xsd:string property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0002435 name: striatum namespace: uberon def: "A region of the forebrain consisting of the caudate nucleus, putamen and fundus striati.[GO]." [GOC:jl, Wikipedia:Striatum] comment: AO notes: FMA divides striatum of neuraxis into 4, neostriatum is seperate class. In NIF these are synonyms. TODO - check striatum vs corpus striatum see http://en.wikipedia.org/wiki/Striatum#History. Check caudoputamen subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus striatum" RELATED [MA:0000891] synonym: "neostriatum" EXACT [GO:0021756, Wikipedia:Striatum] synonym: "neuraxis striatum" EXACT [FMA:83683] synonym: "striate nucleus" EXACT [GO:0021756, Wikipedia:Striatum] synonym: "striatum of neuraxis" EXACT [FMA:83683] xref: ABA:STR xref: BM:N xref: BTO:0000418 xref: EFO:0000109 xref: FMA:77618 xref: FMA:83683 xref: MA:0000891 xref: MESH:A08.186.211.730.885.105.487.550 xref: NIF_GrossAnatomy:birnlex_1672 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/BrainCaudatePutamen.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/33/BrainCaudatePutamen.svg/200px-BrainCaudatePutamen.svg.png xref: ncithesaurus:Striatum is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0011300 ! gray matter of telencephalon relationship: part_of UBERON:0000204 ! ventral part of telencephalon relationship: part_of UBERON:0000369 ! corpus striatum relationship: part_of UBERON:0002420 ! basal ganglion property_value: spatially_disjoint_from UBERON:0006514 property_value: has_relational_adjective "striatal" xsd:string [Term] id: UBERON:0002436 name: primary visual cortex namespace: uberon def: "The term area 17 of Brodmann (human) refers to a subdivision of the cytoarchitecturally defined occipital region of cerebral cortex in the human. Defined by the band of Gennari, which gives it the name striate (furrowed) area, it occupies the banks of the calcarine sulcus which are located in the cuneus and the lingual gyrus of the occipital lobe. Cytoarchitecturally it is bounded by the area 18 of Brodmann (human) which surrounds it ( Brodmann-1909 ). In the mouse ( Paxinos-2001 ) and the rat ( Swanson-1998 ) it is located on the dorsolateral surface of the cerebral hemisphere[BrainInfo]." [BrainInfo:2102, Wikipedia:Visual_cortex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "BA17" EXACT ABBREVIATION [Wikipedia:Visual_cortex] synonym: "Brodmann area 17" EXACT [Wikipedia:Visual_cortex] synonym: "Brodmann area 17, striate" EXACT [NIF_GrossAnatomy:birnlex_1748] synonym: "V1" RELATED [] synonym: "area 17 of brodmann" RELATED [Wikipedia:Visual_cortex] synonym: "area 17 of brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1748] synonym: "area striata" RELATED [] synonym: "b09-17" EXACT [NIF_GrossAnatomy:birnlex_1748] synonym: "brodmann (1909) area 17" EXACT [NIF_GrossAnatomy:birnlex_1748] synonym: "calcarine cortex" RELATED [BrainInfo:2102] synonym: "occipital visual neocortex" RELATED [GEO:GSM336648] synonym: "striate cortex" EXACT [FMA:236871] synonym: "visual association area" RELATED [Wikipedia:Visual_cortex] synonym: "visual association cortex" RELATED [Wikipedia:Visual_cortex] xref: BM:Tel-Cx-V1 xref: BTO:0004703 xref: FMA:236871 xref: MA:0000914 xref: NIF_GrossAnatomy:birnlex_1748 xref: SCTID:384772005 xref: UMLS:C0038446 xref: http://upload.wikimedia.org/wikipedia/commons/7/70/Brodmann_areas_17_18_19.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/70/Brodmann_areas_17_18_19.png/200px-Brodmann_areas_17_18_19.png xref: ncithesaurus:Primary_Visual_Cortex is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0002437 name: cerebral white matter namespace: uberon def: "White matter that is part of a cerebral hemisphere." [UBERON:cjm] comment: Usage notes: sometimes the term 'cerebral white matter' may be used generically but here is refers specifically to the white matter in a hemisphere. AO notes: The BTO class is inconsistent as it is part of the brain and spinal cord. synonym: "cerebral hemisphere white matter" EXACT [] synonym: "hemisphere white matter" RELATED [] xref: BTO:0000236 xref: FMA:241998 xref: MA:0000945 xref: NIF_GrossAnatomy:birnlex_711 xref: SCTID:361691006 xref: UMLS:C0152295 xref: ncithesaurus:Cerebral_White_Matter is_a: UBERON:0011299 ! white matter of telencephalon intersection_of: UBERON:0002316 ! white matter intersection_of: part_of UBERON:0001869 ! cerebral hemisphere [Term] id: UBERON:0002438 name: ventral tegmental nucleus namespace: uberon comment: AO notes: ventral and anterior tegmental nucleus are synonyms in FMA, but we split these into seperate classes. This is consistent with MA, ABA and neuronames, which treat these as distinct (NN suggest the anterior is a rodent specific structure). Location notes: this is part of pons and brainstem in MA, but this leads to an inconsistency with ABA. We err on the side of safety, and exclude the relationship to the pons here. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior tegmental nuclei" RELATED INCONSISTENT [FMA:72435] synonym: "anterior tegmental nucleus" RELATED INCONSISTENT [FMA:72435, http://www.medilexicon.com/medicaldictionary.php?t=61761] synonym: "deep tegmental nucleus of Gudden" EXACT [FMA:72435] synonym: "nucleus of Gudden" RELATED [MA:0001031] synonym: "nucleus tegmentales anteriores" RELATED [FMA:TA] synonym: "nucleus tegmentalis anterior" RELATED [FMA:TA] synonym: "rostral tegmental nucleus" RELATED [TAO:0000275] synonym: "ventral raphe tegmental nucleus" EXACT [FMA:72435] synonym: "ventral tegmental nuclei" EXACT [FMA:72435] synonym: "ventral tegmental nucleus (gudden)" EXACT [FMA:72435] synonym: "ventral tegmental nucleus of gudden" EXACT [FMA:72435] xref: ABA:VTN xref: FMA:72435 xref: MA:0001031 xref: NIF_GrossAnatomy:birnlex_1421 xref: SCTID:369244006 xref: TAO:0000275 xref: ZFA:0000275 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum disjoint_from: UBERON:0010036 ! anterior tegmental nucleus property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002439 name: myenteric nerve plexus namespace: uberon def: "plexus of unmyelinated nerve fibers and postganglionic autonomic cell bodies lying in the muscular coat of the esophagus, stomach and intestines that communicate with the submucosal, subserosal and enteric plexuses[MP]. Part of the enteric nervous system, Auerbach's plexus (or myenteric plexus) exists between the longitudinal and circular layers of muscularis externa in the gastrointestinal tract and provides motor innervation to both layers and secretomotor innervation to the mucosa, having both parasympathetic and sympathetic input, whereas Meissner's plexus has only parasympathetic fibers. It arises from cells in the Nucleus ala cinerea, the parasympathetic nucleus of origin for the tenth cranial nerve, located in the medulla oblongata. The fibers are carried by both the anterior and posterior vagal nerves. It is found in the muscles of the esophagus, stomach, and intestine. The myenteric plexus is the major nerve supply to the gastrointestinal tract and control GI tract motility[WP]." [MP:0010801, Wikipedia:Auerbach's_plexus] comment: AO notes: note that FMA uses Meissner's plexus as a synonym, rather than separate class subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Auberbach plexus" EXACT [NIF_GrossAnatomy:nlx_anat_100306] synonym: "Auberbach's plexus" EXACT [NIF_GrossAnatomy:nlx_anat_100306] synonym: "Auberbachs plexus" EXACT [NIF_GrossAnatomy:nlx_anat_100306] synonym: "Auerbach's plexus" EXACT [FMA:63252, HP:0002251] synonym: "Meissner's plexus" RELATED INCONSISTENT [FMA:63252] synonym: "Remak's plexus" EXACT [FMA:63252] synonym: "myenteric plexus" EXACT [] synonym: "plexus myentericus" RELATED [BTO:0002436] synonym: "plexus nervosus submucosus" EXACT LATIN [FMA:63252, FMA:TA] synonym: "plexus submucosus" EXACT LATIN [FMA:63252, FMA:TA] synonym: "submucous plexus" RELATED [] xref: BTO:0002436 xref: FMA:63252 xref: GAID:798 xref: MA:0001148 xref: MESH:A08.800.050.050.500 xref: NIF_GrossAnatomy:nlx_anat_100306 xref: SCTID:267716001 xref: UMLS:C0027028 xref: ncithesaurus:Myenteric_Nerve_Plexus is_a: UBERON:0000429 ! enteric plexus is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_function_in GO:0030432 ! peristalsis relationship: part_of UBERON:0012367 ! muscle layer of intestine [Term] id: UBERON:0002440 name: inferior cervical ganglion namespace: uberon def: "The inferior cervical ganglion is situated between the base of the transverse process of the last cervical vertebra and the neck of the first rib, on the medial side of the costocervical artery. Its form is irregular; it is larger in size than the middle cervical ganglion, and is frequently fused with the first thoracic ganglion. [WP,unvetted]." [Wikipedia:Inferior_cervical_ganglion] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ganglion cervicale inferioris" RELATED [BTO:0000240] synonym: "ganglion cervicale inferius" RELATED LATIN [Wikipedia:Inferior_cervical_ganglion] synonym: "stellate ganglion" RELATED [MA:0001154] synonym: "variant cervical ganglion" EXACT [] xref: BTO:0000240 xref: EHDAA:8939 xref: EMAPA:18439 xref: FMA:6961 xref: MA:0001154 xref: RETIRED_EHDAA2:0000815 xref: SCTID:279280008 xref: UMLS:C0229000 xref: http://upload.wikimedia.org/wikipedia/commons/e/e1/Gray844.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e1/Gray844.png/200px-Gray844.png xref: ncithesaurus:Inferior_Cervical_Ganglion is_a: UBERON:0001991 ! cervical ganglion [Term] id: UBERON:0002441 name: cervicothoracic ganglion namespace: uberon def: "The stellate ganglion (or cervicothoracic ganglion) is a sympathetic ganglion formed by the fusion of the inferior cervical ganglion and the first thoracic ganglion. Stellate ganglion is located at the level of C7, anterior to the transverse process of C7, posterior to the neck of the first rib, and just below the subclavian artery. [WP,unvetted]." [Wikipedia:Cervicothoracic_ganglion] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cervicothoracic sympathetic ganglion" EXACT [] synonym: "ganglion stellatum" EXACT LATIN [FMA:6469, FMA:TA] synonym: "stellate ganglion" EXACT [] xref: BTO:0001815 xref: EMAPA:18226 xref: FMA:6469 xref: GAID:711 xref: MA:0001157 xref: MESH:A08.340.315.350.800 xref: SCTID:181101006 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7a/Gray845.png/200px-Gray845.png is_a: UBERON:0001991 ! cervical ganglion relationship: part_of UBERON:0001991 ! cervical ganglion [Term] id: UBERON:0002442 name: axillary nerve trunk namespace: uberon synonym: "circumflex nerve trunk" RELATED [MA:0001175] synonym: "right axillary neural trunk" EXACT [] synonym: "trunk of right axillary nerve" EXACT [FMA:65265] xref: FMA:65265 xref: MA:0001175 is_a: UBERON:0001147 ! trunk of peripheral nerve [Term] id: UBERON:0002443 name: choroidal blood vessel namespace: uberon def: "A blood vessel that is part of a choroid [Automatically generated definition]." [OBOL:automatic] comment: cannot find singular in FMA, using Set class synonym: "blood vessel of choroid" EXACT [OBOL:automatic] synonym: "blood vessel of choroid coat" EXACT [OBOL:automatic] synonym: "blood vessel of choroidea" EXACT [OBOL:automatic] synonym: "blood vessel of posterior uvea" EXACT [OBOL:automatic] synonym: "choroid blood vessel" EXACT [OBOL:automatic] synonym: "choroid blood vessels" EXACT [] synonym: "choroid blood vessels set" EXACT [] synonym: "choroid coat blood vessel" EXACT [OBOL:automatic] synonym: "choroidea blood vessel" EXACT [OBOL:automatic] synonym: "posterior uvea blood vessel" EXACT [OBOL:automatic] synonym: "set of choroid blood vessels" RELATED [FMA:76550] synonym: "vasa sanguinea choroideae" EXACT LATIN [FMA:76550, FMA:TA] xref: EMAPA:17828 xref: FMA:76550 xref: MA:0001237 is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: part_of UBERON:0001776 ! optic choroid intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001776 ! optic choroid [Term] id: UBERON:0002444 name: lens fiber namespace: uberon def: "The lens fibers form the bulk of the lens. They are long, thin, transparent cells, with diameters typically between 4-7 micrometres and lengths of up to 12 mm long." [Wikipedia:Lens_(anatomy)#Lens_fibers] comment: TODO - check plural vs singular. in FMA lens fiber is a cell - FMA:70950 Lens cell. Other ontologies don't appear to commit one way or another. synonym: "fibrae lentis" EXACT LATIN [FMA:76827, FMA:TA] synonym: "lens fibers" EXACT [] synonym: "lens fibers set" EXACT [] synonym: "lens fibres" EXACT [] synonym: "set of lens fibers" RELATED [FMA:76827] xref: BTO:0000724 xref: EHDAA:4745 xref: EHDAA:9065 xref: EMAPA:17841 xref: FMA:76827 xref: MA:0001304 xref: RETIRED_EHDAA2:0000979 xref: UMLS:C0229224 xref: VHOG:0000444 xref: XAO:0004096 xref: ncithesaurus:Lens_Fiber is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: external_definition "Fibres resembling a ribbon and arranged in very thin plates in the lens. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string property_value: homology_notes " (...) the line, or Y, or star sutures common to mammalian lenses, including those of primates. In the case of line or Y sutures, the overlapping of lens fibers in each successive shell is coincident and results in the formation of four or six three-dimensional suture planes that extend from the lens nucleus to the periphery.[well established][VHOG]" xsd:string [Term] id: UBERON:0002445 name: ulnare namespace: uberon def: "The postaxial bone of the proximal carpal region. Found in close approximation to the ulna, often in articulation[PHENOSCAPE:ad]." [Wikipedia:Triquetral] comment: note this bone is termed the triquetral bone in some mammalian taxa, notably humans subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cuneiform bone of hand" EXACT [] synonym: "cuneiform bone of manus" EXACT [] synonym: "cuneiform of hand" RELATED [MA:0001347] synonym: "os triquetrum" EXACT LATIN [FMA:23715, FMA:TA] synonym: "os ulnare" EXACT [UBERON:cjm] synonym: "triangular" RELATED [MA:0001347] synonym: "triangular bone" EXACT [] synonym: "triquetral" EXACT [MA:0001347, NCBITaxon:9606] synonym: "triquetral bone" EXACT [] synonym: "triquetrum" RELATED [MA:0001347] synonym: "ulnar carpal bone" RELATED [MA:0001347] xref: AAO:0000845 xref: FMA:23715 xref: MA:0001347 xref: SCTID:181965000 xref: UMLS:C0223739 xref: galen:Triquetral xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/50/Carpus.png/200px-Carpus.png xref: ncithesaurus:Triangular_Bone is_a: UBERON:0001480 ! proximal carpal bone relationship: postaxial_part_of UBERON:0009880 ! carpal skeleton intersection_of: UBERON:0001480 ! proximal carpal bone intersection_of: proximally_connected_to UBERON:0001424 ! ulna property_value: external_definition "One of two element that constitute the basal row of carpals. It articulates with the ulna, radius, radiale, centrale (element Y), and carpal 5(4). This element originates from one condensation center or the fusion of two elements (ulnare and intermedium). Occasionally it may fuse to carpal 5(4), the radiale, or other elements.[AAO]" xsd:string [Term] id: UBERON:0002446 name: patella namespace: uberon def: "A large sesamoid bone found in the distal femur/proximal tibial region of the hindlimb of tetrapods. The patella is the attachment site for proximal hindlimb tendons.[PHENOSCAPE:ad]" [PHENOSCAPE:ad, Wikipedia:Patella, https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=3470151&group_id=76834] comment: The patella, also known as the knee cap or kneepan, is the largest sesamoid bone in the human body. The primary functional role of the patella is knee extension. The patella has convergently evolved in placental mammals and birds; marsupials have only rudimentary, non-ossified patellae. In more primitive tetrapods, including living amphibians and reptiles, the muscle tendons from the upper leg are attached directly to the tibia, and the patella is not present. See also: fabella. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "knee bone" RELATED [FMA:24485] synonym: "knee cap" RELATED [Wikipedia:Patella] synonym: "patella" RELATED LATIN [Wikipedia:Patella] xref: FMA:24485 xref: GAID:203 xref: MA:0001374 xref: MESH:A02.835.232.500.624 xref: SCTID:182083008 xref: UMLS:C0030647 xref: galen:Patella xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Knee_diagram.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9a/Knee_diagram.svg/200px-Knee_diagram.svg.png xref: ncithesaurus:Patella is_a: UBERON:0001479 ! sesamoid bone is_a: UBERON:0005893 ! leg bone is_a: UBERON:0011141 ! appendicular ossicle relationship: adjacent_to UBERON:0001485 ! knee joint relationship: part_of UBERON:0001441 ! hindlimb skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: connected_to UBERON:0000981 ! femur intersection_of: part_of UBERON:0001465 ! knee property_value: has_relational_adjective "patellar" xsd:string [Term] id: UBERON:0002447 name: palatine gland namespace: uberon def: "The palatine glands form a continuous layer on its posterior surface and around the uvula. They are primarily mucous secreting glands, as opposed to serous or mixed secreting glands. [WP,unvetted]." [Wikipedia:Palatine_glands] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "palatine glands set" EXACT [] synonym: "palatine salivary gland" EXACT [] synonym: "salivary palatine gland" EXACT [] xref: FMA:59795 xref: MA:0001584 xref: SCTID:13604002 xref: UMLS:C0930557 xref: ncithesaurus:Palatine_Salivary_Gland is_a: UBERON:0001830 ! minor salivary gland [Term] id: UBERON:0002448 name: fungiform papilla namespace: uberon def: "The fungiform papillae are mushroom shaped e (projections) on the tongue. They are located on the top (dorsal) surface of the tongue, scattered throughout the filiform papilla but mainly at the tip and lateral margins of the tongue. They have taste buds on their superior (upper) surface which can distinguish the five tastes: sweet, sour, bitter, salty, and umami. They have a core of connective tissue. They are innervated by the seventh cranial nerve, more specifically via the submandibular ganglion, chorda tympani, and geniculate ganglion ascending to the solitary nucleus (the sensory component of the Vagus nerve in the brainstem). [WP,unvetted]." [Wikipedia:Fungiform_papilla] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fungiform papilla of tongue" EXACT [FMA:54821] synonym: "fungiform papillae" EXACT PLURAL [] synonym: "fungiform papillae set" EXACT PLURAL [] synonym: "papillae fungiformes" RELATED LATIN [Wikipedia:Fungiform_papilla] xref: EMAPA:18657 xref: FMA:54821 xref: MA:0001595 xref: NIF_GrossAnatomy:birnlex_4106 xref: SCTID:80673002 xref: UMLS:C0545784 xref: http://upload.wikimedia.org/wikipedia/commons/6/6e/Gray1014.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6e/Gray1014.png/200px-Gray1014.png xref: ncithesaurus:Fungiform_Papilla is_a: UBERON:0001726 ! papilla of tongue [Term] id: UBERON:0002450 name: decidua namespace: uberon def: "Uterine lining (endometrium) during a pregnancy, which forms the maternal part of the placenta. It is formed under the influence of progesterone and forms highly-characteristic cells." [Wikipedia:Decidua] comment: todo - check mp syn subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "decidous membrane" EXACT [FMA:85538] synonym: "decidua basalis" RELATED [] synonym: "endometrium" RELATED [] synonym: "maternal decidual layer" RELATED [MP:0004256] synonym: "placenta maternal decidual layer" RELATED [] synonym: "uterine decidua" RELATED [BTO:0001360] xref: BTO:0001360 xref: EMAPA:29917 xref: FMA:85538 xref: GAID:378 xref: MA:0001722 xref: MAT:0000290 xref: MESH:A05.360.319.679.490.373 xref: MIAA:0000290 xref: SCTID:362842004 xref: UMLS:C0011106 xref: http://upload.wikimedia.org/wikipedia/commons/f/fa/Gray33.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fa/Gray33.png/200px-Gray33.png xref: ncithesaurus:Decidua is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0001987 ! placenta [Term] id: UBERON:0002451 name: uterine gland namespace: uberon def: "tube like gland lined by ciliated columnar epithelium[WP]. The mucous secreting gland associated with the epithelium lining the uterus. These glands develop and secrete each menstrual cycle and are thought to provide initial blastocyst nutrition prior to implantation[BTO]" [Wikipedia:Uterine_glands] comment: todo - check FMA subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "glandulae uterinae" EXACT LATIN [FMA:71647, FMA:TA, Wikipedia:Uterine_glands] synonym: "glandular part of endometrium" RELATED [FMA:86488] synonym: "set of uterine glands" RELATED [FMA:71647] synonym: "uterine glands" EXACT [] synonym: "uterine glands set" EXACT [] xref: BTO:0003433 xref: BTO:0004518 xref: EMAPA:29919 xref: FMA:71647 xref: FMA:86488 xref: MA:0001726 xref: SCTID:361377009 xref: UMLS:C1183035 xref: http://upload.wikimedia.org/wikipedia/commons/2/28/Gray1169.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/28/Gray1169.png/200px-Gray1169.png xref: ncithesaurus:Uterine_Gland is_a: UBERON:0002530 ! gland is_a: UBERON:0005398 ! female reproductive gland relationship: has_part UBERON:0007592 ! ciliated columnar epithelium relationship: has_quality PATO:0001873 ! cylindrical relationship: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0002453 name: ethmoid sinus namespace: uberon def: "The ethmoid sinus, one of the paranasal sinuses, is the collective name for the ethmoidal air cells. Each ethmoid sinus is an air-space enclosed within the ethmoid bone. The ethmoidal air cells consist of numerous thin-walled cavities situated in the ethmoidal labyrinth and completed by the frontal, maxilla, lacrimal, sphenoidal, and palatine bones. They lie between the upper parts of the nasal cavities and the orbits, and are separated from these cavities by thin bony laminC&. [WP,unvetted]." [Wikipedia:Ethmoid_bone_sinus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cellulae ethmoidales" RELATED LATIN [Wikipedia:Ethmoid_sinus] synonym: "ethmoidal sinus" EXACT [FMA:84115] xref: FMA:84115 xref: GAID:356 xref: MA:0001792 xref: MESH:A04.531.621.267 xref: SCTID:181206009 xref: UMLS:C0015028 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fb/Nnh_front.svg/200px-Nnh_front.svg.png xref: ncithesaurus:Ethmoid_Sinus is_a: UBERON:0001825 ! paranasal sinus [Term] id: UBERON:0002454 name: dorsal metacarpal artery namespace: uberon def: "Aanastomosis of dorsal carpal branch of the radial artery and the dorsal carpal branch of the ulnar artery near the back of the wrist. It is made up of the dorsal carpal branches of both the ulnar and radial arteries. It also anastomoses with the anterior interosseous artery and the posterior interosseous artery. The arch gives off three dorsal metacarpal arteries." [Wikipedia:Dorsal_metacarpal_artery] comment: check FMA, singular. specific subtypes e.g. FMA:22761 first dorsal metacarpal artery subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteriae metacarpales dorsales" EXACT LATIN [FMA:70800, FMA:TA] synonym: "dorsal metacarpal arteries" EXACT [] synonym: "dorsal metacarpal arteries set" EXACT [] synonym: "set of dorsal metacarpal arteries" RELATED [FMA:70800] xref: FMA:70800 xref: MA:0001944 xref: SCTID:244320002 xref: UMLS:C0447094 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray529.png/200px-Gray529.png xref: ncithesaurus:Dorsal_Metacarpal_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0002455 name: common plantar digital arteries namespace: uberon def: "." [Wikipedia:Common_plantar_digital_arteries] synonym: "arteriae digitales plantares communes" EXACT LATIN [FMA:70821, FMA:TA, Wikipedia:Common_plantar_digital_arteries] synonym: "common plantar digital arteries" EXACT [] synonym: "common plantar digital arteries set" EXACT [FMA:70821] synonym: "set of common plantar digital arteries" RELATED [FMA:70821] xref: FMA:70821 xref: MA:0001966 xref: http://upload.wikimedia.org/wikipedia/commons/3/3e/Gray555.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3e/Gray555.png/200px-Gray555.png is_a: UBERON:0006138 ! plantar digital artery relationship: has_part UBERON:0001410 ! common palmar digital artery [Term] id: UBERON:0002456 name: internal thoracic artery namespace: uberon def: "In human anatomy, the internal thoracic artery (ITA), previously known as the internal mammary artery (a name still common among surgeons), is an artery that supplies the anterior chest wall and the breasts. It is a paired artery, with one running along each side of the sternum, to continue after its bifurcation as the superior epigastric and musculophrenic arteries. [WP,unvetted]." [Wikipedia:Internal_thoracic_artery] comment: note MA has both mammary and thoracic subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria thoracica interna, arteria mammaria interna" RELATED LATIN [Wikipedia:Internal_thoracic_artery] synonym: "internal mammary artery" EXACT ATTRIBUTION_REQUIRED [MA:0001982] synonym: "internal thoracic mammary artery" EXACT [] xref: EHDAA2:0000880 xref: EHDAA:8585 xref: EMAPA:18617 xref: FMA:3960 xref: MA:0001982 xref: MA:0001984 xref: OpenCyc:Mx4rMe0MIao8EduQrwACs5b6Bw xref: SCTID:244239009 xref: UMLS:C0226276 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray522.png xref: ncithesaurus:Internal_Mammary_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0001533 ! subclavian artery relationship: part_of UBERON:0001533 ! subclavian artery [Term] id: UBERON:0002457 name: intersegmental artery namespace: uberon subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "7th intersegmental artery" EXACT [] synonym: "seventh intersegmental artery" EXACT [] xref: EHDAA2:0000882 xref: EHDAA:4340 xref: EMAPA:17616 xref: MA:0001985 xref: SCTID:338130007 xref: TAO:0001061 xref: VHOG:0000225 xref: ZFA:0001061 is_a: UBERON:0001637 ! artery property_value: homology_notes "Few changes of evolutionary significance occur in the branching pattern of the dorsal aorta. All vertebrates have (...) paired intersegmental arteries to the trunk, tail, and paired appendages.[well established][VHOG]" xsd:string [Term] id: UBERON:0002458 name: spinal artery namespace: uberon def: "Arteries that supply the spinal cord." [UBERON:cjm, Wikipedia:Spinal_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "spinal arteries" EXACT PLURAL [ZFA:0000682] xref: EHDAA2:0001890 xref: EHDAA:4355 xref: EMAPA:18241 xref: MA:0002043 xref: SCTID:244228006 xref: TAO:0000682 xref: UMLS:C0447043 xref: ZFA:0000682 xref: ncithesaurus:Spinal_Artery is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002240 ! spinal cord [Term] id: UBERON:0002459 name: inferior palpebral vein namespace: uberon comment: check FMA, singular. synonym: "inferior palpebral veins" EXACT [] synonym: "inferior palpebral veins set" EXACT [] synonym: "lower palpebral vein" RELATED [MA:0002147] synonym: "set of inferior palpebral veins" RELATED [FMA:70847] synonym: "venae palpebrales inferiores" EXACT LATIN [FMA:70847, FMA:TA] xref: FMA:70847 xref: MA:0002147 xref: SCTID:422559003 xref: UMLS:C1760539 xref: ncithesaurus:Inferior_Palpebral_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0002460 name: vesical vein namespace: uberon def: "The vesical veins are tributaries of the internal iliac veins. [WP,unvetted]." [Wikipedia:Vesical_veins] comment: check FMA, singular. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "set of vesical veins" RELATED [FMA:70911] synonym: "venae vesicales" EXACT LATIN [FMA:70911, FMA:TA] synonym: "vesical veins" EXACT [] synonym: "vesical veins set" EXACT [] xref: FMA:70911 xref: MA:0002263 xref: SCTID:12683000 xref: http://upload.wikimedia.org/wikipedia/commons/b/bd/Gray585.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bd/Gray585.png/200px-Gray585.png is_a: UBERON:0001638 ! vein [Term] id: UBERON:0002461 name: anterior abdominal wall muscle namespace: uberon def: "A muscle organ that is part of a anterior abdominal wall." [OBOL:automatic] synonym: "muscle of anterior abdominal wall" EXACT [FMA:20278] xref: EHDAA2:0000125 xref: FMA:20278 xref: MA:0002268 xref: UMLS:C1744565 xref: ncithesaurus:Anterior_Abdominal_Wall_Muscle is_a: UBERON:0002378 ! muscle of abdomen intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0006635 ! anterior abdominal wall [Term] id: UBERON:0002462 name: erector spinae muscle group namespace: uberon def: "A bundle of muscles and tendons that is paired and runs more or less vertically. It extends throughout the lumbar, thoracic and cervical regions, and lies in the groove to the side of the vertebral column." [Wikipedia:Erector_spinae_muscles] comment: AO notes: isa muscle organ in MA. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "erector spinae" EXACT [MA:0002289] synonym: "extensor spinae" EXACT [Wikipedia:Erector_spinae] synonym: "extensor spinae muscle" RELATED [Wikipedia:Erector_spinae] synonym: "extensor spinae muscles" EXACT [Wikipedia:Erector_spinae] synonym: "m. erector spinae" RELATED LATIN [Wikipedia:Erector_spinae_muscles] synonym: "sacrospinalis" EXACT DEPRECATED [BTO:0001652] xref: BTO:0001652 xref: EHDAA2:0000454 xref: EHDAA:9456 xref: EMAPA:18168 xref: FMA:71302 xref: MA:0002289 xref: OpenCyc:Mx4rwC7lnJwpEbGdrcN5Y29ycA xref: SCTID:244852007 xref: UMLS:C0224301 xref: VHOG:0000984 xref: http://upload.wikimedia.org/wikipedia/commons/d/de/Gray1124.png xref: ncithesaurus:Erector_Spinae is_a: UBERON:0001015 ! musculature is_a: UBERON:0003897 ! axial muscle relationship: adjacent_to UBERON:0001130 ! vertebral column relationship: develops_from UBERON:0010961 ! erector spinae pre-muscle mass relationship: has_muscle_insertion UBERON:0001076 ! spinous process of vertebra relationship: has_muscle_insertion UBERON:0002413 ! cervical vertebra relationship: innervated_by UBERON:0006839 ! posterior ramus of spinal nerve [Term] id: UBERON:0002463 name: hamstring muscle namespace: uberon def: "In human anatomy, the hamstring refers to one of the three posterior thigh muscles, or to the tendons that make up the borders of the space behind the knee. In modern anatomical contexts, however, they usually refer to the posterior thigh muscles, or the tendons of the semitendinosus, the semimembranosus and the biceps femoris. In quadrupeds, it refers to the single large tendon found behind the knee or comparable area. [WP,unvetted]." [Wikipedia:Hamstring] comment: check FMA, singular. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hamstring" RELATED [VHOG:0000844] synonym: "hamstring muscles" EXACT [] synonym: "hamstring muscles set" EXACT [] synonym: "hamstrings" EXACT [] synonym: "set of hamstring muscles" RELATED [FMA:81022] xref: BTO:0003179 xref: EHDAA2:0000727 xref: EHDAA:8295 xref: EMAPA:19072 xref: EMAPA:19145 xref: FMA:81022 xref: MA:0002312 xref: OpenCyc:Mx4rvVjdtJwpEbGdrcN5Y29ycA xref: UMLS:C0584895 xref: VHOG:0000844 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Gray1239.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bc/Biceps_femoris_muscle_long_head.PNG/200px-Biceps_femoris_muscle_long_head.PNG xref: ncithesaurus:Hamstring is_a: UBERON:0001630 ! muscle organ relationship: has_muscle_antagonist UBERON:0001378 ! rectus femoris relationship: has_muscle_insertion UBERON:0000979 ! tibia relationship: has_muscle_insertion UBERON:0001446 ! fibula relationship: innervated_by UBERON:0001322 ! sciatic nerve [Term] id: UBERON:0002464 name: nerve trunk namespace: uberon subset: vessel_or_tree ! A term classified differently in FMA due to its treatment of branching structures - to be reviewed and revised by editors synonym: "trunk of nerve" EXACT [] xref: BTO:0000927 xref: EHDAA:4675 xref: EMAPA:16986 xref: FMA:5913 xref: MA:0002408 xref: SCTID:281248001 is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004732 ! segmental subdivision of nervous system relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0002465 name: lymphoid system namespace: uberon alt_id: UBERON:0002096 def: "The lymphatic system in vertebrates is a network of conduits that carry a clear fluid called lymph. It also includes the lymphoid tissue through which the lymph travels. Lymphoid tissue is found in many organs, particularly the lymph nodes, and in the lymphoid follicles associated with the digestive system such as the tonsils. The system also includes all the structures dedicated to the circulation and production of lymphocytes, which includes the spleen, thymus, bone marrow and the lymphoid tissue associated with the digestive system (Wikipedia)." [Wikipedia:Lymphoid_system, https://sourceforge.net/tracker/?func=detail&aid=3153468&group_id=76834&atid=1205376] comment: We follow FMA and MA in distinguishing between lymphatic system and lymphoid system, with lymhoid tissue part of the non-lymphatic component, although these terms are often used interchangeably. We assume the ZFA term lymphatic tissue actually corresponds to the broader class (e.g. ZFA lymph node in the ZFA lymphatic system). See tracker for more comments. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "lymphatic circulatory system" RELATED [UBERON:cjm] synonym: "lymphatic system" NARROW [ZFA:0000385] synonym: "systema lymphoideum" RELATED LATIN [Wikipedia:Lymphoid_system] xref: EFO:0000870 xref: EHDAA2:0001043 xref: EHDAA:8677 xref: FMA:74594 xref: GAID:931 xref: MA:0002435 xref: MAT:0000197 xref: MIAA:0000197 xref: OpenCyc:Mx4rwQAKT5wpEbGdrcN5Y29ycA xref: SCTID:362589007 xref: TAO:0000385 xref: UMLS:C0024235 xref: VHOG:0000842 xref: XAO:0003199 xref: ZFA:0000385 xref: http://upload.wikimedia.org/wikipedia/commons/b/b3/TE-Lymphatic_system_diagram.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/36/Illu_capillary_microcirculation.jpg/200px-Illu_capillary_microcirculation.jpg xref: ncithesaurus:Lymphatic_System is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002193 ! hemolymphoid system relationship: part_of UBERON:0002405 ! immune system property_value: external_definition "Part of the circulatory system which consists of a series of vessels which collect blood (exclusive of erythrocytes) which seep through capillary walls and return it to the veins.[AAO]" xsd:string property_value: has_relational_adjective "lymphoid" xsd:string property_value: homology_notes "Tetrapods have evolved distinct lymphatic systems, in which lymphatic capillaries help drain most of the tissues of the body.[well established][VHOG]" xsd:string [Term] id: UBERON:0002466 name: intestine secretion namespace: uberon def: "Clear to pale yellow watery secretions from the glands lining the small intestine walls. Secretion is stimulated by the mechanical pressure of partly digested food in the intestine." [Wikipedia:Succus_entericus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intestinal secretion" EXACT [FMA:62974] synonym: "succus entericus" EXACT [] xref: BTO:0000644 xref: FMA:62974 xref: GAID:1162 xref: MA:0002515 xref: MESH:A12.200.390 xref: UMLS:C0021849 xref: ncithesaurus:Intestinal_Secretion intersection_of: UBERON:0000456 ! bodily secretion intersection_of: secreted_by UBERON:0000160 ! intestine [Term] id: UBERON:0002467 name: filiform papilla namespace: uberon def: "The filiform papillae are thin, long 'V'-shaped cones that don't contain taste buds but are the most numerous. These papillae are mechanical and not involved in gustation covering most of the dorsum (upper surface). They are small and arranged in lines parallel to the V-shaped row of circumvallate papillae, except at the tip of the tongue where they are aligned transversely. Projecting from their apices are numerous filamentous processes, or secondary papillae. These are of a whitish tint, owing to the thickness and density of the epithelium of which they are composed. This epithelium has undergone a peculiar modification as the cells have become cornified and elongated into dense, imbricated, brush-like processes. They contain also a number of elastic fibers, which render them firmer and more elastic than the papillae of mucous membrane generally. The larger and longer papillae of this group are sometimes termed papillae conicae. Fungiform papillae are found dispersed throughout the filiform papillae. [WP,unvetted]." [Wikipedia:Filiform_papilla] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "filiform papilla of tongue" EXACT [FMA:54820] synonym: "filiform papillae" EXACT [] synonym: "filiform papillae set" EXACT [] synonym: "papillae filiformes" RELATED LATIN [Wikipedia:Filiform_papilla] xref: EMAPA:18655 xref: EMAPA:18873 xref: FMA:54820 xref: MA:0002678 xref: NIF_GrossAnatomy:birnlex_4104 xref: SCTID:58743008 xref: UMLS:C0545782 xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1016.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Gray1016.png/200px-Gray1016.png xref: ncithesaurus:Filiform_Papilla is_a: UBERON:0001726 ! papilla of tongue [Term] id: UBERON:0002468 name: foliate papilla namespace: uberon def: "Taste-buds, the end-organs of the gustatory sense, are scattered over the mucous membrane of the mouth and tongue at irregular intervals. They occur especially in the sides of the vallate papillae. There is a localized area at the side of the base of the tongue, the foliate papillae, in which they are especially abundant. [WP,unvetted]." [Wikipedia:Foliate_papilla] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "foliate papilla of tongue" EXACT [FMA:54823] synonym: "foliate papillae" EXACT [] synonym: "foliate papillae set" EXACT [] synonym: "papillae foliatae" RELATED LATIN [Wikipedia:Foliate_papilla] xref: FMA:54823 xref: MA:0002679 xref: NIF_GrossAnatomy:birnlex_4105 xref: SCTID:362098003 xref: UMLS:C0545785 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray1021.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Gray1021.png/200px-Gray1021.png xref: ncithesaurus:Foliate_Papilla is_a: UBERON:0001726 ! papilla of tongue [Term] id: UBERON:0002469 name: esophagus mucosa namespace: uberon alt_id: UBERON:0003345 def: "A mucosa that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal mucosa" EXACT [] synonym: "esophagus mucosa" EXACT [FMA:62996] synonym: "esophagus mucosa of organ" EXACT [OBOL:automatic] synonym: "esophagus mucous membrane" EXACT [OBOL:automatic] synonym: "esophagus organ mucosa" EXACT [OBOL:automatic] synonym: "gullet mucosa" EXACT [OBOL:automatic] synonym: "gullet mucosa of organ" EXACT [OBOL:automatic] synonym: "gullet mucous membrane" EXACT [OBOL:automatic] synonym: "gullet organ mucosa" EXACT [OBOL:automatic] synonym: "lamina muscularis mucosae oesophageae" EXACT LATIN [FMA:62996, FMA:TA] synonym: "mucosa of esophagus" EXACT [OBOL:automatic] synonym: "mucosa of gullet" EXACT [OBOL:automatic] synonym: "mucosa of oesophagus" EXACT [OBOL:automatic] synonym: "mucosa of organ of esophagus" EXACT [OBOL:automatic] synonym: "mucosa of organ of gullet" EXACT [OBOL:automatic] synonym: "mucosa of organ of oesophagus" EXACT [OBOL:automatic] synonym: "mucous membrane of esophagus" EXACT [] synonym: "mucous membrane of gullet" EXACT [OBOL:automatic] synonym: "mucous membrane of oesophagus" EXACT [FMA:62996] synonym: "muscularis mucosae of oesophagus" RELATED INCONSISTENT [FMA:62996] synonym: "oesophageal mucosa" EXACT [FMA:62996] synonym: "oesophagus mucosa" EXACT [] synonym: "oesophagus mucosa of organ" EXACT [OBOL:automatic] synonym: "oesophagus mucous membrane" EXACT [OBOL:automatic] synonym: "oesophagus organ mucosa" EXACT [OBOL:automatic] synonym: "organ mucosa of esophagus" EXACT [OBOL:automatic] synonym: "organ mucosa of gullet" EXACT [OBOL:automatic] synonym: "organ mucosa of oesophagus" EXACT [OBOL:automatic] synonym: "tunica mucosa esophagi" EXACT [] synonym: "tunica mucosa oesophageae" EXACT LATIN [FMA:62996, FMA:TA] synonym: "tunica mucosa oesophagi" EXACT [BTO:0002859] xref: BTO:0002859 xref: EMAPA:26981 xref: EMAPA:26991 xref: FMA:62996 xref: MA:0002680 xref: SCTID:362127004 xref: UMLS:C0227176 xref: ncithesaurus:Esophageal_Mucosa is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001096 ! wall of esophagus intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0002470 name: autopod region namespace: uberon def: "Terminal segment of free upper limb, immediately distal to the zeugopod region. The fully developed autopod consists of the autopod skeleton plus associated structures such as integument, muscle tissue, vasculature etc. The autopod is divided into mesopodial, metapodiual, and acropodial segments. Examples: human hand, mouse paw, human foot" [UBERON:cjm] comment: Naming conventions for pod terms under discussion within phenoscape group; note that this refers to the limb segment, not just the skeleton. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "autopod" BROAD [MA:0002714] synonym: "autopodial limb segment" EXACT [MA:th] synonym: "autopodial segment" EXACT [] synonym: "autopodium" EXACT [] synonym: "autopodium region" EXACT [] synonym: "distal free limb segment" EXACT [FMA:83015] synonym: "distal segment of free limb" EXACT [FMA:83015] synonym: "paw" RELATED [] synonym: "pod" RELATED [] xref: BTO:0004359 xref: EFO:0000877 xref: FMA:83015 xref: MA:0002714 xref: MAT:0000091 xref: MIAA:0000091 xref: SCTID:95936004 xref: UMLS:C0687080 xref: ncithesaurus:Paw is_a: UBERON:0002529 ! limb segment relationship: develops_from UBERON:0010130 ! autopod plate relationship: distally_connected_to UBERON:0002471 ! zeugopod [Term] id: UBERON:0002471 name: zeugopod namespace: uberon def: "The middle free limb segment, between the autopod and stylopod segments. Includes as parts the zeugopodial skeleton. Examples: There are two types of zeugopod: forelimb zeugopod (aka forearm), hindlimb zeugopod (aka crus)." [PHENOSCAPE:curators] comment: There exists some controversy about which podial segments are present in some fishes, e.g. if the autopod is not newly evolved in tetrapods, there is a question as to which segments are actually present in basal vertebrate taxa.[PHENOSCAPE:curators] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "epipodium" EXACT [MA:th] synonym: "middle free limb segment" EXACT [FMA:83016] synonym: "middle limb segment" EXACT [] synonym: "middle part of limb" BROAD [] synonym: "middle segment of free limb" RELATED [FMA:83016] synonym: "zeugopod limb segment" EXACT [MA:th] synonym: "zeugopodial limb segment" EXACT [MA:th] synonym: "zeugopodium" EXACT [] synonym: "zygopod" EXACT [] synonym: "zygopodium" EXACT [] xref: EFO:0000878 xref: FMA:83016 xref: MA:0002716 xref: MAT:0000092 xref: MIAA:0000092 is_a: UBERON:0002529 ! limb segment relationship: distal_to UBERON:0002472 ! stylopod relationship: proximal_to UBERON:0002470 ! autopod region property_value: has_relational_adjective "zeugopodial" xsd:string [Term] id: UBERON:0002472 name: stylopod namespace: uberon def: "The proximal free limb segment. Includes as parts the stylopod skeleton." [] comment: Naming conventions for pod terms under discussion within phenoscape group subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "propodium" EXACT [MA:th] synonym: "proximal free limb segment" EXACT [FMA:83014] synonym: "proximal part of limb" BROAD [] synonym: "proximal segment of free limb" RELATED [FMA:83014] synonym: "stylopodial limb segment" EXACT [MA:th] synonym: "stylopodium" EXACT [] xref: EFO:0000879 xref: FMA:83014 xref: MA:0002717 xref: MAT:0000093 xref: MIAA:0000093 is_a: UBERON:0002529 ! limb segment relationship: part_of UBERON:0002101 ! limb relationship: proximal_to UBERON:0002471 ! zeugopod property_value: has_relational_adjective "stylopodial" xsd:string [Term] id: UBERON:0002473 name: intercerebral commissure namespace: uberon def: "Class of unpaired telencephalic white matter structures consisting of fiber pathways which project across the midsagittal plane and which serve to interconnect telencephalic structures lying within the contralateral cerebral hemisphere[FMA]." [FMA:67930] synonym: "brain commissure" NARROW [] synonym: "interhemispheric commissure" RELATED [MA:0002721] xref: FMA:67930 xref: MA:0002721 is_a: UBERON:0001020 ! commissure is_a: UBERON:0005970 ! brain commissure relationship: part_of UBERON:0001893 ! telencephalon relationship: part_of UBERON:0002437 ! cerebral white matter [Term] id: UBERON:0002474 name: cerebellar peduncular complex namespace: uberon def: "A composite structure of the brain stem, which in NeuroNames is subdivided into the superior cerebellar peduncle of pons, the decussation of superior cerebellar peduncle and the superior cerebellar peduncle of midbrain (MM)[NIF]." [NIF_GrossAnatomy:birnlex_970, Wikipedia:Cerebellar_peduncle] comment: todo - this requires work for making consistent with ABA, which strictly separates cerebellum from brainstem. in MA, cerebellar peduncle is part of both brainstem and cerebellar white matter. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebellar peduncles" EXACT [] synonym: "cerebellar peduncles and decussations" EXACT [NIF_GrossAnatomy:birnlex_970] synonym: "cerebellar peduncles set" EXACT [] synonym: "cerebellum peduncles" EXACT [] synonym: "pedunculi cerebellares" EXACT LATIN [FMA:77791, FMA:TA] synonym: "set of cerebellar peduncles" RELATED [FMA:77791] xref: FMA:77791 xref: NIF_GrossAnatomy:birnlex_970 xref: UMLS:C0228515 xref: ncithesaurus:Cerebellar_Peduncle is_a: UBERON:0002317 ! white matter of cerebellum [Term] id: UBERON:0002475 name: saphenous nerve namespace: uberon def: "The saphenous nerve (long or internal saphenous nerve) is the largest cutaneous branch of the femoral nerve. [WP,unvetted]." [Wikipedia:Saphenous_nerve] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nervus saphenus" RELATED LATIN [Wikipedia:Saphenous_nerve] xref: FMA:45262 xref: MA:0002761 xref: OpenCyc:Mx4rvY0kgpwpEbGdrcN5Y29ycA xref: SCTID:181079005 xref: http://upload.wikimedia.org/wikipedia/commons/d/de/Gray827.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/de/Gray827.png/200px-Gray827.png is_a: UBERON:0002003 ! peripheral nerve is_a: UBERON:0003431 ! leg nerve relationship: branch_of UBERON:0001267 ! femoral nerve [Term] id: UBERON:0002476 name: lateral globus pallidus namespace: uberon def: "The lateral globus pallidus (or external, GPe) receives a strong glutamatergic projection from the subthalamic nucleus. The two form a particular system: a coupled pacemaker. The axons of the external globus pallidum go essentially to the subthalamic nucleus. They go also to other elements of the basal ganglia system, the striatum, the substantia nigra pars reticulata, and the internal globus pallidus, where they release the neurotransmitter GABA. GPe is particular in comparison to the other elements of the set by the fact that it does not work as an output base of the basal ganglia (not sending axons to the thalamus) but as the main regulator of the basal ganglia system. It is sometimes used as a target for deep brain stimulation as a treatment for Parkinson's disease. [WP,unvetted]." [Wikipedia:Lateral_globus_pallidus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "external globus pallidus" EXACT [] synonym: "external pallidum" EXACT [NIF_GrossAnatomy:birnlex_1610] synonym: "external part of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1610] synonym: "globus pallidus external segment" EXACT [FMA:61839, MA:0002767, NIF_GrossAnatomy:birnlex_1610] synonym: "globus pallidus externus" EXACT [] synonym: "globus pallidus lateral segment" RELATED [MA:0002767] synonym: "globus pallidus lateralis" EXACT [BTO:0002247] synonym: "globus pallidus, lateral segment" EXACT [] synonym: "lateral pallidal segment" EXACT [] synonym: "lateral pallidum" EXACT [NIF_GrossAnatomy:birnlex_1610] synonym: "lateral part of globus pallidus" EXACT [] synonym: "lateral segment of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1610] synonym: "pallidum I" RELATED [BTO:0002247] synonym: "pallidus II" EXACT [FMA:61839] synonym: "pars lateralis globi pallidi medialis" EXACT LATIN [FMA:61839, FMA:TA] xref: ABA:GPe xref: BTO:0002247 xref: EHDAA2:0004462 xref: FMA:61839 xref: MA:0002767 xref: NIF_GrossAnatomy:birnlex_1610 xref: SCTID:361560008 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Brain_structure.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/Brain_structure.gif/200px-Brain_structure.gif is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus property_value: spatially_disjoint_from UBERON:0002477 [Term] id: UBERON:0002477 name: medial globus pallidus namespace: uberon def: "The medial globus pallidus (or internal, GPi) is one of the output nuclei of the basal ganglia. The GABA-containing neurons send their axons to specific nuclei of the dorsal thalamus (VA and VL), to the centromedian complex and to the pedunculopontine complex. The efferent bundle is constituted first of the ansa and fasciculus lenticularis, then crosses the internal capsule as the Edinger's comb system then arrives at the laterosuperior corner of the subthalamic nucleus and constitutes the Forel's field H2, then H, and suddenly changes its direction to form H1 that goes to the inferior part of the thalamus. The distribution of axonal islands is widespread in the lateral region of the thalamus. The innervation of the central region is done by collaterals. [WP,unvetted]." [Wikipedia:Medial_globus_pallidus] comment: See also: endopeduncular nucleus subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "entopeduncular nucleus" RELATED [MA:0002768] synonym: "entopeduncular nucleus (monakow)" EXACT [FMA:61840] synonym: "globus pallidus inernal segment" RELATED [MA:0002768] synonym: "globus pallidus interna" EXACT LATIN [] synonym: "globus pallidus internal segment" EXACT [FMA:61840] synonym: "globus pallidus internus" EXACT LATIN [FMA:61840] synonym: "globus pallidus medial segment" EXACT [FMA:61840, MA:0002768] synonym: "globus pallidus medialis" EXACT LATIN [BTO:0002248, FMA:TA] synonym: "globus pallidus, medial segment" EXACT [FMA:61840] synonym: "internal globus pallidus" EXACT [FMA:61840] synonym: "internal pallidum" EXACT [NIF_GrossAnatomy:birnlex_1555] synonym: "internal part of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1555] synonym: "medial pallidal segment" EXACT [FMA:61840] synonym: "medial part of globus pallidus" EXACT [FMA:61840] synonym: "medial segment of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1555] synonym: "mesial pallidum" EXACT [FMA:61840] synonym: "pallidum I" RELATED [] synonym: "pallidus I" EXACT [FMA:61840] synonym: "pars medialis globi pallidi" EXACT LATIN [FMA:61840, FMA:TA] xref: ABA:GPi xref: BTO:0002248 xref: FMA:61840 xref: MA:0002768 xref: NIF_GrossAnatomy:birnlex_1555 xref: SCTID:361562000 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Brain_structure.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/Brain_structure.gif/200px-Brain_structure.gif is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus property_value: spatially_disjoint_from UBERON:0002476 [Term] id: UBERON:0002478 name: orbitosphenoid namespace: uberon def: "One of two thin triangular plates, which arise from the upper and anterior parts of the body, and, projecting lateralward, end in sharp points." [Wikipedia:Lesser_wing_of_sphenoid_bone] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "alCB& parvCB&" RELATED LATIN [Wikipedia:Lesser_wing_of_sphenoid_bone] synonym: "ala minor (os sphenoidale)" EXACT [FMA:52869] synonym: "conchosphcC)nocC/de@fr" RELATED [TAO:0000253] synonym: "ingrassia's process" EXACT [FMA:52869] synonym: "lesser wing of sphenoid" EXACT [FMA:52869] synonym: "lesser wing of sphenoid bone" RELATED [MA:0002773] synonym: "lesser wing of sphenoidal bone" EXACT [FMA:52869] synonym: "orbito-sphcC)nocC/de@fr" RELATED [TAO:0000253] xref: AAO:0000345 xref: EMAPA:18719 xref: FMA:52869 xref: MA:0002773 xref: SCTID:361737003 xref: TAO:0000253 xref: VHOG:0001153 xref: ZFA:0000253 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Gray145.png is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0005687 ! orbitosphenoid cartilage condensation relationship: develops_from UBERON:0009638 ! orbitosphenoid ossification center relationship: in_lateral_side_of UBERON:0002517 ! basicranium relationship: part_of UBERON:0001677 ! sphenoid bone relationship: part_of UBERON:0002517 ! basicranium relationship: part_of UBERON:0003111 ! sphenoid region property_value: axiom_lost_from_external_ontology "relationship loss: develops_from taenia marginalis anterior (TAO:0001505)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps orbitosphenoid-lateral ethmoid joint (TAO:0001941)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps orbitosphenoid-prootic joint (TAO:0001794)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps pterosphenoid-orbitosphenoid joint (TAO:0001831)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: develops_from neurocranium (UBERON:0001703)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: overlaps neurocranium (TAO:0001580) CHANGED TO: part_of neurocranium (UBERON:0001703)[TAO]" xsd:string property_value: external_definition "Endochondral ossification of the lateral sides of the braincase.[AAO]" xsd:string property_value: external_definition "Large median unpaired cartilage bone consisting of two diverging plates. Positioned medial to the eye. The orbitosphenoid develops from the Trabeculae communis and forms the anterior and anterolateral boundary of the orbital foramen and constitutes a significant part of the sidewalls and floor of the cranial cavity. Bordered by the lateral ethmoid anteriorly, and the pterosphenoid posteriorly, The orbitosphenoid may extend ventrally to meet the parasphenoid. In the adult, the orbitosphenoid is fused ventrally to the parasphenoid via a thin sheet of bone.[TAO]" xsd:string [Term] id: UBERON:0002479 name: dorsal lateral geniculate nucleus namespace: uberon def: "The main division of the lateral geniculate body; consists of two magnocellular layers [TA] (strata magnocellularia [TA]) and four parvocellular layers [TA] (strata parvocellularia [TA]) and serves as a processing station in the major pathway from the retina to the cerebral cortex, receiving fibers from the optic tract and giving rise to the geniculocalcarine radiation to the visual cortex in the occipital lobe." [http://www.medilexicon.com/medicaldictionary.php?t=61422] synonym: "dorsal nucleus of lateral geniculate body" RELATED [MA:0002775] synonym: "lateral geniculate complex, dorsal part" EXACT [] synonym: "nucleus dorsalis corporis geniculati lateralis" EXACT LATIN [FMA:62214, FMA:TA] synonym: "nucleus geniculatus lateralis pars dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1595] xref: ABA:LGd xref: BM:GLd xref: FMA:62214 xref: MA:0002775 xref: NIF_GrossAnatomy:birnlex_1595 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001926 ! lateral geniculate body property_value: spatially_disjoint_from UBERON:0001927 [Term] id: UBERON:0002480 name: ventral lateral geniculate nucleus namespace: uberon synonym: "corpus geniculatum externum, nucleus accessorius" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "corpus geniculatum laterale, pars oralis" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "dorsal_nucleus_of_lateral_geniculate_body" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "griseum praegeniculatum" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "lateral geniculate complex, ventral part" EXACT [] synonym: "lateral geniculate complex, ventral part (kolliker)" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "lateral geniculate nucleus, ventral part" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "nucleus corporis geniculati lateralis, pars ventralis" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "nucleus praegeniculatus" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "nucleus pregeniculatum" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "nucleus pregeniculatus" EXACT LATIN [FMA:62215, FMA:TA] synonym: "nucleus ventralis corporis geniculati lateralis" EXACT LATIN [FMA:62215, FMA:TA] synonym: "praegeniculatum" EXACT [NIF_GrossAnatomy:birnlex_1597] synonym: "pregeniculate nucleus" EXACT [] synonym: "ventral nucleus of lateral geniculate body" RELATED [MA:0002776] synonym: "ventral part of the lateral geniculate complex" EXACT [NIF_GrossAnatomy:birnlex_1597] xref: ABA:LGv xref: BM:LGv xref: FMA:62215 xref: MA:0002776 xref: NIF_GrossAnatomy:birnlex_1597 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001926 ! lateral geniculate body [Term] id: UBERON:0002481 name: bone tissue namespace: uberon def: "Skeletal tissue with a collagen-rich extracellular matrix vascularized, mineralized with hydroxyapatite and typically including osteocytes located in lacunae that communicate with one another by cell processes (in canaliculi). Bone is deposited by osteoblasts[VSAO]." [VSAO:0000047, Wikipedia:Bone_tissue] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calcium tissue" EXACT [] synonym: "osseous tissue" EXACT [] synonym: "osteogenic tissue" EXACT [VSAO:curator] xref: FMA:224804 xref: MA:0002780 xref: MESH:A02.835.232 xref: UMLS:C0391978 xref: VSAO:0000047 xref: ZFA:0005621 xref: galen:BoneTissue xref: ncithesaurus:Bone_Tissue is_a: UBERON:0004755 ! skeletal tissue relationship: has_part CHEBI:52255 ! hydroxylapatite relationship: part_of UBERON:0001474 ! bone element disjoint_from: UBERON:0005090 ! muscle structure property_value: external_definition "Skeletal tissue with a collagen-rich extracellular matrix vascularized, mineralized with hydroxyapatite and typically including osteocytes located in lacunae that communicate with one another by cell processes (in canaliculi). Bone is deposited by osteoblasts.[VSAO]" xsd:string [Term] id: UBERON:0002482 name: lamellar bone namespace: uberon def: "Bone tissue that has a regular parallel alignment of collagen into sheets (lamellae) and is mechanically strong." [Wikipedia:Bone#Woven_or_lamellar] comment: histological classification, lamellar vs woven. Note that only FMA has woven xref: FMA:224806 xref: MA:0002781 xref: galen:LamellarBone is_a: UBERON:0002481 ! bone tissue [Term] id: UBERON:0002483 name: trabecular bone tissue namespace: uberon def: "Cancellous bone, synonymous with trabecular bone or spongy bone, is one of the two types of osseous tissue that form bones. Compared to compact bone, which is the other type of osseous tissue, it has a higher surface area but is less dense, softer, weaker, and less stiff. It typically occupies the interior region of bones. Cancellous bone is highly vascular and frequently contains red bone marrow where hematopoiesis, which is the production of blood cells, occurs. The primary anatomical and functional unit of cancellous bone is the trabecula. Its Latin name is substantia spongiosa or substantia spongiosa ossium. The words cancellous and trabecular refer to the tiny, lattice-shaped that form the tissue. [WP,unvetted]." [Wikipedia:Trabecular_bone] comment: one of the two types of osseous tissue that form bones. Compared to compact bone, which is the other type of osseous tissue, it has a higher surface area but is less dense, softer, weaker, and less stiff. It typically occurs at the ends of long bones, proximal to joints and within the interior of vertebrae. Cancellous bone is highly vascular and frequently contains red bone marrow where hematopoiesis, which is the production of blood cells, occurs. The primary anatomical and functional unit of cancellous bone is the trabecula. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cancellated bone" RELATED [BTO:0001700] synonym: "cancellous bone" EXACT [FMA:24019, MA:0002782] synonym: "cancellous bone tissue" EXACT [] synonym: "spongy bone" EXACT [] synonym: "spongy bone tissue" EXACT [] synonym: "substantia spongiosa" EXACT [Wikipedia:Trabecular_bone] synonym: "substantia spongiosa ossium" EXACT [Wikipedia:Trabecular_bone] synonym: "substantia trabecularis ossium" RELATED [BTO:0001700] synonym: "trabecular bone" EXACT [] synonym: "trabecular substance" RELATED [BTO:0001700] xref: BTO:0001700 xref: FMA:24019 xref: MA:0002782 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/34/Illu_compact_spongy_bone.jpg/200px-Illu_compact_spongy_bone.jpg is_a: UBERON:0002481 ! bone tissue relationship: part_of UBERON:0002482 ! lamellar bone [Term] id: UBERON:0002484 name: bone marrow cavity namespace: uberon def: "the central cavity of bone shafts where red bone marrow and/or yellow bone marrow (adipose tissue) is stored; hence, the medullary cavity is also known as the marrow cavity. Located in the main shaft (cortical bone) of a long bone (diaphysis) (consisting mostly of compact bone), the medullary cavity has walls composed of spongy bone (cancellous bone) and is lined with a thin, vascular membrane (endosteum)" [Wikipedia:Bone_marrow_of_ovaryry_cavity] comment: AO notes: not clear if the FMA intends to have two classes. MP:0000065: \"the medullary cavities of the bones.\". NCITA also has \"medullary bone\" synonym: "cavity of cancellous bone" EXACT [] synonym: "marrow cavity" EXACT [FMA:83698] synonym: "medullary cavity" EXACT [FMA:83698] xref: FMA:75147 xref: FMA:83698 xref: MA:0002783 is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001439 ! compact bone relationship: surrounds UBERON:0002371 ! bone marrow property_value: dubious_for_taxon NCBITaxon:7955 [Term] id: UBERON:0002485 name: prostate duct namespace: uberon def: "the minute canals that pass the prostatic secretions to the urethra." [MP:0009734] synonym: "duct of prostate" EXACT [] synonym: "duct of prostate gland" EXACT [] synonym: "prostate duct" EXACT [] synonym: "prostate gland duct" EXACT [] synonym: "prostatic duct" EXACT [] xref: FMA:19580 xref: MA:0002785 xref: SCTID:362276000 xref: UMLS:C0227965 xref: ncithesaurus:Prostatic_Duct is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005904 ! duct of male reproductive system relationship: develops_from UBERON:0003820 ! prostate bud intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0002367 ! prostate gland [Term] id: UBERON:0002486 name: glottis namespace: uberon def: "The glottis is defined as the combination of the vocal folds and the space in between the folds. [WP,unvetted]." [Wikipedia:Glottis] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AAO:0010610 xref: BTO:0001627 xref: FMA:55414 xref: GAID:343 xref: MA:0002788 xref: MESH:A04.329.364 xref: SCTID:264482000 xref: UMLS:C0017681 xref: http://upload.wikimedia.org/wikipedia/commons/3/32/Arytenoid_cartilage.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Arytenoid_cartilage.png/200px-Arytenoid_cartilage.png xref: ncithesaurus:Glottis is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001737 ! larynx property_value: external_definition "A small, slit-like aperture lying longitudinally on the floor of the pharynx.[AAO]" xsd:string [Term] id: UBERON:0002487 name: tooth cavity namespace: uberon def: "." [Wikipedia:Tooth_cavity] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cavitas dentis" EXACT [] synonym: "cavitas pulparis" EXACT LATIN [FMA:55660, FMA:TA] synonym: "cavity of tooth" RELATED [MA:0002792] synonym: "pulp cavity" EXACT [] synonym: "pulp cavity of tooth" EXACT [] synonym: "tooth pulp cavity" RELATED [MA:0002792] xref: FMA:55660 xref: MA:0002792 xref: MESH:A14.254.900.265 xref: SCTID:362105008 is_a: UBERON:0002558 ! organ cavity relationship: part_of UBERON:0001091 ! calcareous tooth [Term] id: UBERON:0002488 name: helix namespace: uberon def: "." [Wikipedia:Helix] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "helical part of pinna" EXACT [] synonym: "helix (auricula)" EXACT [] synonym: "helix of auricle of ear" EXACT [] synonym: "helix of ear" EXACT [] synonym: "helix of pinna" EXACT [] xref: FMA:60992 xref: MA:0002793 xref: OpenCyc:Mx4rwRDEk5wpEbGdrcN5Y29ycA xref: SCTID:279607004 xref: UMLS:C0229304 xref: ncithesaurus:Helix is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0002489 name: coronal suture namespace: uberon def: "The coronal suture is a dense, fibrous connective tissue joint that separates the frontal and parietal bones of the skull. At birth, the bones of the skull do not meet. [WP,unvetted]." [Wikipedia:Coronal_suture] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "coronal suture of skull" EXACT [] synonym: "fronto-parietal suture" EXACT [PMID:11784098] synonym: "frontoparietal suture" EXACT [PMID:11784098] synonym: "sutura coronalis" RELATED LATIN [Wikipedia:Coronal_suture] xref: EMAPA:19225 xref: FMA:52928 xref: MA:0002795 xref: OpenCyc:Mx4rv2eGHZwpEbGdrcN5Y29ycA xref: SCTID:244510008 xref: http://upload.wikimedia.org/wikipedia/commons/a/ae/Gray188-Coronal_suture.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ae/Gray188-Coronal_suture.png/200px-Gray188-Coronal_suture.png is_a: UBERON:0003685 ! cranial suture is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0004339 ! vault of skull intersection_of: UBERON:0003685 ! cranial suture intersection_of: connects UBERON:0000209 ! tetrapod frontal bone intersection_of: connects UBERON:0000210 ! tetrapod parietal bone [Term] id: UBERON:0002490 name: frontal suture namespace: uberon def: "The frontal suture is a dense connective tissue structure that divides the two halves of the frontal bone of the skull in infants and children. It usually disappears by the age of six, with the two halves of the frontal bone being fused together. If it does not disappear it may be called a 'metopic suture' or 'sutura frontalis persistens. ' If the suture is not present at birth (craniosynostosis) it will cause a keel-shaped deformity of the skull called 'trigonocephaly. ' It is present in a fetal skull so that the skull can bend and is very elastic at the time of birth. The baby's head literally bends when coming out of the mother's womb. The space is filled as the child grows older. [WP,unvetted]." [Wikipedia:Frontal_suture] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "frontal suture of skull" EXACT [] synonym: "metopic suture" RELATED [MA:0002796] synonym: "sutura frontalis" EXACT LATIN [Wikipedia:Frontal_suture] synonym: "sutura metopica" EXACT LATIN [FMA:52989, FMA:TA] xref: EMAPA:19226 xref: FMA:52989 xref: MA:0002796 xref: SCTID:136854008 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Frontal_suture.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/17/Gray134.png/200px-Gray134.png is_a: UBERON:0003685 ! cranial suture relationship: connects UBERON:0000209 ! tetrapod frontal bone [Term] id: UBERON:0002491 name: lambdoid suture namespace: uberon def: "The lambdoid suture (or lambdoidal suture) is a dense, fibrous connective tissue joint on the posterior aspect of the skull that connects the parietal and temporal bones with the occipital bone. Its name comes from its lambda-like shape. [WP,unvetted]." [Wikipedia:Lambdoid_suture] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lambdoid suture of skull" EXACT [] synonym: "lambdoidal suture" RELATED [MA:0002797] synonym: "sutura lambdoidea" RELATED LATIN [Wikipedia:Lambdoid_suture] xref: EMAPA:19227 xref: FMA:52933 xref: MA:0002797 xref: SCTID:361830007 xref: http://upload.wikimedia.org/wikipedia/commons/3/3d/Gray188-Lambdoid_suture.png is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0004339 ! vault of skull intersection_of: UBERON:0003685 ! cranial suture intersection_of: connects UBERON:0000210 ! tetrapod parietal bone intersection_of: connects UBERON:0001676 ! occipital bone intersection_of: connects UBERON:0001678 ! temporal bone [Term] id: UBERON:0002492 name: sagittal suture namespace: uberon def: "The sagittal suture is a dense, fibrous connective tissue joint between the two parietal bones of the skull. At birth, the bones of the skull do not meet. If certain bones of the skull grow too fast then 'premature closure' of the sutures may occur. This can result in skull deformities. If the sagittal suture closes early the skull becomes long, narrow, and wedge-shaped, a condition called 'scaphocephaly. ' Two anatomical landmarks are found on the sagittal suture: the bregma and the vertex of the skull. The bregma is formed by the intersection of the sagittal and coronal sutures, and the vertex is the highest point on the skull and is many times near the midpoint of the sagittal suture. The sagittal suture is also known as the 'interparietal suture' and the 'sutura interparietalis. ' The term is derived from the Latin word Sagitta, meaning 'arrow'. The derivation of this term may be demonstrated by observing how the sagittal suture is notched posteriorly, like an arrow, by the lambdoid suture. [WP,unvetted]." [Wikipedia:Sagittal_suture] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sagittal suture of skull" EXACT [] synonym: "sutura sagittalis" RELATED LATIN [Wikipedia:Sagittal_suture] xref: EMAPA:19224 xref: FMA:52929 xref: MA:0002798 xref: SCTID:244511007 xref: http://upload.wikimedia.org/wikipedia/commons/2/24/Kort-lang-skalle.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/24/Kort-lang-skalle.gif/200px-Kort-lang-skalle.gif is_a: UBERON:0003685 ! cranial suture is_a: UBERON:0004120 ! mesoderm-derived structure relationship: connects UBERON:0000210 ! tetrapod parietal bone relationship: part_of UBERON:0004339 ! vault of skull [Term] id: UBERON:0002493 name: uterine artery namespace: uberon def: "The uterine artery is an artery in females that supplies blood to the uterus. [WP,unvetted]." [Wikipedia:Uterine_artery] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arteria uterina" RELATED LATIN [Wikipedia:Uterine_artery] xref: FMA:18829 xref: MA:0002799 xref: SCTID:244300003 xref: http://upload.wikimedia.org/wikipedia/commons/a/ae/Gray1170.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ae/Gray1170.png/200px-Gray1170.png is_a: UBERON:0001637 ! artery is_a: UBERON:0003520 ! pelvis blood vessel is_a: UBERON:0003889 ! fallopian tube is_a: UBERON:0006955 ! uterine epithelium relationship: in_lateral_side_of UBERON:0000995 ! uterus intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0002494 name: papillary muscle namespace: uberon def: "In anatomy, the papillary muscles of the heart serve to limit the movements of the mitral and tricuspid valves. These muscles contract to tighten the chordae tendineae, which in turn prevent inversion. This occurs in response to pressure gradients. Instead they brace the valves against the high pressure, preventing regurgitation of ventricular blood back into the atrial cavities. [WP,unvetted]." [Wikipedia:Papillary_muscle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "musculus papillaris" RELATED LATIN [Wikipedia:Papillary_muscle] synonym: "papillary muscle of ventricle" EXACT [MA:0002800] synonym: "ventricular papillary muscle" EXACT [MA:0002800] synonym: "ventricule papillary muscle" EXACT [] xref: EHDAA:8655 xref: FMA:12154 xref: GAID:175 xref: MA:0002800 xref: MESH:A02.633.580.680 xref: OpenCyc:Mx4rDid0jLYYEduAAAACs2IKfQ xref: SCTID:279329009 xref: UMLS:C0030352 xref: VHOG:0001392 xref: galen:PapillaryMuscle xref: http://upload.wikimedia.org/wikipedia/commons/8/87/Papillary_muscles.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/87/Papillary_muscles.png/200px-Papillary_muscles.png xref: ncithesaurus:Papillary_Muscle is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002082 ! cardiac ventricle property_value: homology_notes "On the internal or parietal surface of the left ventricle in man and in mammals are two papillary muscles, which are almost identical and well developed.[well established][VHOG]" xsd:string [Term] id: UBERON:0002495 name: long bone namespace: uberon def: "Long bone is a limb bone that is subcylindrical and has a shaft with periosteum separating the ends of the bones. Long bones are present only in the limbs[VSAO]." [VSAO:wd, Wikipedia:Long_bone] comment: Endochondral_ossification is an essential process during the rudimentary formation of long bones, with the exception of the clavicle[Wikipedia:Endochondral_ossification]. The medial and and lateral ends undergo EO, the mid-portion is formed by a process with features of EO & IO (the process is shared by the mandible)[ISBN:9780397517251] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0004256 xref: FMA:7474 xref: MA:0002802 xref: OpenCyc:Mx4rv6axr5wpEbGdrcN5Y29ycA xref: SCTID:332709000 xref: UMLS:C0222647 xref: galen:LongBone xref: ncithesaurus:Long_Bone is_a: UBERON:0001474 ! bone element relationship: part_of UBERON:0002091 ! appendicular skeleton [Term] id: UBERON:0002496 name: stapes base namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "base of stapes" RELATED [MA:0002804] synonym: "footplate" RELATED INCONSISTENT [FMA:52769] synonym: "stapes footplate" RELATED [MA:0002804] xref: FMA:52769 xref: MA:0002804 xref: SCTID:279685009 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001687 ! stapes [Term] id: UBERON:0002497 name: acromion namespace: uberon def: "Region of the scapula where the latter meets with the clavicle: attachment point of the clavicle to the scapula in some taxa." [VSAO:0005067, Wikipedia:Acromion] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "acromion of the scapula" RELATED [Wikipedia:Acromion] synonym: "acromion process" EXACT [VSAO:0005067] synonym: "scapular acromion" EXACT [VSAO:0005067] xref: AAO:0000826 xref: EMAPA:25119 xref: FMA:23260 xref: GAID:187 xref: MA:0002805 xref: MESH:A02.835.232.087.783.261 xref: OpenCyc:Mx4rvmrF8pwpEbGdrcN5Y29ycA xref: SCTID:181911000 xref: UMLS:C0001209 xref: VSAO:0005067 xref: http://upload.wikimedia.org/wikipedia/commons/7/79/Gray206.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/79/Gray206.png/200px-Gray206.png xref: ncithesaurus:Acromion is_a: UBERON:0004530 ! bony projection relationship: part_of UBERON:0001124 ! pectoral limb scapula property_value: axiom_lost_from_external_ontology "relationship loss: part_of pars acromialis (AAO:0000752)[AAO]" xsd:string property_value: external_definition "Anterior rounded projection of the pars acromialis of the scapula.[AAO]" xsd:string [Term] id: UBERON:0002498 name: deltopectoral crest namespace: uberon def: "The deltoid tuberosity is the region on the shaft of the humerus to which the deltoid muscle attaches. [WP,unvetted]." [Wikipedia:Deltoid_tuberosity] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "crista ventralis" EXACT [AAO:0000736] synonym: "crista ventralis humeri" RELATED [AAO:0000736] synonym: "deltoid crest" EXACT [AAO:0000736, MP:0004353] synonym: "deltoid eminence" EXACT [MP:0004353] synonym: "deltoid impression" EXACT [MP:0004353] synonym: "deltoid process" EXACT [MP:0004353] synonym: "deltoid tuberosity" EXACT [FMA:23418] synonym: "deltoid tuberosity of humerus" EXACT [FMA:23418] synonym: "tuberositas deltoidea" EXACT LATIN [FMA:23418, FMA:TA] synonym: "tuberositas deltoidea (corpus humeri)" EXACT [] synonym: "tuberositas deltoidea humeri" EXACT LATIN [Wikipedia:Deltoid_tuberosity] xref: AAO:0000736 xref: EMAPA:25052 xref: FMA:23418 xref: MA:0002808 xref: http://upload.wikimedia.org/wikipedia/commons/a/a7/HumerusFront.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a7/HumerusFront.png/200px-HumerusFront.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005813 ! tubercle relationship: part_of UBERON:0004652 ! humerus diaphysis [Term] id: UBERON:0002499 name: cochlear labyrinth namespace: uberon def: "The labyrinth is a system of fluid passages in the inner ear, including both the cochlea, which is part of the auditory system, and the vestibular system, which provides the sense of balance. It is named by analogy with the mythical maze that imprisoned the Minotaur, because of its appearance. The bony labyrinth, or osseous labyrinth, is the network of passages with bony walls lined with periosteum. The bony labyrinth is lined with the membranous labyrinth. There is a layer of perilymph between them. The three parts of the bony labyrinth are the vestibule of the ear, the semicircular canals, and the cochlea. The vestibular system is the region of the inner ear where the semicircular canals converge, close to the cochlea (the hearing organ). The vestibular system works with the visual system to keep objects in focus when the head is moving. Joint and muscle receptors also are important in maintaining balance. The brain receives, interprets, and processes the information from these systems that control our balance. [WP,unvetted]." [Wikipedia:Cochlear_labyrinth] comment: Editor notes: we follow the FMA in placing this in the membranous labyrinth. Notes: The labyrinth can be divided by layer or by region. Bony vs. membranous / Vestibular vs. cochlear subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0004686 xref: FMA:61259 xref: MA:0002809 xref: UMLS:C0931689 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/19/Gray923.png/200px-Gray923.png xref: ncithesaurus:Cochlear_Labyrinth is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: located_in UBERON:0001844 ! cochlea relationship: part_of UBERON:0001849 ! membranous labyrinth [Term] id: UBERON:0002500 name: zygomatic arch namespace: uberon def: "The zygomatic arch or cheek bone is formed by the zygomatic process of temporal bone (a bone extending forward from the side of the skull, over the opening of the ear) and the temporal process of the zygomatic bone (the side of the cheekbone), the two being united by an oblique suture; the tendon of the Temporalis passes medial to the arch to gain insertion into the coronoid process of the mandible. The term zygomatic derives from the Latin zyosislymore meaning malar bone or cheekbone. The zygomatic arch is occasionally referred to as the zygoma, but this term usually refers to the zygomatic bone or occasionally the zygomatic process. The zygomatic process of the temporal arises by two roots: an anterior, directed inward in front of the mandibular fossa, where it expands to form the articular tubercle. a posterior, which runs backward above the external acoustic meatus and is continuous with the supramastoid crest. The upper border of the arch gives attachment to the temporal fascia; the lower border and medial surface give origin to the Masseter. The zygomatic arch is significant in evolutionary biology, as it is part of the structures derived from the ancestral single temporal fenestra of the synapsid ancestor of mammals. [WP,unvetted]." [Wikipedia:Zygomatic_arch] comment: Editors note: compare with zygomatic bone subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arcus zygomaticus" RELATED LATIN [Wikipedia:Zygomatic_arch] synonym: "zygoma" EXACT [] xref: FMA:53120 xref: MA:0002810 xref: MESH:A02.835.232.781.324.995 xref: OpenCyc:Mx4rvih1YZwpEbGdrcN5Y29ycA xref: SCTID:272682006 xref: UMLS:C0162485 xref: galen:Zygoma xref: http://upload.wikimedia.org/wikipedia/commons/f/f4/Gray188-Sphenozygomatic_suture.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f4/Gray188-Sphenozygomatic_suture.png/200px-Gray188-Sphenozygomatic_suture.png xref: ncithesaurus:Zygomatic_Arch is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0002501 name: oval window namespace: uberon def: "The oval window (or vestibular window) is a membrane-covered opening which leads from the middle ear to the vestibule of the inner ear. Vibrations that come into contact with the tympanic membrane travel through the three ossicles and into the inner ear. The oval window is the intersection of the middle ear with the inner ear, and is directly contacted by the stapes; by the time vibrations reach the oval window, they have been amplified over twenty times from what they were when they contacted the tympanic membrane, a testament to the amplifying power of the middle ear. It is a reniform (kidney-shaped) opening leading from the tympanic cavity into the vestibule of the internal ear; its long diameter is horizontal, and its convex border is upward. In the recent state it is occupied by the base of the stapes, the circumference of which is fixed by the annular ligament to the margin of the foramen. [WP,unvetted]." [Wikipedia:Oval_window] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fenestra ovalis" RELATED LATIN [Wikipedia:Oval_window] synonym: "fenestra vestibuli" RELATED LATIN [Wikipedia:Oval_window] synonym: "oval window of petrous part of temporal bone" EXACT [] synonym: "vestibular window" RELATED [MA:0002813] xref: FMA:56913 xref: GAID:882 xref: MA:0002813 xref: MESH:A09.246.631.909.551 xref: SCTID:362561009 xref: http://upload.wikimedia.org/wikipedia/commons/9/9d/Gray911.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9d/Gray911.png/200px-Gray911.png is_a: UBERON:0000161 ! orifice is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005744 ! cranial conduit is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001694 ! petrous part of temporal bone [Term] id: UBERON:0002502 name: round window namespace: uberon def: "The round window is one of the two openings into the cochlea of the inner ear. It is closed off from the middle ear by the round window membrane, which vibrates with opposite phase to vibrations entering the cochlea through the oval window. It allows fluid in the cochlea to move, which in turn ensures that hair cells of the basilar membrane will be stimulated and that audition will occur. [WP,unvetted]." [Wikipedia:Round_window] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cochlear window" RELATED [MA:0002814] synonym: "fenestra cochleae" RELATED LATIN [Wikipedia:Round_window] synonym: "fenestra rotunda" RELATED LATIN [Wikipedia:Round_window] synonym: "round window of petrous part of temporal bone" EXACT [] xref: FMA:56932 xref: GAID:878 xref: MA:0002814 xref: MESH:A09.246.631.246.814 xref: SCTID:279785002 xref: http://upload.wikimedia.org/wikipedia/commons/9/9d/Gray911.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9d/Gray911.png/200px-Gray911.png is_a: UBERON:0000161 ! orifice is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005744 ! cranial conduit is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001694 ! petrous part of temporal bone [Term] id: UBERON:0002503 name: greater trochanter namespace: uberon def: "The greater trochanter (great trochanter) of the femur is a large, irregular, quadrilateral eminence and a part of the skeletal system. It is directed a little lateralward and backward, and, in the adult, is about 1 cm lower than the head. Because the pelvic outlet in the female is larger than in the male, there is a greater distance between the greater trochanters in the female. It has two surfaces and four borders. [WP,unvetted]." [Wikipedia:Greater_trochanter] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "great trochanter" EXACT [] synonym: "greater trochanter of femur" EXACT [] synonym: "trochanter major" RELATED LATIN [Wikipedia:Greater_trochanter] xref: FMA:32852 xref: MA:0002822 xref: SCTID:182050001 xref: UMLS:C0223865 xref: galen:GreaterTrochanter xref: http://upload.wikimedia.org/wikipedia/commons/9/97/Gray243.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/97/Gray243.png/200px-Gray243.png xref: ncithesaurus:Great_Trochanter is_a: UBERON:0000980 ! trochanter relationship: part_of UBERON:0004412 ! proximal epiphysis of femur [Term] id: UBERON:0002504 name: lesser trochanter namespace: uberon def: "The lesser trochanter (small trochanter) of the femur is a conical eminence, which varies in size in different subjects [WP,unvetted]." [Wikipedia:Lesser_trochanter] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lesser trochanter of femur" EXACT [] synonym: "trochanter minor" RELATED LATIN [Wikipedia:Lesser_trochanter] xref: FMA:32853 xref: MA:0002823 xref: SCTID:182051002 xref: UMLS:C0223866 xref: galen:LesserTrochanter xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray341.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray341.png/200px-Gray341.png xref: ncithesaurus:Lesser_Trochanter is_a: UBERON:0000980 ! trochanter relationship: part_of UBERON:0004412 ! proximal epiphysis of femur [Term] id: UBERON:0002505 name: spiral modiolar artery namespace: uberon def: "the artery which parallels the spiral ganglion in the root of the spiral lamina of the modiolus, serving the ganglion and the cochlear duct and its contents." [MP:0004629] xref: FMA:52312 xref: MA:0002824 xref: SCTID:149380004 is_a: UBERON:0001637 ! artery [Term] id: UBERON:0002506 name: iris epithelium namespace: uberon def: "An epithelium that is part of a iris [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of iris" EXACT [OBOL:automatic] synonym: "epithelium of iris" EXACT [OBOL:automatic] synonym: "epithelium pigmentosum (iris)" EXACT [FMA:58517] synonym: "epithelium pigmentosum iridis" EXACT LATIN [FMA:58517, FMA:TA] synonym: "iris epithelial tissue" EXACT [OBOL:automatic] synonym: "iris epithelium" EXACT [FMA:58517] synonym: "iris pigmented epithelium" RELATED [MA:0002826] synonym: "pigmented epithelium of iris" EXACT [FMA:58517] xref: FMA:58517 xref: MA:0002826 is_a: UBERON:0000488 ! atypical epithelium is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: has_part GO:0048770 ! pigment granule relationship: part_of UBERON:0001769 ! iris intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001769 ! iris [Term] id: UBERON:0002507 name: abdominal lymph node namespace: uberon def: "A lymph node that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "abdomen lymph node" EXACT [OBOL:automatic] synonym: "lymph node of abdomen" EXACT [] xref: FMA:12787 xref: MA:0002827 xref: SCTID:245342005 is_a: UBERON:0000029 ! lymph node intersection_of: UBERON:0000029 ! lymph node intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0002508 name: celiac lymph node namespace: uberon def: "The visceral glands are associated with the branches of the celiac, superior and inferior mesenteric arteries. Those related to the branches of the celiac artery (the celiac lymph nodes) form three sets, gastric, hepatic, and pancreaticolienal. gastric lymph nodes, hepatic lymph nodes, splenic lymph nodes [WP,unvetted]." [Wikipedia:Celiac_lymph_node] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "celiac node" EXACT [] synonym: "coeliac node" EXACT [] synonym: "nodus lymphaticus coeliacus" EXACT [] synonym: "terminal ventral aortic node" EXACT [] xref: FMA:12792 xref: MA:0002828 xref: SCTID:245343000 xref: UMLS:C0229766 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/71/Gray613.png/200px-Gray613.png xref: ncithesaurus:Celiac_Lymph_Node is_a: UBERON:0002507 ! abdominal lymph node [Term] id: UBERON:0002509 name: mesenteric lymph node namespace: uberon def: "the lymph nodes located in the mesentery, of which there are 3 classes: ileocolic, juxtaintestinal mesenteric, and central superior group." [MP:0005232] synonym: "mesenteric node" EXACT [] synonym: "nodi lymphoidei mesenterici" RELATED [BTO:0000767] xref: BTO:0000767 xref: FMA:12795 xref: MA:0002829 xref: UMLS:C0229792 xref: ncithesaurus:Mesenteric_Lymph_Node is_a: UBERON:0002507 ! abdominal lymph node is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002507 ! abdominal lymph node intersection_of: part_of UBERON:0002095 ! mesentery [Term] id: UBERON:0002510 name: anterior fontanel namespace: uberon def: "In humans, the anterior fontanelle (bregmatic fontanelle, frontal fontanelle) is the largest, and is placed at the junction of the sagittal suture, coronal suture, and frontal suture; it is lozenge-shaped, and measures about 4 cm in its antero-posterior and 2.5 cm in its transverse diameter. The fontanelle allows the skull to deform during birth to ease its passage through the birth canal and for expansion of the brain after birth. While the posterior and lateral fontanelles are obliterated by about six months after birth, the anterior is not completely closed until about the middle of the second year. Full ossification starts in the late twenties and finishes before the age of 50 . [WP,unvetted]." [Wikipedia:Anterior_fontanelle] comment: AO notes TAO:0001739 anterior cranial fontanel is 'Fontanel that is located between the contralateral frontals and anterior to the epiphyseal bar' synonym: "anterior fontanelle" EXACT [FMA:75439] synonym: "bregmatic fontanelle" RELATED [Wikipedia:Anterior_fontanelle] synonym: "fonticulus anterior" RELATED LATIN [Wikipedia:Anterior_fontanelle] synonym: "frontal fontanelle" RELATED [Wikipedia:Anterior_fontanelle] xref: EMAPA:19199 xref: FMA:75439 xref: MA:0002830 xref: SCTID:244680006 xref: http://upload.wikimedia.org/wikipedia/commons/b/b3/Gray197.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Gray197.png/200px-Gray197.png intersection_of: UBERON:0002221 ! fontanelle intersection_of: connects UBERON:0002489 ! coronal suture intersection_of: connects UBERON:0002490 ! frontal suture intersection_of: connects UBERON:0002492 ! sagittal suture [Term] id: UBERON:0002511 name: trabecula carnea namespace: uberon def: "The trabeculae carneae (columnae carneae, or fleshy beams), are rounded or irregular muscular columns which project from the inner surface of the right and left ventricles of the heart.[1] They should not be confused with the pectinate muscles, which are present in the right[1] and left atria only. They are of three kinds: * some are attached along their entire length on one side and merely form prominent ridges,* others are fixed at their extremities but free in the middle, * while a third set, the papillary muscles are continuous by their bases with the wall of the ventricle, while their apices give origin to the chordC& tendineC& which pass to be attached to the segments of both the mitral valve and the tricuspid valve. The purpose of the trabeculae carneae is most likely to prevent suction that would occur with a flat surfaced membrane and thus impair the heart's ability to pump efficiently. The trabeculae carneae also serve a similar function to papillary muscles in that their contraction pulls on the chordae tendineae, preventing inversion of the mitral (bicuspid) and tricuspid valves, that is, their bulging towards the atrial chambers, which would lead to subsequent leakage of the blood into the atria. So by the action of papillary muscles on the atrioventricular valves, backflow of the blood from the ventricles into the atria is prevented[WP]." [Wikipedia:Trabeculae_carneae] comment: Note that WP states they are ventricular, but MP has classes for atrial ventricular carnea. synonym: "cardiac trabecula" RELATED [GO:0060347] synonym: "heart trabecula" RELATED [GO:0060347] synonym: "trabecula of heart" RELATED [] synonym: "trabeculae carneae cordis" RELATED LATIN [Wikipedia:Trabeculae_carneae] synonym: "ventricle trabecula carnea" EXACT [MA:0002831] synonym: "ventricular trabecula" RELATED [MA:0002831] xref: EMAPA:18626 xref: FMA:7269 xref: MA:0002831 xref: SCTID:118755002 is_a: UBERON:0000440 ! trabecula is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0002512 name: corpus luteum namespace: uberon def: "a transient endocrine gland that develops from the postovulatory or atretic follicles and secretes progesterone; it is thought to be related to egg retention[PMID]." [PMID:20959416, Wikipedia:Corpus_luteum] comment: Taxon notes: maintains the endometrium in mammals[WP]. A corpus luteum is known in hagfish (100), Squalus (101), and salamander (100) but not lamprey (102). There are no data for Branchiostoma and Ciona, and given that they are multiple spawners, there is no a priori reason to conclude that they lack a corpus luteum[PMID:20959416] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpora lutea" EXACT PLURAL [] synonym: "corpus luteum of ovary" EXACT [] synonym: "luteal gland" RELATED [BTO:0000292] xref: BTO:0000292 xref: EMAPA:29886 xref: FMA:18619 xref: GAID:369 xref: MA:0002834 xref: MESH:A05.360.319.114.630.278 xref: SCTID:257943001 xref: UMLS:C0010092 xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Folliclesinovary.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/57/Folliclesinovary.jpg/200px-Folliclesinovary.jpg xref: ncithesaurus:Corpus_Luteum is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0005398 ! female reproductive gland relationship: capable_of GO:0042701 ! progesterone secretion relationship: develops_from UBERON:0001305 ! ovarian follicle relationship: part_of UBERON:0000949 ! endocrine system relationship: part_of UBERON:0000992 ! female gonad property_value: present_in_taxon NCBITaxon:71164 [Term] id: UBERON:0002513 name: endochondral bone namespace: uberon def: "Replacement bone that forms within cartilage." [GO:0001958, VSAO:0000145, Wikipedia:Endochondral_ossification] comment: note that some structures, e.g. in ZFA are both intramembrane and endochondral. Editor notes: placement in this class to be inferred subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cartilaginous bone" RELATED [BTO:0002157] synonym: "ossified chondrogenic bone" EXACT [VSAO:0000145] xref: AAO:0010776 xref: AEO:0000083 xref: BTO:0002157 xref: EHDAA2:0003083 xref: TAO:0001591 xref: VSAO:0000145 xref: XAO:0004018 xref: ZFA:0001591 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg is_a: UBERON:0010363 ! endochondral element relationship: developmentally_replaces UBERON:0002418 ! cartilage tissue relationship: develops_from UBERON:0007844 ! cartilage element intersection_of: UBERON:0001474 ! bone element intersection_of: develops_from UBERON:0005863 ! cartilaginous condensation property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000009 property_value: external_definition "Replacement bone that forms within cartilage.[VSAO]" xsd:string [Term] id: UBERON:0002514 name: intramembranous bone namespace: uberon def: "Bone tissue forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]." [GO:0001957, Wikipedia:Intramembranous_ossification] synonym: "membrane bone" RELATED [AEO:0000085] xref: TAO:0001644 xref: ZFA:0001635 relationship: develops_from UBERON:0003104 ! mesenchyme intersection_of: UBERON:0001474 ! bone element intersection_of: output_of GO:0001957 ! intramembranous ossification property_value: external_comment "[In TAO], This term was made obsolete because it is considered a synonym of membrane bone (VSAO:0000023).[TAO]" xsd:string property_value: external_definition "Bone that forms directly within mesenchyme, and does not replace other tissues.[TAO]" xsd:string [Term] id: UBERON:0002515 name: periosteum namespace: uberon def: "Periosteum is a membrane that lines the outer surface of all bones, except at the joints of long bones. Endosteum lines the inner surface of all bones. Periosteum consists of dense irregular connective tissue. Periosteum is divided into an outer 'fibrous layer' and inner 'cambium layer' (or 'osteogenic layer'). The fibrous layer contains fibroblasts, while the cambium layer contains progenitor cells that develop into osteoblasts. These osteoblasts are responsible for increasing the width of a long bone and the overall size of the other bone types. After a bone fracture the progenitor cells develop into osteoblasts and chondroblasts, which are essential to the healing process. As opposed to osseous tissue, periosteum has nociceptors nerve endings, making it very sensitive to manipulation. It also provides nourishment by providing the blood supply. Periosteum is attached to bone by strong collagenous fibers called Sharpey's fibres, which extend to the outer circumferential and interstitial lamellae. It also provides an attachment for muscles and tendons. Periosteum that covers the outer surface of the bones of the skull is known as 'pericranium'. [WP,unvetted]." [Wikipedia:Periosteum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BTO:0001022 xref: FMA:24041 xref: GAID:925 xref: MA:0002838 xref: MESH:A10.165.265.746 xref: SCTID:33840008 xref: UMLS:C0031110 xref: galen:PeriOsteum xref: http://upload.wikimedia.org/wikipedia/commons/c/cf/Bone_growth.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cf/Bone_growth.png/200px-Bone_growth.png xref: ncithesaurus:Periosteum is_a: UBERON:0000158 ! membranous layer relationship: composed_primarily_of UBERON:0011822 ! dense irregular connective tissue relationship: part_of UBERON:0001474 ! bone element property_value: has_relational_adjective "periosteal" xsd:string [Term] id: UBERON:0002516 name: epiphyseal plate namespace: uberon def: "a hyaline cartilage plate in the metaphysis at each end of a long bone. The plate is found in children and adolescents; in adults, who have stopped growing, the plate is replaced by an epiphyseal line." [Wikipedia:Epiphyseal_plate] comment: editor note: consider splitting this class into the epiphyseal plates of long bones and vertebrae subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilago epiphysialis" RELATED [BTO:0000412] synonym: "epiphyseal cartilage" RELATED [] synonym: "epiphyseal disk" RELATED [BTO:0000412] synonym: "epiphyseal growth disk" RELATED [BTO:0000412] synonym: "epiphyseal growth plate" EXACT [] synonym: "epiphyseal growth plate cartilage" EXACT [] synonym: "epiphysial plate" EXACT [FMA:75427] synonym: "growth plate" RELATED [MA:0002839] synonym: "lamina epiphysialis" RELATED LATIN [Wikipedia:Epiphyseal_plate] synonym: "long bone epiphyseal plate" EXACT [MA:0002839] synonym: "physis" RELATED [BTO:0000412] xref: BTO:0000412 xref: EMAPA:25059 xref: EMAPA:25062 xref: EMAPA:25065 xref: EMAPA:25068 xref: EMAPA:25071 xref: FMA:75427 xref: GAID:191 xref: MA:0002839 xref: MESH:A02.835.232.251.352 xref: SCTID:84349008 xref: http://upload.wikimedia.org/wikipedia/commons/7/7a/Tib_fib_growth_plates.jpg is_a: UBERON:0001994 ! hyaline cartilage tissue relationship: part_of UBERON:0001438 ! metaphysis [Term] id: UBERON:0002517 name: basicranium namespace: uberon def: "The base of skull is the most inferior area of the skull, composed of the endocranium and lower parts of the skull roof." [Wikipedia:Base_of_skull] comment: The skull base is formed from a series of cartilages either side of, and rostral to, the notochord, whose tip lies just caudal to the pituitary gland. It is closely associated with the sensory capsules, which partially or completely sur- round the olfactory epithelium, the eye, and the inner ear[PMID:11523816] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "base of skull" EXACT [] synonym: "basis cranii" EXACT LATIN [FMA:52801, FMA:TA, Wikipedia:Base_of_skull] synonym: "cranial base" RELATED [MA:0002840] synonym: "skull base" EXACT [] xref: FMA:52801 xref: MA:0002840 xref: MESH:A01.456.830 xref: SCTID:181890004 xref: UMLS:C0149543 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray193.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Gray193.png/200px-Gray193.png xref: ncithesaurus:Base_of_the_Skull is_a: UBERON:0000075 ! subdivision of skeletal system is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium property_value: has_relational_adjective "basicranial" xsd:string [Term] id: UBERON:0002518 name: otolith organ namespace: uberon def: "saccule or utricle." [Wikipedia:Otolith_organ] comment: Editor notes: Representation of utricle, sacule and otoliths in correspondence to other ontologies may require review. In EHDAA2, saccule and utricle are epithelia subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "otolith organs" RELATED [ZFA:0000559] synonym: "saccule and utricle" RELATED [MESH:A09.246.631.909.625] synonym: "utricle and saccule" RELATED [MESH:A09.246.631.909.625] xref: EFO:0003539 xref: GAID:883 xref: MA:0002841 xref: MESH:A09.246.631.909.625 xref: TAO:0000559 xref: VHOG:0001676 xref: ZFA:0000559 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Bigotolith.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/cb/Bigotolith.jpg/200px-Bigotolith.jpg is_a: UBERON:0000062 ! organ is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003051 ! ear vesicle relationship: has_function_in GO:0060007 ! linear vestibuloocular reflex relationship: part_of UBERON:0001862 ! vestibular labyrinth property_value: homology_notes "In fishes, as in other vertebrates, the vestibular end-organs are divided into a gravity receptor system, with three subdivisions and an angular acceleration receptor system. The gravity receptor system on each side consists of utricular, saccular, and lagenar maculae, each covered by an otolith (reference 1); (...)considerations have led to our rethinking issues related to the origin of several aspects of vertebrate hearing, and to the view that many basic auditory functions evolved very early in vertebrate history, and that the functions observed in more `advanced' vertebrates, such as birds and mammals, are frequently modifications of themes first encountered in fishes, and perhaps even more ancestral animals (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0002519 name: otolithic membrane namespace: uberon def: "a gelatinous membrane located in the vestibular apparatus of the inner ear, and plays an essential role in the brain's interpretation of equilibrium. Both the saccular macula and utricular macula are covered by an otolithic membrane. The membrane is composed of crystalline particles of calcium carbonate called otoliths. When the head is moved the otoliths shift, causing cilia in the nearby saccule and utricle to distort. This produces nerve signals which are sent to the brain, which then uses them to establish its sense of balance. The embedded crystals are very and dense and make the density of the otolithic membrane higher than that of the endolymph surrounding it. When the head accelerates along a line or tilts to change its orientation to gravity, the otolithic membrane shifts relative to the bone supporting the maculae. This shift bends the hair cells whose processes are embedded in the otolithic membrane.[WP]." [Wikipedia:Otolithic_membrane] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "membrana statoconiorum" EXACT LATIN [FMA:75573, FMA:TA] synonym: "otolith layer of statoconial membrane" EXACT [FMA:75573] xref: FMA:75573 xref: GAID:884 xref: MA:0002842 xref: MESH:A09.246.631.909.625.125.680 xref: SCTID:362571006 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005764 ! acellular membrane is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001862 ! vestibular labyrinth relationship: surrounds UBERON:0002518 ! otolith organ [Term] id: UBERON:0002520 name: submandibular lymph node namespace: uberon def: "The submandibular lymph nodes (submaxillary glands in older texts), three to six in number, are placed beneath the body of the mandible in the submaxillary triangle, and rest on the superficial surface of the submaxillary salivary gland. One gland, the middle gland of Stahr, which lies on the external maxillary artery as it turns over the mandible, is the most constant of the series; small lymph glands are sometimes found on the deep surface of the submaxillary salivary glands. The afferents of the submaxillary glands drain the medial palpebral commissure, the cheek, the side of the nose, the upper lip, the lateral part of the lower lip, the gums, and the anterior part of the margin of the tongue. Efferent vessels from the facial and submental glands also enter the submaxillary glands. Their efferent vessels pass to the superior deep cervical glands. [WP,unvetted]." [Wikipedia:Submandibular_lymph_node] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "level ib neck node" EXACT [] synonym: "nodi lymphoidei submandibulares" RELATED [BTO:0000769] synonym: "submandibular node" EXACT [] xref: BTO:0000769 xref: FMA:61224 xref: MA:0002843 xref: SCTID:245319003 xref: UMLS:C0229722 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4e/Illu_quiz_hn_03.jpg/200px-Illu_quiz_hn_03.jpg xref: ncithesaurus:Submandibular_Lymph_Node is_a: UBERON:0003968 ! peripheral lymph node [Term] id: UBERON:0002521 name: elastic tissue namespace: uberon def: "Elastic fibers (or yellow fibers) are bundles of proteins found in extracellular matrix of connective tissue and produced by fibroblasts and smooth muscle cells in arteries. These fibers can stretch up to 1.5 times their length, and snap back to their original length when relaxed. Elastic fibers include elastin, elaunin and oxytalan. Elastic tissue is classified as 'connective tissue proper'. The elastic fiber is formed from the elastic microfibril and amorphous elastin. The microfibril scaffolds and organizes the deposition of amorphous elastin. Amorphous elastin forms from monomers of soluble tropoelastin which is insolubilized and crosslinked into amorphous elastin by lysyl oxidase. Lysyl oxidase reacts with specific lysine residues and by oxidative deamination generates reactive aldehydes and allysine. These reactive aldehydes and allysines can react with lysine and other allysine residues to crosslink and form desmosine, isodesmosine, and a number of other polyfunctional crosslinks that join surrounding elastin molecules to build an elastin matrix and elastic fiber. These unique crosslinks are responsible for elastin's elasticity. [WP,unvetted]." [Wikipedia:Elastic_fiber] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "elastic connective tissue" EXACT [] synonym: "textus connectivus elasticus" EXACT [] xref: FMA:20113 xref: GAID:926 xref: MA:0002853 xref: MESH:A10.165.400 xref: SCTID:27197004 xref: http://upload.wikimedia.org/wikipedia/commons/c/cb/Gray377.png is_a: UBERON:0002384 ! connective tissue [Term] id: UBERON:0002522 name: tunica media namespace: uberon def: "The middle layer of an artery or vein. [WP,unvetted]." [Wikipedia:Tunica_media] comment: todo - check BTO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tunica media vasorum" RELATED LATIN [BTO:0002011, Wikipedia:Tunica_media] xref: BTO:0002011 xref: FMA:55590 xref: GAID:170 xref: MA:0002855 xref: MESH:A02.633.570.491.800 xref: SCTID:61695000 xref: UMLS:C0162867 xref: http://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Illu_artery.jpg/200px-Illu_artery.jpg xref: ncithesaurus:Tunica_Media is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004797 ! blood vessel layer relationship: surrounded_by UBERON:0005734 ! tunica adventitia of blood vessel [Term] id: UBERON:0002523 name: tunica intima namespace: uberon def: "The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]." [ISBN10:0073040584, Wikipedia:Tunica_intima] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tunica intima vasorum" RELATED [BTO:0002012] xref: BTO:0002012 xref: FMA:55589 xref: GAID:523 xref: MA:0002861 xref: MESH:A07.231.330.800 xref: SCTID:8361002 xref: SCTID:87483006 xref: UMLS:C0162864 xref: http://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/32/Illu_artery.jpg/200px-Illu_artery.jpg xref: ncithesaurus:Tunica_Intima is_a: UBERON:0004797 ! blood vessel layer relationship: adjacent_to UBERON:0010161 ! lumen of blood vessel relationship: has_part UBERON:0001986 ! endothelium relationship: surrounded_by UBERON:0002522 ! tunica media disjoint_from: UBERON:0005738 ! swim bladder tunica interna property_value: external_definition "The tunica intima (or just intima) is the innermost layer of an artery or vein. It is made up of one layer of endothelial cells and is supported by an internal elastic lamina. The endothelial cells are in direct contact with the blood flow. The inner coat (tunica intima) can be separated from the middle by a little maceration, or it may be stripped off in small pieces; but, on account of its friability, it cannot be separated as a complete membrane. It is a fine, transparent, colorless structure which is highly elastic, and, after death, is commonly corrugated into longitudinal wrinkles. The inner coat consists of: A layer of pavement endothelium, the cells of which are polygonal, oval, or fusiform, and have very distinct round or oval nuclei. This endothelium is brought into view most distinctly by staining with silver nitrate. A subendothelial layer, consisting of delicate connective tissue with branched cells lying in the interspaces of the tissue; in arteries of less than 2 mm. in diameter the subendothelial layer consists of a single stratum of stellate cells, and the connective tissue is only largely developed in vessels of a considerable size. An elastic or fenestrated layer, which consists of a membrane containing a net-work of elastic fibers, having principally a longitudinal direction, and in which, under the microscope, small elongated apertures or perforations may be seen, giving it a fenestrated appearance. It was therefore called by Henle the fenestrated membrane. This membrane forms the chief thickness of the inner coat, and can be separated into several layers, some of which present the appearance of a network of longitudinal elastic fibers, and others a more membranous character, marked by pale lines having a longitudinal direction. In minute arteries the fenestrated membrane is a very thin layer; but in the larger arteries, and especially in the aorta, it has a very considerable thickness. [WP,unvetted].[Wikipedia]" xsd:string [Term] id: UBERON:0002524 name: mediastinal lymph node namespace: uberon def: "A lymph node that is part of a mediastinum. Each consists of several lymph node groups, especially along the trachea (5 groups), along the esophagus and between the lung and the diaphragm. In the mediastinal lymph nodes arises lymphatic ducts, which draines the lymph to the left subclavian vein (to the venous angle in the confluence of the subclavian and deep jugular veins). The mediastinal lymph nodes along the esophagus are in tight connection with the abdominal lymph nodes along the esophagus and the stomach. That fact facilitates spreading of tumors cells through these lymphatics in cases of cancers of the stomach and particularly of the esophagus. Through the mediastinum, the main lymphatic drainage from the abdominal organs goes via the thoracic duct (ductus thoracicus), which drains majority of the lymph from the abdomen to the above mentioned left venous angle." [OBOL:automatic, Wikipedia:Lymph_node#Lymph_nodes_of_the_thorax] synonym: "mediastinal node" EXACT [] xref: EFO:0001670 xref: FMA:12774 xref: MA:0002877 xref: SCTID:181760002 xref: UMLS:C0588055 xref: ncithesaurus:Mediastinal_Lymph_Node is_a: UBERON:0007644 ! thoracic lymph node relationship: located_in UBERON:0003728 ! mediastinum [Term] id: UBERON:0002525 name: brachial lymph node namespace: uberon def: "the lymph nodes located along the brachial vein that receive drainage from most of the free upper limb and send efferent vessels to the central axillary lymph nodes." [MP:0005231, Wikipedia:Brachial_lymph_nodes] synonym: "nodi lymphoidei brachiales" RELATED LATIN [Wikipedia:Brachial_lymph_nodes] xref: FMA:44314 xref: MA:0002878 xref: UMLS:C0229840 xref: http://upload.wikimedia.org/wikipedia/commons/7/73/Gray607.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/73/Gray607.png/200px-Gray607.png xref: ncithesaurus:Brachial_Lymph_Node is_a: UBERON:0000029 ! lymph node [Term] id: UBERON:0002526 name: lumbar lymph node namespace: uberon xref: FMA:84599 xref: MA:0002879 xref: SCTID:281412000 is_a: UBERON:0002507 ! abdominal lymph node [Term] id: UBERON:0002527 name: pancreatic lymph node namespace: uberon def: "A lymph node that is part of a pancreas [Automatically generated definition]." [OBOL:automatic] synonym: "lymph node of pancreas" EXACT [OBOL:automatic] synonym: "pancreas lymph node" EXACT [OBOL:automatic] synonym: "pancreatic node" EXACT [] synonym: "pyloric lymph node" RELATED [MA:0002881] xref: FMA:16626 xref: MA:0002881 xref: SCTID:276170003 xref: UMLS:C0229783 xref: ncithesaurus:Pancreatic_Lymph_Node is_a: UBERON:0002507 ! abdominal lymph node intersection_of: UBERON:0000029 ! lymph node intersection_of: part_of UBERON:0001264 ! pancreas [Term] id: UBERON:0002528 name: sacral lymph node namespace: uberon synonym: "sacral node" EXACT [] xref: FMA:16655 xref: MA:0002883 xref: SCTID:279797001 xref: UMLS:C0229827 xref: ncithesaurus:Sacral_Lymph_Node is_a: UBERON:0000029 ! lymph node [Term] id: UBERON:0002529 name: limb segment namespace: uberon def: "A major subdivision of a mature or developing limb, including both skeletal elements (or the mesenchyme that gives rise to the skeletal elements) and associated tissues, such as muscle, connective tissue, integument. Examples: autopod region, zeugopod region, stylopod region, metapodial region, arm region. Excludes the limb girdles." [UBERON:cjm] comment: note FMA has both limb segment and free limb segment, the former includes the girdles. Note that MA uses the term more generally and includes A,S,Z,S+Z(arm/leg), whereas FMA is just A,S,Z synonym: "extremity part" RELATED [] synonym: "free limb segment" EXACT [FMA:241863] synonym: "limb region" EXACT [] synonym: "region of limb" EXACT [] synonym: "segment of limb" EXACT [] synonym: "subdivision of limb" EXACT [] xref: FMA:241863 xref: MA:0002889 xref: UMLS:C1268195 xref: ncithesaurus:Extremity_Part is_a: UBERON:0010538 ! limb/fin segment relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: existence_starts_during UBERON:0000068 ! embryo stage intersection_of: UBERON:0010758 ! appendage segment intersection_of: part_of UBERON:0002101 ! limb disjoint_from: UBERON:0010912 ! subdivision of skeleton [Term] id: UBERON:0002530 name: gland namespace: uberon alt_id: UBERON:MIAA_0000021 def: "A gland is an organ in an animal's body that synthesizes a substance for release such as hormones or breast milk, often into the bloodstream (endocrine gland) or into cavities inside the body or its outer surface (exocrine gland). A gland is an organ specialised for secretion[GO]." [Wikipedia:Gland] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Druese" RELATED [BTO:0000522] synonym: "glandula" RELATED LATIN [BTO:0000522, Wikipedia:Gland] xref: AAO:0000212 xref: AEO:0000096 xref: BTO:0000522 xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EHDAA:4475 xref: EHDAA:6522 xref: EMAPA:18425 xref: FBbt:00100317 xref: FMA:86294 xref: HAO:0000375 xref: MAT:0000021 xref: MIAA:0000021 xref: OpenCyc:Mx4rwP3vyJwpEbGdrcN5Y29ycA xref: SCTID:134358001 xref: UMLS:C1285092 xref: WikipediaCategory:Glands xref: galen:Gland xref: http://upload.wikimedia.org/wikipedia/commons/a/a1/Gray1026.png xref: ncithesaurus:Gland is_a: UBERON:0000062 ! organ relationship: capable_of GO:0046903 ! secretion relationship: secretes UBERON:0000463 ! portion of organism substance property_value: has_relational_adjective "glandular" xsd:string [Term] id: UBERON:0002531 name: paired fin bud namespace: uberon def: "An outgrowth on the lateral trunk of the embryo that develops into a paired fin. The fin bud is divided into ectoderm and mesenchyme[cjm, modified from MP]." [ISBN:9780878932504, MP:0005650, UBERON:cjm] synonym: "fin bud" EXACT [ZFA:0001383] synonym: "fin buds" EXACT PLURAL [VSAO:0000179] xref: EFO:0003468 xref: MAT:0000062 xref: MIAA:0000062 xref: TAO:0001383 xref: VSAO:0000179 xref: ZFA:0001383 relationship: has_developmental_contribution_from UBERON:0005731 ! fin field intersection_of: UBERON:0004357 ! limb/fin bud intersection_of: develops_into UBERON:0002534 ! paired fin property_value: external_definition "Embryonic surface structure that develops into a paired fin.[ZFA]" xsd:string [Term] id: UBERON:0002532 name: epiblast (generic) namespace: uberon def: "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA]" [Wikipedia:Epiblast, ZFIN:curator] comment: MP says - tissue that gives rise to the ectoderm, endoderm and mesoderm of the embryo proper. In HOG, epiblast is part of primitive streak/blastpore, which is inconsistent with the MP definition of primitive streak as a ridge of the epiblast. Note that these terms, epiblast and hypoblast, are also used to describe layers of the avian embryonic blastoderm, but the layers so-named seem to be altogether different in these two kinds of vertebrate embryos(CVS). Consider obsoleting this as a grouping class subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "blastocyst" RELATED [] synonym: "ectoblast" RELATED [MP:0003886] synonym: "epiblast" EXACT [VHOG:0000243] synonym: "epiblastus" RELATED LATIN [Wikipedia:Epiblast] synonym: "primitive ectoderm" RELATED [VHOG:0000243] xref: BTO:0004593 xref: MAT:0000067 xref: MIAA:0000067 xref: VHOG:0000243 xref: http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png is_a: UBERON:0002050 ! embryonic structure relationship: has_part CL:0000352 ! epiblast cell property_value: homology_notes "In pregastrula zebrafish embryos, the epiblast is an inverted cup of cells that sits on top of a large yolk cell. (...) In amniote embryos (mammals and birds), gastrulation initiates in an epithelial layer called the epiblast. Cells in the epiblast undergo an epithelial to mesenchymal transition (EMT), migrate through the primitive streak (PS), and incorporate in the middle (mesoderm) or outer (endoderm) layer. The presumptive definitive endoderm (DE) cells invade and displace an outer layer of extraembryonic tissue cells, the hypoblast in chick and the visceral endoderm (VE) in mouse, which form supporting structures such as the yolk sac.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0002533 name: tail bud namespace: uberon def: "The rapidly proliferating mass of cells at the caudal extremity of the embryo; remnant of the primitive node." [BTO:0001445] comment: Editor notes: See notes from UBERONREF:0000002 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "end bud" RELATED [BTO:0001445] synonym: "tail bud mesenchyme " RELATED [ZFA:0000077] synonym: "tailbud" EXACT [] xref: AAO:0011104 xref: BTO:0001445 xref: EFO:0002748 xref: EHDAA2:0001976 xref: EHDAA:1595 xref: EMAPA:16580 xref: MAT:0000070 xref: MIAA:0000070 xref: TAO:0000077 xref: VHOG:0000201 xref: XAO:0000107 xref: ZFA:0000077 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "Rapidly proliferating mass of cells at the caudal extremity of the embryo. Its formation is reflected in a caudal carving of the posterior portion of the archenteric canal at NF stage 22. With its further outgrowth, the postanal gut primordium becomes stretched. Its lumen is in broad communication with the hindgut at NF stage 25.[AAO]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (5) a larva or embryo with a postanal tail.[well established][VHOG]" xsd:string [Term] id: UBERON:0002534 name: paired fin namespace: uberon def: "Fin that is one of a pair located ventrally on the organism." [TAO:wd] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "artioptcC)rygie@fr" RELATED [VSAO:0000111] synonym: "nageoire paire@fr" RELATED [VSAO:0000111] synonym: "pelvic/pectoral fin" EXACT [UBERON:cjm] xref: TAO:0002278 xref: VSAO:0000111 xref: ZFA:0005596 is_a: UBERON:0004708 ! limb/fin is_a: UBERON:0008897 ! fin relationship: develops_from UBERON:0002531 ! paired fin bud property_value: never_in_taxon NCBITaxon:32523 [Term] id: UBERON:0002535 name: gill namespace: uberon def: "Anatomical surface structure found in many aquatic organisms. It is a respiration organ whose function is the extraction of oxygen from water and the excretion of carbon dioxide. The microscopic structure of a gill is such that it presents a very large surface area to the external environment. Gills usually consist of thin filaments of tissue, branches, or slender tufted processes which have a highly folded surface to increase surface area. A high surface area is crucial to the gas exchange of aquatic organisms as water contains only 1/20 parts dissolved Oxygen compared to air. With the exception of some aquatic insects, the filaments and lamellae (folds) contain blood or coelomic fluid, from which gases are exchanged through the thin walls. Oxygen is carried by the blood to other parts of the body. Carbon dioxide passes from the blood through the thin gill tissue into the water. Gills or gill-like organs, located in different parts of the body, are found in various groups of aquatic animals, including mollusks, crustaceans, insects, fish, and amphibians." [Wikipedia:Gill] comment: this term potentially applicable across multiple metazoa - see also the subclass 'pharyngeal arch derived gill' subset: functional_classification ! functional_classification xref: MESH:A13.421 is_a: UBERON:0003102 ! surface structure relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0002536 name: arthropod sensillum namespace: uberon def: "Sense organ embedded in the integument and consisting of one or a cluster of sensory neurons and associated sensory structures, support cells and glial cells forming a single organised unit with a largely bona-fide boundary.[FBbt]" [FBbt:00007152, Wikipedia:Sensillum] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sensillum" EXACT [FBbt:00007152, HAO:0000933] xref: BTO:0001237 xref: EFO:0000939 xref: FBbt:00007152 xref: HAO:0000933 xref: MAT:0000163 xref: MIAA:0000163 xref: TGMA:0000540 is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0002537 name: hermaphrodite gonad namespace: uberon def: "a gonad with both testicular and ovarian aspects[WP]." [Wikipedia:Ovotestis] synonym: "glandula hermaphroditica" NARROW SENSU [Wikipedia:Ovotestis#In_gastropods] synonym: "hermaphrodite genitalia" EXACT [GO:0040035] synonym: "hermaphrodite gland" NARROW SENSU [Wikipedia:Ovotestis#In_gastropods] synonym: "ovotestis" RELATED [BTO:0000981] xref: BTO:0000981 xref: EFO:0000971 xref: MAT:0000165 xref: MIAA:0000165 xref: WBbt:0005178 is_a: UBERON:0007198 ! hermaphrodite anatomical structure relationship: part_of UBERON:0007197 ! hermaphroditic organism intersection_of: UBERON:0000991 ! gonad intersection_of: capable_of GO:0007283 ! spermatogenesis intersection_of: capable_of GO:0048477 ! oogenesis [Term] id: UBERON:0002538 name: hatching gland namespace: uberon def: "The cells of the hatching gland contain enzymes responsible for solubilization of the egg chorion, facilitating the hatching process[GO]. A transversely oriented set of cells located deep to the EVL on the pericardial membrane, especially prominent during pharyngula period because of the brightly refractile cytoplasmic granules (containing hatching enzymes) of the principal cells of the gland. Kimmel et al, 1995." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "frontal gland" RELATED [] synonym: "hgg" RELATED [] xref: AAO:0011050 xref: BTO:0000558 xref: EFO:0000863 xref: MAT:0000180 xref: MIAA:0000180 xref: TAO:0000026 xref: VHOG:0000078 xref: XAO:0000034 xref: ZFA:0000026 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002530 ! gland relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000924 ! ectoderm property_value: external_definition "A transversely oriented set of cells located deep to the EVL on the pericardial membrane, especially prominent during pharyngula period because of the brightly refractile cytoplasmic granules (containing hatching enzymes) of the principal cells of the gland. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0002539 name: pharyngeal arch namespace: uberon def: "One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches" [NLM:branchial+arch, PMID:16313389, Wikipedia:Pharyngeal_arch] comment: Numbered cranial to caudal. different in mammals. branchial arch = ZFA:0001613 pharyngeal arch 3-7. generally gill arch 1 = pharyngeal arch 3. terminology varies as to whether branchial arch follows gill or pharyngeal numbering subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arcus pharyngei" RELATED LATIN [Wikipedia:Pharyngeal_arch] synonym: "branchial arch" NARROW [BTO:0001785, MP:0002884] synonym: "pharyngeal arches" EXACT PLURAL [] synonym: "visceral arch" RELATED [] xref: AAO:0010359 xref: BTO:0001785 xref: EFO:0000959 xref: EHDAA:571 xref: EMAPA:16117 xref: GAID:1292 xref: MAT:0000242 xref: MESH:A16.254.160 xref: MIAA:0000242 xref: SCTID:308766004 xref: TAO:0001306 xref: UMLS:C0080322 xref: VHOG:0000155 xref: XAO:0000096 xref: ZFA:0001306 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray41.png/200px-Gray41.png xref: ncithesaurus:Pharyngeal_Arch is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010188 ! protuberance is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: induced_by UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0008814 ! pharyngeal system relationship: part_of UBERON:0008816 ! embryonic head property_value: external_definition "One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG]" xsd:string [Term] id: UBERON:0002540 name: lateral line system namespace: uberon def: "a line of neuroblasts along the sides of fish and amphibia that detect vibrations and pressure changes." [ISBN:0471209627, ISBN:0815318960, Wikipedia:Lateral_line_system] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral line organs" RELATED [VHOG:0001243] synonym: "lateral line stitches" RELATED [] synonym: "lateral-line organs" RELATED [] synonym: "ll" RELATED [] xref: AAO:0000269 xref: AAO:0000975 xref: EFO:0000941 xref: MAT:0000249 xref: MIAA:0000249 xref: TAO:0000034 xref: VHOG:0001243 xref: XAO:0000095 xref: ZFA:0000034 is_a: UBERON:0001032 ! sensory system is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: never_in_taxon NCBITaxon:32524 property_value: axiom_lost_from_external_ontology "relationship loss: is_formed_by lateral line receptor organ (AAO:0001001)[AAO]" xsd:string property_value: external_definition "A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: external_definition "Sensory system which develops from a specialized series of dorsolateral ectodermal placodes named lateral line placodes.[AAO]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0002541 name: germ ring namespace: uberon def: "The thickend rim of the blastoderm evident during late blastula and gastrula stages[FishBase]. Embryonic structure which is a uniform thickened annulus at the blastoderm margin, consisting of two layers in addition to the EVL, the epiblast and the hypoblast. The germ ring is formed by the involution of the blastoderm back upon itself[ZFA]" [http://www.fishbase.org/glossary/Glossary.php?q=germ%20ring] comment: todo - check timing of appearance and disappearance - check relationship with primitive streak. he blastopore lips in amphibians appear to have the equivalent function of the germ ring in zebrafish (ES) subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. xref: AAO:0000211 xref: EFO:0003427 xref: MAT:0000255 xref: MIAA:0000255 xref: TAO:0000111 xref: ZFA:0000111 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004734 ! gastrula property_value: dubious_for_taxon NCBITaxon:40674 property_value: external_definition "Embryonic structure that forms as a thickened annulus at the blastoderm rim. The germ ring is thickened because it is the involuting margin of the blastoderm[ZFIN:ZDB-PUB-961014-576]." xsd:string [Term] id: UBERON:0002542 name: scale namespace: uberon def: "A small rigid plate that grows out of an animal's skin to provide protection. In lepidopteran (butterfly and moth) species, scales are plates on the surface of the insect wing, and provide coloration. Scales are quite common and have evolved multiple times with varying structure and function." [Wikipedia:Scale_(zoology)] comment: Usage notes: currently defined in a very inclusive fashion - may be obsoleted and replaced by more specific classes in future versions. The TAO, VSAO amd ZFA classes by this name are classified as 'dermal scales' subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "scales" RELATED [] xref: BTO:0005055 xref: EFO:0000960 xref: HAO:0000907 xref: MAT:0000257 xref: MIAA:0000257 xref: OpenCyc:Mx4rvVi9M5wpEbGdrcN5Y29ycA is_a: UBERON:0003102 ! surface structure [Term] id: UBERON:0002543 name: obsolete median fin skeleton namespace: uberon def: "Postcranial axial skeleton that is unpaired and located on the sagittal plane of the organism." [TAO:wd] is_obsolete: true consider: EFO:0000950 consider: MAT:0000277 consider: MIAA:0000277 consider: ZFA:0001123 ! axial fin skeleton (zebrafish) comment: Mistakenly placed in uberon, should remain domain of TAO for now synonym: "axial fin skeleton" EXACT [TAO:0001123] synonym: "unpaired fin skeleton" EXACT [ZFA:0001123] [Term] id: UBERON:0002544 name: digit namespace: uberon def: "one of several most distal parts of a limb, such as fingers or toes, present in many vertebrates[WP]." [Wikipedia:Digit_(anatomy)] comment: todo homology ZFA:0001588-pectoral fin distal radial. Note: This term is a GAT in FMA. Note: we elect to place a strict taxon constraint on this class - this is controversial, and may be weakened later on - see [Wikipedia:Digit_(anatomy)#Evolution]. AO notes: EMAPA mapping from TH subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "limb digit" EXACT [MA:0000690] xref: AAO:0011126 xref: EFO:0000881 xref: EMAPA:32725 xref: FMA:85518 xref: MA:0000690 xref: MAT:0000285 xref: MIAA:0000285 xref: OpenCyc:Mx4rvzLD_ZwpEbGdrcN5Y29ycA xref: SCTID:361367007 xref: UMLS:C0582802 xref: VHOG:0000944 xref: XAO:0003032 xref: galen:Digit xref: ncithesaurus:Digit is_a: UBERON:0005881 ! limb outgrowth relationship: part_of UBERON:0012140 ! digitopodium region relationship: part_of UBERON:0012354 ! acropodium region disjoint_from: UBERON:0005880 ! prepollex disjoint_from: UBERON:0012136 ! prehallux property_value: has_relational_adjective "digital" xsd:string property_value: homology_notes "Our reinterpretation of the distal fin endoskeleton of Panderichthys removes the final piece of evidence supporting the formerly popular hypothesis that tetrapod digits are wholly new structures without homologues in sarcopterygian fish fins. This hypothesis, which was based partly on the complete absence of plausible digit homologues in Panderichthys (then the closest known relative of tetrapods), has already been called into question by the discovery of digit-like radials in Tiktaalik and the fact that Hox gene expression patterns closely resembling those associated with digit formation in tetrapods occur in the distal fin skeletons of paddlefish and Australian lungfish. Our new data show that Panderichthys is not an anomaly: like Tiktaalik and other fish members of the Tetrapodomorpha, it has distal radials that can be interpreted as digit homologues.[well established][VHOG]" xsd:string [Term] id: UBERON:0002545 name: obsolete body ganglion namespace: uberon is_obsolete: true consider: WBbt:0005332 synonym: "trunk ganglion" RELATED [] xref: EFO:0000901 xref: MAT:0000344 xref: MIAA:0000344 [Term] id: UBERON:0002546 name: cranial placode namespace: uberon def: "Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic." [UBERON:cjm, http://www.ncbi.nlm.nih.gov/books/NBK53175/, https://github.com/seger/aao/issues/4, https://sourceforge.net/tracker/?func=detail&aid=3561940&group_id=76834&atid=1127722] comment: Editor note: to avoid confusion, we include neurogenic placode as a subclass. Do not merge. Terminological notes: The term placode or placodes also applies to developing organs such as teeth, mammary glands, hair follicles, feathers and scales. We include a separate parent class for this. Taxon notes: Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons[PMID:11523831]. synonym: "placode" BROAD [Wikipedia:Placode] xref: AAO:0010466 xref: EFO:0001650 xref: MAT:0000369 xref: MIAA:0000369 xref: XAO:0000305 is_a: UBERON:0005085 ! ectodermal placode relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0002547 name: tadpole namespace: uberon def: "An an organism at the larval stage" [UBERON:cjm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "tadpole stage" RELATED [] xref: BTO:0001347 xref: MAT:0000370 xref: MIAA:0000370 is_a: UBERON:0002548 ! larva intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_and_ends_during UBERON:0009849 ! tadpole stage [Term] id: UBERON:0002548 name: larva namespace: uberon def: "a distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." [Wikipedia:Larva] comment: This class was created automatically from a combination of ontologies. TODO: discriminate between stages and organisms subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ammocoete" NARROW [Wikipedia:Larva] synonym: "bipinnaria" NARROW [Wikipedia:Larva] synonym: "caterpillar" NARROW [Wikipedia:Larva] synonym: "glochidium" NARROW [Wikipedia:Larva] synonym: "grub" NARROW [Wikipedia:Larva] synonym: "larval organism" EXACT [TAO:0002048] synonym: "leptocephalus" NARROW [Wikipedia:Larva] synonym: "maggot" NARROW [Wikipedia:Larva] synonym: "naiad" NARROW [Wikipedia:Larva] synonym: "naupilus" NARROW [Wikipedia:Larva] synonym: "nymph" NARROW [Wikipedia:Larva] synonym: "planula" NARROW [Wikipedia:Larva] synonym: "tadpole" NARROW [Wikipedia:Larva] synonym: "trochophore" NARROW [Wikipedia:Larva] synonym: "veliger" NARROW [Wikipedia:Larva] synonym: "wriggler" NARROW [Wikipedia:Larva] synonym: "zoea" NARROW [Wikipedia:Larva] xref: AEO:0000126 xref: BTO:0000707 xref: FBbt:00001727 xref: HAO:0000459 xref: OpenCyc:Mx4rwQCBvZwpEbGdrcN5Y29ycA xref: TAO:0002048 intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_and_ends_during UBERON:0000069 ! larval stage property_value: external_definition "Whole organism that is premetamorphic or a very immature individual.[TAO]" xsd:string property_value: has_relational_adjective "larval" xsd:string [Term] id: UBERON:0002549 name: ventral trigeminal tract namespace: uberon def: "The ventral trigeminothalamic tract serves as pain, temperature, and light touch pathway from the face, head and neck. It receives input from trigeminal nerve, facial nerve, glossopharyngeal nerve and vagus nerve. It receives discriminative tactile and pressure input from the contralateral principal sensory nucleus of CN V, which terminates in the ventral posteromedial nucleus of the thalamus. It then ascends to the contralateral sensory cortex via three neurons . [WP,unvetted]." [Wikipedia:Ventral_trigeminal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior trigeminothalamic tract" EXACT [FMA:72506] synonym: "tractus trigeminothalamicus anterior" EXACT LATIN [FMA:72506, FMA:TA] synonym: "trigeminal lemniscus-2" EXACT [FMA:72506] synonym: "ventral crossed tract" EXACT [FMA:72506] synonym: "ventral secondary ascending tract of v" EXACT [] synonym: "ventral trigeminal pathway" EXACT [FMA:72506] synonym: "ventral trigeminothalamic tract" EXACT [FMA:72506] xref: FMA:72506 xref: NIF_GrossAnatomy:birnlex_1001 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002550 name: anterior hypothalamic region namespace: uberon synonym: "chiasmal zone" EXACT [FMA:62027] xref: FMA:62027 xref: NIF_GrossAnatomy:birnlex_1005 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0002551 name: interstitial nucleus of cajal namespace: uberon synonym: "interstitial nucleus" EXACT [FMA:72432] synonym: "interstitial nucleus of medial longitudinal fasciculus" EXACT [FMA:72432] synonym: "interstitial nucleus of medial longitudinal fasciculus (crosby)" EXACT [] synonym: "nucleus interstitialis" EXACT LATIN [FMA:72432, FMA:TA] xref: ABA:INC xref: BM:MB-ICA xref: FMA:72432 xref: NIF_GrossAnatomy:birnlex_1008 xref: SCTID:369251002 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0002044 [Term] id: UBERON:0002552 name: vestibulocerebellar tract namespace: uberon def: "The vestibulocerebellar tract is a tract in the pontine tegmentum which connects the vestibular nerve and the cerebellar cortex. [WP,unvetted]." [Wikipedia:Vestibulocerebellar_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "vestibulocerebellar fibers" EXACT [FMA:72508] xref: FMA:72508 xref: NIF_GrossAnatomy:birnlex_1009 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0003023 ! pontine tegmentum [Term] id: UBERON:0002553 name: anatomical cavity namespace: uberon def: "Anatomical space which contains portions of one or more body substances and is bounded by the internal surface of one maximally connected anatomical structure. Examples: cranial cavity, pharyngeal recess space, nasal cavity, tooth socket, cavity of serous sac, lumen of stomach, lumen of artery, fornix of vagina." [FMA:67552] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cavity" BROAD [] xref: FMA:67552 xref: NIF_GrossAnatomy:birnlex_1011 xref: galen:Cavity is_a: UBERON:0000464 ! anatomical space relationship: location_of UBERON:0000463 ! portion of organism substance [Term] id: UBERON:0002554 name: regional part of superior colliculus namespace: uberon def: "A multi-tissue structure that is part of a superior colliculus." [OBOL:automatic] subset: inherited_grouping_class ! A grouping class that originates in two or more separate anatomical ontologies. Includes 'region of X' type terms subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of superior colliculus" RELATED [FMA:85592] synonym: "superior colliculus segment" RELATED [FMA:85592] xref: FMA:85592 xref: NIF_GrossAnatomy:birnlex_1014 is_a: UBERON:0002966 ! regional part of midbrain tectum intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001945 ! superior colliculus [Term] id: UBERON:0002555 name: intermediate hypothalamic region namespace: uberon def: "." [Wikipedia:Pituitary_gland#Intermediate_lobe] comment: See notes for pars intermedia of adenohypophysis synonym: "area hypothalamica intermedia" EXACT LATIN [FMA:62028, FMA:TA] synonym: "intermediate hypothalamic area" EXACT [FMA:62028] synonym: "intermediate hypothalamus" RELATED [TAO:0006000] xref: FMA:62028 xref: NIF_GrossAnatomy:birnlex_1015 xref: TAO:0006000 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus property_value: external_definition "Brain structure that lies perpendicular to the longitudinal axis of the embryonic neural tube, is continuous with the rostral hypothalamic proliferation and whose most lateral extent is deflected dorsally within the inferior lobe.[TAO]" xsd:string [Term] id: UBERON:0002556 name: corticotectal tract namespace: uberon synonym: "corticotectal fibers" EXACT [FMA:72419] synonym: "corticotectal fibres" EXACT [FMA:72419] synonym: "fibrae corticotectales" EXACT LATIN [FMA:72419, FMA:TA] xref: BM:CTT xref: FMA:72419 xref: NIF_GrossAnatomy:birnlex_1016 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002557 name: linear nucleus namespace: uberon xref: FMA:72436 xref: NIF_GrossAnatomy:birnlex_1018 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002558 name: organ cavity namespace: uberon subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "cavity of organ" EXACT [FMA:12237] xref: FMA:12237 xref: NIF_GrossAnatomy:birnlex_1019 xref: SCTID:362606005 is_a: UBERON:0002553 ! anatomical cavity [Term] id: UBERON:0002559 name: medullary reticular formation namespace: uberon def: "The reticular formation is a series of brain nuclei located in the medulla oblongata" [GO:0021723] comment: note that ZFA:0000421 is part of the the medulla oblongata, so it is placed here, rather than with the generic term subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bulb reticular formation" EXACT [OBOL:automatic] synonym: "bulbar reticular formation" EXACT [FMA:72241] synonym: "medulla oblongata reticular formation" EXACT [OBOL:automatic] synonym: "medulla oblonmgata reticular formation" EXACT [OBOL:automatic] synonym: "medullary reticular nucleus" EXACT [MA:0001049] synonym: "metepencephalon reticular formation" EXACT [OBOL:automatic] synonym: "reticular formation" BROAD [ZFA:0000421] synonym: "reticular formation of bulb" EXACT [OBOL:automatic] synonym: "reticular formation of medulla" EXACT [FMA:72241] synonym: "reticular formation of medulla oblongata" EXACT [OBOL:automatic] synonym: "reticular formation of medulla oblonmgata" EXACT [OBOL:automatic] synonym: "reticular formation of metepencephalon" EXACT [OBOL:automatic] synonym: "rhombencephalic reticular formation" EXACT [GO:0021723] xref: ABA:MDRN xref: BM:Me-MeRF xref: FMA:72241 xref: GAID:588 xref: MA:0001049 xref: NIF_GrossAnatomy:birnlex_1020 xref: SCTID:369059009 xref: TAO:0000421 xref: ZFA:0000421 is_a: UBERON:0002275 ! reticular formation is_a: UBERON:0002678 ! regional part of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata intersection_of: UBERON:0002275 ! reticular formation intersection_of: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002560 name: temporal operculum namespace: uberon synonym: "facies supratemporalis" EXACT [FMA:74891] synonym: "operculum temporale" RELATED LATIN [Wikipedia:Operculum_%28brain%29] xref: FMA:74891 xref: NIF_GrossAnatomy:birnlex_1025 xref: SCTID:369222001 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010262 ! operculum of brain [Term] id: UBERON:0002561 name: neuraxis cavity namespace: uberon def: "The cavity that is enclosed by the central nervous system. In vertebrates this is the cavity that includes as parts ventricular cavities and the central canal of the spinal cord that develops from the lumen of the neura tube" [UBERON:cjm] synonym: "cavity of neuraxis" EXACT [FMA:75007] synonym: "cavity of ventricular system of neuraxis" EXACT [FMA:75007] synonym: "neuraxis cavity" EXACT [FMA:75007] synonym: "neuraxis lumen" EXACT [] xref: FMA:75007 xref: NIF_GrossAnatomy:birnlex_1029 relationship: develops_from UBERON:0003842 ! neural tube lumen relationship: part_of UBERON:0001017 ! central nervous system intersection_of: UBERON:0002558 ! organ cavity intersection_of: enclosed_by UBERON:0001017 ! central nervous system [Term] id: UBERON:0002562 name: superior frontal sulcus namespace: uberon def: "The superior frontal sulcus is a sulcus between the superior frontal gyrus and the middle frontal gyrus. [WP,unvetted]." [Wikipedia:Superior_frontal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sulcus f1" EXACT [FMA:83755] synonym: "sulcus frontalis primus" EXACT [NIF_GrossAnatomy:birnlex_1030] synonym: "sulcus frontalis superior" EXACT LATIN [NIF_GrossAnatomy:birnlex_1030, Wikipedia:Superior_frontal_sulcus] synonym: "superior frontal fissure" EXACT [FMA:83755] xref: FMA:83755 xref: NIF_GrossAnatomy:birnlex_1030 xref: SCTID:279342009 xref: UMLS:C0228198 xref: http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray726_Superior_frontal_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2f/Gray726_Superior_frontal_sulcus.svg/200px-Gray726_Superior_frontal_sulcus.svg.png xref: ncithesaurus:Superior_Frontal_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002563 name: central nucleus of inferior colliculus namespace: uberon synonym: "chief nucleus of inferior colliculus" EXACT [FMA:72413] synonym: "inferior colliculus, central nucleus" EXACT [FMA:72413] synonym: "nucleus of inferior colliculus (crosby)" EXACT [] xref: ABA:ICc xref: BM:MB-Tec-ICC xref: FMA:72413 xref: NIF_GrossAnatomy:birnlex_1035 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002917 ! regional part of inferior colliculus is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001946 ! inferior colliculus property_value: spatially_disjoint_from UBERON:0002571 [Term] id: UBERON:0002564 name: lateral orbital gyrus namespace: uberon xref: FMA:62418 xref: NIF_GrossAnatomy:birnlex_1036 xref: SCTID:279195001 is_a: UBERON:0007193 ! orbital gyrus [Term] id: UBERON:0002565 name: olivary pretectal nucleus namespace: uberon def: "The pretectum, also known as the pretectal area, is a region of neurons found between the thalamus and midbrain. It receives binocular sensory input from retinal ganglion cells of the eyes, and is the region responsible for maintaining the pupillary light reflex. [WP,unvetted]." [Wikipedia:Olivary_pretectal_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior pretectal nucleus" EXACT [FMA:72405] synonym: "nucleus pretectalis anterior" EXACT LATIN [FMA:72405, FMA:TA] synonym: "olivary nucleus of superior colliculus" EXACT [FMA:72405] synonym: "pretectal olivary nucleus" EXACT [FMA:72405] xref: ABA:OP xref: BM:MB-Tec-OPT xref: FMA:72405 xref: NIF_GrossAnatomy:birnlex_1037 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003047 ! regional part of pretectal region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001944 ! pretectal region property_value: spatially_disjoint_from UBERON:0002711 property_value: spatially_disjoint_from UBERON:0002996 property_value: spatially_disjoint_from UBERON:0006848 [Term] id: UBERON:0002566 name: superior precentral sulcus namespace: uberon synonym: "precentral dimple" EXACT [FMA:83763] synonym: "sulcus praecentralis superior" EXACT [NIF_GrossAnatomy:birnlex_1038] synonym: "sulcus precentralis superior" EXACT [NIF_GrossAnatomy:birnlex_1038] synonym: "superior part of precentral fissure" EXACT [FMA:83763] xref: FMA:83763 xref: NIF_GrossAnatomy:birnlex_1038 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002567 name: basal part of pons namespace: uberon synonym: "basal portion of pons" EXACT [FMA:72244] synonym: "base of pons" EXACT [FMA:72244] synonym: "basilar part of pons" EXACT [FMA:72244] synonym: "pars basilaris pontis" EXACT LATIN [FMA:72244, FMA:TA] synonym: "pons proper" EXACT [FMA:72244] synonym: "ventral portion of pons" EXACT [FMA:72244] xref: FMA:72244 xref: NIF_GrossAnatomy:birnlex_1043 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0002152 ! middle cerebellar peduncle relationship: part_of UBERON:0000988 ! pons [Term] id: UBERON:0002568 name: amiculum of dentate nucleus namespace: uberon synonym: "dentate nuclear amiculum" EXACT [FMA:72546] xref: FMA:72546 xref: NIF_GrossAnatomy:birnlex_1044 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002132 ! dentate nucleus [Term] id: UBERON:0002569 name: transverse temporal sulcus namespace: uberon xref: FMA:83782 xref: NIF_GrossAnatomy:birnlex_1045 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002570 name: medial orbital gyrus namespace: uberon xref: FMA:62419 xref: NIF_GrossAnatomy:birnlex_1046 xref: SCTID:279194002 is_a: UBERON:0007193 ! orbital gyrus [Term] id: UBERON:0002571 name: external nucleus of inferior colliculus namespace: uberon xref: ABA:ICe xref: BM:MB-Tec-ICX xref: FMA:72412 xref: NIF_GrossAnatomy:birnlex_1047 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002917 ! regional part of inferior colliculus is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001946 ! inferior colliculus property_value: spatially_disjoint_from UBERON:0002563 [Term] id: UBERON:0002572 name: principal pretectal nucleus namespace: uberon xref: FMA:72402 xref: NIF_GrossAnatomy:birnlex_1048 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003047 ! regional part of pretectal region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001944 ! pretectal region [Term] id: UBERON:0002573 name: pontine reticular formation namespace: uberon def: "The reticular formation is a part of the brain that is involved in actions such as awaking/sleeping cycle, and filtering incoming stimuli to discriminate irrelevant background stimuli. It is essential for governing some of the basic functions of higher organisms, and is one of the phylogenetically oldest portions of the brain. [WP,unvetted]." [Wikipedia:Pontine_reticular_formation] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pons of varolius reticular formation" EXACT [OBOL:automatic] synonym: "pons reticular formation" EXACT [OBOL:automatic] synonym: "pontine reticular nucleus" EXACT [ABA:PRNr] synonym: "reticular formation of pons" EXACT [FMA:68876] synonym: "reticular formation of pons of varolius" EXACT [OBOL:automatic] xref: ABA:PRNr xref: BM:Pons-PRF xref: FMA:68876 xref: NIF_GrossAnatomy:birnlex_1050 xref: SCTID:362403007 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Gray701.png/200px-Gray701.png is_a: UBERON:0002275 ! reticular formation is_a: UBERON:0002680 ! regional part of metencephalon relationship: part_of UBERON:0003023 ! pontine tegmentum intersection_of: UBERON:0002275 ! reticular formation intersection_of: part_of UBERON:0000988 ! pons [Term] id: UBERON:0002574 name: regional part of inferior olivary complex namespace: uberon def: "A regional part of brain that is part of a inferior olivary complex [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "inferior olivary complex segment" EXACT [FMA:71259] synonym: "segment of inferior olivary complex" EXACT [NIF_GrossAnatomy:birnlex_1052] xref: FMA:71259 xref: NIF_GrossAnatomy:birnlex_1052 is_a: UBERON:0002678 ! regional part of medulla oblongata intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002127 ! inferior olivary complex [Term] id: UBERON:0002575 name: posterior orbital gyrus namespace: uberon xref: FMA:80184 xref: NIF_GrossAnatomy:birnlex_1054 xref: SCTID:279197009 is_a: UBERON:0007193 ! orbital gyrus [Term] id: UBERON:0002576 name: temporal pole namespace: uberon def: "The anterior end of the hemisphere is named the frontal pole. The posterior end is named the occipital pole. The anterior end of the temporal lobe, the temporal pole. [WP,unvetted]." [Wikipedia:Temporal_pole] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "polus temporalis" EXACT [NeuroNames:126] xref: FMA:74890 xref: NIF_GrossAnatomy:birnlex_1055 xref: SCTID:314155002 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e3/Human_brain_lateral_view_description.JPG/200px-Human_brain_lateral_view_description.JPG intersection_of: UBERON:0009899 ! pole of cerebral hemisphere intersection_of: part_of UBERON:0001871 ! temporal lobe [Term] id: UBERON:0002577 name: pericentral nucleus of inferior colliculus namespace: uberon synonym: "cortex of inferior colliculus" EXACT [FMA:72411] xref: BM:MB-Tec-ICP xref: FMA:72411 xref: NIF_GrossAnatomy:birnlex_1056 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002917 ! regional part of inferior colliculus is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001946 ! inferior colliculus [Term] id: UBERON:0002578 name: sublentiform nucleus namespace: uberon xref: FMA:72404 xref: NIF_GrossAnatomy:birnlex_1057 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003047 ! regional part of pretectal region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001944 ! pretectal region [Term] id: UBERON:0002579 name: regional part of medullary reticular formation namespace: uberon def: "A regional part of brain that is part of a medullary reticular formation [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "medullary reticular formation segment" EXACT [FMA:73730] synonym: "segment of medullary reticular formation" EXACT [NIF_GrossAnatomy:birnlex_1060] xref: FMA:73730 xref: NIF_GrossAnatomy:birnlex_1060 is_a: UBERON:0002678 ! regional part of medulla oblongata intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002559 ! medullary reticular formation [Term] id: UBERON:0002580 name: brachium of superior colliculus namespace: uberon def: "The brachium of superior colliculus (or superior brachium) extends lateralward from the superior colliculus, and, passing between the pulvinar and medial geniculate body, is partly continued into an eminence called the lateral geniculate body, and partly into the optic tract. [WP,unvetted]." [Wikipedia:Brachium_of_superior_colliculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brachium colliculi superioris" RELATED LATIN [Wikipedia:Brachium_of_superior_colliculus] synonym: "superior brachium" EXACT [FMA:72417] synonym: "superior collicular brachium" EXACT [FMA:72417] synonym: "superior colliculus brachium" EXACT [FMA:72417] synonym: "superior quadrigeminal brachium" EXACT [FMA:72417] xref: BM:MB-BSC xref: FMA:72417 xref: NIF_GrossAnatomy:birnlex_1065 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Human_brainstem-thalamus_posterior_view_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Human_brainstem-thalamus_posterior_view_description.JPG/200px-Human_brainstem-thalamus_posterior_view_description.JPG is_a: UBERON:0002316 ! white matter is_a: UBERON:0006786 ! white matter of superior colliculus relationship: part_of UBERON:0001945 ! superior colliculus [Term] id: UBERON:0002581 name: postcentral gyrus namespace: uberon def: "The lateral postcentral gyrus is a prominent structure in the parietal lobe of the human brain and an important landmark. It was initially defined from surface stimulation studies of Penfield, and parallel surface potential studies of Bard, Woolsey, and Marshall. Although initially defined to be roughly the same as Brodmann areas 3, 1 and 2, more recent work by Kaas has suggested that for homogeny with other sensory fields only area 3 should be referred to as 'primary somatosensory cortex', as it received the bulk of the thalamocortical projection from the sensory input fields. [WP,unvetted]." [Wikipedia:Postcentral_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "postcentral convolution" EXACT [FMA:61896] synonym: "posterior central gyrus" EXACT [FMA:61896] synonym: "postrolandic gyrus" EXACT [FMA:61896] xref: BTO:0004354 xref: EFO:0001383 xref: FMA:61896 xref: NIF_GrossAnatomy:birnlex_1070 xref: SCTID:279167001 xref: UMLS:C0152302 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Postcentral_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Postcentral_gyrus.png/200px-Postcentral_gyrus.png xref: ncithesaurus:Postcentral_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001872 ! parietal lobe [Term] id: UBERON:0002582 name: anterior calcarine sulcus namespace: uberon synonym: "anterior calcarine fissure" EXACT [FMA:83750] synonym: "sulcus calcarinus anterior" EXACT [NIF_GrossAnatomy:birnlex_1072] xref: FMA:83750 xref: NIF_GrossAnatomy:birnlex_1072 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002583 name: commissure of superior colliculus namespace: uberon def: "A commissure that is part of a superior colliculus [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior colliculus commissure" EXACT [OBOL:automatic] synonym: "anterior corpus quadrigeminum commissure" EXACT [OBOL:automatic] synonym: "commissure of anterior colliculus" EXACT [OBOL:automatic] synonym: "commissure of anterior corpus quadrigeminum" EXACT [OBOL:automatic] synonym: "commissure of cranial colliculus" EXACT [OBOL:automatic] synonym: "commissure of optic tectum" EXACT [OBOL:automatic] synonym: "commissure of superior colliculi" EXACT [FMA:72418] synonym: "cranial colliculus commissure" EXACT [OBOL:automatic] synonym: "intertectal commissure" EXACT SENSU [ZFA:0000684] synonym: "optic tectum commissure" EXACT [OBOL:automatic] synonym: "superior colliculus commissure" EXACT [FMA:72418] xref: BM:MB-Tec-SC-SCX xref: FMA:72418 xref: NIF_GrossAnatomy:birnlex_1073 xref: SCTID:369258008 xref: TAO:0000684 xref: ZFA:0000684 is_a: UBERON:0001020 ! commissure is_a: UBERON:0005970 ! brain commissure relationship: part_of UBERON:0001945 ! superior colliculus intersection_of: UBERON:0001020 ! commissure intersection_of: part_of UBERON:0001945 ! superior colliculus [Term] id: UBERON:0002584 name: regional part of vestibular nuclear complex namespace: uberon def: "A regional part of brain that is part of a vestibular nuclear complex [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of vestibular nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_1080] synonym: "vestibular nuclear complex segment" EXACT [FMA:71267] xref: FMA:71267 xref: NIF_GrossAnatomy:birnlex_1080 is_a: UBERON:0002678 ! regional part of medulla oblongata intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002673 ! vestibular nuclear complex [Term] id: UBERON:0002585 name: central tegmental tract of midbrain namespace: uberon xref: FMA:72456 xref: NIF_GrossAnatomy:birnlex_1081 xref: SCTID:369243000 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002586 name: calcarine sulcus namespace: uberon def: "The calcarine fissure is an anatomical landmark located at the caudal end of the medial surface of the brain. [WP,unvetted]." [Wikipedia:Calcarine_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calcarine fissure" EXACT [FMA:83749] synonym: "sulcus calcarinus" EXACT [NIF_GrossAnatomy:birnlex_1086] xref: BM:Tel-Cx-CAS xref: FMA:83749 xref: NIF_GrossAnatomy:birnlex_1086 xref: SCTID:279355005 xref: UMLS:C0228224 xref: ncithesaurus:Calcarine_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002587 name: nucleus subceruleus namespace: uberon synonym: "nucleus subcaeruleus" EXACT LATIN [FMA:72479, FMA:TA] synonym: "subcaerulean nucleus" EXACT [FMA:72479] synonym: "subceruleus nucleus" EXACT [] synonym: "subcoeruleus nucleus" EXACT [] xref: ABA:SLC xref: FMA:72479 xref: NIF_GrossAnatomy:birnlex_1088 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002047 property_value: spatially_disjoint_from UBERON:0002148 property_value: spatially_disjoint_from UBERON:0002267 property_value: spatially_disjoint_from UBERON:0003004 [Term] id: UBERON:0002588 name: decussation of superior cerebellar peduncle namespace: uberon alt_id: UBERON:0003032 def: "Regional part of superior cerebellar peduncle located in the caudal midbrain, at the level of the inferior colliculus, consisting of a large bundle of fibers crossing the midline. It contains fibers projecting from the deep cerebellar nucleus to the midbrain and thalamus through the superior cerebellar peduncle (MM). The decussation of superior cerebellar peduncle is the portion of the superior cerebellar peduncle which crosses into the midbrain. [WP,unvetted]." [NIF_GrossAnatomy:birnlex_1089, Wikipedia:Decussation_of_superior_cerebellar_peduncle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Wernekink's decussation" EXACT [FMA:72455] synonym: "decussatio pedunculorum cerebellarium superiorum" EXACT LATIN [FMA:72455, FMA:TA] synonym: "decussation of brachium conjunctivum" EXACT [FMA:72455] synonym: "decussation of superior cerebellar peduncles" EXACT [FMA:72455] synonym: "superior cerebellar peduncle decussation" EXACT [FMA:72455] xref: BM:BCX xref: FMA:72455 xref: NIF_GrossAnatomy:birnlex_1089 xref: SCTID:369252009 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/26/Gray711.png/200px-Gray711.png is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007418 ! decussation of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum relationship: part_of UBERON:0002150 ! superior cerebellar peduncle [Term] id: UBERON:0002589 name: lateral corticospinal tract namespace: uberon def: "The lateral corticospinal tract (also called the crossed pyramidal tract or lateral cerebrospinal fasciculus) is the largest part of the corticospinal tract. It extends throughout the entire length of the medulla spinalis, and on transverse section appears as an oval area in front of the posterior column and medial to the posterior spinocerebellar tract. Its fibres arise from cells in the motor area of the cerebral hemisphere of the opposite side. They pass downward in company with those of the anterior corticospinal tract through the same side of the brain as that from which they originate, but they cross to the opposite side in the medulla oblongata and descend in the lateral funiculus of the medulla spinalis. The lateral corticospinal tract controls movement of contralateral limbs. Control of more central axial and girdle muscles comes from the anterior corticospinal tract. [WP,unvetted]." [Wikipedia:Lateral_corticospinal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral pyramidal tract" EXACT [FMA:72635] synonym: "tractus corticospinalis lateralis, fasciculus cerebrospinalis lateralis" RELATED LATIN [Wikipedia:Lateral_corticospinal_tract] xref: FMA:72635 xref: NIF_GrossAnatomy:birnlex_1095 xref: SCTID:369091005 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Spinal_cord_tracts_-_English.svg is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002590 name: prepyriform area namespace: uberon synonym: "(pre-)piriform cortex" EXACT [NIF_GrossAnatomy:birnlex_1097] synonym: "gyrus olfactorius lateralis" EXACT LATIN [FMA:62484, FMA:TA] synonym: "lateral olfactory gyrus" EXACT [FMA:62484] synonym: "piriform cortex (price)" EXACT [] synonym: "piriform olfactory cortex" EXACT [NIF_GrossAnatomy:birnlex_1097] synonym: "prepiriform cortex" EXACT [FMA:62484] synonym: "prepyriform cortex" EXACT [FMA:62484] synonym: "pyriform area" EXACT [NIF_GrossAnatomy:birnlex_1097] xref: ABA:PIR xref: BM:Tel-PRP xref: FMA:62484 xref: NIF_GrossAnatomy:birnlex_1097 xref: SCTID:369104008 is_a: UBERON:0000064 ! organ part property_value: spatially_disjoint_from UBERON:0002266 property_value: spatially_disjoint_from UBERON:0002893 property_value: spatially_disjoint_from UBERON:0004069 [Term] id: UBERON:0002591 name: oral part of spinal trigeminal nucleus namespace: uberon xref: ABA:SPVO xref: FMA:235322 xref: NIF_GrossAnatomy:birnlex_1100 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001717 ! spinal nucleus of trigeminal nerve property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002162 property_value: spatially_disjoint_from UBERON:0002610 property_value: spatially_disjoint_from UBERON:0002864 property_value: spatially_disjoint_from UBERON:0002866 property_value: spatially_disjoint_from UBERON:0002873 property_value: spatially_disjoint_from UBERON:0007633 [Term] id: UBERON:0002592 name: juxtarestiform body namespace: uberon def: "The juxtarestiform body is a subdivision of the inferior cerebellar peduncle, which comprises both the juxtarestiform and restiform bodies. [WP,unvetted]." [Wikipedia:Juxtarestiform_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:72613 xref: NIF_GrossAnatomy:birnlex_1101 xref: SCTID:110687007 xref: http://upload.wikimedia.org/wikipedia/commons/f/fc/Gray677.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002593 name: orbital operculum namespace: uberon xref: FMA:74887 xref: NIF_GrossAnatomy:birnlex_1102 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010262 ! operculum of brain [Term] id: UBERON:0002594 name: dentatothalamic tract namespace: uberon def: "The dentatothalamic tract (or dentatorubrothalamic tract) is a tract which connects the dentate nucleus and the thalamus. [WP,unvetted]." [Wikipedia:Dentatothalamic_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dentatothalamic fibers" EXACT [FMA:72462] synonym: "tractus dentatothalamicus" RELATED LATIN [Wikipedia:Dentatothalamic_tract] xref: FMA:72462 xref: NIF_GrossAnatomy:birnlex_1104 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002595 name: orbital sulcus namespace: uberon def: "The inferior or orbital surface of the frontal lobe is concave, and rests on the orbital plate of the frontal bone. It is divided into four orbital gyri by a well-marked H-shaped orbital sulcus" [Wikipedia:Orbital_sulcus] synonym: "cruciate sulcus of campbell" EXACT [NIF_GrossAnatomy:birnlex_1112] synonym: "orbital sulci" EXACT PLURAL [FMA:83770] synonym: "sulci orbitalis" EXACT LATIN [] synonym: "sulcus orbitalis" EXACT [NIF_GrossAnatomy:birnlex_1112] xref: BM:Tel-Cx-ORS xref: FMA:83770 xref: NIF_GrossAnatomy:birnlex_1112 xref: SCTID:314143008 xref: UMLS:C0228206 xref: ncithesaurus:Orbital_Sulcus is_a: UBERON:0008334 ! subarachnoid sulcus [Term] id: UBERON:0002596 name: ventral posterior nucleus namespace: uberon def: "The ventral posterior nucleus is the somato-sensory relay nucleus in thalamus of the brain. [WP,unvetted]." [Wikipedia:Ventral_posterior_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus ventrales posteriores" EXACT [NIF_GrossAnatomy:birnlex_1116] synonym: "nucleus ventralis posterior" EXACT [NIF_GrossAnatomy:birnlex_1116] synonym: "ventral posterior thalamic nucleus" EXACT [FMA:62187] synonym: "ventrobasal complex" EXACT [FMA:62187] synonym: "ventrobasal nucleus" EXACT [FMA:62187] xref: BM:Die-Th-VPI xref: BTO:0004373 xref: BTO:0004374 xref: EV:0100209 xref: FMA:62187 xref: NIF_GrossAnatomy:birnlex_1116 xref: SCTID:279147005 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002776 ! ventral nuclear group [Term] id: UBERON:0002597 name: principal sensory nucleus of trigeminal nerve namespace: uberon def: "The principal sensory nucleus (or chief sensory nucleus of V) is a group of second order neurons which have cell bodies in the dorsal Pons. It receives information about discriminative sensation and light touch of the face as well as conscious proprioception of the jaw via first order neurons of CN V. Most of the sensory information crosses the midline and travels to the contralateral ventral posteriomedial (VPM) of the thalamus via the Ventral Trigeminothalamic Tract, but information of the oral cavity travels to the ipsilateral Ventral Posteriomedial (VPM) of the thalamus via the Dorsal Trigeminothalamic Tract. [WP,unvetted]." [GO:0021730, Wikipedia:Chief_sensory_nucleus] comment: GO has pontine nucleus as a child of trigeminal sensory nucleus, WP says this is a synonym, but we have a separate class for this - UBERON:0002151 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chief sensory nucleus" EXACT [FMA:54533] synonym: "main sensory nucleus" EXACT [FMA:54533] synonym: "main sensory nucleus of cranial nerve v" EXACT [] synonym: "pontine nucleus" RELATED INCONSISTENT [GO:0021740, Wikipedia:Trigeminal_nuclei] synonym: "principal sensory nucleus" EXACT [] synonym: "principal sensory nucleus of trigeminal nerve" EXACT [FMA:54533] synonym: "principal sensory trigeminal nucleus" EXACT [FMA:54533] synonym: "principal trigeminal nucleus" EXACT [FMA:54533] synonym: "superior trigeminal nucleus" EXACT [FMA:54533] synonym: "superior trigeminal sensory nucleus" EXACT [FMA:54533] synonym: "trigeminal V chief sensory nucleus" EXACT [MA:0002740] synonym: "trigeminal V principal sensory nucleus" EXACT [MA:0002740] synonym: "trigeminal nerve superior sensory nucleus" EXACT [FMA:54533] xref: ABA:PSV xref: BM:VP xref: EHDAA2:0004628 xref: EV:0100274 xref: FMA:54533 xref: MA:0002740 xref: NIF_GrossAnatomy:birnlex_1120 xref: SCTID:369031008 xref: UMLS:C0228701 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png xref: ncithesaurus:Principal_Sensory_Nucleus_of_the_Trigeminal_Nerve is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0004132 ! trigeminal sensory nucleus is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0003023 ! pontine tegmentum property_value: spatially_disjoint_from UBERON:0002128 property_value: spatially_disjoint_from UBERON:0006840 property_value: spatially_disjoint_from UBERON:0007634 [Term] id: UBERON:0002598 name: paracentral sulcus namespace: uberon synonym: "sulcus subcentralis medialis" EXACT [NIF_GrossAnatomy:birnlex_1121] xref: FMA:83762 xref: NIF_GrossAnatomy:birnlex_1121 xref: SCTID:369228002 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002599 name: medial olfactory gyrus namespace: uberon xref: FMA:74509 xref: NIF_GrossAnatomy:birnlex_1127 xref: SCTID:369103002 is_a: UBERON:0000200 ! gyrus [Term] id: UBERON:0002600 name: limbic lobe namespace: uberon def: "The limbic lobe (also known as the Cingulate) is a portion of the brain associated with functions such as olfaction and emotion. It contains parts of other lobes, including the frontal, parietal, and temporal. Its main components are the fornicate gyrus, the hippocampus, and the amygdala It is related to the term limbic system, but unlike that term, 'limbic lobe' is a part of the Terminologia Anatomica, and there is less disagreement over what is included in the 'limbic lobe' than there is over what is included in the 'limbic system'. [WP,unvetted]." [Wikipedia:Limbic_lobe] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fornicate gyrus" EXACT [FMA:72719] synonym: "grande lobe limbique of broca" EXACT [] synonym: "limbic lobe (carpenter)" EXACT [] synonym: "lobus limbicus" RELATED LATIN [Wikipedia:Limbic_lobe] xref: FMA:72719 xref: NIF_GrossAnatomy:birnlex_1128 xref: SCTID:279215006 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Human_brain_inferior-medial_view_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Human_brain_inferior-medial_view_description.JPG/200px-Human_brain_inferior-medial_view_description.JPG is_a: UBERON:0003022 ! lobe parts of cerebral cortex [Term] id: UBERON:0002601 name: fasciolar gyrus namespace: uberon def: "a small paired band that passes around the splenium of the corpus callosum from the lateral longitudinal stria to the dentate gyrus[Biology-Online]. A posterior and upward extension of the dentate gyrus, forming a transitional area between the dentate gyrus and the indusium griseum[BTO]." [BTO:0002497, http://www.biology-online.org/dictionary/Fasciolar_gyrus] comment: TODO - existing definitions, synonyms and relationships in existing AOs seem contradictory; to be resolved. We take the dentate gyrus relationship from BTO, and it is also implied by the FMA synonym. However, FMA says archiortex (embryonic archicortex corresponds to the cortex of the dentate gyrus and hippocampus) and NIF says limbic lobe (which is more general than hippocampus). ABA xref made on basis of BTO related synonym synonym: "fasciola cinerea" RELATED [BTO:0002497] synonym: "gyrus fasciolaris" RELATED [BTO:0002497] synonym: "retrosplenial gyrus of hippocampus" EXACT [FMA:61921] xref: ABA:FC xref: BTO:0002497 xref: FMA:61921 xref: NIF_GrossAnatomy:birnlex_1129 xref: SCTID:279210001 is_a: UBERON:0000200 ! gyrus property_value: spatially_disjoint_from UBERON:0001885 property_value: spatially_disjoint_from UBERON:0001954 [Term] id: UBERON:0002602 name: emboliform nucleus namespace: uberon def: "The emboliform nucleus lies immediately to the medial side of the nucleus dentatus, and partly covering its hilus. It is one among the four pairs of cerebellar nuclei, which are from lateral to medial: the dentate, interposed (emboliform and globose), and fastigial nuclei. These nuclei can be seen using the Weigert method staining. [WP,unvetted]." [Wikipedia:Emboliform_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior interposed nucleus" EXACT [FMA:72538] synonym: "anterior interpositus nucleus" EXACT [FMA:72538] synonym: "nucleus emboliformis" RELATED LATIN [Wikipedia:Emboliform_nucleus] synonym: "nucleus interpositus anterior" EXACT LATIN [FMA:72538, FMA:TA] xref: FMA:72538 xref: NIF_GrossAnatomy:birnlex_1135 xref: http://upload.wikimedia.org/wikipedia/commons/2/23/Gray707.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0008995 ! nucleus of cerebellar nuclear complex relationship: part_of UBERON:0002037 ! cerebellum relationship: part_of UBERON:0002130 ! cerebellar nuclear complex [Term] id: UBERON:0002603 name: paraterminal gyrus namespace: uberon def: "The paraterminal gyrus (subcallosal gyrus, peduncle of the corpus callosum) is a narrow lamina on the medial surface of the hemisphere in front of the lamina terminalis, behind the parolfactory area, and below the rostrum of the corpus callosum. It is continuous around the genu of the corpus callosum with the supracallosal gyrus. [WP,unvetted]." [Wikipedia:Paraterminal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus paraterminalis, gyrus subcallosus" RELATED LATIN [Wikipedia:Paraterminal_gyrus] synonym: "precommissural hippocampus" EXACT [FMA:61919] synonym: "subcallosal gyrus" EXACT [FMA:61919] xref: FMA:61919 xref: NIF_GrossAnatomy:birnlex_1138 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray732.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png is_a: UBERON:0002665 ! supracallosal gyrus [Term] id: UBERON:0002604 name: ventral nucleus of lateral lemniscus namespace: uberon def: "The lateral lemniscus is a tract of axons in the brainstem that carries information about sound from the cochlear nucleus to various brainstem nuclei and ultimately the contralateral inferior colliculus of the midbrain. Three distinct, primarily inhibitory, cellular groups are located interspersed within these fibers, and are thus named the nuclei of the lateral lemniscus. [WP,unvetted]." [Wikipedia:Ventral_nucleus_of_the_lateral_lemniscus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior nucleus of lateral lemniscus" EXACT [FMA:72484] synonym: "nucleus anterior lemnisci lateralis" EXACT LATIN [FMA:72484, FMA:TA] synonym: "nucleus of the lateral lemniscus, ventral part" EXACT [ABA:NLLv] synonym: "ventral nucleus of the lateral lemniscus" EXACT [FMA:72484] xref: ABA:NLLv xref: BM:LLV xref: FMA:72484 xref: NIF_GrossAnatomy:birnlex_1140 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/44/Lateral_lemniscus.PNG/200px-Lateral_lemniscus.PNG is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0006840 ! nucleus of lateral lemniscus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0003023 ! pontine tegmentum [Term] id: UBERON:0002605 name: precentral operculum namespace: uberon xref: FMA:74888 xref: NIF_GrossAnatomy:birnlex_1141 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010262 ! operculum of brain [Term] id: UBERON:0002606 name: neuropil namespace: uberon def: "A dense intricate feltwork of interwoven fine glial processes, fibrils, synaptic terminals, axons, and dendrites interspersed among the nerve cells of the central nervous system[MESH]" [MESH:A08.637.500, Wikipedia:Neuropil] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "neuropilus" RELATED LATIN [Wikipedia:Neuropil] xref: FBbt:00005139 xref: FMA:261269 xref: GAID:740 xref: MESH:A08.637.500 xref: NIF_GrossAnatomy:birnlex_1142 xref: NIF_Subcellular:sao205380252 xref: SCTID:67146008 xref: UMLS:C0228081 xref: ncithesaurus:Neuropil is_a: UBERON:0005162 ! multi cell component structure is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0002607 name: superior rostral sulcus namespace: uberon synonym: "sulcus rostralis superior" EXACT [NIF_GrossAnatomy:birnlex_1143] xref: FMA:83766 xref: NIF_GrossAnatomy:birnlex_1143 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002608 name: caudal part of ventral lateral nucleus namespace: uberon synonym: "dorsal part of ventral lateral posterior nucleus (jones)" EXACT [] synonym: "nucleus dorsooralis (van buren)" EXACT [NIF_GrossAnatomy:birnlex_1144] synonym: "nucleus lateralis intermedius mediodorsalis situs dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1144] synonym: "nucleus ventralis lateralis, pars caudalis" EXACT [NIF_GrossAnatomy:birnlex_1144] synonym: "ventral lateral nucleus, caudal part" EXACT [FMA:62194] synonym: "ventral lateral thalamic nucleus, caudal part" EXACT [FMA:62194] xref: FMA:62194 xref: NIF_GrossAnatomy:birnlex_1144 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0001925 ! ventral lateral nucleus [Term] id: UBERON:0002609 name: spinothalamic tract of midbrain namespace: uberon xref: FMA:72463 xref: NIF_GrossAnatomy:birnlex_1150 xref: SCTID:369090006 is_a: UBERON:0007702 ! tract of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum relationship: part_of UBERON:0007703 ! spinothalamic tract [Term] id: UBERON:0002610 name: cochlear nuclear complex namespace: uberon def: "The cochlear nuclei consist of: (a) the dorsal cochlear nucleus, corresponding to the tuberculum acusticum on the dorso-lateral surface of the inferior peduncle; and (b) the ventral or accessory cochlear nucleus, placed between the two divisions of the nerve, on the ventral aspect of the inferior peduncle. [WP,unvetted]." [Wikipedia:Cochlear_nuclei] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cochlear nuclei" EXACT [FMA:72240] synonym: "nuclei cochleares" RELATED LATIN [Wikipedia:Cochlear_nuclei] xref: ABA:CN xref: BM:Me-Co xref: EV:0100260 xref: FMA:72240 xref: NIF_GrossAnatomy:birnlex_1151 xref: UMLS:C0152411 xref: http://upload.wikimedia.org/wikipedia/commons/5/52/Gray691.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Gray691.png/200px-Gray691.png xref: ncithesaurus:Cochlear_Nuclei is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002162 property_value: spatially_disjoint_from UBERON:0002591 property_value: spatially_disjoint_from UBERON:0002864 property_value: spatially_disjoint_from UBERON:0002866 property_value: spatially_disjoint_from UBERON:0002873 property_value: spatially_disjoint_from UBERON:0007633 [Term] id: UBERON:0002611 name: obsolete node of ranvier namespace: uberon def: "." [Wikipedia:Node_of_ranvier] is_obsolete: true consider: FMA:67368 consider: GAID:748 consider: GO:0033268 consider: NIF_GrossAnatomy:birnlex_1152 consider: ncithesaurus:Node_of_Ranvier comment: in GO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ranvier node" EXACT [FMA:67368] synonym: "ranvier's node" EXACT [FMA:67368] [Term] id: UBERON:0002612 name: transverse orbital sulcus namespace: uberon synonym: "sulcus orbitalis transversus" EXACT [NIF_GrossAnatomy:birnlex_1155] xref: FMA:83771 xref: NIF_GrossAnatomy:birnlex_1155 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002613 name: globose nucleus namespace: uberon def: "The globose nucleus is one of the deep cerebellar nuclei. It is located medial to the emboliform nucleus and lateral to the fastigial nucleus. This nucleus contains primarily large and small multipolar neurons. The globose nucleus and emboliform nucleus are occasionally referred to collectively as the interposed nucleus. [WP,unvetted]." [Wikipedia:Globose_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus globosus" RELATED LATIN [Wikipedia:Globose_nucleus] synonym: "nucleus interpositus posterior" EXACT LATIN [FMA:72536, FMA:TA] synonym: "posterior interposed nucleus" EXACT [FMA:72536] synonym: "posterior interpositus nucleus" EXACT [FMA:72536] xref: FMA:72536 xref: NIF_GrossAnatomy:birnlex_1158 xref: http://upload.wikimedia.org/wikipedia/commons/2/23/Gray707.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0008995 ! nucleus of cerebellar nuclear complex relationship: part_of UBERON:0002130 ! cerebellar nuclear complex [Term] id: UBERON:0002614 name: medial part of ventral lateral nucleus namespace: uberon synonym: "nucleus ventralis lateralis thalami, pars medialis" EXACT [NIF_GrossAnatomy:birnlex_1159] synonym: "nucleus ventrooralis medialis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1159] synonym: "ventral lateral nucleus, medial part" EXACT [FMA:62195] synonym: "ventral medial nucleus" EXACT [FMA:62195] synonym: "ventral medial nucleus of thalamus" EXACT [NIF_GrossAnatomy:birnlex_1159] xref: ABA:VM xref: BM:Die-Th-VM xref: FMA:62195 xref: NIF_GrossAnatomy:birnlex_1159 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0001925 ! ventral lateral nucleus [Term] id: UBERON:0002615 name: ventral tegmental decussation namespace: uberon synonym: "anterior tegmental decussation" EXACT [FMA:72452] synonym: "decussatio tegmentalis anterior" EXACT LATIN [FMA:72452, FMA:TA] synonym: "decussation of forel" EXACT [] synonym: "ventral tegmental decussation of forel" EXACT [] xref: FMA:72452 xref: NIF_GrossAnatomy:birnlex_1163 xref: SCTID:369249001 is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007418 ! decussation of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002616 name: regional part of brain namespace: uberon def: "A multi-tissue structure that is part of a brain [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "anatomical structure of brain" EXACT [OBOL:automatic] synonym: "biological structure of brain" EXACT [OBOL:automatic] synonym: "brain anatomical structure" EXACT [OBOL:automatic] synonym: "brain biological structure" EXACT [OBOL:automatic] synonym: "brain part" EXACT [] synonym: "neuraxis segment" EXACT [FMA:55676] synonym: "segment of brain" EXACT [NIF_GrossAnatomy:birnlex_1167] xref: FMA:55676 xref: NIF_GrossAnatomy:birnlex_1167 xref: SCTID:384763002 xref: UMLS:C0445620 xref: ncithesaurus:Brain_Part is_a: UBERON:0000073 ! regional part of nervous system intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0000955 ! brain [Term] id: UBERON:0002617 name: pars postrema of ventral lateral nucleus namespace: uberon synonym: "nucleus dorsointermedius externus magnocellularis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1170] synonym: "nucleus lateralis intermedius mediodorsalis situs postremus" EXACT [NIF_GrossAnatomy:birnlex_1170] synonym: "nucleus ventralis lateralis thalami, pars postrema" EXACT [NIF_GrossAnatomy:birnlex_1170] synonym: "posterodorsal part of ventral lateral posterior nucleus (jones)" EXACT [] synonym: "ventral lateral nucleus (pars postrema)" EXACT [FMA:62196] xref: FMA:62196 xref: NIF_GrossAnatomy:birnlex_1170 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0001925 ! ventral lateral nucleus [Term] id: UBERON:0002618 name: trochlear nerve fibers namespace: uberon alt_id: UBERON:0002674 synonym: "central part of trochlear nerve" EXACT [FMA:71116] synonym: "trochlear nerve fibers" EXACT [FMA:71116] synonym: "trochlear nerve root" EXACT [FMA:71116] synonym: "trochlear nerve tract" EXACT [FMA:71116] xref: FMA:71116 xref: NIF_GrossAnatomy:birnlex_1172 is_a: UBERON:0006843 ! root of cranial nerve [Term] id: UBERON:0002619 name: regional part of cerebral cortex namespace: uberon alt_id: UBERON:0003208 def: "A regional part of brain that is part of a cerebral cortex [Automatically generated definition]." [OBOL:automatic] comment: todo - check MA term subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "cerebral cortex part" EXACT [] synonym: "cerebral cortex region" RELATED [MA:0000187] synonym: "neocortex region" EXACT [MA:0000187] synonym: "region of cerebral cortex" EXACT [FMA:242193] synonym: "segment of cerebral cortex" NARROW [NIF_GrossAnatomy:birnlex_1173] xref: FMA:242193 xref: MA:0000187 xref: NIF_GrossAnatomy:birnlex_1173 xref: SCTID:119408004 is_a: UBERON:0002791 ! regional part of telencephalon intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0002620 name: tuber cinereum namespace: uberon def: "The tuber cinereum is a hollow eminence of gray matter situated between the mammilary bodies and the optic chiasm. The tuber cinereum is part of the hypothalamus. [WP,unvetted]." [Wikipedia:Tuber_cinereum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:62327 xref: GAID:649 xref: MESH:A08.186.211.730.385.357.352.870 xref: NIF_GrossAnatomy:birnlex_1189 xref: SCTID:362381006 xref: UMLS:C0041283 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray724.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray724.png/200px-Gray724.png xref: ncithesaurus:Tuber_Cinereum is_a: UBERON:0000477 ! anatomical cluster [Term] id: UBERON:0002621 name: regional part of cochlear nuclear complex namespace: uberon def: "A regional part of brain that is part of a cochlear nuclear complex [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "cochlear nuclear complex segment" EXACT [FMA:83952] synonym: "segment of cochlear nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_1195] xref: FMA:83952 xref: NIF_GrossAnatomy:birnlex_1195 is_a: UBERON:0002678 ! regional part of medulla oblongata intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002610 ! cochlear nuclear complex [Term] id: UBERON:0002622 name: preoptic periventricular nucleus namespace: uberon def: "The preoptic periventricular nucleus is located along the midline and is medial to the medial preoptic nucleus.[WP,unvetted]." [Wikipedia:Preoptic_area#Preoptic_periventricular_nucleus] synonym: "nucleus preopticus periventricularis" EXACT LATIN [FMA:62324, FMA:TA] synonym: "periventricular preoptic nucleus" EXACT [FMA:62324] synonym: "preoptic periventricular hypothalamic nucleus" EXACT [FMA:62324] xref: FMA:62324 xref: NIF_GrossAnatomy:birnlex_1201 xref: SCTID:369127000 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007251 ! preoptic nucleus relationship: part_of UBERON:0001928 ! preoptic area [Term] id: UBERON:0002623 name: cerebral peduncle namespace: uberon def: "The cerebral peduncle, by most classifications, is everything in the mesencephalon except the tectum. The region includes the midbrain tegmentum, crus cerebri, substantia nigra and pretectum. By this definition, the cerebral peduncles are also known as the basis pedunculi, while the large ventral bundle of efferent fibers is referred to as the crus cerebri or the pes pedunculi There are numerous nerve tracts located within this section of the brainstem. Of note, in the cerebral peduncular loop fibers from motor areas of the brain project to the cerebral peduncle and then project to various thalamic nuclei. In as much as the peduncles are an anatomic landmark, for details regarding the function of this area interested readers are referred to the individual referenced articles. On a broad scale, though, this area contains many nerve tracts conveying motor information to and from the brain to the rest of the body. Important fibers running through the cerebral peduncles include the corticospinal tract and the corticobulbar tract, among others. [WP,unvetted]." [Wikipedia:Cerebral_peduncle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebral peduncle" EXACT [FMA:62394] synonym: "peduncle of midbrain" EXACT [FMA:62394] synonym: "pedunculus cerebri" EXACT LATIN [FMA:62394, FMA:TA, Wikipedia:Cerebral_peduncle] xref: BM:CP xref: BTO:0004676 xref: EFO:0001987 xref: FMA:62394 xref: NIF_GrossAnatomy:birnlex_1202 xref: SCTID:362391000 xref: UMLS:C0007793 xref: http://upload.wikimedia.org/wikipedia/commons/e/e9/Gray689.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e9/Gray689.png/200px-Gray689.png xref: ncithesaurus:Cerebral_Peduncle is_a: UBERON:0007417 ! peduncle of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0001943 ! midbrain tegmentum relationship: has_part UBERON:0002038 ! substantia nigra [Term] id: UBERON:0002624 name: orbital part of inferior frontal gyrus namespace: uberon synonym: "inferior frontal gyrus, orbital part" EXACT [FMA:61982] synonym: "pars orbitalis gyri frontalis inferioris" EXACT [NIF_GrossAnatomy:birnlex_1207] xref: FMA:61982 xref: NIF_GrossAnatomy:birnlex_1207 xref: UMLS:C0262300 xref: ncithesaurus:Orbital_Part_of_the_Inferior_Frontal_Gyrus is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0002625 name: median preoptic nucleus namespace: uberon def: "The median preoptic nucleus is located along the midline in a position significantly dorsal to the other 3 preoptic nuclei, at least in the macaca fascicularis brain. It wraps around the top (dorsal), front, and bottom (ventral) surfaces of the anterior commissure. The median preoptic nucleus generates thirst. Drinking decreases noradrenaline release in the median preoptic nucleus." [Wikipedia:Preoptic_area#Median_preoptic_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: ABA:MEPO xref: BM:MPO xref: FMA:62323 xref: NIF_GrossAnatomy:birnlex_1208 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007251 ! preoptic nucleus relationship: capable_of GO:0048243 ! norepinephrine secretion relationship: capable_of GO:2000070 ! regulation of response to water deprivation relationship: part_of UBERON:0001928 ! preoptic area property_value: spatially_disjoint_from UBERON:0001934 property_value: spatially_disjoint_from UBERON:0002034 property_value: spatially_disjoint_from UBERON:0002219 property_value: spatially_disjoint_from UBERON:0002689 property_value: spatially_disjoint_from UBERON:0002690 property_value: spatially_disjoint_from UBERON:0007626 [Term] id: UBERON:0002626 name: head of caudate nucleus namespace: uberon synonym: "caput (caudatus)" EXACT [FMA:61852] synonym: "caudate nuclear head" EXACT [FMA:61852] xref: EMAPA:18547 xref: FMA:61852 xref: NIF_GrossAnatomy:birnlex_1212 xref: SCTID:279298007 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0001873 ! caudate nucleus [Term] id: UBERON:0002627 name: capsule of medial geniculate body namespace: uberon synonym: "capsula corporis geniculati medialis" EXACT [NIF_GrossAnatomy:birnlex_1214] synonym: "medial geniculate body capsule" EXACT [FMA:62049] xref: FMA:62049 xref: NIF_GrossAnatomy:birnlex_1214 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0001927 ! medial geniculate body [Term] id: UBERON:0002628 name: tail of caudate nucleus namespace: uberon synonym: "caudate nuclear tail" EXACT [FMA:61854] xref: EMAPA:18548 xref: FMA:61854 xref: NIF_GrossAnatomy:birnlex_1215 xref: SCTID:279299004 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0001873 ! caudate nucleus [Term] id: UBERON:0002629 name: triangular part of inferior frontal gyrus namespace: uberon synonym: "pars triangularis gyri frontalis inferioris" EXACT [NIF_GrossAnatomy:birnlex_1216] xref: FMA:61980 xref: NIF_GrossAnatomy:birnlex_1216 xref: UMLS:C0262350 xref: ncithesaurus:Triangular_Part_of_the_Inferior_Frontal_Gyrus is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0002630 name: body of caudate nucleus namespace: uberon synonym: "caudate nuclear body" EXACT [FMA:61853] synonym: "corpus (caudatus)" EXACT [FMA:61853] xref: FMA:61853 xref: NIF_GrossAnatomy:birnlex_1217 xref: SCTID:314175006 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0001873 ! caudate nucleus [Term] id: UBERON:0002631 name: cerebral crus namespace: uberon def: "The cerebral crus is the anterior portion of the cerebral peduncle which contains the motor tracts, the plural of which is cerebral crura. In some older texts, it is used as a synonym for the entire cerebral peduncle, not just the anterior portion of it. [WP,unvetted]." [Wikipedia:Cerebral_crus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "base of cerebral peduncle" RELATED [BTO:0004677] synonym: "cerebral peduncle (clinical definition)" EXACT [FMA:72464] synonym: "crura cerebri" EXACT [MA:0001056] synonym: "crus cerebri" EXACT LATIN [BTO:0004677, EV:0100243, Wikipedia:Cerebral_crus] xref: BTO:0004677 xref: EV:0100243 xref: FMA:72464 xref: MA:0001056 xref: NIF_GrossAnatomy:birnlex_1218 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Cn3nucleus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png xref: ncithesaurus:Crus_Cerebri is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter relationship: in_lateral_side_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0002623 ! cerebral peduncle [Term] id: UBERON:0002632 name: medial part of medial mammillary nucleus namespace: uberon synonym: "medial mammillary nucleus (carpenter)" EXACT [] synonym: "medial mammillary nucleus, medial part" EXACT [FMA:62345] synonym: "medial mammillary nucleus, median part" EXACT [FMA:62345] synonym: "medial subdivision of medial mammillary nucleus" EXACT [FMA:62345] xref: ABA:Mmme xref: FMA:62345 xref: NIF_GrossAnatomy:birnlex_1220 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002633 name: motor nucleus of trigeminal nerve namespace: uberon def: "The trigeminal motor nucleus contains motor neurons that innervate muscles of the first branchial arch, namely the muscles of mastication, the tensor tympani, tensor veli palatini, mylohyoid, and anterior belly of the digastric." [Wikipedia:Trigeminal_motor_nucleus] comment: note this in ZFA this is part of the medulla; pons is a dubious structure for zebrafish subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "motor nucleus V" EXACT [ZFA:0001365] synonym: "motor nucleus of cranial nerve v" EXACT [] synonym: "motor nucleus of trigeminal nerve" EXACT [FMA:54562] synonym: "motor trigeminal nucleus" EXACT [BTO:0001075] synonym: "nV" EXACT [ZFA:0001365] synonym: "nucleus motorius nervi trigemini" EXACT LATIN [FMA:54562, FMA:TA, Wikipedia:Trigeminal_motor_nucleus] synonym: "trigeminal V motor nucleus" EXACT [MA:0001029] synonym: "trigeminal motor nuclei" EXACT PLURAL [TAO:0001365] synonym: "trigeminal motor nucleus" EXACT [ZFA:0001365] xref: ABA:V xref: BM:Vm xref: BTO:0001075 xref: EV:0100273 xref: FMA:54562 xref: MA:0001029 xref: NIF_GrossAnatomy:birnlex_1222 xref: SCTID:38390003 xref: TAO:0001365 xref: UMLS:C0228700 xref: VHOG:0001355 xref: ZFA:0001365 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png xref: ncithesaurus:Motor_Nucleus_of_the_Trigeminal_Nerve is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0002925 ! trigeminal nucleus is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons relationship: part_of UBERON:0002925 ! trigeminal nucleus relationship: part_of UBERON:0003023 ! pontine tegmentum property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002634 name: anterior nucleus of hypothalamus namespace: uberon def: "The Anterior hypothalamic nucleus is a nucleus of the hypothalamus. Its function is thermoregulation (the maintenance of body temperature between certain parameters) of the body. [WP,unvetted]." [Wikipedia:Anterior_hypothalamic_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior hypothalamic area" EXACT [FMA:62319] synonym: "anterior hypothalamic nucleus" EXACT [FMA:62319] synonym: "area hypothalamica rostralis" EXACT LATIN [FMA:62319, FMA:TA] synonym: "fundamental gray substance" EXACT [FMA:62319] synonym: "nucleus anterior hypothalami" RELATED LATIN [BTO:0002450, Wikipedia:Anterior_hypothalamic_nucleus] synonym: "parvocellular nucleus of hypothalamus" EXACT [FMA:62319] xref: ABA:AHN xref: BM:Die-Hy-HAA xref: BTO:0002450 xref: EV:0100231 xref: FMA:62319 xref: GAID:642 xref: MESH:A08.186.211.730.385.357.342.063 xref: NIF_GrossAnatomy:birnlex_1226 xref: SCTID:369133009 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/HypothalamicNuclei.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8c/HypothalamicNuclei.PNG/200px-HypothalamicNuclei.PNG is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007251 ! preoptic nucleus relationship: part_of UBERON:0001928 ! preoptic area property_value: spatially_disjoint_from UBERON:0001935 property_value: spatially_disjoint_from UBERON:0002035 property_value: spatially_disjoint_from UBERON:0002206 property_value: spatially_disjoint_from UBERON:0002706 [Term] id: UBERON:0002635 name: regional part of midbrain tegmentum namespace: uberon def: "A multi-tissue structure that is part of a midbrain tegmentum." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "midbrain tegmentum segment" EXACT [FMA:62399] synonym: "segment of midbrain tegmentum" EXACT [NIF_GrossAnatomy:birnlex_1227] xref: FMA:62399 xref: NIF_GrossAnatomy:birnlex_1227 is_a: UBERON:0002950 ! regional part of midbrain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002636 name: lateral pulvinar nucleus namespace: uberon synonym: "lateral pulvinar nucleus of thalamus" EXACT [FMA:62181] synonym: "nucleus pulvinaris lateralis" EXACT [NIF_GrossAnatomy:birnlex_1228] synonym: "nucleus pulvinaris lateralis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1228] synonym: "nucleus pulvinaris lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1228] synonym: "nucleus pulvinaris thalami, pars lateralis" EXACT [NIF_GrossAnatomy:birnlex_1228] xref: BM:Die-Th-Pl-Pll xref: FMA:62181 xref: NIF_GrossAnatomy:birnlex_1228 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002637 name: ventral anterior nucleus namespace: uberon def: "The ventral anterior nucleus is a nucleus of the thalamus. [WP,unvetted]." [Wikipedia:Ventral_anterior_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus lateropolaris" EXACT [NIF_GrossAnatomy:birnlex_1232] synonym: "nucleus ventralis anterior" EXACT [NIF_GrossAnatomy:birnlex_1232] synonym: "nucleus ventralis anterior thalami" EXACT LATIN [NIF_GrossAnatomy:birnlex_1232, Wikipedia:Ventral_anterior_nucleus] synonym: "nucleus ventralis thalami anterior" EXACT [NIF_GrossAnatomy:birnlex_1232] synonym: "ventral anterior nucleus of thalamus" EXACT [FMA:62184] synonym: "ventral anterior thalamic nucleus" EXACT [FMA:62184] synonym: "ventroanterior nucleus of the thalamus" EXACT [] synonym: "ventroanterior thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1232] xref: BM:Die-Th-VA xref: BTO:0002468 xref: EV:0100199 xref: FMA:62184 xref: NIF_GrossAnatomy:birnlex_1232 xref: SCTID:279131008 xref: UMLS:C0175276 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png xref: ncithesaurus:Ventroanterior_Nucleus_of_the_Thalamus is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0002638 name: medial pulvinar nucleus namespace: uberon synonym: "nucleus pulvinaris medialis" EXACT [NIF_GrossAnatomy:birnlex_1233] synonym: "nucleus pulvinaris medialis thalami" EXACT [NIF_GrossAnatomy:birnlex_1233] synonym: "nucleus pulvinaris thalami, pars medialis" EXACT [NIF_GrossAnatomy:birnlex_1233] xref: BM:Die-Th-Pl-Plm xref: FMA:62182 xref: NIF_GrossAnatomy:birnlex_1233 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002639 name: midbrain reticular formation namespace: uberon def: "A reticular formation that is part of a midbrain." [OBOL:automatic] synonym: "reticular formation of midbrain" EXACT [FMA:62406] synonym: "tegmental reticular formation" EXACT [FMA:62406] xref: BM:MB-MBRF xref: FMA:62406 xref: NIF_GrossAnatomy:birnlex_1235 xref: SCTID:369234009 is_a: UBERON:0002275 ! reticular formation is_a: UBERON:0002635 ! regional part of midbrain tegmentum relationship: has_part UBERON:0002142 ! pedunculopontine tegmental nucleus relationship: part_of UBERON:0001943 ! midbrain tegmentum intersection_of: UBERON:0002275 ! reticular formation intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0002640 name: cuneocerebellar tract namespace: uberon def: "The posterior external arcuate fibers (dorsal external arcuate fibers) take origin in the gracile and cuneate nuclei; they pass to the inferior peduncle of the same side. It is uncertain whether fibers are continued directly from the gracile and cuneate fasciculi into the inferior peduncle. The term 'cuneocerebellar tract' is sometimes used to collectively refer to the posterior external arcuate fibers. [WP,unvetted]." [Wikipedia:Cuneocerebellar_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cuneocerebellar fibers" EXACT [NIF_GrossAnatomy:birnlex_1238] xref: FMA:72637 xref: NIF_GrossAnatomy:birnlex_1238 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/98/Gray699.png/200px-Gray699.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002641 name: oral pulvinar nucleus namespace: uberon synonym: "anterior pulvinar nucleus" EXACT [FMA:62180] synonym: "nucleus pulvinaris anterior" EXACT LATIN [FMA:62180, FMA:TA] synonym: "nucleus pulvinaris oralis" EXACT [NIF_GrossAnatomy:birnlex_1239] synonym: "nucleus pulvinaris oralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1239] synonym: "oral nuclear group of pulvinar" EXACT [FMA:62180] synonym: "oral part of pulvinar" EXACT [FMA:62180] synonym: "oral portion of pulvinar" EXACT [FMA:62180] xref: BM:Die-Th-Pl-Pla xref: FMA:62180 xref: NIF_GrossAnatomy:birnlex_1239 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002642 name: cuneate fasciculus of medulla namespace: uberon def: "A cuneate fasciculus that is part of a medulla oblongata." [OBOL:automatic] comment: TODO - change definition to be the *whole* of the CF in the MO. isa parentage to fasciculus of brain should be inferred xref: FMA:72623 xref: NIF_GrossAnatomy:birnlex_1242 is_a: UBERON:0005838 ! fasciculus of brain is_a: UBERON:0007702 ! tract of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0005832 ! cuneate fasciculus intersection_of: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002643 name: decussation of medial lemniscus namespace: uberon def: "The sensory decussation or decussation of the lemniscus is a decussation or cross over of axons from the gracile nucleus and cuneate nucleus. The fibres of this decussation are called the internal arcuate fibres and are found at the superior aspect of the closed medulla superior to the motor decussation. It is part of the second neuron in the Posterior column-medial lemniscus pathway. [WP,unvetted]." [Wikipedia:Sensory_decussation] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "decussatio lemnisci medialis" RELATED LATIN [Wikipedia:Sensory_decussation] synonym: "decussation of lemnisci" EXACT [FMA:72622] synonym: "decussation of lemniscus" EXACT [FMA:72622] synonym: "decussation of medial lemnisci" EXACT [FMA:72622] synonym: "medial lemniscus decussation" EXACT [FMA:72622] synonym: "medullary sensory decussation" EXACT [FMA:72622] synonym: "sensory decussation" EXACT [FMA:72622] xref: BM:Me-LMX xref: FMA:72622 xref: NIF_GrossAnatomy:birnlex_1245 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Gray759.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Gray759.png/200px-Gray759.png is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007418 ! decussation of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002644 name: intermediate orbital gyrus namespace: uberon xref: FMA:80183 xref: NIF_GrossAnatomy:birnlex_1247 is_a: UBERON:0007193 ! orbital gyrus [Term] id: UBERON:0002645 name: densocellular part of medial dorsal nucleus namespace: uberon synonym: "nucleus medialis dorsalis paralamellaris (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1255] synonym: "nucleus medialis dorsalis, pars densocellularis" EXACT [NIF_GrossAnatomy:birnlex_1255] xref: FMA:62163 xref: NIF_GrossAnatomy:birnlex_1255 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002646 name: dorsal longitudinal fasciculus of medulla namespace: uberon def: "A dorsal longitudinal fasciculus that is part of a medulla [Automatically generated definition]." [OBOL:automatic] synonym: "bundle of Schutz of medulla" EXACT [OBOL:automatic] synonym: "fasciculus of Schutz of medulla" EXACT [OBOL:automatic] synonym: "medulla bundle of Schutz" EXACT [OBOL:automatic] synonym: "medulla dorsal longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "medulla fasciculus of Schutz" EXACT [OBOL:automatic] synonym: "medulla posterior longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "posterior longitudinal fasciculus of medulla" EXACT [OBOL:automatic] xref: FMA:72617 xref: NIF_GrossAnatomy:birnlex_1257 is_a: UBERON:0003045 ! dorsal longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata intersection_of: UBERON:0003045 ! dorsal longitudinal fasciculus intersection_of: part_of UBERON:0000958 ! medulla [Term] id: UBERON:0002647 name: magnocellular part of medial dorsal nucleus namespace: uberon synonym: "dorsomedial thalamic nucleus, magnocellular part" EXACT [FMA:62161] synonym: "magnocellular mediodorsal nucleus" EXACT [FMA:62161] synonym: "magnocellular nucleus of medial dorsal nucleus of thalamus" EXACT [FMA:62161] synonym: "magnocellular part of dorsomedial nucleus" EXACT [FMA:62161] synonym: "magnocellular part of mediodorsal nucleus" EXACT [NIF_GrossAnatomy:birnlex_1262] synonym: "nucleus medialis dorsalis, pars magnocellularis" EXACT [NIF_GrossAnatomy:birnlex_1262] synonym: "nucleus medialis fibrosus" EXACT [NIF_GrossAnatomy:birnlex_1262] synonym: "nucleus medialis fibrosus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1262] synonym: "pars magnocellularis nuclei mediodorsalis thalami" EXACT LATIN [FMA:62161, FMA:TA] xref: FMA:62161 xref: NIF_GrossAnatomy:birnlex_1262 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0002739 ! medial dorsal nucleus [Term] id: UBERON:0002648 name: anterior median eminence namespace: uberon xref: FMA:74870 xref: NIF_GrossAnatomy:birnlex_1264 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002197 ! median eminence of neurohypophysis [Term] id: UBERON:0002649 name: dorsolateral fasciculus of medulla namespace: uberon def: "." [Wikipedia:Lissauer's_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsolateral tract" EXACT [FMA:72616] synonym: "lissauer's tract" EXACT [FMA:72616] synonym: "posterolateral fasciculus" EXACT [FMA:72616] synonym: "posterolateral tract" EXACT [FMA:72616] synonym: "tract of lissauer" EXACT [] synonym: "tractus posterolateralis" EXACT LATIN [FMA:72616, FMA:TA] synonym: "zone of lissauer" EXACT [] xref: FMA:72616 xref: NIF_GrossAnatomy:birnlex_1267 xref: SCTID:369287009 xref: UMLS:C0228587 xref: ncithesaurus:Tract_of_Lissauer is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002650 name: paralaminar part of medial dorsal nucleus namespace: uberon synonym: "dorsomedial thalamic nucleus, paralaminar part" EXACT [FMA:62160] synonym: "mediodorsal thalamic nucleus, paralaminar part" EXACT [NIF_GrossAnatomy:birnlex_1276] synonym: "nucleus medialis dorsalis caudalis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1276] synonym: "nucleus medialis dorsalis thalami, pars multiformis" EXACT [NIF_GrossAnatomy:birnlex_1276] synonym: "nucleus medialis dorsalis, pars multiformis" EXACT [NIF_GrossAnatomy:birnlex_1276] synonym: "nucleus medialis dorsalis, pars paralaminaris" EXACT [NIF_GrossAnatomy:birnlex_1276] synonym: "paralaminar part of dorsomedial nucleus" EXACT [FMA:62160] synonym: "paralaminar part of medial dorsal nucleus of thalamus" EXACT [FMA:62160] synonym: "pars paralaminaris nuclei mediodorsalis thalami" EXACT LATIN [FMA:62160, FMA:TA] synonym: "pars paralaminaris of medial dorsal nucleus of thalamus" EXACT [FMA:62160] synonym: "ventral mediodorsal nucleus" EXACT [FMA:62160] xref: FMA:62160 xref: NIF_GrossAnatomy:birnlex_1276 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002651 name: anterior horn of lateral ventricle namespace: uberon def: "The anterior cornu (frontal horn, anterior horn; precornu) of the lateral ventricle passes forward and lateralward, with a slight inclination downward, from the interventricular foramen into the frontal lobe, curving around the anterior end of the caudate nucleus. Its floor is formed by the upper surface of the reflected portion of the corpus callosum, the rostrum. It is bounded medially by the anterior portion of the septum pellucidum, and laterally by the head of the caudate nucleus. Its apex reaches the posterior surface of the genu of the corpus callosum. [WP,unvetted]." [Wikipedia:Anterior_horn_of_lateral_ventricle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior horn of lateral ventricle" EXACT [FMA:74520] synonym: "cornu anterius" RELATED LATIN [Wikipedia:Anterior_horn_of_lateral_ventricle] synonym: "cornu anterius ventriculi lateralis" EXACT LATIN [FMA:74520, FMA:TA] synonym: "frontal horn of lateral ventricle" EXACT [FMA:74520] xref: FMA:74520 xref: NIF_GrossAnatomy:birnlex_1279 xref: SCTID:279247001 xref: UMLS:C0152281 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray735.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b7/Gray735.png/200px-Gray735.png xref: ncithesaurus:Frontal_Horn_of_the_Lateral_Ventricle is_a: UBERON:0002285 ! telencephalic ventricle is_a: UBERON:0004086 ! brain ventricle relationship: part_of UBERON:0002285 ! telencephalic ventricle [Term] id: UBERON:0002652 name: posterior median eminence namespace: uberon xref: FMA:74875 xref: NIF_GrossAnatomy:birnlex_1280 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002197 ! median eminence of neurohypophysis [Term] id: UBERON:0002653 name: gracile fasciculus of medulla namespace: uberon def: "A gracile fasciculus that is part of a medulla oblongata." [OBOL:automatic] synonym: "column of goll" EXACT [] synonym: "fasciculus of goll" EXACT [] synonym: "goll's tract" EXACT [FMA:72624] synonym: "gracile fascicle (gall)" EXACT [NIF_GrossAnatomy:birnlex_1282] synonym: "gracile fascicle of medulla" EXACT [FMA:72624] synonym: "medulla segment of fasciculus gracilis" EXACT [FMA:72624] synonym: "medulla segment of gracile fasciculus" EXACT [FMA:72624] synonym: "tract of gall" EXACT [] xref: FMA:72624 xref: NIF_GrossAnatomy:birnlex_1282 is_a: UBERON:0005838 ! fasciculus of brain is_a: UBERON:0007702 ! tract of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0005821 ! gracile fasciculus intersection_of: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002654 name: parvicellular part of medial dorsal nucleus namespace: uberon synonym: "dorsomedial thalamic nucleus, parvicellular part" EXACT [FMA:62162] synonym: "lateral mediodorsal nucleus" EXACT [FMA:62162] synonym: "lateral nucleus of medial dorsal nucleus of thalamus" EXACT [FMA:62162] synonym: "mediodorsal thalamic nucleus, pars fasciculosa" EXACT [NIF_GrossAnatomy:birnlex_1283] synonym: "nucleus medialis dorsalis fasciculosis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1283] synonym: "nucleus medialis dorsalis nucleus fasciculosis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1283] synonym: "nucleus medialis dorsalis, pars parvicellularis" EXACT [NIF_GrossAnatomy:birnlex_1283] synonym: "pars parvocellularis lateralis nuclei mediodorsalis thalami" EXACT LATIN [FMA:62162, FMA:TA] synonym: "pars principalis nuclei ventralis anterior thalami" EXACT LATIN [FMA:62162, FMA:TA] synonym: "parvicellular part of dorsomedial nucleus" EXACT [FMA:62162] synonym: "parvocellular nucleus of medial dorsal nucleus of thalamus" EXACT [FMA:62162] synonym: "principal division of ventral anterior nucleus of thalamus" EXACT [FMA:62162] xref: FMA:62162 xref: NIF_GrossAnatomy:birnlex_1283 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002655 name: body of lateral ventricle namespace: uberon def: "The body of lateral ventricle (cella) extends from the interventricular foramen to the splenium of the corpus callosum. It is an irregularly curved cavity, triangular on transverse section, with a roof, a floor, and a medial wall. The roof is formed by the under surface of the corpus callosum; the floor by the following parts, enumerated in their order of position, from before backward: the caudate nucleus of the corpus striatum, the stria terminalis and the terminal vein, the lateral portion of the upper surface of the thalamus, the choroid plexus, and the lateral part of the fornix; the medial wall is the posterior part of the septum pellucidum, which separates it from the opposite ventricle. [WP,unvetted]." [Wikipedia:Body_of_lateral_ventricle] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "central part of lateral ventricle" EXACT [FMA:83703] synonym: "lateral ventricular body" EXACT [FMA:83703] synonym: "pars centralis ventriculi lateralis" EXACT LATIN [FMA:83703, FMA:TA, Wikipedia:Body_of_lateral_ventricle] xref: FMA:83703 xref: NIF_GrossAnatomy:birnlex_1287 xref: SCTID:279246005 xref: UMLS:C0152280 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray735.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b7/Gray735.png/200px-Gray735.png xref: ncithesaurus:Body_of_the_Lateral_Ventricle is_a: UBERON:0002285 ! telencephalic ventricle is_a: UBERON:0004086 ! brain ventricle relationship: part_of UBERON:0002285 ! telencephalic ventricle [Term] id: UBERON:0002656 name: periamygdaloid area namespace: uberon synonym: "para-amygdaloid cortex" EXACT [FMA:62485] synonym: "periamygdaloid cortex" EXACT [FMA:62485] synonym: "periamygdaloid region" EXACT [FMA:62485] synonym: "semilunar gyrus" EXACT [FMA:62485] synonym: "ventral cortical nucleus of amygdala" EXACT [FMA:62485] xref: BM:Tel-Cx-PAM xref: FMA:62485 xref: NIF_GrossAnatomy:birnlex_1291 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002657 name: posterior parahippocampal gyrus namespace: uberon synonym: "parahippocampal gyrus (amaral)" EXACT [] synonym: "parahippocampal gyrus (insausti)" EXACT [NIF_GrossAnatomy:birnlex_1295] xref: FMA:67966 xref: NIF_GrossAnatomy:birnlex_1295 is_a: UBERON:0000200 ! gyrus [Term] id: UBERON:0002658 name: medial lemniscus of midbrain namespace: uberon def: "A medial lemniscus that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "midbrain medial lemniscus" EXACT [OBOL:automatic] xref: FMA:72461 xref: NIF_GrossAnatomy:birnlex_1296 is_a: UBERON:0002635 ! regional part of midbrain tegmentum is_a: UBERON:0003002 ! medial lemniscus relationship: part_of UBERON:0001943 ! midbrain tegmentum intersection_of: UBERON:0003002 ! medial lemniscus intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0002659 name: superior medullary velum namespace: uberon def: "The superior medullary velum (anterior medullary velum, valve of Vieussens) is a thin, transparent of white substance, which stretches between the superior cerebellar peduncles; on the dorsal surface of its lower half the folia and lingula are prolonged. It forms, together with the superior cerebellar peduncle, the roof of the upper part of the fourth ventricle; it is narrow above, where it passes beneath the inferior colliculi, and broader below, where it is continuous with the white substance of the superior vermis. A slightly elevated ridge, the fraenulum veli, descends upon its upper part from between the inferior colliculi, and on either side of this the trochlear nerve emerges. Blood is supplied by branches from the superior cerebellar artery. [WP,unvetted]." [Wikipedia:Superior_medullary_velum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior medullary velum" EXACT [FMA:74508] synonym: "velum medullare superius" RELATED LATIN [Wikipedia:Superior_medullary_velum] xref: FMA:74508 xref: NIF_GrossAnatomy:birnlex_1300 xref: SCTID:369269006 xref: http://upload.wikimedia.org/wikipedia/commons/9/9b/Gray701.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Gray701.png/200px-Gray701.png is_a: UBERON:0003035 ! regional part of cerebellar white matter [Term] id: UBERON:0002660 name: medial longitudinal fasciculus of midbrain namespace: uberon def: "A medial longitudinal fasciculus that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "midbrain medial longitudinal fasciculus" EXACT [OBOL:automatic] xref: FMA:72454 xref: NIF_GrossAnatomy:birnlex_1302 is_a: UBERON:0002309 ! medial longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum intersection_of: UBERON:0002309 ! medial longitudinal fasciculus intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0002661 name: superior frontal gyrus namespace: uberon def: "The superior frontal gyrus makes up about one-third of the frontal lobe of the human brain. It is bounded laterally by the superior frontal sulcus. The superior frontal gyrus, like the inferior frontal gyrus and the middle frontal gyrus, is more of a region than a true gyrus. [WP,unvetted]." [Wikipedia:Superior_frontal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus frontalis superior" RELATED LATIN [Wikipedia:Superior_frontal_gyrus] synonym: "marginal gyrus" EXACT [FMA:61857] synonym: "superior frontal convolution" EXACT [FMA:61857] xref: BTO:0004836 xref: EFO:0001991 xref: FMA:61857 xref: NIF_GrossAnatomy:birnlex_1303 xref: SCTID:279166005 xref: UMLS:C0152296 xref: http://upload.wikimedia.org/wikipedia/commons/5/50/Superior_frontal_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/50/Superior_frontal_gyrus.png/200px-Superior_frontal_gyrus.png xref: ncithesaurus:Superior_Frontal_Convolution is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0002662 name: medial pes lemniscus namespace: uberon synonym: "superficial pes lemniscus" EXACT [FMA:72460] xref: FMA:72460 xref: NIF_GrossAnatomy:birnlex_1310 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002663 name: septal nuclear complex namespace: uberon def: "The septal nuclei are structures in the middle anteroventral cerebrum that are composed of medium-size neurons grouped into medial, lateral, and posterior groups. The septal nuclei receive reciprocal connections from the olfactory bulb, hippocampus, amygdala, hypothalamus, midbrain, habenula, cingulate gyrus, and thalamus. The septal nuclei play a role in reward and reinforcement along with the nucleus accumbens. In the 1950s, Olds & Milner showed that rats with electrodes implanted in this area will self-stimulate repeatedly in order to experience a euphoric feeling (i.e. press a bar to receive electrical current that will stimulate the neurons). [WP,unvetted]." [Wikipedia:Septal_nuclei] comment: TODO - nucleus vs nuclear complex subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei septales" RELATED LATIN [Wikipedia:Septal_nuclei] synonym: "parolfactory nuclei" EXACT [FMA:61845] synonym: "septal nuclei" EXACT [FMA:61845] synonym: "septal nucleus" EXACT [MA:0002978] xref: EHDAA2:0004709 xref: FMA:61845 xref: GAID:637 xref: MA:0002978 xref: MESH:A08.186.211.577.750.800 xref: NIF_GrossAnatomy:birnlex_1313 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0000446 ! septum of telencephalon [Term] id: UBERON:0002664 name: lateral part of medial mammillary nucleus namespace: uberon synonym: "intercalated mammillary nucleus" EXACT [FMA:62346] synonym: "intermediate mammillary nucleus" EXACT [FMA:62346] synonym: "lateral mammillary nucleus (gagel)" EXACT [] synonym: "lateral subdivision of medial mammillary nucleus" EXACT [FMA:62346] synonym: "medial mammillary nucleus, lateral part" EXACT [FMA:62346] xref: FMA:62346 xref: NIF_GrossAnatomy:birnlex_1314 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002665 name: supracallosal gyrus namespace: uberon def: "The supracallosal gyrus (indusium griseum; gyrus epicallosus) consists of a thin layer of grey matter in contact with the dorsal surface of the corpus callosum and continuous laterally with the grey matter of the cingulate gyrus. It contains two longitudinally directed strands of fibers termed respectively the medial and lateral longitudinal striae. The supracallosal gyrus is prolonged around the splenium of the corpus callosum as a delicate lamina, the fasciola cinerea, which is continuous below with the fascia dentata hippocampi. [WP,unvetted]." [Wikipedia:Supracallosal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "supracommissural hippocampal rudiment" EXACT [FMA:61920] synonym: "supracommissural hippocampus" EXACT [FMA:61920] xref: BTO:0003738 xref: FMA:61920 xref: NIF_GrossAnatomy:birnlex_1316 xref: SCTID:369231001 is_a: UBERON:0000200 ! gyrus [Term] id: UBERON:0002666 name: mesencephalic tract of trigeminal nerve namespace: uberon synonym: "mesencephalic root of v" EXACT [] synonym: "mesencephalic trigeminal tract" EXACT [FMA:72489] xref: FMA:72489 xref: NIF_GrossAnatomy:birnlex_1318 xref: SCTID:369263007 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002667 name: lateral septal nucleus namespace: uberon synonym: "lateral parolfactory nucleus" EXACT [FMA:61878] synonym: "lateral septal nucleus (cajal)" EXACT [NIF_GrossAnatomy:birnlex_1321] synonym: "lateral septum" EXACT [NIF_GrossAnatomy:birnlex_1321] synonym: "lateral septum nucleus" EXACT [NIF_GrossAnatomy:birnlex_1321] xref: ABA:LS xref: BM:Tel-Spt-SLN xref: FMA:61878 xref: NIF_GrossAnatomy:birnlex_1321 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0001878 property_value: spatially_disjoint_from UBERON:0007630 [Term] id: UBERON:0002668 name: oculomotor nerve fibers namespace: uberon comment: todo - make subclass of root of cranial nerve synonym: "central part of oculomotor nerve" EXACT [FMA:72457] synonym: "oculomotor nerve fibers" EXACT [FMA:72457] synonym: "root of oculomotor nerve" EXACT [FMA:72457] xref: FMA:72457 xref: NIF_GrossAnatomy:birnlex_1323 is_a: UBERON:0002211 ! nerve root is_a: UBERON:0004732 ! segmental subdivision of nervous system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002669 name: anterior horizontal limb of lateral sulcus namespace: uberon synonym: "anterior branch of lateral sulcus" EXACT [FMA:83760] synonym: "anterior horizontal limb of lateral fissure" EXACT [FMA:83760] synonym: "anterior horizontal ramus of lateral fissure" EXACT [FMA:83760] synonym: "anterior ramus of lateral cerebral sulcus" EXACT [FMA:83760] synonym: "horizontal limb of lateral fissure" EXACT [FMA:83760] synonym: "horizontal ramus of sylvian fissure" EXACT [] synonym: "ramus anterior sulci lateralis cerebri" EXACT LATIN [FMA:83760, FMA:TA] xref: FMA:83760 xref: NIF_GrossAnatomy:birnlex_1327 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002670 name: anterior ascending limb of lateral sulcus namespace: uberon synonym: "anterior ascending limb of lateral fissure" EXACT [FMA:83759] synonym: "anterior ascending ramus of lateral sulcus" EXACT [FMA:83759] synonym: "ascending branch of lateral sulcus" EXACT [FMA:83759] synonym: "ascending ramus of lateral cerebral sulcus" EXACT [FMA:83759] synonym: "ascending ramus of sylvian fissure" EXACT [] synonym: "middle ramus of lateral fissure" EXACT [FMA:83759] synonym: "ramus ascendens sulci lateralis cerebri" EXACT LATIN [FMA:83759, FMA:TA] synonym: "superior branch of lateral fissure" EXACT [FMA:83759] xref: FMA:83759 xref: NIF_GrossAnatomy:birnlex_1330 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002671 name: pallidotegmental fasciculus namespace: uberon synonym: "pallidotegmental tract" EXACT [FMA:72458] xref: FMA:72458 xref: NIF_GrossAnatomy:birnlex_1331 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002672 name: anterior subcentral sulcus namespace: uberon xref: FMA:83765 xref: NIF_GrossAnatomy:birnlex_1332 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002673 name: vestibular nuclear complex namespace: uberon def: "The vestibular nuclei are the cranial nuclei for the vestibular nerve. [WP,unvetted]." [Wikipedia:Vestibular_nuclei, http://www.sciencedirect.com/science/article/pii/S0079612305510069, https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3413105&group_id=36855] comment: Editor notes: In TA they are grouped in both the pons and medulla; WP+MA says the SVN is in the pons, and GO includes VNC development under pons development, but this is not supported by ABA. Todo - check with NIF subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei vestibulares" RELATED LATIN [Wikipedia:Vestibular_nuclei] synonym: "nuclei vestibulares in medulla oblongata" EXACT LATIN [FMA:72239, FMA:TA] synonym: "vestibular nuclei" EXACT [FMA:72239] synonym: "vestibular nuclei in medulla oblongata" EXACT [FMA:72239] synonym: "vestibular nucleus" RELATED [GO:0021750] xref: ABA:VNC xref: BM:Me-VS xref: BTO:0004368 xref: EV:0100254 xref: FMA:72239 xref: GAID:602 xref: MESH:A08.186.211.132.810.428.600.800 xref: NIF_GrossAnatomy:birnlex_1337 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Gray691.png/200px-Gray691.png is_a: UBERON:0000125 ! neural nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata relationship: part_of UBERON:0004681 ! vestibular system property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002675 name: diagonal sulcus namespace: uberon xref: FMA:83758 xref: NIF_GrossAnatomy:birnlex_1344 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002676 name: ventral supraoptic decussation namespace: uberon def: "The ventral supraoptic decussation is the crossover point for signals from the left and right eye, en route respectively to the right and left sides of the visual cortex. Occupying the posterior part of the commissure of the optic chiasma is a strand of fibers, the Ventral supraoptic decussation (commissure of Gudden, Gudden's inferior commissure), which is not derived from the optic nerves; it forms a connecting link between the medial geniculate bodies. [WP,unvetted]." [Wikipedia:Ventral_supraoptic_decussation] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Gudden commissure" EXACT [FMA:62052] synonym: "Gudden's commissure" EXACT [FMA:62052] synonym: "VSOX" EXACT [NIF_GrossAnatomy:birnlex_1347] synonym: "commissura supraoptica ventralis" EXACT LATIN [FMA:62052, FMA:TA, Wikipedia:Ventral_supraoptic_decussation] synonym: "commissure of Gudden" EXACT [NIF_GrossAnatomy:birnlex_1347] synonym: "supraoptic commissures, ventral" EXACT [FMA:62052] synonym: "ventral supra-optic commissure" EXACT [FMA:62052] synonym: "ventral supraoptic commissure (of Meynert)" EXACT [NIF_GrossAnatomy:birnlex_1347] synonym: "ventral supraoptic decussation" EXACT [NIF_GrossAnatomy:birnlex_1347] synonym: "ventral supraoptic decussation of gudden" RELATED [FMA:62052] synonym: "von Gudden's commissure" EXACT [FMA:62052] xref: FMA:62052 xref: NIF_GrossAnatomy:birnlex_1347 xref: http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c0/Gray722.png/200px-Gray722.png is_a: UBERON:0001020 ! commissure is_a: UBERON:0011590 ! commissure of diencephalon relationship: part_of UBERON:0002550 ! anterior hypothalamic region [Term] id: UBERON:0002677 name: regional part of medullary raphe nuclear complex namespace: uberon def: "A regional part of brain that is part of a medullary raphe nuclear complex [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "medullary raphe nuclear complex segment" EXACT [FMA:83951] synonym: "segment of medullary raphe nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_1349] xref: FMA:83951 xref: NIF_GrossAnatomy:birnlex_1349 is_a: UBERON:0002678 ! regional part of medulla oblongata intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002692 ! medullary raphe nuclear complex [Term] id: UBERON:0002678 name: regional part of medulla oblongata namespace: uberon def: "A regional part of brain that is part of a medulla oblongata [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "medullary oblongata segment" EXACT [FMA:71011] synonym: "segment of medulla oblongata" EXACT [NIF_GrossAnatomy:birnlex_1355] xref: FMA:71011 xref: NIF_GrossAnatomy:birnlex_1355 xref: SCTID:119241003 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002679 name: anterodorsal nucleus namespace: uberon synonym: "anterodorsal nucleus of thalamus" EXACT [FMA:62141] synonym: "anterodorsal nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "anterodorsal thalamic nucleus" EXACT [FMA:62141] synonym: "nucleus anterior dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterior dorsalis thalami" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterior thalami dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterodorsalis" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterodorsalis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterodorsalis thalami" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus anterosuperior" EXACT [NIF_GrossAnatomy:birnlex_1358] synonym: "nucleus thalamicus anterodorsalis" EXACT [NIF_GrossAnatomy:birnlex_1358] xref: ABA:AD xref: BM:Die-Th-AD xref: FMA:62141 xref: NIF_GrossAnatomy:birnlex_1358 xref: SCTID:279127002 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002681 property_value: spatially_disjoint_from UBERON:0002685 property_value: spatially_disjoint_from UBERON:0002984 [Term] id: UBERON:0002680 name: regional part of metencephalon namespace: uberon def: "A regional part of brain that is part of a metencephalon [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "metencephalon subdivision" EXACT [FMA:67942] synonym: "segment of metencephalon" EXACT [NIF_GrossAnatomy:birnlex_1361] xref: FMA:67942 xref: NIF_GrossAnatomy:birnlex_1361 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001895 ! metencephalon [Term] id: UBERON:0002681 name: anteromedial nucleus namespace: uberon synonym: "anteromedial nucleus of thalamus" EXACT [FMA:62142] synonym: "anteromedial nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "anteromedial thalamic nucleus" EXACT [FMA:62142] synonym: "nucleus anterior medialis" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus anterior medialis thalami" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus anterior thalami medialis" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus anteromedialis" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus anteromedialis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus anteromedialis thalami" EXACT [NIF_GrossAnatomy:birnlex_1365] synonym: "nucleus thalamicus anteromedialis" EXACT [NIF_GrossAnatomy:birnlex_1365] xref: ABA:AM xref: BM:Die-AM xref: FMA:62142 xref: NIF_GrossAnatomy:birnlex_1365 xref: SCTID:279128007 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002679 property_value: spatially_disjoint_from UBERON:0002685 property_value: spatially_disjoint_from UBERON:0002984 [Term] id: UBERON:0002682 name: abducens nucleus namespace: uberon def: "The abducens nucleus is the originating nucleus from which the abducens nerve emerges - a cranial nerve nucleus. This nucleus is located beneath the fourth ventricle in the caudal portion of the pons, medial to the sulcus limitans. The abducens nucleus along with the internal genu of the facial nerve make up the facial colliculus, a hump at the caudal end of the medial eminence on the dorsal aspect of the pons. [WP,unvetted]." [Wikipedia:Abducens_nucleus] comment: part of medulla oblongata in ABA and ZFA; part of pons in MA and pontine tegmentum in NIF; note that pons/medulla are spatially disjoint in ABA. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "abducens VI nucleus" EXACT [MA:0001010] synonym: "abducens motor nuclei" EXACT PLURAL [TAO:0000713] synonym: "abducens motor nucleus" EXACT [ZFA:0000713] synonym: "abducens nerve nucleus" EXACT [FMA:54504] synonym: "abducent nucleus" EXACT [FMA:54504] synonym: "motor nucleus VI" EXACT [ZFA:0000713] synonym: "nVI" EXACT [ZFA:0000713] synonym: "nucleus nervi abducentis" EXACT LATIN [FMA:54504, FMA:TA, Wikipedia:Abducens_nucleus] synonym: "nucleus of abducens nerve" EXACT [FMA:54504] synonym: "nucleus of abducens nerve (VI)" EXACT [FMA:54504] synonym: "sixth cranial nerve nucleus" EXACT [FMA:54504] xref: ABA:VI xref: BM:Pons-VI xref: EHDAA2:0004310 xref: EV:0100266 xref: FMA:54504 xref: MA:0001010 xref: NIF_GrossAnatomy:birnlex_1366 xref: SCTID:280165008 xref: TAO:0000713 xref: UMLS:C0152407 xref: ZFA:0000713 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png xref: ncithesaurus:Abducens_Nucleus is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 property_value: external_definition "Hindbrain motor nucleus which is the origin of motor axons of cranial nerve VI. From Neuroanatomy of the Zebrafish Brain.[TAO]" xsd:string [Term] id: UBERON:0002683 name: rhinal sulcus namespace: uberon def: "In the human brain, the rhinencephalon appears as a longitudinal elevation, with a corresponding internal furrow, on the under surface of the hemisphere close to the lamina terminalis; it is separated from the lateral surface of the hemisphere by a furrow, the external rhinal fissure (or rhinal sulcus), and is continuous behind with that part of the hemisphere, which will ultimately form the anterior end of the temporal lobe. [WP,unvetted]." [Wikipedia:Rhinal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fissura rhinalis" EXACT [NIF_GrossAnatomy:birnlex_1368] synonym: "rhinal fissuer (turner, rezius)" EXACT [NIF_GrossAnatomy:birnlex_1368] synonym: "rhinal fissure" EXACT [FMA:83746] synonym: "sulcus rhinalis" EXACT [NIF_GrossAnatomy:birnlex_1368] synonym: "sulcus rhinalis; fissura rhinalis" RELATED LATIN [Wikipedia:Rhinal_sulcus] xref: BM:Tel-Cx-RS xref: FMA:83746 xref: NIF_GrossAnatomy:birnlex_1368 xref: SCTID:279357002 xref: http://upload.wikimedia.org/wikipedia/commons/c/ce/Gehirn,_basal_-_beschriftet_lat.svg is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002684 name: nucleus raphe obscurus namespace: uberon def: "The raphe obscurus projects to the cerebellar lobes VI and VII and to crus II along with the nucleus raphe pontis . This so called obscure nucleus has also been implicated in the modulation of the hypoglossal nerve. It has been observed that the ablation of this nucleus causes a change in the firing pattern in the XII nerve . In addition, the raphe obscurus mediates expiration via the inhibitory effect of serotonin and depresses periodic synaptic potentials . It has also been shown that this nucleus stimulates gastrointestinal motor function; microinjections of 5-HT into the n.r. obscurus increase gastric movement . [WP,unvetted]." [Wikipedia:Nucleus_raphe_obscurus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus raphes obscurus" EXACT LATIN [FMA:72585, FMA:TA, Wikipedia:Nucleus_raphe_obscurus] synonym: "obscurus raphe nucleus" EXACT [FMA:72585] synonym: "raphe obscurus nucleus" EXACT [FMA:72585] xref: ABA:RO xref: FMA:72585 xref: MA:0002981 xref: NIF_GrossAnatomy:birnlex_1369 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/94/Gray694.png/200px-Gray694.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002677 ! regional part of medullary raphe nuclear complex is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0002692 ! medullary raphe nuclear complex property_value: spatially_disjoint_from UBERON:0002156 property_value: spatially_disjoint_from UBERON:0002157 [Term] id: UBERON:0002685 name: anteroventral nucleus namespace: uberon synonym: "anterior ventral nucleus of thalamus" EXACT [FMA:62143] synonym: "anteroprincipal thalamic nucleus" EXACT [FMA:62143] synonym: "anteroventral nucleus of thalamus" EXACT [FMA:62143] synonym: "anteroventral nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "anteroventral thalamic nucleus" EXACT [FMA:62143] synonym: "nucleus anterior thalami ventralis" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus anterior ventralis" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus anteroinferior" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus anteroventralis" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus anteroventralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus thalamicus anteroprincipalis" EXACT [NIF_GrossAnatomy:birnlex_1372] synonym: "nucleus thalamicus anteroventralis" EXACT [NIF_GrossAnatomy:birnlex_1372] xref: ABA:AV xref: BM:Die-AV xref: EV:0100199 xref: FMA:62143 xref: NIF_GrossAnatomy:birnlex_1372 xref: SCTID:279130009 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002679 property_value: spatially_disjoint_from UBERON:0002681 property_value: spatially_disjoint_from UBERON:0002984 [Term] id: UBERON:0002686 name: angular gyrus namespace: uberon def: "The angular gyrus is a region of the brain in the parietal lobe, that lies near the superior edge of the temporal lobe, and immediately posterior to the supramarginal gyrus; it is involved in a number of processes related to language, mathematics and cognition. It is Brodmann area 39 of the human brain. [WP,unvetted]." [Wikipedia:Angular_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus angularis" RELATED LATIN [Wikipedia:Angular_gyrus] synonym: "middle part of inferior parietal lobule" EXACT [FMA:61898] synonym: "preoccipital gyrus" EXACT [FMA:61898] xref: FMA:61898 xref: NIF_GrossAnatomy:birnlex_1376 xref: SCTID:279186009 xref: UMLS:C0152305 xref: http://upload.wikimedia.org/wikipedia/commons/8/86/Surfacegyri.JPG xref: ncithesaurus:Angular_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001872 ! parietal lobe [Term] id: UBERON:0002687 name: area X namespace: uberon synonym: "anteromedial part of ventral lateral posterior nucleus (jones)" EXACT [] synonym: "area x of olszewski" EXACT [NIF_GrossAnatomy:birnlex_1379] synonym: "nucleus lateralis intermedius mediodorsalis situs ventralis medialis" EXACT [NIF_GrossAnatomy:birnlex_1379] synonym: "nucleus ventralis oralis, pars posterior (dewulf)" EXACT [NIF_GrossAnatomy:birnlex_1379] synonym: "nucleus ventrooralis internus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1379] synonym: "nucleus ventrooralis internus, superior part" EXACT [NIF_GrossAnatomy:birnlex_1379] xref: FMA:62198 xref: NIF_GrossAnatomy:birnlex_1379 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0001925 ! ventral lateral nucleus [Term] id: UBERON:0002688 name: supramarginal gyrus namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "BA40" RELATED ABBREVIATION [] synonym: "Brodmann area 40" RELATED [Wikipedia:Supramarginal_gyrus] synonym: "anterior part of inferior parietal lobule" EXACT [FMA:61897] synonym: "inferior parietal lobule (krieg)" EXACT [] xref: FMA:61897 xref: NIF_GrossAnatomy:birnlex_1381 xref: SCTID:279185008 xref: UMLS:C0228214 xref: http://upload.wikimedia.org/wikipedia/commons/e/ec/Gehirn,_lateral_-_Hauptgyri_beschriftet.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e2/Gehirn%2C_lateral_-_Hauptgyri_beschriftet.svg/200px-Gehirn%2C_lateral_-_Hauptgyri_beschriftet.svg.png xref: ncithesaurus:Supramarginal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001872 ! parietal lobe [Term] id: UBERON:0002689 name: supraoptic crest namespace: uberon def: "one of the circumventricular organs of the brain. The OVLT is outside the blood brain barrier, and so neurons in this region can respond to factors that are present in the systemic circulation." [Wikipedia:Organum_vasculosum_of_the_lamina_terminalis, https://sourceforge.net/tracker/?func=detail&aid=3474225&group_id=76834&atid=1205376] comment: AO notes: NIF has two classes here synonym: "organum vasculosum lamina terminalis" EXACT [NIF_GrossAnatomy:nlx_anat_100313] synonym: "organum vasculosum laminae terminalis" EXACT LATIN [FMA:62315, FMA:TA] synonym: "prechiasmatic gland" EXACT [NIF_GrossAnatomy:birnlex_1400] synonym: "vascular organ of lamina terminalis" EXACT [FMA:62315] xref: ABA:OV xref: FMA:62315 xref: MA:0003018 xref: NIF_GrossAnatomy:birnlex_1400 xref: NIF_GrossAnatomy:nlx_anat_100313 is_a: UBERON:0003048 ! regional part of hypothalamus is_a: UBERON:0010135 ! sensory circumventricular organ relationship: part_of UBERON:0002550 ! anterior hypothalamic region relationship: superficial_to UBERON:0000201 ! endothelial blood brain barrier property_value: spatially_disjoint_from UBERON:0001934 property_value: spatially_disjoint_from UBERON:0002034 property_value: spatially_disjoint_from UBERON:0002219 property_value: spatially_disjoint_from UBERON:0002625 property_value: spatially_disjoint_from UBERON:0002690 property_value: spatially_disjoint_from UBERON:0007626 [Term] id: UBERON:0002690 name: anteroventral periventricular nucleus namespace: uberon xref: ABA:AVPV xref: FMA:62314 xref: NIF_GrossAnatomy:birnlex_1401 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001934 property_value: spatially_disjoint_from UBERON:0002034 property_value: spatially_disjoint_from UBERON:0002219 property_value: spatially_disjoint_from UBERON:0002625 property_value: spatially_disjoint_from UBERON:0002689 property_value: spatially_disjoint_from UBERON:0007626 [Term] id: UBERON:0002691 name: ventral tegmental area namespace: uberon def: "The ventral tegmentum (tegmentum is Latin for covering), better known as the ventral tegmental area (VTA), is a group of neurons located close to the midline on the floor of the midbrain. The VTA, the origin of dopaminergic cell bodies that comprise the mesocorticolimbic dopamine system, is widely implicated in the drug and natural reward circuitry of the brain, cognition, motivation, drug addiction, and several psychiatric disorders. The VTA contains neurons that project to numerous areas of the brain, from the prefrontal cortex (PFC) to the caudal brainstem and everywhere in between. [WP,unvetted]." [Wikipedia:Ventral_tegmental_area] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ventral tegmental area of tsai" EXACT [] synonym: "ventral tegmental nucleus (tsai)" EXACT [] synonym: "ventral tegmental nucleus of tsai" EXACT [] xref: ABA:VTA xref: BM:MB-VTA xref: EFO:0001935 xref: FMA:72438 xref: GAID:587 xref: MESH:A08.186.211.132.659.822.820 xref: NIF_GrossAnatomy:birnlex_1415 xref: http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b6/Gray712.png/200px-Gray712.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002692 name: medullary raphe nuclear complex namespace: uberon synonym: "raphe medullae oblongatae" EXACT LATIN [FMA:68874, FMA:TA] synonym: "raphe nuclei of medulla" EXACT [FMA:68874] synonym: "raphe of medulla oblongata" EXACT [FMA:68874] xref: FMA:68874 xref: NIF_GrossAnatomy:birnlex_1420 xref: SCTID:362420006 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata relationship: part_of UBERON:0004684 ! raphe nuclei [Term] id: UBERON:0002693 name: occipitotemporal sulcus namespace: uberon synonym: "inferior temporal fissure" EXACT [FMA:74518] synonym: "inferior temporal fissure (crosby)" EXACT [NIF_GrossAnatomy:birnlex_1422] synonym: "inferior temporal sulcus (roberts)" EXACT [] synonym: "inferior temporal sulcus (szikla)" EXACT [] synonym: "inferior temporal sulcus-2" EXACT [FMA:74518] synonym: "lateral occipitotemporal sulcus" EXACT [NIF_GrossAnatomy:birnlex_1422] synonym: "occipito-temporal sulcus" EXACT [FMA:74518] synonym: "third temporal sulcus" EXACT [FMA:74518] xref: BM:Tel-Cx-OTS xref: FMA:74518 xref: NIF_GrossAnatomy:birnlex_1422 xref: SCTID:369220009 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002694 name: anterior hypothalamic commissure namespace: uberon synonym: "anterior hypothalamic commissure (Ganser)" EXACT [FMA:62053] synonym: "anterior hypothalamic decussation of Ganser" EXACT [FMA:62053] xref: FMA:62053 xref: NIF_GrossAnatomy:birnlex_1424 is_a: UBERON:0001020 ! commissure is_a: UBERON:0011590 ! commissure of diencephalon relationship: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0002695 name: parieto-occipital sulcus namespace: uberon def: "Only a small part of the Parietooccipital Fissure (or parieto-occipital sulcus) is seen on the lateral surface of the hemisphere, its chief part being on the medial surface. The lateral part of the parietooccipital fissure (Fig. 726) is situated about 5 cm. in front of the occipital pole of the hemisphere, and measures about 1.25 cm. in length. The medial part of the parietooccipital fissure (Fig. 727) runs downward and forward as a deep cleft on the medial surface of the hemisphere, and joins the calcarine fissure below and behind the posterior end of the corpus callosum. In most cases it contains a submerged gyrus. [WP,unvetted]." [Wikipedia:Parieto-occipital_sulcus] comment: AO notes - two classes in ncit (in general ncit distinguishes between fissue and sulcus, whereas FMA treats these as exact synonyms) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fissura parieto-occipitalis" EXACT [NIF_GrossAnatomy:birnlex_1428] synonym: "parieto-occipital fissure" EXACT [FMA:83754] synonym: "parieto-occipital incisure" EXACT [FMA:83754] synonym: "parietooccipital sulcus" EXACT [FMA:83754] synonym: "sulcus parieto-occipitalis" EXACT [NIF_GrossAnatomy:birnlex_1428] synonym: "sulcus parieto-occipitalis medialis" EXACT [NIF_GrossAnatomy:birnlex_1428] synonym: "sulcus parietoccipitalis" EXACT [NIF_GrossAnatomy:birnlex_1428] synonym: "sulcus parietooccipitalis" EXACT [NIF_GrossAnatomy:birnlex_1428] synonym: "sulcus parietooccipitalis, fissura parietooccipitalis" RELATED LATIN [Wikipedia:Parieto-occipital_sulcus] xref: BM:Tel-Cx-POS xref: FMA:83754 xref: NIF_GrossAnatomy:birnlex_1428 xref: OpenCyc:Mx4rv7l_DJwpEbGdrcN5Y29ycA xref: SCTID:279354009 xref: UMLS:C1744592 xref: http://upload.wikimedia.org/wikipedia/commons/5/5d/Gray726_parieto-occipital_sulcus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5d/Gray726_parieto-occipital_sulcus.png/200px-Gray726_parieto-occipital_sulcus.png xref: ncithesaurus:Parieto-occipital_Fissure xref: ncithesaurus:Parieto-occipital_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002696 name: cuneiform nucleus namespace: uberon synonym: "parabigeminal area (mai)" EXACT [] xref: ABA:CUN xref: BM:MB-CNF xref: FMA:72427 xref: NIF_GrossAnatomy:birnlex_1430 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002697 name: dorsal supraoptic decussation namespace: uberon synonym: "Meynert's commissure" EXACT [FMA:62051] synonym: "commissura supraoptica dorsalis" EXACT LATIN [FMA:62051, FMA:TA] synonym: "commissure of Meynert" EXACT [] synonym: "dorsal supra-optic commissure" EXACT [FMA:62051] synonym: "dorsal supraoptic commissure" EXACT [FMA:62051] synonym: "dorsal supraoptic commissure (of ganser)" EXACT [] synonym: "dorsal supraoptic decussation (of Meynert)" EXACT [NIF_GrossAnatomy:birnlex_1433] synonym: "dorsal supraoptic decussation (of ganser)" EXACT [NIF_GrossAnatomy:birnlex_1433] synonym: "dorsal supraoptic decussation of Meynert" EXACT [] synonym: "ganser's commissure" EXACT [FMA:62051] synonym: "supraoptic commissure of Meynert" EXACT [] synonym: "supraoptic commissures, dorsal" EXACT [FMA:62051] xref: FMA:62051 xref: NIF_GrossAnatomy:birnlex_1433 is_a: UBERON:0001020 ! commissure [Term] id: UBERON:0002698 name: preoccipital notch namespace: uberon synonym: "incisura parieto-occipitalis" EXACT [NIF_GrossAnatomy:birnlex_1436] synonym: "incisura praeoccipitalis" EXACT [NIF_GrossAnatomy:birnlex_1436] synonym: "incisura preoccipitalis" EXACT [NIF_GrossAnatomy:birnlex_1436] synonym: "occipital notch" EXACT [FMA:83739] synonym: "preoccipital incisura" EXACT [FMA:83739] synonym: "preoccipital incisure" EXACT [FMA:83739] xref: FMA:83739 xref: NIF_GrossAnatomy:birnlex_1436 xref: SCTID:369229005 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002699 name: supraopticohypophysial tract namespace: uberon synonym: "supra-opticohypophysial tract" EXACT [FMA:62054] synonym: "supraopticohypophyseal tract" EXACT [FMA:62054] synonym: "tractus supraopticohypophysialis" EXACT LATIN [FMA:62054, FMA:TA] xref: FMA:62054 xref: NIF_GrossAnatomy:birnlex_1440 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002700 name: subcuneiform nucleus namespace: uberon synonym: "subcuneiform area of midbrain" EXACT [FMA:72428] xref: FMA:72428 xref: NIF_GrossAnatomy:birnlex_1441 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002701 name: anterior median oculomotor nucleus namespace: uberon synonym: "anterior median nucleus of oculomotor nerve" EXACT [FMA:72423] xref: FMA:72423 xref: NIF_GrossAnatomy:birnlex_1445 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002702 name: middle frontal gyrus namespace: uberon def: "The middle frontal gyrus makes up about one-third of the frontal lobe of the human brain. (A gyrus is one of the prominent 'bumps' or 'ridges' on the surface of the human brain. ) The middle frontal gyrus, like the inferior frontal gyrus and the superior frontal gyrus, is more of a region than a true gyrus. The borders of the middle frontal gyrus are the inferior frontal sulcus below; the superior frontal sulcus above; and the precentral sulcus behind. [WP,unvetted]." [Wikipedia:Middle_frontal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus frontalis medialis" EXACT LATIN [FMA:61859, FMA:TA] synonym: "gyrus frontalis medius" RELATED LATIN [Wikipedia:Middle_frontal_gyrus] synonym: "intermediate frontal gyrus" EXACT [FMA:61859] synonym: "medial frontal gyrus" EXACT [FMA:61859] xref: BTO:0004834 xref: FMA:61859 xref: NIF_GrossAnatomy:birnlex_1451 xref: SCTID:362332009 xref: http://upload.wikimedia.org/wikipedia/commons/7/7f/Middle_frontal_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7f/Middle_frontal_gyrus.png/200px-Middle_frontal_gyrus.png xref: ncithesaurus:Middle_Frontal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0002703 name: precentral gyrus namespace: uberon def: "The primary motor cortex (or M1) is a brain region that in humans is located in the posterior portion of the frontal lobe. It works in association with pre-motor areas to plan and execute movements. M1 contains large neurons known as Betz cells which send long axons down the spinal cord to synapse onto alpha motor neurons which connect to the muscles. Pre-motor areas are involved in planning actions (in concert with the basal ganglia) and refining movements based upon sensory input (this requires the cerebellum). [WP,unvetted]." [Wikipedia:Precentral_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "precentral convolution" EXACT [FMA:61894] synonym: "prerolandic gyrus" EXACT [FMA:61894] xref: EFO:0001373 xref: FMA:61894 xref: NIF_GrossAnatomy:birnlex_1455 xref: UMLS:C0152299 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/eb/Ba4.png/200px-Ba4.png xref: ncithesaurus:Precentral_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0002704 name: metathalamus namespace: uberon def: "The metathalamus is a composite structure of the thalamus, consisting of the medial geniculate nucleus and the lateral geniculate nucleus. [WP,unvetted]." [Wikipedia:Metathalamus] comment: note we follow FMA in making this a subtype of nucleus, but in fact it is a group containing two nuclei subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpora geniculata" RELATED LATIN [Wikipedia:Metathalamus] synonym: "geniculate group of the dorsal thalamus" EXACT [FMA:62023] synonym: "geniculate thalamic group" EXACT [MA:0000868] synonym: "nuclei metathalami" EXACT [NIF_GrossAnatomy:birnlex_1461] xref: ABA:GENd xref: EV:0100217 xref: FMA:62023 xref: MA:0000868 xref: NIF_GrossAnatomy:birnlex_1461 xref: SCTID:361550004 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0004703 ! dorsal thalamus property_value: spatially_disjoint_from UBERON:0002144 property_value: spatially_disjoint_from UBERON:0002776 [Term] id: UBERON:0002705 name: midline nuclear group namespace: uberon def: "The midline nuclear group (or midline thalamic nuclei) a region of the thalamus consisting of the following nuclei: paraventricular nucleus of thalamus (nucleus paraventricularis thalami) - not to be confused with paraventricular nucleus of hypothalamus paratenial nucleus (nucleus parataenialis) reuniens nucleus (nucleus reuniens) rhomboidal nucleus (nucleus commissuralis rhomboidalis) subfascicular nucleus (nucleus subfascicularis) [WP,unvetted]." [Wikipedia:Midline_nuclear_group] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "median nuclei of thalamus" EXACT [FMA:62020] synonym: "midline nuclear group" EXACT [FMA:62020] synonym: "midline nuclear group of thalamus" EXACT [FMA:62020] synonym: "midline nuclei of thalamus" EXACT [FMA:62020] synonym: "midline thalamic group" EXACT [MA:0000864] synonym: "nuclei mediani (thalami)" EXACT [NIF_GrossAnatomy:birnlex_1462] synonym: "nuclei mediani thalami" EXACT LATIN [FMA:62020, FMA:TA, Wikipedia:Midline_nuclear_group] synonym: "periventricular nuclei of thalamus" EXACT [FMA:62020] xref: ABA:MTN xref: BTO:0002454 xref: FMA:62020 xref: MA:0000864 xref: NIF_GrossAnatomy:birnlex_1462 xref: SCTID:279163002 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001897 ! thalamus relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: UBERON:0002706 name: posterior nucleus of hypothalamus namespace: uberon synonym: "area hypothalamica posterior" EXACT LATIN [FMA:62350, FMA:TA] synonym: "nucleus posterior hypothalami" RELATED [BTO:0002461] synonym: "posterior hypothalamic area" EXACT [FMA:62350] synonym: "posterior hypothalamic nucleus" EXACT [FMA:62350] xref: ABA:PH xref: BM:Die-Hy-HPA xref: BTO:0002461 xref: EV:0100235 xref: FMA:62350 xref: NIF_GrossAnatomy:birnlex_1463 xref: SCTID:362385002 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001935 property_value: spatially_disjoint_from UBERON:0002035 property_value: spatially_disjoint_from UBERON:0002206 property_value: spatially_disjoint_from UBERON:0002634 [Term] id: UBERON:0002707 name: pyramidal tract namespace: uberon def: "The corticospinal or pyramidal tract is a collection of axons that travel between the cerebral cortex of the brain and the spinal cord. The corticospinal tract mostly contains motor axons. It actually consists of two separate tracts in the spinal cord: the lateral corticospinal tract and the medial corticospinal tract. An understanding of these tracts leads to an understanding of why for the most part, one side of the body is controlled by the opposite side of the brain. Also the corticobulbar tract is considered to be a pyramidal tract. The corticobulbar tract carries signals that control motor neurons located in cranial nerve brain nuclei rather than motor neurons located in the spinal cord. The neurons of the pyramidal tracts are pyramidal neurons, but that is not how the pyramidal tract got its name, as most of the pyramidal neurons send their axons elsewhere. Instead, it got its name from the shape of the corticospinal axon tracts: when the pyramidal tract passes the medulla, it forms a dense bundle of nerve fibres that is shaped somewhat like a pyramid. [WP,unvetted]." [Wikipedia:Pyramidal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: BM:Me-PyT xref: FMA:72634 xref: GAID:702 xref: MESH:A08.186.854.633 xref: NIF_GrossAnatomy:birnlex_1464 xref: SCTID:362325000 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ac/Gray684.png/200px-Gray684.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002708 name: posterior periventricular nucleus namespace: uberon synonym: "nucleus periventricularis posterior" RELATED [BTO:0002479] synonym: "periventricular nucleus, posterior subdivision" EXACT [FMA:62349] synonym: "posterior periventricular hypothalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1466] synonym: "posterior periventricular nucleus" EXACT [FMA:62349] synonym: "posterior periventricular nucleus of hypothalamus" EXACT [FMA:62349] xref: BTO:0002479 xref: FMA:62349 xref: NIF_GrossAnatomy:birnlex_1466 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002709 name: posterior nuclear complex namespace: uberon subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caudal thalamic nucleus" RELATED [TAO:0000325] synonym: "nuclei posteriores thalami" EXACT [NIF_GrossAnatomy:birnlex_1467] synonym: "posterior complex of thalamus" EXACT [FMA:62024] synonym: "posterior nuclear complex" EXACT [FMA:62024] synonym: "posterior nuclear complex of thalamus" EXACT [FMA:62024] synonym: "posterior nuclear group of thalamus" EXACT [FMA:62024] synonym: "posterior thalamic nuclear group" EXACT [FMA:62024] synonym: "posterior thalamic nucleus" RELATED [BTO:0002462] xref: ABA:PO xref: BTO:0002462 xref: FMA:62024 xref: NIF_GrossAnatomy:birnlex_1467 xref: SCTID:424395006 xref: TAO:0000325 xref: ZFA:0000325 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001897 ! thalamus property_value: spatially_disjoint_from UBERON:0002983 property_value: spatially_disjoint_from UBERON:0003033 [Term] id: UBERON:0002710 name: cingulate sulcus namespace: uberon def: "The cingulate sulcus is a sulcus (brain fold) on the medial wall of the cerebral cortex. The frontal and parietal lobes are separated by the cingulate sulcus from the cingulate gyrus. [WP,unvetted]." [Wikipedia:Cingulate_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "calloso-marginal sulcus" EXACT [FMA:83748] synonym: "callosomarginal fissure" EXACT [FMA:83748] synonym: "callosomarginal sulcus" EXACT [FMA:83748] synonym: "cingulate fissure" EXACT [FMA:83748] synonym: "sulcus callosomarginalis" EXACT [NIF_GrossAnatomy:birnlex_1468] synonym: "sulcus cingulatus" EXACT [NIF_GrossAnatomy:birnlex_1468] synonym: "sulcus cinguli" EXACT LATIN [NIF_GrossAnatomy:birnlex_1468, Wikipedia:Cingulate_sulcus] xref: BM:Tel-Cx-CGS xref: FMA:83748 xref: NIF_GrossAnatomy:birnlex_1468 xref: SCTID:279350000 xref: http://upload.wikimedia.org/wikipedia/commons/2/2e/Gray727_cingulate_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2e/Gray727_cingulate_sulcus.svg/200px-Gray727_cingulate_sulcus.svg.png is_a: UBERON:0000093 ! sulcus relationship: adjacent_to UBERON:0002967 ! cingulate gyrus [Term] id: UBERON:0002711 name: nucleus of posterior commissure namespace: uberon synonym: "posterior commissure nucleus" EXACT [FMA:68463] xref: ABA:NPC xref: BM:NPC xref: FMA:68463 xref: NIF_GrossAnatomy:birnlex_1470 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0002565 property_value: spatially_disjoint_from UBERON:0002996 property_value: spatially_disjoint_from UBERON:0006848 [Term] id: UBERON:0002712 name: premammillary nucleus namespace: uberon synonym: "premammillary nuclei" EXACT [FMA:62348] xref: FMA:62348 xref: NIF_GrossAnatomy:birnlex_1473 is_a: UBERON:0002789 ! regional part of posterior hypothalamic region is_a: UBERON:0006568 ! hypothalamic nucleus relationship: part_of UBERON:0002770 ! posterior hypothalamic region [Term] id: UBERON:0002713 name: circular sulcus of insula namespace: uberon def: "A marginal sulcus that is part of a insula [Automatically generated definition]." [OBOL:automatic] synonym: "central lobe marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "central lobe marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "central lobe marginal sulcus" EXACT [OBOL:automatic] synonym: "circular fissure" EXACT [FMA:83753] synonym: "circular sulcus (of reil)" EXACT [] synonym: "circuminsular sulcus" EXACT [FMA:83753] synonym: "ciruclar insular sulcus" EXACT [NIF_GrossAnatomy:birnlex_1475] synonym: "cortex of island marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "cortex of island marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "cortex of island marginal sulcus" EXACT [OBOL:automatic] synonym: "insula lobule marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insula lobule marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insula lobule marginal sulcus" EXACT [OBOL:automatic] synonym: "insula marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insula marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insula marginal sulcus" EXACT [OBOL:automatic] synonym: "insular cortex marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular cortex marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular cortex marginal sulcus" EXACT [OBOL:automatic] synonym: "insular lobe marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular lobe marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular lobe marginal sulcus" EXACT [OBOL:automatic] synonym: "insular region marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular region marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "insular region marginal sulcus" EXACT [OBOL:automatic] synonym: "island of reil marginal branch of cingulate sulcus" EXACT [OBOL:automatic] synonym: "island of reil marginal ramus of cingulate sulcus" EXACT [OBOL:automatic] synonym: "island of reil marginal sulcus" EXACT [OBOL:automatic] synonym: "limiting fissure" EXACT [FMA:83753] synonym: "marginal branch of cingulate sulcus of central lobe" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of cortex of island" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of insula" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of insula lobule" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of insular cortex" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of insular lobe" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of insular region" EXACT [OBOL:automatic] synonym: "marginal branch of cingulate sulcus of island of reil" EXACT [OBOL:automatic] synonym: "marginal insular sulcus" EXACT [NIF_GrossAnatomy:birnlex_1475] synonym: "marginal ramus of cingulate sulcus of central lobe" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of cortex of island" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of insula" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of insula lobule" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of insular cortex" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of insular lobe" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of insular region" EXACT [OBOL:automatic] synonym: "marginal ramus of cingulate sulcus of island of reil" EXACT [OBOL:automatic] synonym: "marginal sulcus of central lobe" EXACT [OBOL:automatic] synonym: "marginal sulcus of cortex of island" EXACT [OBOL:automatic] synonym: "marginal sulcus of insula" EXACT [FMA:83753] synonym: "marginal sulcus of insula lobule" EXACT [OBOL:automatic] synonym: "marginal sulcus of insular cortex" EXACT [OBOL:automatic] synonym: "marginal sulcus of insular lobe" EXACT [OBOL:automatic] synonym: "marginal sulcus of insular region" EXACT [OBOL:automatic] synonym: "marginal sulcus of island of reil" EXACT [OBOL:automatic] synonym: "sulcus circularis insulae" EXACT [NIF_GrossAnatomy:birnlex_1475] synonym: "sulcus marginalis insulae" EXACT [NIF_GrossAnatomy:birnlex_1475] xref: FMA:83753 xref: NIF_GrossAnatomy:birnlex_1475 is_a: UBERON:0002912 ! marginal sulcus is_a: UBERON:0013118 ! sulcus of brain intersection_of: UBERON:0002912 ! marginal sulcus intersection_of: part_of UBERON:0002022 ! insula [Term] id: UBERON:0002714 name: rubrospinal tract namespace: uberon def: "long process of a CNS neuron, that carries efferent (outgoing) action potentials from the cell body in the red nucleus of the midbrain towards target cells in the spinal cord[GO]." [Wikipedia:Rubrospinal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "monakow's tract" EXACT [FMA:72640] synonym: "rubrospinal tract (monakow)" EXACT [NIF_GrossAnatomy:birnlex_1476] synonym: "tractus rubrospinalis" RELATED LATIN [Wikipedia:Rubrospinal_tract] xref: FMA:72640 xref: NIF_GrossAnatomy:birnlex_1476 xref: SCTID:369264001 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Spinal_cord_tracts_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002715 name: spinal trigeminal tract of medulla namespace: uberon xref: FMA:72625 xref: NIF_GrossAnatomy:birnlex_1477 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002716 name: collateral sulcus namespace: uberon def: "The collateral fissure (or sulcus) is on the tentorial surface of the hemisphere and extends from near the occipital pole to within a short distance of the temporal pole. Behind, it lies below and lateral to the calcarine fissure, from which it is separated by the lingual gyrus; in front, it is situated between the hippocampal gyrus and the anterior part of the fusiform gyrus. [WP,unvetted]." [Wikipedia:Collateral_fissure] comment: AO notes: cnit has two distinct classes; FMA and NIF treat these as exact synonyms. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "collateral fissure" EXACT [FMA:83751] synonym: "sulcus collateralis" EXACT [NIF_GrossAnatomy:birnlex_1480] synonym: "sulcus collateralis, fissura collateralis" RELATED LATIN [Wikipedia:Collateral_fissure] xref: FMA:83751 xref: NIF_GrossAnatomy:birnlex_1480 xref: SCTID:279356006 xref: UMLS:C0228226 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray738.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Gray738.png/200px-Gray738.png xref: ncithesaurus:Collateral_Fissure xref: ncithesaurus:Collateral_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002717 name: rostral interstitial nucleus of medial longitudinal fasciculus namespace: uberon def: "The rostral interstitial nucleus of medial longitudinal fasciculus (riMLF) is a portion of the medial longitudinal fasciculus which controls vertical gaze. They project to the vestibular nuclei. [WP,unvetted]." [Wikipedia:Rostral_interstitial_nucleus_of_medial_longitudinal_fasciculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus interstitialis" RELATED LATIN [Wikipedia:Rostral_interstitial_nucleus_of_medial_longitudinal_fasciculus] synonym: "rostral interstitial nucleus of mlf" EXACT [] xref: FMA:72433 xref: NIF_GrossAnatomy:birnlex_1481 xref: http://upload.wikimedia.org/wikipedia/commons/9/90/Gray710.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/90/Gray710.png/200px-Gray710.png is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0002718 name: solitary tract namespace: uberon def: "The solitary tract is a compact fiber bundle that extends longitudinally through the posterolateral region of the medulla. The solitary tract is surrounded by the nucleus of the solitary tract, and descends to the upper cervical segments of the spinal cord. [WP,unvetted]." [Wikipedia:Solitary_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "respiratory bundle of Gierke" EXACT [] synonym: "tractus solitarius medullae oblongatae" RELATED LATIN [Wikipedia:Solitary_tract] xref: BM:Me-ST xref: FMA:72619 xref: NIF_GrossAnatomy:birnlex_1483 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray695.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Gray695.png/200px-Gray695.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002719 name: spino-olivary tract namespace: uberon def: "The spino-olivary tract is located in the ventral funiculus of the spinal cord. This tract carries proprioception information from muscles and tendons as well as cutaneous impulses to the olivary nucleus. [WP,unvetted]." [Wikipedia:Spino-olivary_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "helweg's tract" EXACT [FMA:72643] synonym: "tractus spinoolivaris" RELATED LATIN [Wikipedia:Spino-olivary_tract] xref: FMA:72643 xref: NIF_GrossAnatomy:birnlex_1484 xref: SCTID:362607001 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002720 name: mammillary peduncle namespace: uberon synonym: "peduncle of mammillary body" EXACT [FMA:62061] xref: FMA:62061 xref: NIF_GrossAnatomy:birnlex_1486 xref: SCTID:369146004 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0002770 ! posterior hypothalamic region [Term] id: UBERON:0002721 name: lateral sulcus namespace: uberon def: "A sulcus that divides the frontal lobe and parietal lobe above from the temporal lobe below. It is in both hemispheres of the brain but is longer in the left hemisphere. The lateral sulcus is one of the earliest-developing sulci of the human brain. It first appears around the fourteenth gestational week[WP,modified]." [Wikipedia:Lateral_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Sylvian fissure" EXACT [NIF_GrossAnatomy:birnlex_1487] synonym: "Sylvian sulcus" EXACT [UBERON:cjm] synonym: "fissura lateralis" EXACT [NIF_GrossAnatomy:birnlex_1487] synonym: "fissura lateralis cerebri" EXACT [NIF_GrossAnatomy:birnlex_1487] synonym: "fissura lateralis cerebri (sylvii)" EXACT [NIF_GrossAnatomy:birnlex_1487] synonym: "fissura transversa cerebri" EXACT LATIN [FMA:77801, FMA:TA] synonym: "fissure of Sylvius" EXACT [] synonym: "lateral cerebral fissure" EXACT [FMA:77801] synonym: "lateral cerebral sulcus" EXACT [FMA:77801] synonym: "lateral fissure" EXACT [FMA:77801] synonym: "lateral fissure of Sylvius" EXACT [] synonym: "sulcus lateralis" EXACT [NIF_GrossAnatomy:birnlex_1487] synonym: "sulcus lateralis cerebri" EXACT LATIN [FMA:77801, FMA:TA, Wikipedia:Lateral_sulcus] synonym: "transverse cerebral fissure" EXACT [FMA:77801] xref: BM:Tel-Cx-LS xref: FMA:77801 xref: NIF_GrossAnatomy:birnlex_1487 xref: SCTID:369226003 xref: UMLS:C0228187 xref: http://upload.wikimedia.org/wikipedia/commons/4/41/Lateral_sulcus2.png xref: ncithesaurus:Fissure_of_Sylvius is_a: UBERON:0008334 ! subarachnoid sulcus [Term] id: UBERON:0002722 name: trochlear nucleus namespace: uberon def: "The nucleus of the trochlear nerve is located in the midbrain, at the level of the inferior colliculus. It is a motor nucleus, so located near the midline. Oddly, fibers from the trochlear nucleus cross over in the midbrain at the superior medullary velum and exit posteriorly, (this is the only cranial nerve to do so). The nerve then goes around the midbrain, and is visible coming out the sides. [WP,unvetted]." [Wikipedia:Trochlear_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "fourth cranial nerve nucleus" EXACT [FMA:54518] synonym: "motor nucleus IV" EXACT [ZFA:0000450] synonym: "nIV" EXACT [ZFA:0000450] synonym: "nucleus nervi trochlearis" EXACT LATIN [FMA:54518, FMA:TA, Wikipedia:Trochlear_nucleus] synonym: "nucleus of trochlear nerve" EXACT [FMA:54518] synonym: "trochlear IV nucleus" EXACT [MA:0001075] synonym: "trochlear motor nucleus" EXACT [ZFA:0000450] xref: ABA:IV xref: BM:MB-IV xref: EV:0100251 xref: FMA:54518 xref: MA:0001075 xref: NIF_GrossAnatomy:birnlex_1488 xref: SCTID:280163001 xref: TAO:0000450 xref: ZFA:0000450 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Drn.png xref: http://upload.wikimedia.org/wikipedia/en/thumb/c/c6/Drn.png/200px-Drn.png is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0007414 ! nucleus of midbrain tegmentum relationship: continuous_with UBERON:0001644 ! trochlear nerve relationship: part_of UBERON:0001943 ! midbrain tegmentum property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002995 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002723 name: mammillary princeps fasciculus namespace: uberon synonym: "principal mammillary fasciculus" EXACT [FMA:62057] synonym: "principal mammillary tract" EXACT [NIF_GrossAnatomy:birnlex_1492] synonym: "principle mamillary fasciculus" EXACT [FMA:62057] xref: FMA:62057 xref: NIF_GrossAnatomy:birnlex_1492 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002724 name: limen of insula namespace: uberon synonym: "angulus gyri olfactorii lateralis" EXACT [FMA:75266] synonym: "gyrus ambiens (noback)" EXACT [NIF_GrossAnatomy:birnlex_1493] synonym: "insula limen" EXACT [FMA:75266] synonym: "limen insulae" EXACT [NIF_GrossAnatomy:birnlex_1493] xref: FMA:75266 xref: NIF_GrossAnatomy:birnlex_1493 xref: SCTID:369215009 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002726 name: cervical spinal cord namespace: uberon def: "A spinal cord segment that adjacent_to a cervical region." [OBOL:automatic] synonym: "cervical segment of spinal cord" EXACT [FMA:71166] synonym: "cervical segments of spinal cord [1-8]" EXACT [FMA:71166] synonym: "cervical spinal cord" EXACT [FMA:71166] synonym: "segmenta cervicalia medullae spinalis [1-8" EXACT LATIN [FMA:71166, FMA:TA] xref: FMA:71166 xref: NIF_GrossAnatomy:birnlex_1499 xref: SCTID:180960003 xref: UMLS:C0581619 xref: ncithesaurus:Cervical_Spinal_Cord intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: adjacent_to UBERON:0005434 ! cervical region [Term] id: UBERON:0002727 name: medial medullary lamina namespace: uberon synonym: "inner medullary lamina" EXACT [FMA:62470] synonym: "internal medullary lamina of corpus striatum" EXACT [FMA:62470] synonym: "internal medullary lamina of globus pallidus" EXACT [FMA:62470] synonym: "internal medullary lamina of lentiform nucleus" EXACT [FMA:62470] synonym: "lamina medullaris interna corporis striati" EXACT LATIN [FMA:62470, FMA:TA] synonym: "lamina medullaris medialis corporis striati" EXACT LATIN [FMA:62470, FMA:TA] synonym: "medial medullary lamina" EXACT [FMA:62470] synonym: "medial medullary lamina of corpus striatum" EXACT [FMA:62470] synonym: "medial medullary lamina of globus pallidus" EXACT [FMA:62470] synonym: "medial medullary lamina of pallidum" EXACT [FMA:62470] synonym: "medial medullary stria" EXACT [FMA:62470] xref: BTO:0002251 xref: FMA:62470 xref: NIF_GrossAnatomy:birnlex_1501 xref: SCTID:369205003 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus [Term] id: UBERON:0002728 name: entorhinal area namespace: uberon def: "Component of the temporal lobe on the mesial surface. The rostral and caudal boundaries of the entorhinal cortex are the rostral end of the collateral sulcus and the caudal end of the amygdala respectively. The medial boundary is the medial aspect of the temporal lobe and the lateral boundary is the collateral sulcus. (DK)." [NIF_GrossAnatomy:birnlex_1508, Wikipedia:Entorhinal_cortex] comment: todo - check area vs complex. ABA:ENT this is part of the hippocampal formation via retrohippocampal region subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Brodmann's area 28" RELATED [BTO:0002650] synonym: "entorhinal cortex" RELATED INCONSISTENT [NIF_GrossAnatomy:birnlex_1508] xref: ABA:ENT xref: BM:Tel-Cx-ENT xref: BTO:0002650 xref: EFO:0001920 xref: FMA:72356 xref: GAID:636 xref: MESH:A08.186.211.577.710.225 xref: NIF_GrossAnatomy:birnlex_1508 xref: SCTID:369099007 xref: UMLS:C0175196 xref: http://upload.wikimedia.org/wikipedia/commons/f/f8/Gray-Brodman-Entorhinal_Cortex_EC_.png xref: ncithesaurus:Entorhinal_Cortex is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_function_in GO:0007613 ! memory relationship: part_of UBERON:0002973 ! parahippocampal gyrus relationship: part_of UBERON:0004725 ! piriform cortex property_value: spatially_disjoint_from UBERON:0001953 property_value: spatially_disjoint_from UBERON:0002191 property_value: spatially_disjoint_from UBERON:0004683 [Term] id: UBERON:0002729 name: claustral amygdaloid area namespace: uberon synonym: "claustrum diffusa" EXACT [FMA:61869] synonym: "claustrum parvum" EXACT [FMA:61869] synonym: "ventral claustrum" EXACT [FMA:61869] synonym: "ventral portion of claustrum" EXACT [FMA:61869] xref: FMA:61869 xref: NIF_GrossAnatomy:birnlex_1515 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0001876 ! amygdala relationship: part_of UBERON:0006098 ! basal nuclear complex [Term] id: UBERON:0002730 name: regional part of thalamus namespace: uberon def: "A regional part of brain that is part of a thalamus [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of thalamus" EXACT [NIF_GrossAnatomy:birnlex_1517] synonym: "thalamus segment" EXACT [FMA:67705] xref: FMA:67705 xref: NIF_GrossAnatomy:birnlex_1517 xref: SCTID:119406000 is_a: UBERON:0002784 ! regional part of diencephalon intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001897 ! thalamus [Term] id: UBERON:0002731 name: vestibulocochlear nerve root namespace: uberon synonym: "central part of vestibulocochlear nerve" EXACT [FMA:72499] synonym: "statoacoustic nerve fibers" EXACT [FMA:72499] synonym: "vestibulocochlear nerve fibers" EXACT [FMA:72499] synonym: "vestibulocochlear nerve roots" EXACT [FMA:72499] synonym: "vestibulocochlear nerve tract" EXACT [FMA:72499] xref: FMA:72499 xref: NIF_GrossAnatomy:birnlex_1519 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0002732 name: longitudinal pontine fibers namespace: uberon synonym: "fibrae pontis longitudinales" EXACT LATIN [FMA:72513, FMA:TA] synonym: "longitudinal fasciculus of the pons" EXACT [FMA:72513] synonym: "longitudinal pontine fibers" EXACT [FMA:72513] synonym: "longitudinal pontine fibres" EXACT [FMA:72513] synonym: "longitudinal pontine tract" EXACT [FMA:72513] xref: FMA:72513 xref: NIF_GrossAnatomy:birnlex_1523 xref: SCTID:361544009 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002733 name: intralaminar nuclear group namespace: uberon def: "The intralaminar nucleus is a nucleus of the thalamus that contains the following nuclei: central lateral centromedian (or 'central medial') paracentral parafascicular. Some sources also include a 'central dorsal' nucleus. [WP,unvetted]." [Wikipedia:Intralaminar_thalamic_nuclei] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "intralaminar nuclear group" EXACT [FMA:62021] synonym: "intralaminar nuclear group of thalamus" EXACT [FMA:62021] synonym: "intralaminar nuclei of thalamus" EXACT [FMA:62021] synonym: "intralaminar thalamic nuclei" EXACT [FMA:62021] synonym: "nonspecific thalamic system" EXACT [FMA:62021] synonym: "nuclei intralaminares (thalami)" EXACT [NIF_GrossAnatomy:birnlex_1530] synonym: "nuclei intralaminares thalami" EXACT LATIN [FMA:62021, FMA:TA] xref: ABA:ILM xref: FMA:62021 xref: GAID:660 xref: MESH:A08.186.211.730.385.826.701.460 xref: NIF_GrossAnatomy:birnlex_1530 xref: SCTID:279159009 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/ba/Thalmus.png/200px-Thalmus.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001897 ! thalamus property_value: spatially_disjoint_from UBERON:0001899 property_value: spatially_disjoint_from UBERON:0001903 property_value: spatially_disjoint_from UBERON:0002736 [Term] id: UBERON:0002734 name: superior temporal sulcus namespace: uberon synonym: "parallel sulcus" EXACT [FMA:83783] synonym: "sulcus t1" EXACT [FMA:83783] synonym: "superior temporal fissure" EXACT [FMA:83783] xref: BM:Tel-Cx-STS xref: FMA:83783 xref: NIF_GrossAnatomy:birnlex_1534 xref: SCTID:279344005 xref: UMLS:C0228237 xref: ncithesaurus:Superior_Temporal_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002735 name: transverse pontine fibers namespace: uberon synonym: "fibrae pontis transversae" EXACT LATIN [FMA:72514, FMA:TA] synonym: "superficial transverse fibers of pons" EXACT [FMA:72514] synonym: "transverse fibers of pons" EXACT [FMA:72514] synonym: "transverse pontine fibers" EXACT [FMA:72514] synonym: "transverse pontine fibres" EXACT [FMA:72514] synonym: "transverse pontine tract" EXACT [FMA:72514] xref: FMA:72514 xref: NIF_GrossAnatomy:birnlex_1535 xref: SCTID:79836003 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002736 name: lateral nuclear group namespace: uberon def: "The lateral nuclear group is a collection of nuclei on the lateral side of the thalamus. According to MeSH, it consists of the following: lateral dorsal nucleus lateral posterior nucleus pulvinar [WP,unvetted]." [Wikipedia:Lateral_nuclear_group] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral group of the dorsal thalamus" EXACT [NIF_GrossAnatomy:birnlex_1537] synonym: "lateral nuclear group" EXACT [FMA:62174] synonym: "lateral nuclear group of thalamus" EXACT [FMA:62174] synonym: "lateral nucleus of thalamus" EXACT [FMA:62174] synonym: "lateral thalamic group" EXACT [MA:0000862] synonym: "lateral thalamic nuclei" EXACT [FMA:62174] synonym: "lateral thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1537] synonym: "nuclei laterales thalami" EXACT [NIF_GrossAnatomy:birnlex_1537] synonym: "nucleus lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_1537] xref: ABA:LAT xref: EV:0100210 xref: FMA:62174 xref: GAID:661 xref: MA:0000862 xref: MESH:A08.186.211.730.385.826.701.485 xref: NIF_GrossAnatomy:birnlex_1537 xref: SCTID:279126006 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0000125 ! neural nucleus is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0004703 ! dorsal thalamus property_value: spatially_disjoint_from UBERON:0001899 property_value: spatially_disjoint_from UBERON:0001903 property_value: spatially_disjoint_from UBERON:0002733 [Term] id: UBERON:0002737 name: lateral inferior limiting sulcus namespace: uberon xref: FMA:74523 xref: NIF_GrossAnatomy:birnlex_1540 is_a: UBERON:0008334 ! subarachnoid sulcus [Term] id: UBERON:0002738 name: isthmus of cingulate gyrus namespace: uberon synonym: "cingulate gyrus isthmus" EXACT [FMA:62502] synonym: "isthmus of fornicate gyrus" EXACT [FMA:62502] synonym: "isthmus of limbic lobe" EXACT [FMA:62502] xref: FMA:62502 xref: NIF_GrossAnatomy:birnlex_1541 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002967 ! cingulate gyrus [Term] id: UBERON:0002739 name: medial dorsal nucleus namespace: uberon def: "The medial dorsal nucleus (or dorsomedial nucleus of thalamus) is a large nucleus in the thalamus. It receives inputs from the Pre-Frontal Cortex and the Limbic System and in turn relays them to the Pre-Frontal Association Cortex. As a result, it plays a crucial role in attention, planning, organization, abstract thinking, multi-tasking and active memory. The connections of the medial dorsal nucleus have even been used to delineate the prefrontal cortex of the GC6ttingen minipig brain. By stereology the number of brain cells in the region has been estimated to around 6.43 million neurons in the adult human brain and 36.3 million glial cells, and with the newborn having quite different numbers: around 11.2 million neurons and 10.6 million glial cells. Lesions of the medial dorsal nucleus have been associated with Wernicke's encephalopathy [WP,unvetted]." [Wikipedia:Medial_dorsal_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal medial nucleus of thalamus" EXACT [FMA:62156] synonym: "dorsomedial nuclear group" EXACT [FMA:62156] synonym: "dorsomedial nucleus" EXACT [FMA:62156] synonym: "dorsomedial nucleus of thalamus" EXACT [FMA:62156] synonym: "medial dorsal nucleus" EXACT [FMA:62156] synonym: "medial dorsal nucleus of thalamus" EXACT [FMA:62156] synonym: "medial dorsal thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_1543] synonym: "medial nuclear group" EXACT [FMA:62156] synonym: "medial nuclear group of thalamus" EXACT [FMA:62156] synonym: "medial thalamic nuclei" EXACT [FMA:62156] synonym: "medial thalamic nucleus" EXACT [FMA:62156] synonym: "mediodorsal nucleus" EXACT [FMA:62156] synonym: "mediodorsal nucleus of thalamus" EXACT [DHB:MD] synonym: "mediodorsal thalamic nucleus" EXACT [FMA:62156] synonym: "nucleus dorsomedialis thalami" EXACT [NIF_GrossAnatomy:birnlex_1543] synonym: "nucleus medialis dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1543] synonym: "nucleus mediodorsalis thalami" RELATED LATIN [BTO:0002453, Wikipedia:Medial_dorsal_nucleus] xref: ABA:MD xref: BM:Die-Th-MD xref: BTO:0002453 xref: EV:0100200 xref: FMA:62156 xref: GAID:663 xref: MESH:A08.186.211.730.385.826.701.490 xref: NIF_GrossAnatomy:birnlex_1543 xref: SCTID:279149008 xref: UMLS:C0228329 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png xref: ncithesaurus:Dorsomedial_Nucleus_of_the_Thalamus is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: has_function_in GO:0007613 ! memory relationship: part_of UBERON:0001897 ! thalamus property_value: spatially_disjoint_from UBERON:0003031 [Term] id: UBERON:0002740 name: posterior cingulate gyrus namespace: uberon def: "The posterior cingulate cortex is the backmost part of the cingulate cortex, lying behind the anterior cingulate cortex. This is the upper part of the 'limbic lobe'. The cingulate cortex is made up of an area around the midline of the brain. Surrounding areas include the retrosplenial cortex and the precuneus. Cytoarchitectonically posterior cingulate cortex is associated with Brodmann areas 23 and 31. [WP,unvetted]." [Wikipedia:Posterior_cingulate_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61924 xref: NIF_GrossAnatomy:birnlex_1546 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Gray727.svg/200px-Gray727.svg.png is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0002967 ! cingulate gyrus [Term] id: UBERON:0002741 name: diagonal band namespace: uberon def: "The diagonal band of Broca consists of fibers that are said to arise in the parolfactory area, the gyrus subcallosus and the anterior perforated substance, and course backward in the longitudinal striae to the dentate gyrus and the hippocampal region. This is a cholinergic bundle of nerve fibers posterior to the anterior perforated substance. It interconnects the paraterminal gyrus in the septal area with the hippocampus and lateral olfactory area. Along with the Septum Pellucidum the Diagonal Band of Broca is believed to be involved in the generation of theta waves in the hippocampus. [WP,unvetted]." [Wikipedia:Diagonal_band_of_Broca] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "band of Broca" RELATED [BTO:0002445] synonym: "bandaletta diagonalis (Broca)" RELATED [BTO:0002445] synonym: "broca's diagonal band" EXACT [FMA:61973] synonym: "broca's diagonal gyrus" EXACT [FMA:61973] synonym: "diagonal band of broca" EXACT [] synonym: "diagonal gyrus" EXACT [FMA:61973] synonym: "olfactory fasciculus" EXACT [FMA:61973] synonym: "olfactory radiations of zuckerkandl" EXACT [] synonym: "stria diagonalis" RELATED LATIN [BTO:0002445, Wikipedia:Diagonal_band_of_Broca] synonym: "stria diagonalis (Broca)" RELATED [BTO:0002445] xref: BTO:0002445 xref: FMA:61973 xref: GAID:684 xref: MESH:A08.186.211.730.885.380 xref: NIF_GrossAnatomy:birnlex_1551 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Gray724.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d7/Gray724.png/200px-Gray724.png is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002742 name: lamina of septum pellucidum namespace: uberon def: "One of two layers of both white and gray matter of the septum pellucidum. During fetal development there is a space between the two laminae called the cavum septum pellucidum which, in ninety per cent of cases, disappears during infancy." [Wikipedia:Septum_pellucidum#Layers] comment: editor note synonym: "laminae septi pellucidi" EXACT PLURAL [] synonym: "septum pellucidum lamina" EXACT [FMA:62472] xref: FMA:62472 xref: NIF_GrossAnatomy:birnlex_1554 xref: SCTID:12164006 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter relationship: part_of UBERON:0004714 ! septum pellucidum [Term] id: UBERON:0002743 name: basal forebrain namespace: uberon def: "The basal forebrain is a collection of structures located ventrally to the striatum. It is considered to be the major cholinergic output of the CNS. It includes a group of structures that lie near the bottom of the front of the brain, including the nucleus basalis, diagonal band of Broca, and medial septal nuclei. These structures are important in the production of acetylcholine, which is then distributed widely throughout the brain. Acetylcholine affects the ability of brain cells to transmit information to one another, and also encourages plasticity, or learning. Thus, damage to the basal forebrain can reduce the amount of acetylcholine in the brain and impair learning. This may be one reason why basal forebrain damage can result in memory impairments such as amnesia and confabulation. One common cause of basal forebrain damage is aneurysm of the anterior communicating artery. Research, conducted by investigators from Children's Hospital Boston and the University of Helsinki, ties together previous observations about sleep and finds that nitric oxide production in the basal forebrain is both necessary and sufficient to produce sleep. This structure is defined, in part, as the place where adenosine acts on A1 receptors of cholinergic neurons. This results in hyperpolarization of cholinergic neurons, which inhibits the release of acetylcholine. Acetylcholine is known to promote wakefulness in the basal forebrain. Inhibition of acetylcholine release in the basal forebrain by adenosine causes slow wave sleep. The basal forebrain and adjacent areas are a focus for sleep research. Stimulating the basal forebrain gives rise to EEG sychrony and sleep. [WP,unvetted]." [Wikipedia:Basal_forebrain] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars basalis telencephali" RELATED LATIN [Wikipedia:Basal_forebrain] xref: BM:Tel-BF xref: BTO:0002444 xref: FMA:77700 xref: NIF_GrossAnatomy:birnlex_1560 xref: http://upload.wikimedia.org/wikipedia/commons/a/a4/Basal_Forebrain_Monakhos_2007.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a4/Basal_Forebrain_Monakhos_2007.png/200px-Basal_Forebrain_Monakhos_2007.png is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002780 ! regional part of forebrain relationship: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0002744 name: hilum of dentate nucleus namespace: uberon synonym: "dentate nuclear hilum" EXACT [FMA:72548] xref: FMA:72548 xref: NIF_GrossAnatomy:birnlex_1561 xref: SCTID:369055003 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002745 name: ventral amygdalofugal projection namespace: uberon synonym: "ventral amygdalofugal pathway" EXACT [NIF_GrossAnatomy:birnlex_1563] xref: FMA:61977 xref: NIF_GrossAnatomy:birnlex_1563 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002746 name: intermediate periventricular nucleus namespace: uberon synonym: "intermediate periventricular nucleus of hypothalamus" EXACT [FMA:62328] synonym: "periventricular nucleus at the tuberal level" EXACT [FMA:62328] xref: FMA:62328 xref: NIF_GrossAnatomy:birnlex_1564 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002747 name: neodentate part of dentate nucleus namespace: uberon synonym: "neodentate portion of dentate nucleus" EXACT [FMA:72539] xref: FMA:72539 xref: NIF_GrossAnatomy:birnlex_1567 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002132 ! dentate nucleus [Term] id: UBERON:0002748 name: medial lemniscus of medulla namespace: uberon def: "A medial lemniscus that is part of a medulla [Automatically generated definition]." [OBOL:automatic] synonym: "medulla medial lemniscus" EXACT [OBOL:automatic] xref: FMA:72621 xref: NIF_GrossAnatomy:birnlex_1570 is_a: UBERON:0002678 ! regional part of medulla oblongata is_a: UBERON:0003002 ! medial lemniscus relationship: part_of UBERON:0001896 ! medulla oblongata intersection_of: UBERON:0003002 ! medial lemniscus intersection_of: part_of UBERON:0000958 ! medulla [Term] id: UBERON:0002749 name: regional part of cerebellar cortex namespace: uberon def: "A regional part of brain that is part of a cerebellar cortex [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "cerebellar cortical segment" EXACT [FMA:76924] synonym: "segment of cerebellar cortex" EXACT [NIF_GrossAnatomy:birnlex_1571] xref: FMA:76924 xref: NIF_GrossAnatomy:birnlex_1571 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002946 ! regional part of cerebellum is_a: UBERON:0003528 ! brain grey matter intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002129 ! cerebellar cortex [Term] id: UBERON:0002750 name: medial longitudinal fasciculus of medulla namespace: uberon def: "A medial longitudinal fasciculus that is part of a medulla [Automatically generated definition]." [OBOL:automatic] synonym: "medulla medial longitudinal fasciculus" EXACT [OBOL:automatic] xref: FMA:72618 xref: NIF_GrossAnatomy:birnlex_1574 is_a: UBERON:0002309 ! medial longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata intersection_of: UBERON:0002309 ! medial longitudinal fasciculus intersection_of: part_of UBERON:0000958 ! medulla [Term] id: UBERON:0002751 name: inferior temporal gyrus namespace: uberon def: "The inferior temporal gyrus is placed below the middle temporal sulcus, and is connected behind with the inferior occipital gyrus; it also extends around the infero-lateral border on to the inferior surface of the temporal lobe, where it is limited by the inferior sulcus. This region is one of the higher levels of the ventral stream of visual processing, associated with the representation of complex object features, such as global shape. It may also be involved in face perception. [WP,unvetted]." [Wikipedia:Inferior_temporal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus temporalis inferior" EXACT LATIN [NIF_GrossAnatomy:birnlex_1577, Wikipedia:Inferior_temporal_gyrus] synonym: "lateral occipitotemporal gyrus (heimer-83)" EXACT [] xref: BM:Tel-ITG xref: FMA:61907 xref: NIF_GrossAnatomy:birnlex_1577 xref: SCTID:279191005 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Gray726.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/35/Gray726.png/200px-Gray726.png xref: ncithesaurus:Inferior_Temporal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: has_function_in GO:0007601 ! visual perception relationship: part_of UBERON:0001871 ! temporal lobe [Term] id: UBERON:0002752 name: olivocerebellar tract namespace: uberon def: "The olivocerebellar tract (olivocerebellar fibers) leaves the olivary nucleus and pass out through the hilum and decussate with those from the opposite olive in the raphC), then as internal arcuate fibers they pass partly through and partly around the opposite olive and enter the inferior peduncle to be distributed to the cerebellar hemisphere of the opposite side from which they arise. They terminate directly on Purkinje cells as the climbing fiber input system. [WP,unvetted]." [Wikipedia:Olivocerebellar_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "t. olivocerebellaris" RELATED LATIN [Wikipedia:Olivocerebellar_tract] xref: FMA:72638 xref: NIF_GrossAnatomy:birnlex_1579 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray695.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/93/Gray695.png/200px-Gray695.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002753 name: posterior spinocerebellar tract namespace: uberon def: "The dorsal spinocerebellar tract (posterior spinocerebellar tract, Flechsig's fasciculus, Flechsig's tract) conveys proprioceptive information from the body to the cerebellum. It is part of the somatosensory system and runs in parallel with the ventral spinocerebellar tract. Proprioceptive information is taken to the via central processes of dorsal root ganglia (first order neurons). These central processes travel through the dorsal horn where they synapse with second order neurons of Clarke's nucleus. Axon fibers from Clarke's Nucleus convey this proprioceptive information in the spinal cord in the peripheral region of the posteriolateral funiculus ipsilaterally until it reaches the cerebellum, where unconscious proprioceptive information is processed. This tract involves two neurons and ends up on the same side of the body. [WP,unvetted]." [Wikipedia:Dorsal_spinocerebellar_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal spinocerebellar tract" EXACT [FMA:72641] synonym: "flechsig's tract" EXACT [FMA:72641] xref: BM:DSCT xref: FMA:72641 xref: NIF_GrossAnatomy:birnlex_1585 xref: SCTID:369284002 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Spinal_cord_tracts_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0001018 ! axon tract is_a: UBERON:0002316 ! white matter relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0005413 ! spinocerebellar tract [Term] id: UBERON:0002754 name: predorsal bundle namespace: uberon synonym: "predorsal bundle of edinger" EXACT [] synonym: "predorsal fasciculus" EXACT [FMA:72614] synonym: "tectospinal fibers" EXACT [FMA:72614] xref: FMA:72614 xref: NIF_GrossAnatomy:birnlex_1590 is_a: UBERON:0005838 ! fasciculus of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002755 name: pyramidal decussation namespace: uberon def: "When these pyramidal fibers are traced downward, it is found that some three-fifths or more of them leave the pyramids in successive bundles, and decussate in the anterior median fissure of the medulla oblongata, forming what is termed the pyramidal decussation or motor decussation. Having crossed the middle line, they pass down in the posterior part of the lateral funiculus as the lateral cerebrospinal fasciculus. [WP,unvetted]." [Wikipedia:Decussation_of_pyramids] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corticospinal decussation" EXACT [FMA:72633] synonym: "decussatio pyramidum" EXACT LATIN [FMA:72633, FMA:TA] synonym: "decussatio pyramidum medullae oblongatae" EXACT LATIN [FMA:72633, FMA:TA] synonym: "decussation of corticospinal tract" EXACT [FMA:72633] synonym: "decussation of pyramidal tract fibers" EXACT [FMA:72633] synonym: "decussation of pyramids" EXACT [FMA:72633] synonym: "decussation of pyramids of medulla" EXACT [FMA:72633] synonym: "decussation of the pyramidal tract" EXACT [NIF_GrossAnatomy:birnlex_1594] synonym: "motor decussation" EXACT [FMA:72633] synonym: "motor decussation of medulla" EXACT [FMA:72633] synonym: "pyramidal decussation (pourfour du petit)" EXACT [NIF_GrossAnatomy:birnlex_1594] xref: BM:Me-PyX xref: FMA:72633 xref: NIF_GrossAnatomy:birnlex_1594 xref: SCTID:369058001 xref: http://upload.wikimedia.org/wikipedia/commons/a/ac/Gray684.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ac/Gray684.png/200px-Gray684.png is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0007418 ! decussation of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002756 name: anterior cingulate gyrus namespace: uberon subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:61916 xref: NIF_GrossAnatomy:birnlex_1603 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/22/Gray727_anterior_cingulate_cortex.png/200px-Gray727_anterior_cingulate_cortex.png is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0002967 ! cingulate gyrus relationship: part_of UBERON:0009835 ! anterior cingulate cortex [Term] id: UBERON:0002757 name: regional part of epithalamus namespace: uberon def: "A regional part of brain that is part of a epithalamus [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "epithalamus segment" EXACT [FMA:62013] synonym: "segment of epithalamus" EXACT [NIF_GrossAnatomy:birnlex_1607] xref: FMA:62013 xref: NIF_GrossAnatomy:birnlex_1607 is_a: UBERON:0002784 ! regional part of diencephalon intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001899 ! epithalamus [Term] id: UBERON:0002758 name: dorsal nucleus of medial geniculate body namespace: uberon synonym: "dorsal nucleus of medial geniculate complex" EXACT [FMA:62216] synonym: "medial geniculate complex, dorsal part" EXACT [NIF_GrossAnatomy:birnlex_1608] synonym: "medial geniculate nucleus, dorsal part" EXACT [NIF_GrossAnatomy:birnlex_1608] synonym: "nucleus corporis geniculati medialis, pars dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1608] synonym: "nucleus dorsalis coporis geniculati medialis" RELATED [BTO:0002673] synonym: "nucleus geniculatus medialis fibrosus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1608] synonym: "nucleus geniculatus medialis pars dorsalis" EXACT [NIF_GrossAnatomy:birnlex_1608] xref: ABA:MGd xref: BTO:0002673 xref: FMA:62216 xref: NIF_GrossAnatomy:birnlex_1608 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001927 ! medial geniculate body property_value: spatially_disjoint_from UBERON:0002759 property_value: spatially_disjoint_from UBERON:0002985 [Term] id: UBERON:0002759 name: magnocellular nucleus of medial geniculate body namespace: uberon synonym: "corpus geniculatus mediale, pars magnocelluaris" EXACT [NIF_GrossAnatomy:birnlex_1612] synonym: "magnocelluar nucleus of medial geniculate complex" EXACT [NIF_GrossAnatomy:birnlex_1612] synonym: "medial division of medial geniculate body" EXACT [FMA:62218] synonym: "medial geniculate complex, medial part" EXACT [FMA:62218] synonym: "medial geniculate nucleus, medial part" EXACT [FMA:62218] synonym: "medial magnocellular nucleus of medial geniculate body" EXACT [FMA:62218] synonym: "medial nucleus of medial geniculate body" EXACT [FMA:62218] synonym: "nucleus corporis geniculati medialis, pars magnocelluaris" EXACT [NIF_GrossAnatomy:birnlex_1612] synonym: "nucleus geniculatus medialis magnocelluaris (hassler)" EXACT [NIF_GrossAnatomy:birnlex_1612] synonym: "nucleus geniculatus medialis, pars magnocelluaris" EXACT [NIF_GrossAnatomy:birnlex_1612] synonym: "nucleus medialis magnocellularis corporis geniculati medialis" RELATED [BTO:0002672] xref: ABA:MGm xref: BTO:0002672 xref: FMA:62218 xref: NIF_GrossAnatomy:birnlex_1612 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001927 ! medial geniculate body property_value: spatially_disjoint_from UBERON:0002758 property_value: spatially_disjoint_from UBERON:0002985 [Term] id: UBERON:0002760 name: ventral corticospinal tract namespace: uberon def: "The anterior corticospinal tract (also called the ventral corticospinal tract, medial corticospinal tract, direct pyramidal tract, or anterior cerebrospinal fasciculus) is a small bundle of descending fibers that connect the cerebral cortex to the spinal cord. It is usually small, varying inversely in size with the lateral corticospinal tract, which is the main part of the corticospinal tract. It lies close to the anterior median fissure, and is present only in the upper part of the medulla spinalis; gradually diminishing in size as it descends, it ends about the middle of the thoracic region. It consists of descending fibers which arise from cells in the motor area of the cerebral hemisphere of the same side, and which, as they run downward in the medulla spinalis, cross in succession through the anterior white commissure to the opposite side, where they end, either directly or indirectly, by arborizing around the motor neurons in the anterior column. A few of its fibers are said to pass to the lateral column of the same side and to the gray matter at the base of the posterior column. They conduct voluntary motor impulses from the precentral gyrus to the motor centers of the cord. [WP,unvetted]." [Wikipedia:Ventral_corticospinal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior corticospinal tract" EXACT [FMA:72636] synonym: "anterior pyramidal tract" EXACT [FMA:72636] synonym: "anterior tract of turck" EXACT [] synonym: "bundle of turck" EXACT [] synonym: "column of turck" EXACT [] xref: FMA:72636 xref: NIF_GrossAnatomy:birnlex_1618 xref: SCTID:369092003 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002761 name: inferior frontal sulcus namespace: uberon def: "The inferior frontal sulcus is a sulcus between the middle frontal gyrus and the inferior frontal gyrus. [WP,unvetted]." [Wikipedia:Inferior_frontal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior frontal fissure" EXACT [FMA:83757] synonym: "sulcus f2" EXACT [FMA:83757] synonym: "sulcus frontalis inferior" RELATED LATIN [Wikipedia:Inferior_frontal_sulcus] xref: FMA:83757 xref: NIF_GrossAnatomy:birnlex_1619 xref: SCTID:279343004 xref: UMLS:C0262251 xref: http://upload.wikimedia.org/wikipedia/commons/7/72/Gray726_Inferior_frontal_sulcus.svg xref: ncithesaurus:Inferior_Frontal_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002762 name: internal medullary lamina of thalamus namespace: uberon synonym: "internal medullary lamina" EXACT [FMA:62079] synonym: "internal medullary lamina of thalamus" EXACT [FMA:62079] synonym: "lamina medullaris medialis thalami" EXACT LATIN [FMA:62079, FMA:TA] xref: FMA:62079 xref: NIF_GrossAnatomy:birnlex_1621 xref: SCTID:369161003 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002763 name: accessory medullary lamina namespace: uberon synonym: "accessory medullar lamina of pallidum" EXACT [NIF_GrossAnatomy:birnlex_1626] synonym: "accessory medullary lamina" EXACT [FMA:62471] synonym: "accessory medullary lamina of corpus striatum" EXACT [FMA:62471] synonym: "accessory medullary lamina of globus pallidus" EXACT [FMA:62471] synonym: "incomplete medullary lamina of globus pallidus" EXACT [FMA:62471] synonym: "lamina medullaris accessoria corporis striati" EXACT LATIN [FMA:62471, FMA:TA] xref: FMA:62471 xref: NIF_GrossAnatomy:birnlex_1626 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus [Term] id: UBERON:0002764 name: inferior precentral sulcus namespace: uberon synonym: "inferior part of precentral fissure" EXACT [FMA:83764] synonym: "sulcus praecentralis inferior" EXACT [NIF_GrossAnatomy:birnlex_1627] synonym: "sulcus precentralis inferior" EXACT [NIF_GrossAnatomy:birnlex_1627] xref: FMA:83764 xref: NIF_GrossAnatomy:birnlex_1627 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002765 name: lateral medullary lamina namespace: uberon synonym: "external medulary lamina of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "external medulary lamina of lentiform nucleus" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "external medullary lamina of corpus striatum" EXACT [FMA:62469] synonym: "external medullary lamina of globus pallidus" EXACT [FMA:62469] synonym: "external medullary lamina of lentiform nucleus" EXACT [FMA:62469] synonym: "lamina medullaris externa corporis striati" EXACT LATIN [FMA:62469, FMA:TA] synonym: "lamina medullaris lateralis corporis striati" EXACT LATIN [FMA:62469, FMA:TA] synonym: "lateral medulary lamina of globus pallidus" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "lateral medulary stria" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "lateral medullary lamina" EXACT [FMA:62469] synonym: "lateral medullary lamina of corpus striatum" EXACT [FMA:62469] synonym: "lateral medullary lamina of globus pallidus" EXACT [FMA:62469] synonym: "lateral medullary lamina of pallidum" EXACT [FMA:62469] synonym: "lateral medullary stria" EXACT [FMA:62469] synonym: "medulary lamina of pallidum" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "outer medulary lamina" EXACT [NIF_GrossAnatomy:birnlex_1634] synonym: "outer medullary lamina" EXACT [FMA:62469] xref: FMA:62469 xref: NIF_GrossAnatomy:birnlex_1634 xref: SCTID:369204004 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus [Term] id: UBERON:0002766 name: fusiform gyrus namespace: uberon def: "The fusiform gyrus is part of the temporal lobe. It is also known as the (discontinuous) occipitotemporal gyrus. Other sources have the fusiform gyrus above the occipitotemporal gyrus and underneath the parahippocampal gyrus. [WP,unvetted]." [Wikipedia:Fusiform_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus fusiformis" RELATED LATIN [Wikipedia:Fusiform_gyrus] synonym: "gyrus occipitotemporalis lateralis" EXACT LATIN [FMA:61908, FMA:TA] synonym: "lateral occipitotemporal gyrus" EXACT [FMA:61908] synonym: "medial occipitotemporal gyrus-1 (heimer)" EXACT [] synonym: "occipitotemporal gyrus" EXACT [FMA:61908] xref: FMA:61908 xref: NIF_GrossAnatomy:birnlex_1641 xref: SCTID:110678003 xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray727.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Gray727.svg/200px-Gray727.svg.png is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001871 ! temporal lobe [Term] id: UBERON:0002767 name: inferior rostral sulcus namespace: uberon synonym: "sulcus rostralis inferior" EXACT [NIF_GrossAnatomy:birnlex_1642] xref: FMA:83767 xref: NIF_GrossAnatomy:birnlex_1642 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002768 name: vestibulospinal tract namespace: uberon def: "a long process of a CNS neuron, that carries efferent (outgoing) action potentials from the cell body in the vestibular nucleus of the pons towards target cells in the spinal cord[GO]." [Wikipedia:Vestibulospinal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "tractus vestibulospinalis" RELATED LATIN [Wikipedia:Vestibulospinal_tract] synonym: "vestibulo-spinal tract" EXACT [ZFA:0000709] xref: FMA:72646 xref: NIF_GrossAnatomy:birnlex_1643 xref: SCTID:369289007 xref: TAO:0000709 xref: ZFA:0000709 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Spinal_cord_tracts_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002769 name: superior temporal gyrus namespace: uberon def: "A gyrus (plural gyri) is a bump or ridge on the surface of the brain. The superior temporal gyrus is one of three (sometimes two) gyri in the temporal lobe of the human brain. The superior temporal gyrus is bounded by: the lateral sulcus above; the superior temporal sulcus (not always present or visible) below; an imaginary line drawn from the preoccipital notch to the lateral sulcus posteriorly. The superior temporal gyrus contains several important structures of the brain, including: Brodmann areas 41 and 42, marking the location of the primary auditory cortex, the cortical region responsible for the sensation of sound; Wernicke's area, Brodmann 22p, an important region for the processing of speech so that it can be understood as language. [WP,unvetted]." [Wikipedia:Superior_temporal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus temporalis superior" EXACT LATIN [NIF_GrossAnatomy:birnlex_1648, Wikipedia:Superior_temporal_gyrus] xref: BM:Tel-STG xref: EFO:0001944 xref: FMA:61905 xref: NIF_GrossAnatomy:birnlex_1648 xref: SCTID:362345008 xref: http://upload.wikimedia.org/wikipedia/commons/1/1d/Superior_temporal_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1d/Superior_temporal_gyrus.png/200px-Superior_temporal_gyrus.png xref: ncithesaurus:Superior_Temporal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001871 ! temporal lobe [Term] id: UBERON:0002770 name: posterior hypothalamic region namespace: uberon def: "The part of the hypothalamus posterior to the middle region consisting of several nuclei including the medial mamillary nucleus, lateral mamillary nucleus, and posterior hypothalamic nucleus (posterior hypothalamic area). The posterior hypothalamic area is concerned with control of sympathetic responses and is sensitive to conditions of decreasing temperature and controls the mechanisms for the conservation and increased production of heat." [MESH:A08.186.211.730.385.357.362] synonym: "mammillary level of hypothalamus" EXACT [FMA:62029] synonym: "mammillary region" EXACT [FMA:62029] synonym: "posterior hypothalamus" EXACT [FMA:62029] xref: FMA:62029 xref: GAID:651 xref: MESH:A08.186.211.730.385.357.362 xref: NIF_GrossAnatomy:birnlex_1651 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0002771 name: middle temporal gyrus namespace: uberon def: "Middle temporal gyrus is a gyrus in the brain on the Temporal lobe. It is located between the superior temporal gyrus and inferior temporal gyrus. Its exact function is unknown, but it has been connected with processes as different as contemplating distance, recognition of known faces, and accessing word meaning while reading. [WP,unvetted]." [Wikipedia:Middle_temporal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus temporalis medius" EXACT [NIF_GrossAnatomy:birnlex_1653] synonym: "intermediate temporal gyrus" EXACT [FMA:61906] synonym: "medial temporal gyrus" RELATED [Wikipedia:Middle_temporal_gyrus] xref: EFO:0002466 xref: FMA:61906 xref: NIF_GrossAnatomy:birnlex_1653 xref: SCTID:279190006 xref: http://upload.wikimedia.org/wikipedia/commons/4/49/WOROI_60_loc.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/49/WOROI_60_loc.png/200px-WOROI_60_loc.png xref: ncithesaurus:Middle_Temporal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0001871 ! temporal lobe [Term] id: UBERON:0002772 name: olfactory sulcus namespace: uberon def: "The medial orbital gyrus presents a well-marked antero-posterior sulcus, the olfactory sulcus, for the olfactory tract. [WP,unvetted]." [Wikipedia:Olfactory_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "olfactory groove" EXACT [NIF_GrossAnatomy:birnlex_1655] synonym: "sulcus olfactorius" EXACT [NIF_GrossAnatomy:birnlex_1655] synonym: "sulcus olfactorius lobi frontalis" RELATED LATIN [Wikipedia:Olfactory_sulcus] xref: BM:Tel-Cx-OFS xref: FMA:83769 xref: NIF_GrossAnatomy:birnlex_1655 xref: SCTID:279358007 xref: UMLS:C0228205 xref: http://upload.wikimedia.org/wikipedia/commons/9/9a/Gray729_olfactory_sulcus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9a/Gray729_olfactory_sulcus.png/200px-Gray729_olfactory_sulcus.png xref: ncithesaurus:Olfactory_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002773 name: anterior transverse temporal gyrus namespace: uberon synonym: "anterior transverse convolution of heschl" EXACT [NIF_GrossAnatomy:birnlex_1657] synonym: "anterior transverse temporal convolution of heschl" EXACT [] synonym: "first transverse gyrus of heschl" EXACT [] synonym: "great transverse gyrus of heschl" EXACT [] xref: FMA:61909 xref: NIF_GrossAnatomy:birnlex_1657 xref: SCTID:279192003 is_a: UBERON:0003939 ! transverse gyrus of Heschl [Term] id: UBERON:0002774 name: posterior transverse temporal gyrus namespace: uberon synonym: "posterior transverse convolution of heschl" EXACT [NIF_GrossAnatomy:birnlex_1661] synonym: "posterior transverse temporal convolution of heschl" EXACT [] xref: FMA:61910 xref: NIF_GrossAnatomy:birnlex_1661 xref: SCTID:279193008 is_a: UBERON:0003939 ! transverse gyrus of Heschl [Term] id: UBERON:0002775 name: olivocochlear bundle namespace: uberon synonym: "bundle of rasmussen" EXACT [] synonym: "efferent cochlear bundle" EXACT [FMA:72485] synonym: "olivocochlear bundle of rasmussen" EXACT [] synonym: "olivocochlear tract" EXACT [FMA:72485] synonym: "tractus olivocochlearis" EXACT LATIN [FMA:72485, FMA:TA] xref: FMA:72485 xref: NIF_GrossAnatomy:birnlex_1666 xref: SCTID:369030009 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002776 name: ventral nuclear group namespace: uberon def: "The ventral nuclear group is a collection of nuclei on the ventral side of the thalamus. According to MeSH, it consists of the following: ventral anterior nucleus ventral lateral nucleus ventral posterior nucleus [WP,unvetted]." [Wikipedia:Ventral_nuclear_group] comment: Editors note: consider splitting nucleus from nuclear group subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei ventrales thalami" EXACT [NIF_GrossAnatomy:birnlex_1669] synonym: "ventral group of dorsal thalamus" EXACT [NIF_GrossAnatomy:birnlex_1669] synonym: "ventral nuclear group" EXACT [FMA:62022] synonym: "ventral nuclear group of thalamus" EXACT [FMA:62022] synonym: "ventral nuclear mass" EXACT [FMA:62022] synonym: "ventral nuclei of thalamus" EXACT [FMA:62022] synonym: "ventral tier thalamic nuclei" EXACT [FMA:62022] xref: ABA:VENT xref: BTO:0002467 xref: EV:0100206 xref: FMA:62022 xref: NIF_GrossAnatomy:birnlex_1669 xref: SCTID:279125005 xref: ZFA:0005576 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001897 ! thalamus property_value: spatially_disjoint_from UBERON:0002144 property_value: spatially_disjoint_from UBERON:0002704 [Term] id: UBERON:0002777 name: obsolete neostriatum namespace: uberon is_obsolete: true consider: FMA:77617 consider: NIF_GrossAnatomy:birnlex_1672 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: GAID:669 [Term] id: UBERON:0002778 name: ventral pallidum namespace: uberon def: "Part of the globus pallidus, consistingo of the more medial of the two segments. In some species, e.g., primates, it is separated from the lateral segment by the fibers of the medial medullary lamina (MM)." [NIF_GrossAnatomy:birnlex_1674] synonym: "ventral globus pallidus" RELATED [BTO:0004375] synonym: "ventral pallidum" EXACT [NIF_GrossAnatomy:birnlex_1674] xref: ABA:PALv xref: BM:Tel-VPa xref: BTO:0004375 xref: FMA:77613 xref: NIF_GrossAnatomy:birnlex_1674 is_a: UBERON:0005401 ! cerebral grey matter is_a: UBERON:0006514 ! pallidum is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus [Term] id: UBERON:0002779 name: lateral superior olivary nucleus namespace: uberon def: "In anatomy, the olivary bodies or simply olives (Latin oliva and olivae, singular and plural, respectively) are a pair of prominent oval structures in the medulla oblongata, the lower portion of the brainstem. They contain the olivary nuclei. [WP,unvetted]." [Wikipedia:Olivary_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "accessory olivary nucleus" EXACT [FMA:72472] synonym: "accessory superior olivary nucleus" EXACT [FMA:72472] synonym: "accessory superior olive" EXACT [FMA:72472] synonym: "lateral superior olive" EXACT [FMA:72472] synonym: "superior olivary nucleus, lateral part" EXACT [FMA:72472] xref: BM:Pons-SOL xref: FMA:72472 xref: NIF_GrossAnatomy:birnlex_1675 xref: SCTID:360477003 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9a/Gray679.png/200px-Gray679.png is_a: UBERON:0007247 ! superior olivary nucleus [Term] id: UBERON:0002780 name: regional part of forebrain namespace: uberon def: "A regional part of brain that is part of a forebrain [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "forebrain segment" EXACT [FMA:61996] synonym: "segment of forebrain" EXACT [NIF_GrossAnatomy:birnlex_1677] xref: FMA:61996 xref: NIF_GrossAnatomy:birnlex_1677 is_a: UBERON:0002616 ! regional part of brain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0002781 name: caudal part of ventral posterolateral nucleus namespace: uberon synonym: "ventral posterior lateral nucleus (ilinsky)" EXACT [] synonym: "ventral posterolateral nucleus, caudal part" EXACT [FMA:62206] synonym: "ventral posterolateral thalamic nucleus, caudal part" EXACT [FMA:62206] xref: FMA:62206 xref: NIF_GrossAnatomy:birnlex_1681 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0002782 name: medial superior olivary nucleus namespace: uberon def: "The superior olivary complex (or SOC or superior olive) is a small mass of gray substance situated on the dorsal surface of the lateral part of the trapezoid body. Small in humans, but well developed in certain animals, it exhibits similar structure as the inferior olivary nucleus, and is situated immediately above it. Some of the fibers of the trapezoid body end by arborizing around the cells of this nucleus, while others arise from these cells. [WP,unvetted]." [Wikipedia:Superior_olivary_complex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chief nucleus of superior olive" EXACT [FMA:72473] synonym: "chief superior olivary nucleus" EXACT [FMA:72473] synonym: "main superior olivary nucleus" EXACT [FMA:72473] synonym: "medial superior olive" EXACT [FMA:72473] synonym: "nucleus laminaris" EXACT [NIF_GrossAnatomy:birnlex_1682] synonym: "principal superior olivary nucleus" EXACT [FMA:72473] synonym: "superior olivary nucleus, medial part" EXACT [FMA:72473] xref: BM:Pons-SOM xref: FMA:72473 xref: NIF_GrossAnatomy:birnlex_1682 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/46/Gray713.png/200px-Gray713.png is_a: UBERON:0007247 ! superior olivary nucleus [Term] id: UBERON:0002783 name: central tegmental tract of pons namespace: uberon xref: FMA:72494 xref: NIF_GrossAnatomy:birnlex_1683 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002784 name: regional part of diencephalon namespace: uberon def: "A regional part of brain that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "diencephalon segment" EXACT [FMA:62005] xref: FMA:62005 xref: NIF_GrossAnatomy:birnlex_1685 xref: SCTID:119264001 is_a: UBERON:0002780 ! regional part of forebrain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0002785 name: regional part of lateral hypothalamic region namespace: uberon def: "A multi-tissue structure that is part of a lateral hypothalamic area." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "lateral hypothalamic region segment" EXACT [FMA:62312] synonym: "segment of lateral hypothalamic region" EXACT [NIF_GrossAnatomy:birnlex_1687] xref: FMA:62312 xref: NIF_GrossAnatomy:birnlex_1687 is_a: UBERON:0003048 ! regional part of hypothalamus intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002430 ! lateral hypothalamic area [Term] id: UBERON:0002786 name: abducens nerve fibers namespace: uberon synonym: "abducens nerve fibers" EXACT [FMA:72491] synonym: "abducens nerve tract" EXACT [FMA:72491] synonym: "central part of abducens nerve" EXACT [FMA:72491] synonym: "root of abducens nerve" EXACT [FMA:72491] xref: FMA:72491 xref: NIF_GrossAnatomy:birnlex_1689 is_a: UBERON:0006843 ! root of cranial nerve relationship: adjacent_to UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002787 name: decussation of trochlear nerve namespace: uberon synonym: "decussation of trochlear nerve (IV)" EXACT [FMA:72488] synonym: "trochlear neural decussation" EXACT [FMA:72488] xref: FMA:72488 xref: NIF_GrossAnatomy:birnlex_1690 is_a: UBERON:0007418 ! decussation of neuraxis [Term] id: UBERON:0002788 name: anterior nuclear group namespace: uberon def: "The anterior nuclei of thalamus (or anterior nuclear group) are collection of nuclei at the rostral end of the dorsal thalamus. [WP,unvetted]." [Wikipedia:Anterior_nuclear_group] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior nuclear group" EXACT [FMA:62019] synonym: "anterior nuclear group of thalamus" EXACT [FMA:62019] synonym: "anterior nuclei of thalamus" EXACT [FMA:62019] synonym: "anterior nucleus of thalamus" EXACT [FMA:62019] synonym: "anterior thalamic group" EXACT [MA:0000861] synonym: "anterior thalamic nuclei" EXACT [FMA:62019] synonym: "anterior thalamus" EXACT [NIF_GrossAnatomy:birnlex_1692] synonym: "nuclei anterior thalami" EXACT [NIF_GrossAnatomy:birnlex_1692] synonym: "nuclei anteriores (thalami)" EXACT [NIF_GrossAnatomy:birnlex_1692] synonym: "nuclei anteriores thalami" EXACT [NIF_GrossAnatomy:birnlex_1692] synonym: "nuclei thalamicus anterior" EXACT [NIF_GrossAnatomy:birnlex_1692] synonym: "rostral thalamic nucleus" RELATED [TAO:0000427] xref: ABA:ATN xref: EV:0100196 xref: FMA:62019 xref: GAID:658 xref: MA:0000861 xref: MESH:A08.186.211.730.385.826.701.080 xref: NIF_GrossAnatomy:birnlex_1692 xref: SCTID:279124009 xref: TAO:0000427 xref: ZFA:0000427 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: UBERON:0002789 name: regional part of posterior hypothalamic region namespace: uberon def: "A regional part of brain that is part of a posterior hypothalamic region [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "posterior hypothalamic region segment" EXACT [FMA:62311] synonym: "segment of posterior hypothalamic region" EXACT [NIF_GrossAnatomy:birnlex_1697] xref: FMA:62311 xref: NIF_GrossAnatomy:birnlex_1697 is_a: UBERON:0003048 ! regional part of hypothalamus intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002770 ! posterior hypothalamic region [Term] id: UBERON:0002790 name: dorsal acoustic stria namespace: uberon synonym: "posterior acoustic stria" EXACT [FMA:72496] synonym: "stria cochlearis posterior" EXACT LATIN [FMA:72496, FMA:TA] xref: FMA:72496 xref: NIF_GrossAnatomy:birnlex_1698 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002791 name: regional part of telencephalon namespace: uberon def: "A regional part of brain that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of telencephalon" EXACT [NIF_GrossAnatomy:birnlex_1700] synonym: "telencephalon segment" EXACT [FMA:62374] xref: FMA:62374 xref: NIF_GrossAnatomy:birnlex_1700 is_a: UBERON:0002780 ! regional part of forebrain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0002792 name: lumbar spinal cord namespace: uberon def: "." [Wikipedia:Lumbar_spinal_cord] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lumbar segment of spinal cord" EXACT [FMA:71168] synonym: "lumbar segments of spinal cord [1-5]" EXACT [FMA:71168] synonym: "lumbar spinal cord" EXACT [FMA:71168] synonym: "segmenta lumbalia medullae spinalis [1-5]" EXACT LATIN [FMA:71168, FMA:TA] xref: FMA:71168 xref: NIF_GrossAnatomy:birnlex_1704 xref: SCTID:180962006 xref: UMLS:C0581621 xref: ncithesaurus:Lumbar_Spinal_Cord intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: part_of UBERON:0005462 ! lower back [Term] id: UBERON:0002793 name: dorsal longitudinal fasciculus of pons namespace: uberon def: "A dorsal longitudinal fasciculus that is part of a pons." [OBOL:automatic] xref: FMA:72492 xref: NIF_GrossAnatomy:birnlex_1707 is_a: UBERON:0003045 ! dorsal longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003045 ! dorsal longitudinal fasciculus intersection_of: part_of UBERON:0000988 ! pons [Term] id: UBERON:0002794 name: medial longitudinal fasciculus of pons namespace: uberon def: "A medial longitudinal fasciculus that is part of a pons [Automatically generated definition]." [OBOL:automatic] synonym: "medial longitudinal fasciculus of pons of varolius" EXACT [OBOL:automatic] synonym: "pons medial longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "pons of varolius medial longitudinal fasciculus" EXACT [OBOL:automatic] xref: FMA:72493 xref: NIF_GrossAnatomy:birnlex_1708 is_a: UBERON:0002309 ! medial longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0002309 ! medial longitudinal fasciculus intersection_of: part_of UBERON:0000988 ! pons [Term] id: UBERON:0002795 name: frontal pole namespace: uberon def: "Component of the frontal lobe. The rostral and caudal boundaries of the frontal pole are the superior frontal gyrus and the rostral division of the middle frontal gyrus respectively (Christine Fennama-Notestine)." [NIF_GrossAnatomy:birnlex_1716] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "polus frontalis" EXACT [NeuroNames:57] xref: FMA:74885 xref: NIF_GrossAnatomy:birnlex_1716 xref: SCTID:314144002 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e3/Human_brain_lateral_view_description.JPG/200px-Human_brain_lateral_view_description.JPG intersection_of: UBERON:0009899 ! pole of cerebral hemisphere intersection_of: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0002796 name: motor root of trigeminal nerve namespace: uberon comment: todo - check ZFA synonym: "dorsal motor root of v" RELATED [TAO:0000650] synonym: "motor branch of trigeminal nerve" EXACT [FMA:52612] synonym: "motor root of nervus v" EXACT [] synonym: "radix motoria (Nervus trigeminus [V])" EXACT [FMA:52612] xref: FMA:52612 xref: NIF_GrossAnatomy:birnlex_1717 xref: SCTID:280189001 xref: TAO:0000650 xref: ZFA:0000650 is_a: UBERON:0004673 ! trigeminal nerve root relationship: develops_from UBERON:0005239 ! basal plate metencephalon [Term] id: UBERON:0002797 name: dorsal trigeminal tract namespace: uberon def: "The dorsal trigeminal tract (dorsal trigeminothalamic tract, or lemniscus) is a tract which receives signals from Meissner's corpuscles and Pacinian corpuscles. this tract arises from Principal trigeminal nucleus and terminates in the VPM nucleus of the thalamus. [WP,unvetted]." [Wikipedia:Dorsal_trigeminal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal ascending trigeminal tract" EXACT [FMA:72500] synonym: "dorsal division of trigeminal lemniscus" EXACT [FMA:72500] synonym: "dorsal secondary ascending tract of v" EXACT [] synonym: "dorsal secondary tract of v" EXACT [] synonym: "dorsal trigeminal lemniscus" EXACT [FMA:72500] synonym: "dorsal trigeminal pathway" EXACT [FMA:72500] synonym: "dorsal trigeminothalamic tract" EXACT [FMA:72500] synonym: "posterior trigeminothalamic tract" EXACT [FMA:72500] synonym: "reticulothalamic tract" EXACT [FMA:72500] synonym: "tractus trigeminothalamicus posterior" EXACT LATIN [FMA:72500, FMA:TA] synonym: "uncrossed dorsal trigeminothalamic tract" EXACT [FMA:72500] xref: FMA:72500 xref: NIF_GrossAnatomy:birnlex_1718 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002798 name: spinothalamic tract of pons namespace: uberon def: "Part of spinothalamic tract that is in the pontine tegmentum" [NIF_GrossAnatomy:birnlex_1719] synonym: "pons of varolius spinothalamic tract" EXACT [OBOL:automatic] synonym: "pons of varolius spinothalamic tract of medulla" EXACT [OBOL:automatic] synonym: "pons spinothalamic tract" EXACT [OBOL:automatic] synonym: "pons spinothalamic tract of medulla" EXACT [OBOL:automatic] synonym: "spinothalamic tract of medulla of pons" EXACT [OBOL:automatic] synonym: "spinothalamic tract of medulla of pons of varolius" EXACT [OBOL:automatic] synonym: "spinothalamic tract of pons of varolius" EXACT [OBOL:automatic] xref: FMA:72504 xref: NIF_GrossAnatomy:birnlex_1719 xref: SCTID:369026006 is_a: UBERON:0007702 ! tract of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0003023 ! pontine tegmentum relationship: part_of UBERON:0007703 ! spinothalamic tract [Term] id: UBERON:0002799 name: fronto-orbital sulcus namespace: uberon synonym: "fronto-orbital dimple" EXACT [FMA:83768] synonym: "orbito-frontal sulcus" EXACT [FMA:83768] synonym: "orbitofrontal sulcus" EXACT [BM:Tel-Cx-OFS] xref: BM:Tel-Cx-OFS xref: FMA:83768 xref: NIF_GrossAnatomy:birnlex_1724 is_a: UBERON:0008334 ! subarachnoid sulcus relationship: part_of UBERON:0004167 ! orbitofrontal cortex [Term] id: UBERON:0002800 name: spinal trigeminal tract of pons namespace: uberon xref: FMA:72507 xref: NIF_GrossAnatomy:birnlex_1725 xref: SCTID:369027002 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002801 name: stratum zonale of thalamus namespace: uberon synonym: "neuraxis stratum" EXACT [FMA:83905] synonym: "stratum zonale thalami" EXACT [NIF_GrossAnatomy:birnlex_1727] xref: FMA:83905 xref: NIF_GrossAnatomy:birnlex_1727 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002802 name: left parietal lobe namespace: uberon def: "A parietal lobe that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72974 xref: NIF_GrossAnatomy:birnlex_1728 xref: SCTID:314147009 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0001872 ! parietal lobe intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere property_value: spatially_disjoint_from UBERON:0002803 [Term] id: UBERON:0002803 name: right parietal lobe namespace: uberon def: "A parietal lobe that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72973 xref: NIF_GrossAnatomy:birnlex_1729 xref: SCTID:314146000 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0001872 ! parietal lobe intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0002804 name: left limbic lobe namespace: uberon def: "A limbic lobe that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72981 xref: NIF_GrossAnatomy:birnlex_1780 intersection_of: UBERON:0002600 ! limbic lobe intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere [Term] id: UBERON:0002805 name: right limbic lobe namespace: uberon def: "A limbic lobe that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72980 xref: NIF_GrossAnatomy:birnlex_1781 intersection_of: UBERON:0002600 ! limbic lobe intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0002806 name: left occipital lobe namespace: uberon def: "An occipital lobe that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72976 xref: NIF_GrossAnatomy:birnlex_1782 xref: SCTID:314150007 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0002021 ! occipital lobe intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere property_value: spatially_disjoint_from UBERON:0002807 [Term] id: UBERON:0002807 name: right occipital lobe namespace: uberon def: "An occipital lobe that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72975 xref: NIF_GrossAnatomy:birnlex_1783 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rv9OFy5wpEbGdrcN5Y29ycA xref: SCTID:314149007 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0002021 ! occipital lobe intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0002808 name: left temporal lobe namespace: uberon def: "A temporal lobe that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72972 xref: NIF_GrossAnatomy:birnlex_1784 xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rwQLi-ZwpEbGdrcN5Y29ycA xref: SCTID:314158000 intersection_of: UBERON:0001871 ! temporal lobe intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere [Term] id: UBERON:0002809 name: right temporal lobe namespace: uberon def: "A temporal lobe that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72971 xref: NIF_GrossAnatomy:birnlex_1785 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rwQLi-ZwpEbGdrcN5Y29ycA xref: SCTID:314157005 intersection_of: UBERON:0001871 ! temporal lobe intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0002810 name: right frontal lobe namespace: uberon def: "A frontal cortex that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72969 xref: NIF_GrossAnatomy:birnlex_1786 xref: SCTID:314141005 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0001870 ! frontal cortex intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0002811 name: left frontal lobe namespace: uberon def: "A frontal cortex that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72970 xref: NIF_GrossAnatomy:birnlex_1787 xref: SCTID:314142003 relationship: adjacent_to UBERON:0002921 ! longitudinal fissure intersection_of: UBERON:0001870 ! frontal cortex intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere property_value: spatially_disjoint_from UBERON:0002810 [Term] id: UBERON:0002812 name: left cerebral hemisphere namespace: uberon def: "A cerebral hemisphere that is in the left side of a brain." [OBOL:automatic] synonym: "left hemisphere" EXACT [NIF_GrossAnatomy:birnlex_1795] xref: FMA:61819 xref: NIF_GrossAnatomy:birnlex_1795 xref: SCTID:362323007 xref: UMLS:C0228176 xref: ncithesaurus:Left_Cerebral_Hemisphere intersection_of: UBERON:0001869 ! cerebral hemisphere intersection_of: in_left_side_of UBERON:0000955 ! brain [Term] id: UBERON:0002813 name: right cerebral hemisphere namespace: uberon def: "A cerebral hemisphere that is in the right side of a brain." [OBOL:automatic] synonym: "right hemisphere" EXACT [NIF_GrossAnatomy:birnlex_1797] xref: FMA:67292 xref: NIF_GrossAnatomy:birnlex_1797 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvigx5ZwpEbGdrcN5Y29ycA xref: SCTID:362322002 xref: UMLS:C0228175 xref: ncithesaurus:Right_Cerebral_Hemisphere intersection_of: UBERON:0001869 ! cerebral hemisphere intersection_of: in_right_side_of UBERON:0000955 ! brain [Term] id: UBERON:0002814 name: posterior superior fissure namespace: uberon synonym: "fissura post clivalis" EXACT LATIN [FMA:83733, FMA:TA] synonym: "post-clival fissure" EXACT [FMA:83733] synonym: "postclival fissure" EXACT [FMA:83733] synonym: "posterior superior fissure of cerebellum" EXACT [FMA:83733] synonym: "postlunate fissure" EXACT [FMA:83733] xref: FMA:83733 xref: NIF_GrossAnatomy:birnlex_20081254 xref: NIF_GrossAnatomy:nlx_anat_20081254 xref: SCTID:314170001 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002815 name: horizontal fissure namespace: uberon def: "The largest and deepest fissure in the cerebellum is named the horizontal sulcus (or horizontal fissure). It commences in front of the pons, and passes horizontally around the free margin of the hemisphere to the middle line behind, and divides the cerebellum into an upper and a lower portion. [WP,unvetted]." [Wikipedia:Horizontal_fissure_of_cerebellum] synonym: "fissura horizontalis" RELATED LATIN [Wikipedia:Horizontal_fissure_of_cerebellum] synonym: "fissura intercruralis cerebelli" EXACT LATIN [FMA:75135, FMA:TA] synonym: "great horizontal fissure" EXACT [FMA:75135] synonym: "horizontal fissure of cerebellum" EXACT [] synonym: "horizontal fissure of right lung(line)" EXACT [FMA:14697] synonym: "horizontal sulcus" EXACT [] synonym: "intercrural fissure of cerebellum" EXACT [FMA:75135] xref: FMA:14697 xref: FMA:75135 xref: NIF_GrossAnatomy:birnlex_20081255 xref: NIF_GrossAnatomy:nlx_anat_20081255 xref: SCTID:314173004 xref: http://upload.wikimedia.org/wikipedia/commons/8/8d/Gray702.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8d/Gray702.png/200px-Gray702.png is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002816 name: prepyramidal fissure namespace: uberon synonym: "fissura prebiventralis cerebelli" EXACT LATIN [FMA:75138, FMA:TA] synonym: "prebiventral fissure of cerebellum" EXACT [FMA:75138] synonym: "prepyramidal fissure of cerebellum" EXACT [FMA:75138] synonym: "prepyramidal sulcus" EXACT [FMA:75138] xref: FMA:75138 xref: NIF_GrossAnatomy:birnlex_20081257 xref: NIF_GrossAnatomy:nlx_anat_20081257 xref: SCTID:314171002 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002817 name: secondary fissure namespace: uberon synonym: "fissura postpyramidalis cerebelli" EXACT LATIN [FMA:84043, FMA:TA] synonym: "post-pyramidal fissure of cerebellum" EXACT [FMA:84043] synonym: "postpyramidal fissure" EXACT [FMA:84043] synonym: "secondary fissure" EXACT [FMA:84043] synonym: "secondary fissure of cerebellum" EXACT [FMA:84043] xref: FMA:84043 xref: NIF_GrossAnatomy:birnlex_20081258 xref: NIF_GrossAnatomy:nlx_anat_20081258 xref: SCTID:314169002 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002818 name: posterolateral fissure namespace: uberon synonym: "dorsolateral fissure of cerebellum" EXACT [FMA:83730] synonym: "posterolateral fissure of cerebellum" EXACT [FMA:83730] synonym: "prenodular fissure" EXACT [FMA:83730] synonym: "prenodular sulcus" EXACT [FMA:83730] synonym: "uvulonodular fissure" EXACT [FMA:83730] xref: FMA:83730 xref: NIF_GrossAnatomy:birnlex_20081259 xref: NIF_GrossAnatomy:nlx_anat_20081259 xref: SCTID:314172009 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002819 name: apex of cochlea namespace: uberon def: "The cupula is a structure in the vestibular system, sensing proprioception. The cupula is located within the ampullae of each of the three semicircular canals. As fluid rushes by the cupula, hair cells within it sense rotational acceleration, and transmit the corresponding signal to the brain through the vestibulocochlear nerve (CN VIII) In their natural orientation within the head, the cupulae are located on the medial aspect of the semicircular canals. In this orientation, the kinocilia rest on the posterior aspect of the cupula. [WP,unvetted]." [Wikipedia:Apex_of_cochlea] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cochlea apex" EXACT [FMA:75641] synonym: "cupula of cochlea" EXACT [FMA:75641] xref: FMA:75641 xref: NIF_GrossAnatomy:birnlex_2523 is_a: UBERON:0000477 ! anatomical cluster relationship: has_function_in GO:0019230 ! proprioception [Term] id: UBERON:0002820 name: zona arcuata of basilar membrane of cochlea namespace: uberon alt_id: UBERON:0002821 xref: FMA:75709 xref: NIF_GrossAnatomy:birnlex_2528 is_a: UBERON:0005764 ! acellular membrane [Term] id: UBERON:0002822 name: macula lutea proper namespace: uberon xref: FMA:58671 xref: NIF_GrossAnatomy:birnlex_2542 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000053 ! macula lutea [Term] id: UBERON:0002823 name: clivus of fovea centralis namespace: uberon comment: NIF differs from FMA synonym: "clivus of macula lutea" EXACT [NIF_GrossAnatomy:birnlex_2544] synonym: "fovea centralis clivus" EXACT [FMA:58674] xref: FMA:58674 xref: NIF_GrossAnatomy:birnlex_2544 is_a: UBERON:0000466 ! immaterial anatomical entity relationship: part_of UBERON:0001786 ! fovea centralis [Term] id: UBERON:0002824 name: vestibular ganglion namespace: uberon def: "The vestibular nerve ganglion (also called Scarpa's ganglion) is the ganglion of the vestibular nerve. It contains the cell bodies of the bipolar primary afferent neurons whose peripheral processes form synaptic contact with hair cells of the vestibular sensory end organs[WP,unvetted]." [Wikipedia:Scarpa%27s_ganglion] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Scarpa's ganglion" EXACT [FMA:53435] synonym: "vestibulocochlear VIII ganglion vestibular component" EXACT [MA:0001086] synonym: "vestibulocochlear component" EXACT [] xref: EMAPA:17573 xref: FMA:53435 xref: MA:0001086 xref: NIF_GrossAnatomy:birnlex_2549 xref: RETIRED_EHDAA2:0002199 xref: SCTID:244450009 xref: UMLS:C0036286 xref: VHOG:0000682 xref: ncithesaurus:Vestibular_Ganglion is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0001800 ! sensory ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002827 ! auditory ganglion [Term] id: UBERON:0002825 name: superior part of vestibular ganglion namespace: uberon synonym: "pars superior vestibularis" RELATED [MA:0002778] synonym: "vestibular ganglion superior part" EXACT [MA:0002778] xref: FMA:77531 xref: MA:0002778 xref: NIF_GrossAnatomy:birnlex_2551 is_a: UBERON:0000064 ! organ part is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002824 ! vestibular ganglion [Term] id: UBERON:0002826 name: inferior part of vestibular ganglion namespace: uberon synonym: "vestibular ganglion inferior part" EXACT [MA:0002779] xref: FMA:77532 xref: MA:0002779 xref: NIF_GrossAnatomy:birnlex_2552 is_a: UBERON:0000064 ! organ part is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002824 ! vestibular ganglion [Term] id: UBERON:0002827 name: auditory ganglion namespace: uberon comment: Editor notes: Consider follow MA naming scheme. // The cell bodies of the cochlear nerve lie within the central aspect of the cochlea and are collectively known as the spiral ganglion. This name reflects the fact that the cell bodies, considered as a unit, have a spiral (or perhaps more accurately, a helical) shape, reflecting the shape of the cochlea. The terms \"cochlear nerve fiber\" and \"spiral ganglion cell\" are used, to some degree, interchangeably, although the former may be used to more specifically refer to the central axons of the cochlear nerve. These central axons exit the cochlea at its base, where it forms a nerve trunk. In humans, this aspect of the nerve is roughly one inch in length. It projects centrally to the brainstem, where its fibers synapse with the cell bodies of the cochlear nucleus[Wikipedia:Cochlear_nerve] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "SAG" BROAD [ZFA:0000588] synonym: "acoustic ganglion" RELATED [VHOG:0000696] synonym: "acoustic ganglion VIII" EXACT [EMAPA:16982] synonym: "acoustico-vestibular VIII ganglion" EXACT [EHDAA2:0002196] synonym: "auditory ganglion" EXACT [ZFA:0000588] synonym: "gVIII" EXACT [ZFA:0000588] synonym: "ganglion VIII" EXACT [] synonym: "statoacoustic (VIII) ganglion" EXACT [ZFA:0000588] synonym: "statoacoustic VIII ganglion" RELATED [VHOG:0000696] synonym: "statoacoustic ganglia" EXACT [ZFA:0000588] synonym: "vestibulocochlear VIII ganglion" EXACT [MA:0001084] xref: EFO:0003543 xref: EHDAA2:0002196 xref: EHDAA:5569 xref: EHDAA:6653 xref: EMAPA:16982 xref: EMAPA:17571 xref: MA:0001084 xref: NIF_GrossAnatomy:birnlex_2564 xref: TAO:0000588 xref: VHOG:0000696 xref: XAO:0004142 xref: ZFA:0000588 is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003249 ! epithelium of otic placode relationship: develops_from UBERON:0005565 ! facio-acoustic neural crest relationship: develops_from UBERON:0012175 ! acoustico-facial VII-VIII ganglion complex relationship: part_of UBERON:0002105 ! vestibulo-auditory system property_value: external_definition "The sensory ganglion of the ear. (See Anatomical Atlas entry for statoacoustic ganglion by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes " (During the development of the inner ear in a vertebrate embryo) As the otic placode invaginates into a cup neuroblasts delaminate from the anterior ventral aspect of the otic epithelium to give rise to neurons of the vestibulocochlear (statoacoustic) ganglion of cranial nerve VIII.[well established][VHOG]" xsd:string [Term] id: UBERON:0002828 name: ventral cochlear nucleus namespace: uberon def: "The ventral cochlear nucleus (or anterior, or accessory), placed between the two divisions of the cochlear nerve, is on the ventral aspect of the inferior peduncle. Composed of several regions of distinct cell types, this nucleus serves primarily as a relay station for ascending auditory information. Bushy cells in the anterior ventral cochlear nucleus (AVCN), which receive end bulbs of held from auditory nerve fibers, project to the superior olivary complex through the trapezoid body and intermediate acoustic stria. Other cell types project to the lateral lemniscus and the inferior colliculus directly. [WP,unvetted]." [Wikipedia:Ventral_cochlear_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "anterior cochlear nucleus" EXACT [FMA:54621] synonym: "c1281209" EXACT [NIF_GrossAnatomy:birnlex_2567] synonym: "ventral cochlear nucleus" EXACT [FMA:54621] xref: ABA:VCO xref: BM:CV xref: FMA:54621 xref: NIF_GrossAnatomy:birnlex_2567 xref: SCTID:280178008 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bb/Gray760.png/200px-Gray760.png is_a: UBERON:0001720 ! cochlear nucleus [Term] id: UBERON:0002829 name: dorsal cochlear nucleus namespace: uberon def: "The dorsal cochlear nucleus (DCN, also known as the 'tuberculum acousticum'), is a cortex-like structure on the dorso-lateral surface of the brainstem. Along with the ventral cochlear nucleus, it forms the cochlear nucleus, where all auditory nerve fibers from the cochlea form their first synapses. [WP,unvetted]." [Wikipedia:Dorsal_cochlear_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal cochlear nucleus" EXACT [FMA:54624] synonym: "dorsal division of cochlear nucleus" EXACT [FMA:54624] synonym: "nucleus cochlearis posterior" RELATED LATIN [Wikipedia:Dorsal_cochlear_nucleus] synonym: "posterior cochlear nucleus" EXACT [FMA:54624] synonym: "tuberculum acousticum" EXACT [] xref: ABA:DCO xref: BM:Me-CD xref: FMA:54624 xref: NIF_GrossAnatomy:birnlex_2569 xref: SCTID:280179000 xref: UMLS:C0175499 xref: http://upload.wikimedia.org/wikipedia/commons/b/bb/Gray760.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bb/Gray760.png/200px-Gray760.png xref: ncithesaurus:Dorsal_Cochlear_Nucleus is_a: UBERON:0001720 ! cochlear nucleus [Term] id: UBERON:0002830 name: anteroventral cochlear nucleus namespace: uberon synonym: "anterior part of anterior cochlear nucleus" EXACT [NIF_GrossAnatomy:birnlex_2572] synonym: "anteroventral auditory nucleus" EXACT [FMA:72571] synonym: "nucleus magnocellularis" EXACT [NIF_GrossAnatomy:birnlex_2572] xref: FMA:72571 xref: NIF_GrossAnatomy:birnlex_2572 is_a: UBERON:0001720 ! cochlear nucleus [Term] id: UBERON:0002831 name: posteroventral cochlear nucleus namespace: uberon synonym: "posterior part of anterior cochlear nucleus" EXACT [NIF_GrossAnatomy:birnlex_2573] xref: FMA:72572 xref: NIF_GrossAnatomy:birnlex_2573 is_a: UBERON:0001720 ! cochlear nucleus [Term] id: UBERON:0002832 name: ventral nucleus of trapezoid body namespace: uberon synonym: "anterior nucleus of trapezoid body" EXACT [FMA:72477] synonym: "nucleus anterior corporis trapezoidei" EXACT LATIN [FMA:72477, FMA:TA] xref: FMA:72477 xref: NIF_GrossAnatomy:birnlex_2576 xref: SCTID:369020000 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007247 ! superior olivary nucleus is_a: UBERON:0007633 ! nucleus of trapezoid body relationship: part_of UBERON:0002128 ! superior olivary complex [Term] id: UBERON:0002833 name: medial nucleus of trapezoid body namespace: uberon xref: FMA:75732 xref: NIF_GrossAnatomy:birnlex_2595 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007633 ! nucleus of trapezoid body [Term] id: UBERON:0002834 name: cervical dorsal root ganglion namespace: uberon synonym: "cervical dorsal root ganglion" EXACT [FMA:6005] synonym: "cervical spinal ganglion" EXACT [FMA:6005] xref: FMA:6005 xref: NIF_GrossAnatomy:birnlex_2599 xref: SCTID:278325008 is_a: UBERON:0000044 ! dorsal root ganglion [Term] id: UBERON:0002835 name: thoracic dorsal root ganglion namespace: uberon def: "A dorsal root ganglion that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "dorsal root ganglion of thorax" EXACT [OBOL:automatic] synonym: "ganglion of dorsal root of thorax" EXACT [OBOL:automatic] synonym: "ganglion spinalis of thorax" EXACT [OBOL:automatic] synonym: "thoracic dorsal root ganglion" EXACT [FMA:6006] synonym: "thoracic spinal ganglion" EXACT [FMA:6006] synonym: "thorax dorsal root ganglion" EXACT [OBOL:automatic] synonym: "thorax ganglion of dorsal root" EXACT [OBOL:automatic] synonym: "thorax ganglion spinalis" EXACT [OBOL:automatic] xref: FMA:6006 xref: NIF_GrossAnatomy:birnlex_2600 xref: SCTID:278326009 is_a: UBERON:0000044 ! dorsal root ganglion is_a: UBERON:0000961 ! thoracic ganglion intersection_of: UBERON:0000044 ! dorsal root ganglion intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0002836 name: lumbar dorsal root ganglion namespace: uberon def: "the group of nerve cell bodies located on the dorsal spinal roots within the vertebral column at the level of the lumbar vertebrae." [MP:0006404] synonym: "lumbar dorsal root ganglion" EXACT [FMA:6007] synonym: "lumbar spinal ganglion" EXACT [FMA:6007] xref: FMA:6007 xref: NIF_GrossAnatomy:birnlex_2601 xref: SCTID:278327000 is_a: UBERON:0000044 ! dorsal root ganglion [Term] id: UBERON:0002837 name: sacral dorsal root ganglion namespace: uberon synonym: "sacral dorsal root ganglion" EXACT [FMA:6008] synonym: "sacral spinal ganglion" EXACT [FMA:6008] xref: FMA:6008 xref: NIF_GrossAnatomy:birnlex_2602 xref: SCTID:278328005 is_a: UBERON:0000044 ! dorsal root ganglion [Term] id: UBERON:0002838 name: first cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "first cervical dorsal root ganglion" EXACT [FMA:6010] synonym: "first cervical spinal ganglion" EXACT [FMA:6010] xref: EMAPA:25144 xref: FMA:6010 xref: NIF_GrossAnatomy:birnlex_2603 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002839 name: second cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "second cervical dorsal root ganglion" EXACT [FMA:6315] synonym: "second cervical spinal ganglion" EXACT [FMA:6315] xref: EMAPA:25155 xref: FMA:6315 xref: NIF_GrossAnatomy:birnlex_2604 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002840 name: third cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "third cervical dorsal root ganglion" EXACT [FMA:6316] synonym: "third cervical spinal ganglion" EXACT [FMA:6316] xref: EMAPA:25156 xref: FMA:6316 xref: NIF_GrossAnatomy:birnlex_2605 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002841 name: fourth cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "fourth cervical dorsal root ganglion" EXACT [FMA:6317] synonym: "fourth cervical spinal ganglion" EXACT [FMA:6317] xref: EMAPA:25157 xref: FMA:6317 xref: NIF_GrossAnatomy:birnlex_2606 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002842 name: fifth cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "fifth cervical dorsal root ganglion" EXACT [FMA:6318] synonym: "fifth cervical spinal ganglion" EXACT [FMA:6318] xref: EMAPA:25158 xref: FMA:6318 xref: NIF_GrossAnatomy:birnlex_2607 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002843 name: seventh cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "seventh cervical dorsal root ganglion" EXACT [FMA:6360] synonym: "seventh cervical spinal ganglion" EXACT [FMA:6360] xref: EMAPA:25160 xref: FMA:6360 xref: NIF_GrossAnatomy:birnlex_2609 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002844 name: eighth cervical dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "eighth cervical dorsal root ganglion" EXACT [FMA:6361] synonym: "eighth cervical spinal ganglion" EXACT [FMA:6361] xref: FMA:6361 xref: NIF_GrossAnatomy:birnlex_2610 is_a: UBERON:0002834 ! cervical dorsal root ganglion [Term] id: UBERON:0002845 name: first thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "first thoracic dorsal root ganglion" EXACT [FMA:6321] synonym: "first thoracic spinal ganglion" EXACT [FMA:6321] xref: EMAPA:25174 xref: FMA:6321 xref: NIF_GrossAnatomy:birnlex_2611 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002846 name: second thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "second thoracic dorsal root ganglion" EXACT [FMA:6322] synonym: "second thoracic spinal ganglion" EXACT [FMA:6322] xref: EMAPA:25175 xref: FMA:6322 xref: NIF_GrossAnatomy:birnlex_2612 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002847 name: third thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "third thoracic dorsal root ganglion" EXACT [FMA:6323] synonym: "third thoracic spinal ganglion" EXACT [FMA:6323] xref: EMAPA:25176 xref: FMA:6323 xref: NIF_GrossAnatomy:birnlex_2613 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002848 name: fifth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "fifth thoracic dorsal root ganglion" EXACT [FMA:6325] synonym: "fifth thoracic spinal ganglion" EXACT [FMA:6325] xref: EMAPA:25179 xref: FMA:6325 xref: NIF_GrossAnatomy:birnlex_2615 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002849 name: sixth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "sixth thoracic dorsal root ganglion" EXACT [FMA:6326] synonym: "sixth thoracic spinal ganglion" EXACT [FMA:6326] xref: EMAPA:25178 xref: FMA:6326 xref: NIF_GrossAnatomy:birnlex_2616 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002850 name: seventh thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "seventh thoracic dorsal root ganglion" EXACT [FMA:6327] synonym: "seventh thoracic spinal ganglion" EXACT [FMA:6327] xref: EMAPA:25180 xref: FMA:6327 xref: NIF_GrossAnatomy:birnlex_2617 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002851 name: eighth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "eighth thoracic dorsal root ganglion" EXACT [FMA:6328] synonym: "eighth thoracic spinal ganglion" EXACT [FMA:6328] xref: EMAPA:25181 xref: FMA:6328 xref: NIF_GrossAnatomy:birnlex_2618 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002852 name: ninth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "ninth thoracic dorsal root ganglion" EXACT [FMA:6329] synonym: "ninth thoracic spinal ganglion" EXACT [FMA:6329] xref: EMAPA:25182 xref: FMA:6329 xref: NIF_GrossAnatomy:birnlex_2619 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002853 name: tenth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "tenth thoracic dorsal root ganglion" EXACT [FMA:6330] synonym: "tenth thoracic spinal ganglion" EXACT [FMA:6330] xref: EMAPA:25183 xref: FMA:6330 xref: NIF_GrossAnatomy:birnlex_2620 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002854 name: eleventh thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "eleventh thoracic dorsal root ganglion" EXACT [FMA:6331] synonym: "eleventh thoracic spinal ganglion" EXACT [FMA:6331] xref: EMAPA:25184 xref: FMA:6331 xref: NIF_GrossAnatomy:birnlex_2621 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002855 name: twelfth thoracic dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "twelfth thoracic dorsal root ganglion" EXACT [FMA:6332] synonym: "twelfth thoracic spinal ganglion" EXACT [FMA:6332] xref: EMAPA:25185 xref: FMA:6332 xref: NIF_GrossAnatomy:birnlex_2622 is_a: UBERON:0002835 ! thoracic dorsal root ganglion [Term] id: UBERON:0002856 name: second lumbar dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "second lumbar dorsal root ganglion" EXACT [FMA:6336] synonym: "second lumbar spinal ganglion" EXACT [FMA:6336] xref: EMAPA:25165 xref: FMA:6336 xref: NIF_GrossAnatomy:birnlex_2623 is_a: UBERON:0002836 ! lumbar dorsal root ganglion [Term] id: UBERON:0002857 name: first lumbar dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "first lumbar dorsal root ganglion" EXACT [FMA:6335] synonym: "first lumbar spinal ganglion" EXACT [FMA:6335] xref: EMAPA:25164 xref: FMA:6335 xref: NIF_GrossAnatomy:birnlex_2624 is_a: UBERON:0002836 ! lumbar dorsal root ganglion [Term] id: UBERON:0002858 name: third lumbar dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "third lumbar dorsal root ganglion" EXACT [FMA:6337] synonym: "third lumbar spinal ganglion" EXACT [FMA:6337] xref: EMAPA:25166 xref: FMA:6337 xref: NIF_GrossAnatomy:birnlex_2625 is_a: UBERON:0002836 ! lumbar dorsal root ganglion [Term] id: UBERON:0002859 name: fifth lumbar dorsal root ganglion namespace: uberon alt_id: UBERON:0003944 def: "the group of nerve cell bodies located on the dorsal spinal roots within the vertebral column at the level of the fifth lumbar vertebra" [MP:0001022] subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L5 dorsal root ganglion" EXACT [MP:0001022] synonym: "fifth lumbar dorsal root ganglion" EXACT [FMA:6339] synonym: "fifth lumbar spinal ganglion" EXACT [FMA:6339] xref: EMAPA:25168 xref: FMA:6339 xref: NIF_GrossAnatomy:birnlex_2627 is_a: UBERON:0002836 ! lumbar dorsal root ganglion [Term] id: UBERON:0002860 name: first sacral dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "first sacral dorsal root ganglion" EXACT [FMA:6342] synonym: "first sacral spinal ganglion" EXACT [FMA:6342] xref: EMAPA:25170 xref: FMA:6342 xref: NIF_GrossAnatomy:birnlex_2628 is_a: UBERON:0002837 ! sacral dorsal root ganglion [Term] id: UBERON:0002861 name: second sacral dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "second sacral dorsal root ganglion" EXACT [FMA:6343] synonym: "second sacral spinal ganglion" EXACT [FMA:6343] xref: EMAPA:25171 xref: FMA:6343 xref: NIF_GrossAnatomy:birnlex_2629 is_a: UBERON:0002837 ! sacral dorsal root ganglion [Term] id: UBERON:0002862 name: third sacral dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "third sacral dorsal root ganglion" EXACT [FMA:6344] synonym: "third sacral spinal ganglion" EXACT [FMA:6344] xref: EMAPA:25172 xref: FMA:6344 xref: NIF_GrossAnatomy:birnlex_2630 is_a: UBERON:0002837 ! sacral dorsal root ganglion [Term] id: UBERON:0002863 name: fifth sacral dorsal root ganglion namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "fifth sacral dorsal root ganglion" EXACT [FMA:6346] synonym: "fifth sacral spinal ganglion" EXACT [FMA:6346] xref: FMA:6346 xref: NIF_GrossAnatomy:birnlex_2632 is_a: UBERON:0002837 ! sacral dorsal root ganglion [Term] id: UBERON:0002864 name: accessory cuneate nucleus namespace: uberon def: "The accessory cuneate nucleus is located lateral to the cuneate nucleus in the medulla oblongata at the level of the sensory decussation. It receives input from cervical spinal nerves and transmits that information to the cerebellum. These fibers are called cuneocerebellar (cuneate nucleus > cerebellum) fibers. In this function, the accessory cuneate nucleus is comparable to the upper extremity portion of the posterior spinocerebellar tract. [WP,unvetted]." [Wikipedia:Accessory_cuneate_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "external cuneate nucleus" EXACT [FMA:72603] synonym: "lateral cuneate nucleus" EXACT [FMA:72603] synonym: "nucleus cuneatus accessorius" RELATED LATIN [Wikipedia:Accessory_cuneate_nucleus] synonym: "nucleus of corpus restiforme" EXACT [FMA:72603] xref: ABA:ECU xref: BM:Me-CX xref: EV:0100285 xref: FMA:72603 xref: NIF_GrossAnatomy:birnlex_2634 xref: SCTID:15575006 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/94/Gray694.png/200px-Gray694.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002162 property_value: spatially_disjoint_from UBERON:0002591 property_value: spatially_disjoint_from UBERON:0002610 property_value: spatially_disjoint_from UBERON:0002866 property_value: spatially_disjoint_from UBERON:0002873 property_value: spatially_disjoint_from UBERON:0007633 [Term] id: UBERON:0002865 name: arcuate nucleus of medulla namespace: uberon def: "An arcuate nucleus of hypothalamus that is part of a medulla [Automatically generated definition]." [OBOL:automatic] synonym: "arcuate hypothalamic nucleus of medulla" EXACT [OBOL:automatic] synonym: "arcuate nucleus of hypothalamus of medulla" EXACT [OBOL:automatic] synonym: "arcuate nucleus-1" EXACT [FMA:72609] synonym: "arcuate nucleus-2 of medulla" EXACT [OBOL:automatic] synonym: "arcuate periventricular nucleus of medulla" EXACT [OBOL:automatic] synonym: "infundibular hypothalamic nucleus of medulla" EXACT [OBOL:automatic] synonym: "infundibular nucleus of medulla" EXACT [OBOL:automatic] synonym: "infundibular periventricular nucleus of medulla" EXACT [OBOL:automatic] synonym: "medial arcuate nucleus" EXACT [FMA:72609] synonym: "medulla arcuate hypothalamic nucleus" EXACT [OBOL:automatic] synonym: "medulla arcuate nucleus" EXACT [OBOL:automatic] synonym: "medulla arcuate nucleus of hypothalamus" EXACT [OBOL:automatic] synonym: "medulla arcuate nucleus-2" EXACT [OBOL:automatic] synonym: "medulla arcuate periventricular nucleus" EXACT [OBOL:automatic] synonym: "medulla infundibular hypothalamic nucleus" EXACT [OBOL:automatic] synonym: "medulla infundibular nucleus" EXACT [OBOL:automatic] synonym: "medulla infundibular periventricular nucleus" EXACT [OBOL:automatic] synonym: "nucleus arciformis pyramidalis" EXACT [NIF_GrossAnatomy:birnlex_2635] xref: FMA:72609 xref: NIF_GrossAnatomy:birnlex_2635 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter intersection_of: UBERON:0001932 ! arcuate nucleus of hypothalamus intersection_of: part_of UBERON:0000958 ! medulla [Term] id: UBERON:0002866 name: caudal part of spinal trigeminal nucleus namespace: uberon synonym: "caudal nucleus" EXACT [NIF_GrossAnatomy:birnlex_2637] synonym: "caudal nucleus (kandell)" EXACT [] synonym: "spinal trigeminal nucleus, caudal part" EXACT [FMA:72606] xref: ABA:SPVC xref: EV:0100235 xref: FMA:72606 xref: MESH:A08.186.211.132.931.920.927 xref: NIF_GrossAnatomy:birnlex_2637 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001717 ! spinal nucleus of trigeminal nerve property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002162 property_value: spatially_disjoint_from UBERON:0002591 property_value: spatially_disjoint_from UBERON:0002610 property_value: spatially_disjoint_from UBERON:0002864 property_value: spatially_disjoint_from UBERON:0002873 property_value: spatially_disjoint_from UBERON:0007633 [Term] id: UBERON:0002867 name: central gray substance of medulla namespace: uberon synonym: "central gray matter" EXACT [NIF_GrossAnatomy:birnlex_2638] synonym: "medullary central gray substance" EXACT [FMA:72595] xref: FMA:72595 xref: NIF_GrossAnatomy:birnlex_2638 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002868 name: commissural nucleus of vagus nerve namespace: uberon synonym: "commissural nucleus-1" EXACT [FMA:54597] synonym: "nucleus of inferior commissure" EXACT [FMA:54597] synonym: "nucleus of inferior commisure" EXACT [NIF_GrossAnatomy:birnlex_2639] xref: FMA:54597 xref: NIF_GrossAnatomy:birnlex_2639 is_a: UBERON:0011775 ! vagus nerve nucleus [Term] id: UBERON:0002869 name: diffuse reticular nucleus namespace: uberon synonym: "kolloker-fuse nucleus" EXACT [NIF_GrossAnatomy:birnlex_2641] synonym: "nucleus of kolliker-fuse" EXACT [] xref: FMA:72598 xref: NIF_GrossAnatomy:birnlex_2641 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002870 name: dorsal motor nucleus of vagus nerve namespace: uberon def: "The dorsal nucleus of the vagus nerve (or posterior motor nucleus of vagus) is a cranial nerve nucleus for the vagus nerve that arises from the floor of the fourth ventricle. It mostly serves parasympathetic vagal functions in the heart, gastrointestinal tract, lungs, and other thoracic and abdominal vagal innervations. [WP,unvetted]." [Wikipedia:Dorsal_nucleus_of_vagus_nerve] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal efferent nucleus of vagus" EXACT [FMA:54592] synonym: "dorsal motor nucleus of the vagus" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal motor nucleus of the vagus nerve" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal motor nucleus of vagus X nerve" EXACT [MA:0001036] synonym: "dorsal motor nucleus of vagus nerve" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal motor vagal nucleus" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal nucleus of the vagus nerve" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal nucleus of vagus nerve" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "dorsal vagal nucleus" EXACT [NIF_GrossAnatomy:birnlex_2642, Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "nucleus alaris" EXACT [NIF_GrossAnatomy:birnlex_2642] synonym: "nucleus posterior nervi vagi" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "posterior nucleus of vagus nerve" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] synonym: "vagus nucleus" RELATED [Wikipedia:Dorsal_nucleus_of_vagus_nerve] xref: ABA:DMX xref: BM:DX xref: EHDAA2:0004649 xref: EV:0100287 xref: FMA:54592 xref: MA:0001036 xref: NIF_GrossAnatomy:birnlex_2642 xref: SCTID:52884007 xref: UMLS:C0926535 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/82/Gray697.png/200px-Gray697.png xref: ncithesaurus:Dorsal_Nucleus_of_the_Vagus_Nerve is_a: UBERON:0007635 ! nucleus of medulla oblongata is_a: UBERON:0011778 ! motor nucleus of vagal nerve relationship: immediate_transformation_of UBERON:0010127 ! future dorsal motor nucleus of vagus relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002871 name: hypoglossal nucleus namespace: uberon def: "The hypoglossal nucleus is a cranial nerve nucleus, and it extends the length of the medulla, and being a motor nucleus, is close to the midline. In the open medulla, it is visible as what is known as the hypoglossal trigone, a raised area (medial to the vagal trigone) protruding slightly into the fourth ventricle. In the closed medulla, the gracile and cuneate nuclei lie posteriorly, which means the nucleus is not as close to the back of the medulla as in the open medulla. It is, however, still close to the midline. [WP,unvetted]." [Wikipedia:Hypoglossal_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hypoglossal XII nucleus" EXACT [MA:0001039] synonym: "hypoglossal nerve nucleus" EXACT [FMA:54505] synonym: "hypoglossal nucleus" EXACT [FMA:54505] synonym: "nucleus nervi hypoglossi" EXACT LATIN [FMA:54505, FMA:TA, Wikipedia:Hypoglossal_nucleus] synonym: "nucleus of hypoglossal nerve" EXACT [FMA:54505] synonym: "twelfth cranial nerve nucleus" EXACT [FMA:54505] xref: ABA:XII xref: BM:XII xref: EHDAA2:0004635 xref: EV:0100286 xref: FMA:54505 xref: MA:0001039 xref: NIF_GrossAnatomy:birnlex_2644 xref: SCTID:47361005 xref: UMLS:C0228802 xref: VHOG:0001358 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/94/Gray694.png/200px-Gray694.png xref: ncithesaurus:Hypoglossal_Nucleus xref: ncithesaurus:Nucleus_of_the_Hypoglossal_Nerve is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002872 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002872 name: inferior salivatory nucleus namespace: uberon def: "In the brain, the inferior salivatory nucleus is a cluster of neurons controlling the parasympathetic input to the parotid gland. It is one of the components of the glossopharyngeal nerve. [WP,unvetted]." [Wikipedia:Inferior_salivatory_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior salivary nucleus" EXACT [GO:0021752] synonym: "inferior salivatary nucleus" EXACT [] synonym: "nucleus salivatorius inferior" RELATED LATIN [Wikipedia:Inferior_salivatory_nucleus] xref: ABA:ISN xref: EHDAA2:0004641 xref: FMA:72601 xref: NIF_GrossAnatomy:birnlex_2645 xref: http://upload.wikimedia.org/wikipedia/commons/a/a0/Gray843.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a0/Gray843.png/200px-Gray843.png is_a: UBERON:0004133 ! salivatory nucleus relationship: continuous_with UBERON:0001649 ! glossopharyngeal nerve relationship: immediate_transformation_of UBERON:0010124 ! future inferior salivatory nucleus property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002877 [Term] id: UBERON:0002873 name: interpolar part of spinal trigeminal nucleus namespace: uberon xref: ABA:SPVI xref: FMA:235324 xref: NIF_GrossAnatomy:birnlex_2646 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001717 ! spinal nucleus of trigeminal nerve property_value: spatially_disjoint_from UBERON:0002126 property_value: spatially_disjoint_from UBERON:0002162 property_value: spatially_disjoint_from UBERON:0002591 property_value: spatially_disjoint_from UBERON:0002610 property_value: spatially_disjoint_from UBERON:0002864 property_value: spatially_disjoint_from UBERON:0002866 property_value: spatially_disjoint_from UBERON:0007633 [Term] id: UBERON:0002874 name: lateral pericuneate nucleus namespace: uberon xref: FMA:72604 xref: NIF_GrossAnatomy:birnlex_2647 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002875 name: medial pericuneate nucleus namespace: uberon xref: FMA:72605 xref: NIF_GrossAnatomy:birnlex_2648 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002876 name: nucleus intercalatus namespace: uberon alt_id: UBERON:0002878 comment: two NIF classes with the same name synonym: "intercalated nucleus of medulla" EXACT [FMA:72597] synonym: "nucleus intercalatus of medulla" EXACT [FMA:72597] synonym: "nucleus of staderini" EXACT [] synonym: "nucleus staderini" EXACT [NIF_GrossAnatomy:birnlex_2651, NIF_GrossAnatomy:birnlex_2654] xref: EV:0100291 xref: FMA:72597 xref: NIF_GrossAnatomy:birnlex_2651 xref: NIF_GrossAnatomy:birnlex_2654 xref: SCTID:369077004 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002877 name: parasolitary nucleus namespace: uberon synonym: "nucleus fasciculus solitarius" EXACT [NIF_GrossAnatomy:birnlex_2653] synonym: "nucleus juxtasolitarius" EXACT [NIF_GrossAnatomy:birnlex_2653] xref: ABA:PAS xref: FMA:77091 xref: NIF_GrossAnatomy:birnlex_2653 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001719 property_value: spatially_disjoint_from UBERON:0002127 property_value: spatially_disjoint_from UBERON:0002154 property_value: spatially_disjoint_from UBERON:0002155 property_value: spatially_disjoint_from UBERON:0002559 property_value: spatially_disjoint_from UBERON:0002673 property_value: spatially_disjoint_from UBERON:0002870 property_value: spatially_disjoint_from UBERON:0002871 property_value: spatially_disjoint_from UBERON:0002872 [Term] id: UBERON:0002879 name: peritrigeminal nucleus namespace: uberon xref: FMA:72600 xref: NIF_GrossAnatomy:birnlex_2655 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002880 name: pontobulbar nucleus namespace: uberon synonym: "nucleus of circumolivary bundle" EXACT [FMA:72608] synonym: "pontobulbar body" EXACT [FMA:72608] xref: FMA:72608 xref: NIF_GrossAnatomy:birnlex_2656 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002881 name: sublingual nucleus namespace: uberon def: "In the substance of the formatio reticularis are two small nuclei of gray matter. The one near the dorsal aspect of the hilus of the inferior olivary nucleus is called the Sublingual nucleus (inferior central nucleus, nucleus of Roller.) [WP,unvetted]." [Wikipedia:Sublingual_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior central nucleus" RELATED INCONSISTENT [Wikipedia:Sublingual_nucleus] synonym: "nucleus of roller" EXACT [FMA:68574, Wikipedia:Sublingual_nucleus] synonym: "nucleus sublingualis" RELATED LATIN [Wikipedia:Sublingual_nucleus] xref: ABA:NR xref: FMA:68574 xref: NIF_GrossAnatomy:birnlex_2657 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002160 [Term] id: UBERON:0002882 name: supraspinal nucleus namespace: uberon xref: BM:SSp xref: EV:0100282 xref: FMA:74507 xref: NIF_GrossAnatomy:birnlex_2658 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002883 name: central amygdaloid nucleus namespace: uberon synonym: "amygdala central nucleus" RELATED [BTO:0002686] synonym: "central nucleus of amygda" EXACT [NIF_GrossAnatomy:birnlex_2682] synonym: "central nucleus of amygdala" EXACT [FMA:74047] synonym: "nucleus amygdalae centralis" RELATED [BTO:0002686] xref: BM:Tel-Am-ACE xref: BTO:0002686 xref: EV:0100191 xref: FMA:74047 xref: MA:0002923 xref: NIF_GrossAnatomy:birnlex_2682 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002884 name: intercalated amygdaloid nuclei namespace: uberon synonym: "intercalated amygdaloid nuclei" EXACT [FMA:61868] synonym: "intercalated amygdaloid nucleus" EXACT [FMA:61868] synonym: "intercalated masses of nucleus amygdaloideus" EXACT [FMA:61868] synonym: "intercalated nuclei of amygdala" EXACT [FMA:61868] synonym: "intercalated nucleus of the amygdala" EXACT [NIF_GrossAnatomy:birnlex_2683] synonym: "massa intercalata" EXACT [NIF_GrossAnatomy:birnlex_2683] synonym: "massa intercalata of amygdala" EXACT [NIF_GrossAnatomy:birnlex_2683] xref: FMA:61868 xref: MA:0002925 xref: NIF_GrossAnatomy:birnlex_2683 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002885 name: accessory basal amygdaloid nucleus namespace: uberon synonym: "accessory basal nucleus of amygdala" EXACT [NIF_GrossAnatomy:birnlex_2686] synonym: "basal amygdaloid nucleus, medial part" EXACT [NIF_GrossAnatomy:birnlex_2686] synonym: "basomedial nucleus (de olmos)" EXACT [NIF_GrossAnatomy:birnlex_2686] xref: FMA:61867 xref: NIF_GrossAnatomy:birnlex_2686 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002886 name: lateral amygdaloid nucleus namespace: uberon synonym: "lateral nucleus of amygdala" EXACT [FMA:61866] synonym: "lateral principal nucleus of amygdala" EXACT [FMA:61866] synonym: "nucleus amygdalae lateralis" RELATED [BTO:0002704] xref: ABA:LA xref: BM:Tel-Am-ALA xref: BTO:0002704 xref: FMA:61866 xref: MA:0002926 xref: NIF_GrossAnatomy:birnlex_2687 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002887 name: basal amygdaloid nucleus namespace: uberon synonym: "basolateral amygaloid nucleus" EXACT [NIF_GrossAnatomy:birnlex_2692] synonym: "basolateral amygdalar nucleus" EXACT [NIF_GrossAnatomy:birnlex_2692] synonym: "basolateral amygdaloid nucleus" EXACT [FMA:68855] synonym: "basolateral nucleus (de olmos)" EXACT [] synonym: "intermediate principal nucleus" EXACT [FMA:68855] synonym: "nucleus amygdalae basalis lateralis" EXACT LATIN [FMA:68855, FMA:TA] xref: ABA:BLA xref: FMA:68855 xref: MA:0002921 xref: NIF_GrossAnatomy:birnlex_2692 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala property_value: spatially_disjoint_from UBERON:0002023 [Term] id: UBERON:0002888 name: lateral part of basal amygdaloid nucleus namespace: uberon synonym: "lateral basal nucleus of amygdala" EXACT [NIF_GrossAnatomy:birnlex_2695] synonym: "lateral basal nucleus of the amygdala" EXACT [FMA:68857] synonym: "lateral division of basal nucleus" EXACT [NIF_GrossAnatomy:birnlex_2695] synonym: "lateral division of the basal nucleus" EXACT [FMA:68857] xref: FMA:68857 xref: NIF_GrossAnatomy:birnlex_2695 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0002887 ! basal amygdaloid nucleus [Term] id: UBERON:0002889 name: medial part of basal amygdaloid nucleus namespace: uberon synonym: "basomedial amygdalar nucleus" EXACT [ABA:BMA] synonym: "basomedial amygdaloid nucleus" EXACT [FMA:68858, MA:0002922] synonym: "medial basal nucleus of amygdala" EXACT [FMA:68858] synonym: "medial division of basal nucleus" EXACT [FMA:68858] synonym: "nucleus amygdalae basalis medialis" EXACT LATIN [FMA:68858, FMA:TA] xref: ABA:BMA xref: FMA:68858 xref: MA:0002922 xref: NIF_GrossAnatomy:birnlex_2696 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0002887 ! basal amygdaloid nucleus [Term] id: UBERON:0002890 name: anterior amygdaloid area namespace: uberon synonym: "anterior amygaloid area" EXACT [NIF_GrossAnatomy:birnlex_2698] synonym: "anterior amygdalar area" EXACT [NIF_GrossAnatomy:birnlex_2698] xref: ABA:AAA xref: BM:Tel-Am-AAA xref: FMA:61861 xref: MA:0002919 xref: NIF_GrossAnatomy:birnlex_2698 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0005401 ! cerebral grey matter relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002891 name: cortical amygdaloid nucleus namespace: uberon synonym: "nucleus amygdalae corticalis" RELATED [BTO:0002703] synonym: "posterior cortical amygdaloid nucleus" EXACT [NIF_GrossAnatomy:birnlex_2700] synonym: "posterior cortical nucleus of amygdala" EXACT [FMA:61862] xref: BTO:0002703 xref: EV:0100193 xref: FMA:61862 xref: MA:0002924 xref: NIF_GrossAnatomy:birnlex_2700 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002892 name: medial amygdaloid nucleus namespace: uberon synonym: "medial amygalar nucleus" EXACT [NIF_GrossAnatomy:birnlex_2701] synonym: "medial nucleus of amygdala" EXACT [FMA:74046] synonym: "nucleus amygdalae medialis" RELATED [BTO:0002702] xref: BM:Tel-Am-AME xref: BTO:0002702 xref: EV:0100192 xref: FMA:74046 xref: MA:0002927 xref: NIF_GrossAnatomy:birnlex_2701 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0001876 ! amygdala [Term] id: UBERON:0002893 name: nucleus of lateral olfactory tract namespace: uberon comment: part of amygdala in FMA but this leads to inconsistency when combined with ABA partitions synonym: "lateral olfactory tract nucleus" EXACT [FMA:61865] synonym: "nucleus of the lateral olfactory tract (ganser)" EXACT [NIF_GrossAnatomy:birnlex_2702] xref: ABA:NLOT xref: BM:Tel-NLOT xref: FMA:61865 xref: NIF_GrossAnatomy:birnlex_2702 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0002264 ! olfactory bulb property_value: spatially_disjoint_from UBERON:0002266 property_value: spatially_disjoint_from UBERON:0002590 property_value: spatially_disjoint_from UBERON:0004069 [Term] id: UBERON:0002894 name: olfactory cortex namespace: uberon def: "The olfactory cortex is involved in the perception of smell. It receives input from the olfactory bulb and is responsible for the identification of odors[GO]." [Wikipedia:Olfactory_cortex] comment: _:comment___:_:@___:_:source__GO___:.__Editor note - consider relationship: receives_input_from UBERON:0002264 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "archaeocortex" RELATED [BTO:0001446] synonym: "archeocortex" RELATED [BTO:0001446] synonym: "olfactory lobe" RELATED [MA:0000193] xref: BTO:0001446 xref: EHDAA2:0001289 xref: EHDAA:5482 xref: EMAPA:17779 xref: MA:0000193 xref: NIF_GrossAnatomy:birnlex_2707 xref: VHOG:0000325 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0005366 ! olfactory lobe property_value: external_definition "That portion of the cerebral cortex that, with the palaeocortex, develops in association with the olfactory system, and which is phylogenetically older than the neocortex and lacks its layered structure. The embryonic archaeocortex corresponds to the cortex of the dentate gyrus and hippocampus in mature mammals[BTO:0001446]." xsd:string property_value: homology_notes " (In mammals) Odorant detection is mediated by millions of olfactory sensory neurons located in the olfactory epithelium lining the nasal cavity. These neurons transmit sensory signals to the olfactory bulb of the brain, which in turn sends signals to the olfactory cortex.[well established][VHOG]" xsd:string [Term] id: UBERON:0002895 name: secondary olfactory cortex namespace: uberon def: "Brodmann's area 28; major gateway for neocortical input to the hippocampus; origin of the perforant pathway; a component of the medial temporal lobe memory system. (CSP) * The cytoarchitecturally well-defined area of multilaminate cerebral cortex on the medial aspect of the parahippocampal gyrus, immediately caudal to the olfactory cortex of the uncus. The entorhinal cortex is the origin of the major neural fiber system afferent to the hippocampus, the so-called PERFORANT PATHWAY. (Stedman, 25th ed)." [NIF_GrossAnatomy:birnlex_2709] comment: FMA considers this a syn of entorhinal cortex. See also brodman definition subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "entorhinal cortex" RELATED INCONSISTENT [FMA:72356] synonym: "secondary olfactory areas" EXACT [NIF_GrossAnatomy:birnlex_2709] synonym: "secondary olfactory cortex" EXACT [FMA:72356] synonym: "secondary olfactory cortical area (carpenter)" EXACT [] xref: BTO:0004345 xref: EV:0100179 xref: NIF_GrossAnatomy:birnlex_2709 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex relationship: part_of UBERON:0002894 ! olfactory cortex [Term] id: UBERON:0002896 name: telodiencephalic fissure namespace: uberon synonym: "telo-diencephalic fissure" EXACT [FMA:83726] xref: FMA:83726 xref: NIF_GrossAnatomy:birnlex_4001 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002897 name: cistern of lamina terminalis namespace: uberon synonym: "cisterna lamina terminalis" EXACT [NIF_GrossAnatomy:birnlex_4002] synonym: "lamina terminalis cistern" EXACT [FMA:74516] xref: FMA:74516 xref: NIF_GrossAnatomy:birnlex_4002 xref: SCTID:12692002 xref: UMLS:C0228153 xref: ncithesaurus:Lamina_Terminalis_Cistern is_a: UBERON:0004050 ! subarachnoid cistern [Term] id: UBERON:0002898 name: chiasmatic cistern namespace: uberon def: "In front, the cisterna interpeduncularis extends forward across the optic chiasma, forming the cistern of chiasma or chiasmatic cistern, and on to the upper surface of the corpus callosum, for the arachnoid stretches across from one cerebral hemisphere to the other immediately beneath the free border of the falx cerebri, and thus leaves a space in which the anterior cerebral arteries are contained. The 'leaf' or extension of the chiasmatic cistern above the chiasma, which is separated from the optic recess of the third ventricle by the thin lamina terminalis, has been called the suprachiasmatic cistern. As spaces filled with freely circulating cerebrospinal fluid, cisterns receive little direct study, but are mentioned in pathological conditions. Cysts and tumors of the lamina terminalis extend into the suprachiasmatic cistern, as can pituitary tumors, or the cistern can be partially or completely effaced by injury and hematoma or by blockage of the cerebral aqueduct. [WP,unvetted]." [Wikipedia:Chiasmatic_cistern] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cisterna chiasmatica" EXACT LATIN [NIF_GrossAnatomy:birnlex_4003, Wikipedia:Chiasmatic_cistern] synonym: "cisterna chiasmatis" EXACT [NIF_GrossAnatomy:birnlex_4003] xref: EMAPA:19057 xref: EMAPA:19150 xref: EMAPA:25081 xref: FMA:74515 xref: NIF_GrossAnatomy:birnlex_4003 xref: SCTID:47947006 xref: UMLS:C0228152 xref: ncithesaurus:Chiasmatic_Cistern is_a: UBERON:0004050 ! subarachnoid cistern [Term] id: UBERON:0002899 name: hippocampal sulcus namespace: uberon def: "The hippocampal sulcus, also known as the hippocampal fissure, is a sulcus that separates the dentate gyrus from the subiculum and the CA1 field in the hippocampus. [WP,unvetted]." [Wikipedia:Hippocampal_sulcus] comment: AO notes - two classes in ncit (in general ncit distinguishes between fissure and sulcus, whereas FMA treats these as exact synonyms) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dentate fissure" EXACT [FMA:83747] synonym: "hippocampal fissure" EXACT [FMA:83747] synonym: "sulcus hippocampalis, sulcus hippocampi" RELATED LATIN [Wikipedia:Hippocampal_sulcus] synonym: "sulcus hippocampi" EXACT [NIF_GrossAnatomy:birnlex_4004] xref: FMA:83747 xref: NIF_GrossAnatomy:birnlex_4004 xref: SCTID:369101000 xref: UMLS:C0228251 xref: http://upload.wikimedia.org/wikipedia/commons/3/31/Hippocampus_%28brain%29.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/31/Hippocampus_%28brain%29.jpg/200px-Hippocampus_%28brain%29.jpg xref: ncithesaurus:Hippocampal_Fissure is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002900 name: transverse occipital sulcus namespace: uberon synonym: "sulcus occipitalis transversus" EXACT [NIF_GrossAnatomy:birnlex_4013] xref: BTO:0003786 xref: FMA:83786 xref: NIF_GrossAnatomy:birnlex_4013 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002901 name: posterior calcarine sulcus namespace: uberon synonym: "postcalcarine sulcus" EXACT [FMA:83787] synonym: "posterior calcarine fissure" EXACT [FMA:83787] synonym: "posterior part of calcarine sulcus" EXACT [FMA:83787] synonym: "sulcus calcarinus posterior" EXACT [NIF_GrossAnatomy:birnlex_4015] xref: FMA:83787 xref: NIF_GrossAnatomy:birnlex_4015 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002902 name: occipital pole namespace: uberon def: "The anterior end of the hemisphere is named the frontal pole. The posterior end is named the occipital pole. The anterior end of the temporal lobe, the temporal pole. [WP,unvetted]." [Wikipedia:Occipital_pole] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "polus occipitalis" EXACT [NIF_GrossAnatomy:birnlex_4016] synonym: "polus occipitalis cerebri" RELATED [BTO:0001868] xref: BTO:0001868 xref: FMA:74892 xref: NIF_GrossAnatomy:birnlex_4016 xref: SCTID:314160003 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e3/Human_brain_lateral_view_description.JPG/200px-Human_brain_lateral_view_description.JPG relationship: part_of UBERON:0002021 ! occipital lobe intersection_of: UBERON:0009899 ! pole of cerebral hemisphere intersection_of: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0002903 name: lunate sulcus namespace: uberon synonym: "lunate fissure" EXACT [FMA:83788] synonym: "sulcus lunatus" EXACT [NIF_GrossAnatomy:birnlex_4017] synonym: "sulcus simialis" EXACT [NIF_GrossAnatomy:birnlex_4017] xref: BM:Tel-Cx-LUS xref: FMA:83788 xref: NIF_GrossAnatomy:birnlex_4017 xref: UMLS:C0262278 xref: ncithesaurus:Lunate_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002904 name: lateral occipital sulcus namespace: uberon def: "In the occipital lobe, the lateral occipital sulcus extends from behind forward, and divides the lateral surface of the occipital lobe into a superior and an inferior gyrus, which are continuous in front with the parietal and temporal lobes. [WP,unvetted]." [Wikipedia:Lateral_occipital_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sulcus occipitalis lateralis" EXACT [NIF_GrossAnatomy:birnlex_4018] xref: FMA:83785 xref: NIF_GrossAnatomy:birnlex_4018 xref: SCTID:369219003 xref: UMLS:C0228229 xref: http://upload.wikimedia.org/wikipedia/commons/2/2c/Gray727_lateral-occipital_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2c/Gray727_lateral-occipital_sulcus.svg/200px-Gray727_lateral-occipital_sulcus.svg.png xref: ncithesaurus:Lateral-occipital_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002905 name: intralingual sulcus namespace: uberon synonym: "sulcus intralingualis" EXACT [NIF_GrossAnatomy:birnlex_4019] xref: FMA:83789 xref: NIF_GrossAnatomy:birnlex_4019 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002906 name: anterior occipital sulcus namespace: uberon synonym: "ascending limb of the inferior temporal sulcus" EXACT [NIF_GrossAnatomy:birnlex_4023] synonym: "posterior inferior temporal sulcus" EXACT [NIF_GrossAnatomy:birnlex_4023] synonym: "sulci occipitales superiores" EXACT [NIF_GrossAnatomy:birnlex_4023] synonym: "sulcus annectans" EXACT [NIF_GrossAnatomy:birnlex_4023] synonym: "sulcus occipitalis anterior" EXACT [NIF_GrossAnatomy:birnlex_4023] xref: FMA:75758 xref: NIF_GrossAnatomy:birnlex_4023 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002907 name: superior postcentral sulcus namespace: uberon synonym: "postcentral dimple" EXACT [FMA:83775] synonym: "sulcus postcentralis superior" EXACT [NIF_GrossAnatomy:birnlex_4025] xref: FMA:83775 xref: NIF_GrossAnatomy:birnlex_4025 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002908 name: subparietal sulcus namespace: uberon synonym: "splenial sulcus" EXACT [FMA:83777] synonym: "sulcus subparietalis" EXACT [NIF_GrossAnatomy:birnlex_4026] synonym: "suprasplenial sulcus" EXACT [FMA:83777] xref: BM:Tel-Cx-SPS xref: FMA:83777 xref: NIF_GrossAnatomy:birnlex_4026 xref: SCTID:279352008 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002909 name: posterior subcentral sulcus namespace: uberon synonym: "sulcus subcentralis posterior" EXACT [NIF_GrossAnatomy:birnlex_4027] xref: FMA:83778 xref: NIF_GrossAnatomy:birnlex_4027 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002910 name: posterior ascending limb of lateral sulcus namespace: uberon synonym: "ascending terminal ramus of sylvian fissure" EXACT [] synonym: "posterior ascending limb of lateral fissure" EXACT [FMA:83761] synonym: "posterior ramus of lateral cerebral sulcus" EXACT [FMA:83761] synonym: "ramus posterior ascendens fissurae lateralis" EXACT [NIF_GrossAnatomy:birnlex_4028] synonym: "ramus posterior sulci lateralis cerebri" EXACT LATIN [FMA:83761, FMA:TA] xref: FMA:83761 xref: NIF_GrossAnatomy:birnlex_4028 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0002911 name: parietal operculum namespace: uberon def: "The parietal operculum, forming the superior bank of the sylvian fissure, as studied in the cat, contains the secondary somatosensory representation, 'S-II', and a second somatotopic representation (parietal ventral, or PV). Anatomically, primate S-II receives inputs from area 3 and area 1, and projects to PV and area 7. PV has projections to area 5 and premotor areas. [WP,unvetted]." [Wikipedia:Parietal_operculum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "operculum parietale" EXACT LATIN [NIF_GrossAnatomy:birnlex_4029] xref: FMA:74889 xref: NIF_GrossAnatomy:birnlex_4029 xref: SCTID:362353000 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Operculum.png/200px-Operculum.png is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010262 ! operculum of brain [Term] id: UBERON:0002912 name: marginal sulcus namespace: uberon def: "The marginal sulcus is the portion of the cingulate sulcus adjacent to the paracentral lobule and the precuneus. It is sometimes known as the 'marginal part of the cingulate sulcus'. [WP,unvetted]." [Wikipedia:Marginal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "marginal branch of cingulate sulcus" EXACT [FMA:83773] synonym: "marginal ramus of cingulate sulcus" EXACT [FMA:83773] synonym: "ramus marginalis sulci cingulati" EXACT [NIF_GrossAnatomy:birnlex_4030] synonym: "ramus marginalis sulci cinguli" EXACT LATIN [FMA:83773, FMA:TA] synonym: "ramus marginalis; sulcus marginalis" RELATED LATIN [Wikipedia:Marginal_sulcus] xref: FMA:83773 xref: NIF_GrossAnatomy:birnlex_4030 xref: SCTID:279351001 xref: http://upload.wikimedia.org/wikipedia/commons/d/d0/Gray727_marginal_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d0/Gray727_marginal_sulcus.svg/200px-Gray727_marginal_sulcus.svg.png is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002913 name: intraparietal sulcus namespace: uberon def: "The intraparietal sulcus (IPS) is located on the lateral surface of the parietal lobe, and consists of an oblique and a horizontal portion. The IPS contains a series of functionally distinct subregions that have been intensively investigated using both single cell neurophysiology in primates and human functional neuroimaging. Its principal functions are related to perceptual-motor coordination (for directing eye movements and reaching) and visual attention. The IPS is also thought to play a role in other functions, including processing symbolic numerical information, visuospatial working memory and interpreting the intent of others. [WP,unvetted]." [Wikipedia:Intraparietal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "Turner sulcus" RELATED [BTO:0003787] synonym: "interparietal fissure" EXACT [FMA:83772] synonym: "intraparietal fissure" EXACT [FMA:83772] synonym: "intraparietal sulcus of Turner" RELATED [BTO:0003787] synonym: "sulcus interparietalis" EXACT [NIF_GrossAnatomy:birnlex_4031] synonym: "sulcus intraparietalis" RELATED LATIN [BTO:0003787, Wikipedia:Intraparietal_sulcus] xref: BM:Tel-Cx-IPS xref: BTO:0003787 xref: FMA:83772 xref: NIF_GrossAnatomy:birnlex_4031 xref: SCTID:279338006 xref: UMLS:C0228213 xref: http://upload.wikimedia.org/wikipedia/commons/2/2a/Gray726_intraparietal_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2a/Gray726_intraparietal_sulcus.svg/200px-Gray726_intraparietal_sulcus.svg.png xref: ncithesaurus:Intraparietal_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002914 name: inferior postcentral sulcus namespace: uberon synonym: "sulcus postcentralis inferior" EXACT [NIF_GrossAnatomy:birnlex_4032] xref: FMA:83776 xref: NIF_GrossAnatomy:birnlex_4032 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002915 name: postcentral sulcus namespace: uberon def: "The postcentral sulcus of the parietal lobe lies parallel to, and behind, the central sulcus in the human brain. (A sulcus is one of the prominent grooves on the surface of the brain. ) The postcentral sulcus divides the postcentral gyrus from the remainder of the parietal lobe. [WP,unvetted]." [Wikipedia:Postcentral_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "postcentral fissure of cerebral hemisphere" EXACT [FMA:83774] synonym: "postcentral fissure-1" EXACT [FMA:83774] synonym: "structure of postcentral sulcus" EXACT [NIF_GrossAnatomy:birnlex_4033] synonym: "sulcus postcentralis" EXACT LATIN [NIF_GrossAnatomy:birnlex_4033, Wikipedia:Postcentral_sulcus] xref: BM:Tel-Cx-PoCS xref: FMA:83774 xref: NIF_GrossAnatomy:birnlex_4033 xref: SCTID:279339003 xref: UMLS:C0228212 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Postcentral_sulcus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6c/Postcentral_sulcus.png/200px-Postcentral_sulcus.png xref: ncithesaurus:Postcentral_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002916 name: central sulcus namespace: uberon def: "The central sulcus is a fold in the cerebral cortex of brains in vertebrates. Also called the central fissure, it was originally called the fissure of Rolando or the Rolandic fissure, after Luigi Rolando. The central sulcus is a prominent landmark of the brain, separating the parietal lobe from the frontal lobe and the primary motor cortex from the primary somatosensory cortex. [WP,unvetted]." [Wikipedia:Central_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "central cerebral sulcus" EXACT [FMA:83752] synonym: "central fissure" EXACT [FMA:83752] synonym: "central sulcus of rolando" EXACT [] synonym: "fissure of rolando" EXACT [] synonym: "rolandic fissure" EXACT [NIF_GrossAnatomy:birnlex_4035] synonym: "sulcus centralis" EXACT [NIF_GrossAnatomy:birnlex_4035] synonym: "sulcus centralis (rolandi)" EXACT [NIF_GrossAnatomy:birnlex_4035] synonym: "sulcus centralis cerebri" EXACT LATIN [NIF_GrossAnatomy:birnlex_4035, Wikipedia:Central_sulcus] synonym: "sulcus of rolando" EXACT [] xref: BM:Tel-Cx-CS xref: FMA:83752 xref: NIF_GrossAnatomy:birnlex_4035 xref: OpenCyc:Mx4rvjMKxpwpEbGdrcN5Y29ycA xref: SCTID:279340001 xref: http://upload.wikimedia.org/wikipedia/commons/8/8e/Gray726_central_sulcus.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b6/Central_sulcus.png/200px-Central_sulcus.png xref: ncithesaurus:Central_Sulcus_of_Rolando is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002917 name: regional part of inferior colliculus namespace: uberon def: "A regional part of brain that is part of a inferior colliculus [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "inferior colliculus segment" EXACT [FMA:77871] synonym: "segment of inferior colliculus" EXACT [NIF_GrossAnatomy:birnlex_4036] xref: FMA:77871 xref: NIF_GrossAnatomy:birnlex_4036 is_a: UBERON:0002966 ! regional part of midbrain tectum intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001946 ! inferior colliculus [Term] id: UBERON:0002918 name: medial parabrachial nucleus namespace: uberon def: "The Medial parabrachial nucleus is a nucleus of the pons which constitutes part of the pneumotaxic center. It gets its name from its location relative to the superior cerebellar peduncles, which is also known as the 'brachia conjunctiva'. [WP,unvetted]." [Wikipedia:Medial_parabrachial_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus parabrachialis medialis" RELATED LATIN [Wikipedia:Medial_parabrachial_nucleus] xref: FMA:72480 xref: NIF_GrossAnatomy:birnlex_4038 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0002919 name: anterior parolfactory sulcus namespace: uberon synonym: "paraolfactory sulci" EXACT PLURAL [NIF_GrossAnatomy:birnlex_4039] synonym: "paraolfactory sulcus" EXACT [FMA:83744] synonym: "sulcus parolfactorius anterior" EXACT [NIF_GrossAnatomy:birnlex_4039] xref: FMA:83744 xref: NIF_GrossAnatomy:birnlex_4039 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002920 name: callosal sulcus namespace: uberon def: "The callosal sulcus is a sulcus in the brain between the cingulate gyrus and corpus callosum, below the longitudinal cerebral fissure. [WP,unvetted]." [Wikipedia:Callosal_sulcus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "sulcus corporis callosi" EXACT LATIN [NIF_GrossAnatomy:birnlex_4040, Wikipedia:Callosal_sulcus] synonym: "sulcus of corpus callosum" EXACT [FMA:83743] xref: FMA:83743 xref: NIF_GrossAnatomy:birnlex_4040 xref: SCTID:279349000 xref: http://upload.wikimedia.org/wikipedia/commons/4/43/Gray727_sulcus_of_the_corpus_callosum.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/43/Gray727_sulcus_of_the_corpus_callosum.svg/200px-Gray727_sulcus_of_the_corpus_callosum.svg.png is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002921 name: longitudinal fissure namespace: uberon def: "The deep groove which separates the two hemispheres of the vertebrate brain. The falx cerebri, a dural brain covering, lies within the medial longitudinal fissure. [WP,unvetted]." [Wikipedia:Medial_longitudinal_fissure] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fissura interhemispherica" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "fissura longitudinalis cerebrales" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "fissura longitudinalis cerebri" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "fissura longitudinalis magna" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "hemispheric sulcus" EXACT [FMA:83727] synonym: "interhemispheric fissure" EXACT [FMA:83727] synonym: "longitudinal cerebral fissure" EXACT [FMA:83727] synonym: "longitudinal fissure of hemisphere" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "longitudinal fissure of the cerebrum" EXACT [NIF_GrossAnatomy:birnlex_4041] synonym: "longitudinal sulcus" EXACT [FMA:83727] synonym: "medial longitudinal fissure" EXACT [FMA:83727] synonym: "sagittal fissure" EXACT [FMA:83727] xref: FMA:83727 xref: NIF_GrossAnatomy:birnlex_4041 xref: OpenCyc:Mx4rwJlWu5wpEbGdrcN5Y29ycA xref: SCTID:369225004 xref: UMLS:C0228186 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/92/Hemispheres.png/200px-Hemispheres.png xref: ncithesaurus:Longitudinal_Fissure is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0000315 ! subarachnoid space [Term] id: UBERON:0002922 name: olfactory trigone namespace: uberon def: "The olfactory trigone is a small triangular area in front of the anterior perforated substance. Its apex, directed forward, occupies the posterior part of the olfactory sulcus, and is brought into view by throwing back the olfactory tract. [WP,unvetted]." [Wikipedia:Olfactory_trigone] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "trigonum olfactorium" EXACT LATIN [NIF_GrossAnatomy:birnlex_4042, Wikipedia:Olfactory_trigone] xref: FMA:74883 xref: NIF_GrossAnatomy:birnlex_4042 xref: SCTID:369102007 xref: UMLS:C0228279 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray732.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png xref: ncithesaurus:Trigonum_Olfactorium is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0005366 ! olfactory lobe [Term] id: UBERON:0002923 name: posterior parolfactory sulcus namespace: uberon xref: FMA:83745 xref: NIF_GrossAnatomy:birnlex_4043 is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002924 name: terminal nerve namespace: uberon def: "The terminal nerve, located anterior to cranial nerve I, is comprised of a group of cells with somata adjacent to the olfactory bulb and processes that extend anteriorly to the olfactory epithelium and posteriorly to the telencephalon. In teleost fish an additional group of axons extends along the optic tract and delivers putative neuromodulators to the retina. It is thought to develop from cranial neural crest." [PMID:15821344, Wikipedia:Terminal_nerve, ZFIN:ZDB-PUB-041202-1] comment: PMID:2286018 state: 'The presence of an additional cranial nerve (the nervus terminalis or cranial nerve zero) is well documented in many non-human vertebrate species. However, its existence in the adult human has been disputed. The present study focused on the structure and incidence of this nerve in the adult human brain. The nerve was examined post-mortem in 10 adult brains using dissection microscopy, light microscopy, transmission electron microscopy, and immunohistochemistry. In all specimens, the nervus terminalis was identified bilaterally as a microscopic plexus of unmyelinated peripheral nerve fascicles in the subarachnoid space covering the gyrus rectus of the orbital surface of the frontal lobes. The plexus appeared in the region of the cribriform plate of the ethmoid and coursed posteriorly to the vicinity of the olfactory trigone, medial olfactory gyrus, and lamina terminalis. We conclude that the terminal nerve is a common finding in the adult human brain, confirming early light microscopic reports.' subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cranial nerve 0" EXACT [Wikipedia:Terminal_nerve] synonym: "cranial nerve zero" EXACT [Wikipedia:Terminal_nerve] synonym: "nervus terminalis" EXACT [ZFA:0001356] xref: EFO:0003678 xref: NIF_GrossAnatomy:birnlex_4044 xref: TAO:0001356 xref: ZFA:0001356 is_a: UBERON:0001785 ! cranial nerve property_value: external_definition "The terminal nerve, located anterior to cranial nerve I, is comprised of a group of cells with somata adjacent to the olfactory bulb and processes that extend anteriorly to the olfactory epithelium and posteriorly to the telencephalon. In teleost fish an additional group of axons extends along the optic tract and delivers putative neuromodulators to the retina. It is thought to develop from cranial neural crest. Whitlock 2004. Also see Grens, Greenwood and Fernald, Brain Behav Evol 2005; 66(1):1-9.[TAO]" xsd:string [Term] id: UBERON:0002925 name: trigeminal nucleus namespace: uberon def: "A nucleus of brain that is part of a trigeminal nuclear complex." [OBOL:automatic] comment: note massive inconsistencies between GO, MA, wikipedia. Part of pons in MA, but this leads to inconsistencies with ABA. See https://sourceforge.net/tracker/?func=detail&aid=3291162&group_id=76834&atid=1205376 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus mesencephalicus nervi trigemini" RELATED [BTO:0001074] synonym: "nucleus mesencephalicus trigeminalis" RELATED [BTO:0001074] synonym: "nucleus of trigeminal nuclear complex" EXACT [FMA:71247] synonym: "nucleus tractus mesencephali nervi trigeminalis" RELATED [BTO:0001074] synonym: "trigeminal V nucleus" EXACT [MA:0001028] synonym: "trigeminal nuclear complex nucleus" EXACT [FMA:71247] synonym: "trigeminal nucleus" EXACT [FMA:71248] xref: BM:V xref: BTO:0001074 xref: EV:0100271 xref: FMA:71247 xref: GAID:604 xref: MA:0001028 xref: MESH:A08.186.211.132.931 xref: NIF_GrossAnatomy:nifext_11 xref: SCTID:280164007 xref: UMLS:C0040999 xref: VHOG:0001353 xref: ncithesaurus:Trigeminal_Nucleus is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0007641 ! trigeminal nuclear complex [Term] id: UBERON:0002926 name: gustatory epithelium namespace: uberon comment: editor note - see also epithelium of tongue and subclasses xref: FMA:62412 xref: NIF_GrossAnatomy:birnlex_4099 is_a: UBERON:0003357 ! epithelium of tongue is_a: UBERON:0006934 ! sensory epithelium relationship: part_of UBERON:0001033 ! gustatory system relationship: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0002928 name: dentate gyrus polymorphic layer namespace: uberon xref: MA:0002864 xref: NIF_GrossAnatomy:birnlex_4128 is_a: UBERON:0000200 ! gyrus is_a: UBERON:0002304 ! layer of dentate gyrus [Term] id: UBERON:0002929 name: dentate gyrus pyramidal layer namespace: uberon xref: MA:0000948 is_a: UBERON:0002304 ! layer of dentate gyrus [Term] id: UBERON:0002930 name: tectopontine tract namespace: uberon synonym: "fibrae tectopontinae" EXACT LATIN [FMA:72505, FMA:TA] synonym: "tectopontine fibers" EXACT [FMA:72505] synonym: "tectopontine fibres" EXACT [FMA:72505] xref: FMA:72505 xref: NIF_GrossAnatomy:birnlex_701 xref: SCTID:3301002 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002931 name: dorsal septal nucleus namespace: uberon xref: FMA:61877 xref: NIF_GrossAnatomy:birnlex_704 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0002932 name: trapezoid body namespace: uberon def: "The trapezoid body is part of the acoustic pathway. It is a bundle of fibers and cells in the pontine tegmentum. It consists of fibers arising from the ventral cochlear nucleus. A collection of nerve cells inside forms a trapezoid nucleus. The superior olivary nucleus is situated on the dorsal surface of the trapezoid body. Most nerve fibers pass directly from the superior olivary nuclei to the inferior colliculus. Axons leaving the ventral cochlear nucleus (VCN) form a broad pathway that crosses under the brain stem in the trapezoid body. A thin pathway, the intermediate acoustic stria, also leaves the VCN, merging with the trapezoid body close to the superior olivary complex, where many of its axons synapse. Axons leaving the dorsal cochlear nucleus (DCN) form the dorsal acoustic stria, which reaches primarily the contralateral dorsal nucleus of the lateral lemniscus and the central nucleus of the inferior colliculus. [WP,unvetted]." [Wikipedia:Trapezoid_body] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "corpus trapezoideum" RELATED LATIN [Wikipedia:Trapezoid_body] xref: BM:TB xref: FMA:72487 xref: NIF_GrossAnatomy:birnlex_707 xref: SCTID:369019006 xref: http://upload.wikimedia.org/wikipedia/commons/b/bb/Gray760.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/bb/Gray760.png/200px-Gray760.png is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002933 name: nucleus of anterior commissure namespace: uberon synonym: "anterior commissure nucleus" EXACT [FMA:61883] synonym: "bed nucleus of anterior commissure" EXACT [FMA:61883] synonym: "nucleus of commissura anterior" EXACT [FMA:61883] xref: ABA:BAC xref: BM:Tel-ACN xref: FMA:61883 xref: NIF_GrossAnatomy:birnlex_712 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0002663 ! septal nuclear complex [Term] id: UBERON:0002934 name: ventral oculomotor nucleus namespace: uberon synonym: "ventral oculomotor cell column" EXACT [FMA:72422] xref: FMA:72422 xref: NIF_GrossAnatomy:birnlex_713 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002935 name: magnocellular part of ventral anterior nucleus namespace: uberon synonym: "magnocellular division of ventral anterior nucleus of thalamus" EXACT [FMA:62192] synonym: "magnocellular ventral anterior nucleus" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "nucleus lateropolaris (magnocellularis)" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "nucleus lateropolaris magnocellularis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "nucleus rostralis lateralis situs perifascicularis" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "nucleus thalamicus ventral anterior, pars magnocellularis" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "nucleus ventralis anterior, pars magnocellularis" EXACT [NIF_GrossAnatomy:birnlex_716] synonym: "pars magnocellularis nuclei ventralis anterior thalami" EXACT LATIN [FMA:62192, FMA:TA] synonym: "ventral anterior nucleus, magnocellular part" EXACT [FMA:62192] synonym: "ventral anterior nucleus, pars magnocellularis" EXACT [FMA:62192] synonym: "ventral anterior thalamic nucleus, magnocellular part" EXACT [FMA:62192] synonym: "ventroanterior thalamic nucleus, magnocellular part" EXACT [NIF_GrossAnatomy:birnlex_716] xref: BM:Die-Th-VA-VAmc xref: FMA:62192 xref: NIF_GrossAnatomy:birnlex_716 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0002637 ! ventral anterior nucleus [Term] id: UBERON:0002936 name: magnocellular part of red nucleus namespace: uberon synonym: "paleoruber" EXACT [FMA:72431] synonym: "red nucleus, magnocellular part" EXACT [FMA:72431] xref: FMA:72431 xref: NIF_GrossAnatomy:birnlex_720 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001947 ! red nucleus [Term] id: UBERON:0002937 name: parvicellular part of ventral anterior nucleus namespace: uberon synonym: "nucleus ventralis anterior (dewulf)" EXACT [NIF_GrossAnatomy:birnlex_722] synonym: "nucleus ventralis anterior, pars parvicellularis" EXACT [NIF_GrossAnatomy:birnlex_722] synonym: "ventral anterior nucleus, pars parvicellularis" EXACT [FMA:62191] synonym: "ventral anterior thalamic nucleus, parvicellular part" EXACT [FMA:62191] synonym: "ventralis anterior (jones)" EXACT [] xref: FMA:62191 xref: NIF_GrossAnatomy:birnlex_722 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0002637 ! ventral anterior nucleus [Term] id: UBERON:0002938 name: parvocellular part of red nucleus namespace: uberon synonym: "neoruber" EXACT [FMA:72430] synonym: "red nucleus, parvocellular part" EXACT [FMA:72430] xref: FMA:72430 xref: NIF_GrossAnatomy:birnlex_725 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001947 ! red nucleus [Term] id: UBERON:0002939 name: ventral posteroinferior nucleus namespace: uberon synonym: "nucleus ventralis posterior inferior thalami" EXACT LATIN [FMA:62199, FMA:TA] synonym: "ventral posterior inferior nucleus" EXACT [FMA:62199] synonym: "ventral posterior inferior nucleus of thalamus" EXACT [FMA:62199] synonym: "ventral posterior inferior thalamic nucleus" EXACT [FMA:62199] xref: BM:Die-Th-VPI xref: BTO:0002464 xref: BTO:0004373 xref: BTO:0004374 xref: EV:0100209 xref: FMA:62199 xref: NIF_GrossAnatomy:birnlex_728 xref: SCTID:369173003 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002940 name: anterior column of fornix namespace: uberon synonym: "anterior crus of fornix" EXACT [FMA:61966] synonym: "anterior pillar of fornix" EXACT [FMA:61966] xref: FMA:61966 xref: NIF_GrossAnatomy:birnlex_731 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002941 name: capsule of red nucleus namespace: uberon synonym: "red nuclear capsule" EXACT [FMA:72450] xref: FMA:72450 xref: NIF_GrossAnatomy:birnlex_732 xref: SCTID:369245007 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001947 ! red nucleus [Term] id: UBERON:0002942 name: ventral posterolateral nucleus namespace: uberon def: "The ventral posterolateral nucleus (VPL) is a nucleus of the thalamus. Together with the ventral posteromedial nucleus (VPM) it constitutes the ventral posterior nucleus. [WP,unvetted]." [Wikipedia:Ventral_posterolateral_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus ventralis posterior lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_737] synonym: "nucleus ventralis posterolateralis" EXACT [NIF_GrossAnatomy:birnlex_737] synonym: "nucleus ventralis posterolateralis thalami" EXACT LATIN [NIF_GrossAnatomy:birnlex_737, Wikipedia:Ventral_posterolateral_nucleus] synonym: "nucleus ventralis thalami posterior lateralis" EXACT [NIF_GrossAnatomy:birnlex_737] synonym: "posterolateral ventral nucleus of thalamus" EXACT [FMA:62200] synonym: "posterolateral ventral nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_737] synonym: "ventral posterolateral nucleus of thalamus" EXACT [FMA:62200] synonym: "ventral posterolateral nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_737] synonym: "ventral posterolateral thalamic nucleus" EXACT [FMA:62200] xref: ABA:VPL xref: FMA:62200 xref: NIF_GrossAnatomy:birnlex_737 xref: SCTID:369171001 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002945 [Term] id: UBERON:0002943 name: lingual gyrus namespace: uberon def: "The lingual gyrus of the occipital lobe lies between the calcarine sulcus and the posterior part of the collateral sulcus; behind, it reaches the occipital pole; in front, it is continued on to the tentorial surface of the temporal lobe, and joins the hippocampal gyrus. The lingual gyrus is so-named because it resembles the tongue in shape. This region is believed to play an important role in dreaming and vision, especially in recognizing words, regardless of size, font, etc. Shunt [WP,unvetted]." [Wikipedia:Lingual_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus lingualis" RELATED LATIN [Wikipedia:Lingual_gyrus] synonym: "gyrus occipitotemporalis medialis" EXACT LATIN [FMA:61904, FMA:TA] synonym: "lingula of cerebral hemisphere" EXACT [FMA:61904] synonym: "medial occipitotemporal gyrus" EXACT [FMA:61904] synonym: "medial occipitotemporal gyrus-2" EXACT [FMA:61904] xref: FMA:61904 xref: NIF_GrossAnatomy:birnlex_740 xref: SCTID:279203007 xref: http://upload.wikimedia.org/wikipedia/commons/a/a1/Gray727_lingual_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a1/Gray727_lingual_gyrus.png/200px-Gray727_lingual_gyrus.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0002944 name: spinothalamic tract of medulla namespace: uberon def: "Part of spinothalamic tract that is in the medulla" [NIF_GrossAnatomy:birnlex_741] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "spinothalamic tract" BROAD [FMA:72644, NIF_GrossAnatomy:birnlex_741] xref: FMA:72644 xref: GAID:703 xref: MESH:A08.186.854.761 xref: NIF_GrossAnatomy:birnlex_741 xref: SCTID:360570003 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0007702 ! tract of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_function_in GO:0019233 ! sensory perception of pain relationship: part_of UBERON:0001896 ! medulla oblongata relationship: part_of UBERON:0007703 ! spinothalamic tract [Term] id: UBERON:0002945 name: ventral posteromedial nucleus namespace: uberon def: "The ventral posteromedial nucleus is a nucleus of the thalamus. [WP,unvetted]." [Wikipedia:Ventral_posteromedial_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "arcuate nucleus of thalamus" EXACT [FMA:62202] synonym: "arcuate nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "arcuate nucleus-3" EXACT [FMA:62202] synonym: "nucleus arcuatus thalami" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "nucleus semilunaris thalami" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "nucleus ventralis posterior medialis thalami" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "nucleus ventralis posteromedialis" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "nucleus ventralis posteromedialis thalami" EXACT LATIN [NIF_GrossAnatomy:birnlex_743, Wikipedia:Ventral_posteromedial_nucleus] synonym: "nucleus ventrocaudalis anterior internus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "posteromedial ventral nucleus of thalamus" EXACT [FMA:62202] synonym: "posteromedial ventral nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "semilunar nucleus" EXACT [FMA:62202] synonym: "thalamic gustatory nucleus" EXACT [FMA:62202] synonym: "ventral posterior medial nucleus" EXACT [FMA:62202] synonym: "ventral posterior medial nucleus of thalamus" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "ventral posteromedial nucleus of thalamus" EXACT [FMA:62202] synonym: "ventral posteromedial nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "ventral posteromedial thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_743] synonym: "ventroposteromedial nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_743] xref: ABA:VPM xref: BM:Die-Th-VPM xref: FMA:62202 xref: NIF_GrossAnatomy:birnlex_743 xref: SCTID:369172008 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/ThalamicNuclei.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/ThalamicNuclei.png/200px-ThalamicNuclei.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002596 ! ventral posterior nucleus property_value: spatially_disjoint_from UBERON:0002942 [Term] id: UBERON:0002946 name: regional part of cerebellum namespace: uberon def: "A regional part of brain that is part of a cerebellum [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of cerebellum" EXACT [NIF_GrossAnatomy:birnlex_748] xref: FMA:256150 xref: NIF_GrossAnatomy:birnlex_748 xref: SCTID:119242005 is_a: UBERON:0002680 ! regional part of metencephalon intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002037 ! cerebellum [Term] id: UBERON:0002947 name: frontal operculum namespace: uberon synonym: "operculum frontale" RELATED LATIN [Wikipedia:Operculum_%28brain%29] xref: FMA:74886 xref: NIF_GrossAnatomy:birnlex_751 xref: SCTID:362352005 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010262 ! operculum of brain [Term] id: UBERON:0002948 name: superior occipital gyrus namespace: uberon synonym: "gyrus occipitalis primus" EXACT [FMA:61901] xref: FMA:61901 xref: NIF_GrossAnatomy:birnlex_758 xref: SCTID:279182006 is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0002949 name: tectospinal tract namespace: uberon def: "a long process of a CNS neuron, that carries efferent (outgoing) action potentials from the cell body in the superior colliculus of the midbrain towards target cells in the ventral spinal cord[GO]." [Wikipedia:Tectospinal_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "held's bundle" EXACT [FMA:72620] synonym: "tectospinal pathway" EXACT [FMA:72620] synonym: "tractus tectospinalis" RELATED LATIN [Wikipedia:Tectospinal_tract] xref: BM:TSp xref: FMA:72620 xref: NIF_GrossAnatomy:birnlex_759 xref: http://upload.wikimedia.org/wikipedia/commons/b/be/Gray670.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/be/Gray670.png/200px-Gray670.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0002950 name: regional part of midbrain namespace: uberon def: "A regional part of brain that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "midbrain segment" EXACT [FMA:61997] synonym: "segment of midbrain" EXACT [NIF_GrossAnatomy:birnlex_763] xref: FMA:61997 xref: NIF_GrossAnatomy:birnlex_763 xref: SCTID:119239004 is_a: UBERON:0002616 ! regional part of brain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0002951 name: regional part of intermediate hypothalamic region namespace: uberon def: "A regional part of brain that is part of a intermediate hypothalamic region [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "intermediate hypothalamic region segment" EXACT [FMA:62310] synonym: "segment of intermediate hypothalamic region" EXACT [NIF_GrossAnatomy:birnlex_767] xref: FMA:62310 xref: NIF_GrossAnatomy:birnlex_767 is_a: UBERON:0003048 ! regional part of hypothalamus intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002555 ! intermediate hypothalamic region [Term] id: UBERON:0002952 name: intermediate acoustic stria namespace: uberon synonym: "commissure of held" EXACT [] synonym: "intermediate acoustic stria (held)" EXACT [NIF_GrossAnatomy:birnlex_768] synonym: "intermediate acoustic stria of held" EXACT [] xref: FMA:72497 xref: NIF_GrossAnatomy:birnlex_768 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0002953 name: lateral lemniscus namespace: uberon alt_id: UBERON:0003042 def: "The lateral lemniscus is a tract of axons in the brainstem that carries information about sound from the cochlear nucleus to various brainstem nuclei and ultimately the contralateral inferior colliculus of the midbrain. Three distinct, primarily inhibitory, cellular groups are located interspersed within these fibers, and are thus named the nuclei of the lateral lemniscus. [WP,unvetted]." [Wikipedia:Lateral_lemniscus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral fillet" EXACT [FMA:72502] synonym: "lemniscus lateralis" RELATED LATIN [Wikipedia:Lateral_lemniscus] xref: BM:Pons-LL xref: FMA:72502 xref: NIF_GrossAnatomy:birnlex_976 xref: SCTID:362399003 xref: http://upload.wikimedia.org/wikipedia/commons/4/44/Lateral_lemniscus.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/44/Lateral_lemniscus.PNG/200px-Lateral_lemniscus.PNG is_a: UBERON:0002316 ! white matter is_a: UBERON:0003001 ! lemniscus is_a: UBERON:0003544 ! brain white matter [Term] id: UBERON:0002954 name: dorsal hypothalamic area namespace: uberon xref: BM:Die-Hy-HDA xref: FMA:62339 xref: NIF_GrossAnatomy:birnlex_777 is_a: UBERON:0000477 ! anatomical cluster [Term] id: UBERON:0002955 name: rhomboidal nucleus namespace: uberon synonym: "nucleus commissuralis rhomboidalis" RELATED [BTO:0002458] synonym: "nucleus rhomboidalis" RELATED [BTO:0002458] synonym: "rhomboid nucleus" EXACT [FMA:62154] synonym: "rhomboid thalamic nucleus" EXACT [FMA:62154] xref: ABA:RH xref: BTO:0002458 xref: FMA:62154 xref: NIF_GrossAnatomy:birnlex_778 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0001922 property_value: spatially_disjoint_from UBERON:0001923 property_value: spatially_disjoint_from UBERON:0001924 property_value: spatially_disjoint_from UBERON:0003036 [Term] id: UBERON:0002956 name: granular layer of cerebellar cortex namespace: uberon def: "The granular layer is the innermost layer of the cerebellar cortex. This layer contains densely packed small neurons, mostly granule cells. Some Golgi cells are found at the outer border. Granule neurons send parallel fibers to the upper molecular layer, where they synapse with Purkinje cell dendrites. Mossy fibers from the pontine nuclei in the white matter synapse with granule cell axons, Golgi cell axons and unipolar brush interneuron axons at cerebellar glomeruli in the granule cell layer." [GO:0021681] synonym: "cerebellar granular layer" EXACT [GO:0021681] synonym: "cerebellar granule cell layer" EXACT [] synonym: "cerebellar granule layer" EXACT [] synonym: "cerebellum granule cell layer" EXACT [MA:0000993] synonym: "cerebellum granule layer" EXACT [] synonym: "granule cell layer of cerebellar cortex" EXACT [NIF_GrossAnatomy:birnlex_779] xref: ABA:CBXgr xref: BTO:0004425 xref: FMA:83140 xref: MA:0000993 xref: NIF_GrossAnatomy:birnlex_779 xref: UMLS:C1708253 xref: ncithesaurus:Granular_Layer_of_the_Cerebellum is_a: UBERON:0004130 ! cerebellar layer relationship: part_of UBERON:0002129 ! cerebellar cortex property_value: spatially_disjoint_from UBERON:0002979 [Term] id: UBERON:0002957 name: caudal central oculomotor nucleus namespace: uberon synonym: "caudal central nucleus" EXACT [FMA:72426] synonym: "caudal central nucleus of oculomotor nerve" EXACT [FMA:72426] xref: FMA:72426 xref: NIF_GrossAnatomy:birnlex_780 xref: SCTID:369239004 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002958 name: medial lemniscus of pons namespace: uberon def: "A medial lemniscus that is part of a pons [Automatically generated definition]." [OBOL:automatic] synonym: "medial lemniscus of pons of varolius" EXACT [OBOL:automatic] synonym: "pons medial lemniscus" EXACT [OBOL:automatic] synonym: "pons of varolius medial lemniscus" EXACT [OBOL:automatic] xref: FMA:72503 xref: NIF_GrossAnatomy:birnlex_781 is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0003002 ! medial lemniscus intersection_of: UBERON:0003002 ! medial lemniscus intersection_of: part_of UBERON:0000988 ! pons [Term] id: UBERON:0002959 name: subfascicular nucleus namespace: uberon xref: FMA:62155 xref: NIF_GrossAnatomy:birnlex_783 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0002960 name: central oculomotor nucleus namespace: uberon synonym: "central nucleus of perlia" EXACT [] synonym: "nucleus of perlia" EXACT [] synonym: "spitzka's nucleus" EXACT [FMA:72425] xref: FMA:72425 xref: NIF_GrossAnatomy:birnlex_786 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002961 name: archicortex namespace: uberon def: "A portion of the cerebral cortex that, with the paleocortex, develops in association with the olfactory system, and which is phylogenetically older than the neocortex and lacks its layered structure. The embryonic archicortex corresponds to the cortex of the dentate gyrus and hippocampus in mature mammals. Being part of the limbic system, it has functions related to emotions and formation of memory. Signals being sent from the limbic lobe to the hippocampal formations can go via the archicortex as an intermediate." [Wikipedia:Archicortex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "archipallium" EXACT [FMA:62424] xref: EHDAA2:0004496 xref: FMA:62424 xref: NIF_GrossAnatomy:birnlex_787 xref: SCTID:423918008 is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: UBERON:0002962 name: adductor pollicis muscle namespace: uberon def: "In human anatomy, the adductor pollicis muscle is a muscle in the manus that functions to adduct the thumb. It has two heads: transverse and oblique. It is a fleshy, flat, triangular, and fan-shaped muscle deep in the thenar compartment beneath the long flexor tendons and the lumbrical muscles at the center of the palm. It overlies the metacarpal bones and the interosseous muscles[WP]." [Wikipedia:Adductor_pollicis_muscle] synonym: "adductor pollicis" EXACT [Wikipedia:Adductor_pollicis_muscle] synonym: "musculus adductor pollicis" RELATED LATIN [Wikipedia:Adductor_pollicis_muscle] xref: FMA:37380 xref: SCTID:181649004 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Musculusadductorpollicis.png is_a: UBERON:0001500 ! muscle of manus is_a: UBERON:0011145 ! adductor muscle relationship: has_muscle_antagonist UBERON:0001527 ! abductor pollicis longus relationship: has_muscle_antagonist UBERON:0008465 ! abductor pollicis brevis muscle relationship: has_muscle_insertion UBERON:0004445 ! proximal epiphysis of proximal phalanx of manual digit 1 relationship: has_muscle_insertion UBERON:0007993 ! ulnar sesamoid bone relationship: part_of UBERON:0002398 ! manus [Term] id: UBERON:0002963 name: caudal pontine reticular nucleus namespace: uberon def: "The caudal pontine reticular nucleus is composed of gigantocellular neurons. In rabbits and cats it is exclusively giant cells, however in humans there are normally sized cells as well. The pontis caudalis is rostral to the gigantocellular nucleus and is located in the caudal pons, as the name would indicate. The pontis caudalis has been known to mediate head movement, in concert with the nucleus gigantocellularis and the superior colliculus. The neurons in the dorsal half of this nuclei fire rhythmically during mastication, and in an anesthetized animal it is possible to induce mastication via electrical stimulation of the PC or adjacent areas of the gigantocellular nucleus. The pontis caudalis is also thought to play a role in the grinding of teeth during sleep. [WP,unvetted]." [Wikipedia:Caudal_pontine_reticular_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus reticularis pontis caudalis" RELATED LATIN [Wikipedia:Caudal_pontine_reticular_nucleus] synonym: "pontine reticular nucleus, caudal part" EXACT [FMA:72469] xref: ABA:PRNc xref: FMA:72469 xref: NIF_GrossAnatomy:birnlex_792 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007413 ! nucleus of pontine reticular formation property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002964 name: dorsal oculomotor nucleus namespace: uberon synonym: "dorsal oculomotor cell column" EXACT [FMA:62442] xref: FMA:62442 xref: NIF_GrossAnatomy:birnlex_793 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002965 name: rostral intralaminar nuclei namespace: uberon synonym: "nuclei intralaminares rostrales" EXACT [NIF_GrossAnatomy:birnlex_794] synonym: "rostral intralaminar nuclear group" EXACT [FMA:62164] synonym: "rostral intralaminar nuclei" EXACT [FMA:62164] xref: FMA:62164 xref: NIF_GrossAnatomy:birnlex_794 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002966 name: regional part of midbrain tectum namespace: uberon def: "A regional part of brain that is part of a midbrain tectum [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "midbrain tectum segment" EXACT [FMA:62398] synonym: "segment of midbrain tectum" EXACT [NIF_GrossAnatomy:birnlex_795] xref: FMA:62398 xref: NIF_GrossAnatomy:birnlex_795 is_a: UBERON:0002950 ! regional part of midbrain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002314 ! midbrain tectum [Term] id: UBERON:0002967 name: cingulate gyrus namespace: uberon def: "A gyrus in the medial part of the brain. It partially wraps around the corpus callosum and is limited above by the cingulate sulcus. The cortical part of the cingulate gyrus is referred to as cingulate cortex.[Wikipedia]. The cingulate gyrus receives inputs from the anterior nucleus of the thalamus and the neocortex, as well as from somatosensory areas of the cerebral cortex. It projects to the entorhinal cortex via the cingulum. It functions as an integral part of the limbic system, which is involved with emotion formation and processing, learning, and memory. Also, executive control needed to suppress inappropriate unconscious priming is known to involve the anterior cingulate gyrus. It is also involved in respiratory control." [Wikipedia:Cingulate_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cingulate area" EXACT [FMA:62434] synonym: "cingulate region" EXACT [FMA:62434] synonym: "falciform lobe" EXACT [FMA:62434] synonym: "upper limbic gyrus" EXACT [FMA:62434] xref: BM:Tel-CG xref: BTO:0003976 xref: FMA:62434 xref: NIF_GrossAnatomy:birnlex_798 xref: SCTID:279208003 xref: UMLS:C0018427 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Gray727_cingulate_gyrus.png/200px-Gray727_cingulate_gyrus.png xref: ncithesaurus:Cingulate_Gyrus is_a: UBERON:0000200 ! gyrus relationship: part_of UBERON:0000349 ! limbic system [Term] id: UBERON:0002968 name: central gray substance of pons namespace: uberon synonym: "central gray of pons" EXACT [FMA:72470] synonym: "pontine central gray" EXACT [FMA:72470] xref: ABA:PCG xref: FMA:72470 xref: NIF_GrossAnatomy:birnlex_799 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0003011 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0002969 name: inferior temporal sulcus namespace: uberon synonym: "inferior temporal sulcus-1" EXACT [FMA:83784] synonym: "middle temporal sulcus (szikla)" EXACT [] synonym: "second temporal sulcus" EXACT [FMA:83784] synonym: "sulcus t2" EXACT [FMA:83784] xref: BM:Tel-Cx-ITS xref: FMA:83784 xref: NIF_GrossAnatomy:birnlex_800 xref: SCTID:279346007 xref: UMLS:C0228242 xref: ncithesaurus:Inferior_Temporal_Sulcus is_a: UBERON:0000093 ! sulcus [Term] id: UBERON:0002970 name: intermediate oculomotor nucleus namespace: uberon synonym: "intermediate oculomotor cell column" EXACT [FMA:72420] xref: FMA:72420 xref: NIF_GrossAnatomy:birnlex_803 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002971 name: periolivary nucleus namespace: uberon synonym: "dorsal periolivary nucleus" EXACT [FMA:72475] synonym: "nuclei periolivares" EXACT LATIN [FMA:72475, FMA:TA] synonym: "peri-olivary nuclei" EXACT [FMA:72475] xref: FMA:72475 xref: MA:0002757 xref: NIF_GrossAnatomy:birnlex_804 is_a: UBERON:0002680 ! regional part of metencephalon relationship: part_of UBERON:0002128 ! superior olivary complex [Term] id: UBERON:0002972 name: centromedian nucleus namespace: uberon def: "In the anatomy of the brain, the centromedian nucleus, also known as the centrum medianum, (CM or Cm-Pf) is a part of the intralaminar nucleus (ILN) of the thalamus. There are two centromedian nuclei arranged bilaterally. It contains about 2000 neurons per cubic millimetre and has a volume of about 310 cubic millimetres with 664,000 neurons in total. [WP,unvetted]." [Wikipedia:Centromedian_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "central magnocellular nucleus of thalamus" EXACT [FMA:62165] synonym: "central nucleus-1" EXACT [FMA:62165] synonym: "centre median nucleus" EXACT [FMA:62165] synonym: "centromedian nucleus of thalamus" EXACT [FMA:62165] synonym: "centromedian thalamic nucleus" EXACT [FMA:62165] synonym: "centrum medianum" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "centrum medianum thalami" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "noyau centre median of luys" EXACT [] synonym: "nucleus centralis centralis" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "nucleus centralis thalami (hassler)" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "nucleus centri mediani thalami" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "nucleus centromedianus" EXACT [NIF_GrossAnatomy:birnlex_805] synonym: "nucleus centromedianus thalami" EXACT LATIN [NIF_GrossAnatomy:birnlex_805, Wikipedia:Centromedian_nucleus] synonym: "nucleus centrum medianum" EXACT [NIF_GrossAnatomy:birnlex_805] xref: EV:0100215 xref: FMA:62165 xref: NIF_GrossAnatomy:birnlex_805 xref: SCTID:279162007 xref: UMLS:C0920328 xref: ncithesaurus:Centromedian_Nucleus_of_the_Thalamus is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002733 ! intralaminar nuclear group [Term] id: UBERON:0002973 name: parahippocampal gyrus namespace: uberon def: "a grey matter cortical region of the brain that surrounds the hippocampus. This region plays an important role in memory encoding and retrieval. The anterior part of the gyrus includes the perirhinal and entorhinal cortices. The term parahippocampal cortex is used to refer to an area that encompasses both the posterior portion of the parahippocampal gyrus and the medial portion of the fusiform gyrus.[Wikipedia]." [Wikipedia:Parahippocampal_gyrus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus parahippocampalis" RELATED LATIN [Wikipedia:Parahippocampal_gyrus] synonym: "hippocampal gyrus" EXACT [FMA:61918] xref: BTO:0004380 xref: EV:0100181 xref: FMA:61918 xref: GAID:634 xref: MESH:A08.186.211.577.710 xref: NIF_GrossAnatomy:birnlex_807 xref: SCTID:279205000 xref: UMLS:C0228249 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Human_brainstem_anterior_view_2_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b1/Human_brainstem_anterior_view_2_description.JPG/200px-Human_brainstem_anterior_view_2_description.JPG xref: ncithesaurus:Parahippocampal_Gyrus is_a: UBERON:0000200 ! gyrus relationship: has_function_in GO:0007613 ! memory relationship: part_of UBERON:0000349 ! limbic system relationship: part_of UBERON:0001871 ! temporal lobe relationship: surrounds UBERON:0001954 ! Ammon's horn [Term] id: UBERON:0002974 name: molecular layer of cerebellar cortex namespace: uberon def: "The molecular layer is the outermost layer of the cerebellar cortex. It contains the parallel fibers of the granule cells, interneurons such as stellate and basket cells, and the dendrites of the underlying Purkinje cells" [GO:0021679] comment: Taxon notes: Compare with ZFA:0000636 - cerebellar crest, which is also composed of parallel fibers but located in a more restricted nucleus within the cerebellum synonym: "cerebellar molecular layer" EXACT [GO:0021679] synonym: "cerebellum molecular cell layer" EXACT [] synonym: "cerebellum molecular layer" EXACT [] xref: FMA:83897 xref: MA:0000996 xref: NIF_GrossAnatomy:birnlex_810 xref: SCTID:369045002 xref: UMLS:C1709064 xref: ncithesaurus:Molecular_Layer_of_the_Cerebellum is_a: UBERON:0004130 ! cerebellar layer relationship: part_of UBERON:0002129 ! cerebellar cortex [Term] id: UBERON:0002975 name: medial oculomotor nucleus namespace: uberon synonym: "medial oculomotor cell column" EXACT [FMA:72421] xref: FMA:72421 xref: NIF_GrossAnatomy:birnlex_813 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002976 name: preolivary nucleus namespace: uberon synonym: "preolivary nuclei" EXACT [FMA:72474] xref: FMA:72474 xref: NIF_GrossAnatomy:birnlex_814 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007247 ! superior olivary nucleus relationship: part_of UBERON:0002128 ! superior olivary complex [Term] id: UBERON:0002977 name: triangular septal nucleus namespace: uberon synonym: "nucleus triangularis septi" EXACT LATIN [FMA:61880, FMA:TA] synonym: "triangular nucleus of septum" EXACT [FMA:61880] synonym: "triangular nucleus septum (cajal)" EXACT [NIF_GrossAnatomy:birnlex_816] xref: ABA:TRS xref: BM:Tel-Spt-STN xref: FMA:61880 xref: NIF_GrossAnatomy:birnlex_816 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0007629 [Term] id: UBERON:0002978 name: oral part of ventral lateral nucleus namespace: uberon synonym: "nucleus lateralis oralis situs principalis" EXACT [NIF_GrossAnatomy:birnlex_817] synonym: "nucleus ventralis lateralis, pars oralis" EXACT [NIF_GrossAnatomy:birnlex_817] synonym: "nucleus ventrooralis externus, anterior part (van buren)" EXACT [NIF_GrossAnatomy:birnlex_817] synonym: "subnucleus rostralis" EXACT [NIF_GrossAnatomy:birnlex_817] synonym: "ventral anterior nucleus, pars densicellularis" EXACT [FMA:62193] synonym: "ventral lateral anterior nucleus" EXACT [FMA:62193] synonym: "ventral lateral nucleus, oral part" EXACT [FMA:62193] synonym: "ventral lateral thalamic nucleus, oral part" EXACT [FMA:62193] xref: FMA:62193 xref: NIF_GrossAnatomy:birnlex_817 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0001925 ! ventral lateral nucleus [Term] id: UBERON:0002979 name: Purkinje cell layer of cerebellar cortex namespace: uberon def: "The Purkinje cell layer lies just underneath the molecular layer of the cerebellar cortex. It contains the neuronal cell bodies of the Purkinje cells that are arranged side by side in a single layer. Candelabrum interneurons are vertically oriented between the Purkinje cells. Purkinje neurons are inhibitory and provide the output of the cerebellar cortex through axons that project into the white matter. Extensive dendritic trees from the Purkinje cells extend upward in a single plane into the molecular layer where they synapse with parallel fibers of granule cells." [GO:0021680] synonym: "Purkinje cell layer" EXACT [FMA:83896] synonym: "cerebellar Purkinje cell layer" EXACT [FMA:83896, GO:0021694] synonym: "cerebellum Purkinje cell layer" EXACT [] synonym: "cerebellum Purkinje layer" EXACT [] xref: ABA:CBXpu xref: BTO:0004909 xref: FMA:83896 xref: MA:0000997 xref: NIF_GrossAnatomy:birnlex_818 xref: SCTID:369046001 xref: UMLS:C1709776 xref: ncithesaurus:Purkinje_Cell_Layer_of_the_Cerebellum is_a: UBERON:0004130 ! cerebellar layer relationship: has_part CL:0000121 ! Purkinje cell relationship: part_of UBERON:0002129 ! cerebellar cortex property_value: spatially_disjoint_from UBERON:0002956 [Term] id: UBERON:0002980 name: opercular part of inferior frontal gyrus namespace: uberon synonym: "opercular portion of inferior frontal gyrus" EXACT [FMA:61981] synonym: "pars opercularis gyri frontalis inferioris" EXACT [NIF_GrossAnatomy:birnlex_823] synonym: "posterior part of inferior frontal gyrus" EXACT [FMA:61981] xref: FMA:61981 xref: NIF_GrossAnatomy:birnlex_823 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0002981 name: pulvinar nucleus namespace: uberon def: "The pulvinar is the caudal-most nucleus of the thalamus. The pulvinar is usually grouped as one of the lateral thalamic nuclei. [WP,unvetted]." [Wikipedia:Pulvinar_nuclei] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nuclei pulvinares" EXACT LATIN [FMA:62178, FMA:TA] synonym: "pulvinar" EXACT [FMA:62178] synonym: "pulvinar nuclei" EXACT [FMA:62178] synonym: "pulvinar thalami" EXACT [NIF_GrossAnatomy:birnlex_824] xref: BM:Die-Th-Pl xref: BTO:0004352 xref: EV:0100213 xref: FMA:62178 xref: GAID:662 xref: MESH:A08.186.211.730.385.826.701.485.600 xref: NIF_GrossAnatomy:birnlex_824 xref: SCTID:279157006 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray719.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b7/Gray719.png/200px-Gray719.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002982 name: inferior pulvinar nucleus namespace: uberon synonym: "nucleus pulvinaris inferior" EXACT [NIF_GrossAnatomy:birnlex_830] synonym: "nucleus pulvinaris inferior thalami" EXACT [NIF_GrossAnatomy:birnlex_830] synonym: "nucleus pulvinaris thalami, pars inferior" EXACT [NIF_GrossAnatomy:birnlex_830] xref: BM:Die-Th-Pl-Pli xref: FMA:62183 xref: NIF_GrossAnatomy:birnlex_830 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002983 name: lateral posterior nucleus namespace: uberon synonym: "lateral posterior nucleus of thalamus" EXACT [FMA:62177] synonym: "lateral posterior nucleus of the thalamus" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "lateral posterior thalamic nucleus" EXACT [FMA:62177] synonym: "laterodorsal nucleus, caudal part" EXACT [FMA:62177] synonym: "nucleus dorso-caudalis" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "nucleus dorsocaudalis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "nucleus lateralis posterior" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "nucleus lateralis posterior thalami" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "nucleus lateralis thalami posterior" EXACT [NIF_GrossAnatomy:birnlex_835] synonym: "posterior lateral nucleus of thalamus" EXACT [FMA:62177] xref: ABA:LP xref: BM:Die-Th-LP xref: BTO:0004351 xref: EV:0100212 xref: FMA:62177 xref: NIF_GrossAnatomy:birnlex_835 xref: SCTID:279155003 xref: UMLS:C0228341 xref: ncithesaurus:Lateral_Posterior_Nucleus_of_the_Thalamus is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002709 property_value: spatially_disjoint_from UBERON:0003033 [Term] id: UBERON:0002984 name: lateral dorsal nucleus namespace: uberon synonym: "lateral dorsal nucleus of thalamus" EXACT [FMA:62176] synonym: "lateral dorsal thalamic nucleus" EXACT [FMA:62176] synonym: "laterodorsal nucleus nucleus of thalamus" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "laterodorsal nucleus thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "laterodorsal nucleus, superficial part" EXACT [FMA:62176] synonym: "laterodorsal thalamic nucleus" EXACT [FMA:62176] synonym: "nucleus dorsalis lateralis thalami" EXACT LATIN [FMA:62176, FMA:TA] synonym: "nucleus dorsalis superficialis (hassler)" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "nucleus dorsolateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "nucleus lateralis dorsalis" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "nucleus lateralis dorsalis of thalamus" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "nucleus lateralis dorsalis thalami" EXACT [NIF_GrossAnatomy:birnlex_838] synonym: "nucleus lateralis thalami dorsalis" EXACT [NIF_GrossAnatomy:birnlex_838] xref: ABA:LD xref: BM:Die-Th-LD xref: BTO:0004349 xref: BTO:0004350 xref: EV:0100211 xref: FMA:62176 xref: NIF_GrossAnatomy:birnlex_838 xref: SCTID:279154004 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002679 property_value: spatially_disjoint_from UBERON:0002681 property_value: spatially_disjoint_from UBERON:0002685 [Term] id: UBERON:0002985 name: ventral nucleus of medial geniculate body namespace: uberon synonym: "medial geniculate complex, ventral part" EXACT [FMA:62217] synonym: "medial geniculate nucleus, ventral part" EXACT [FMA:62217] synonym: "medial nucleus of medial geniculate complex" EXACT [NIF_GrossAnatomy:birnlex_845] synonym: "nucleus corporis geniculati medialis, pars ventralis" EXACT [NIF_GrossAnatomy:birnlex_845] synonym: "nucleus geniculatus medialis fasciculosus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_845] synonym: "nucleus geniculatus medialis pars ventralis" EXACT [NIF_GrossAnatomy:birnlex_845] synonym: "nucleus ventralis corporis geniculati medialis" EXACT LATIN [FMA:62217, FMA:TA] synonym: "ventral nucleus of medial geniculate complex" EXACT [FMA:62217] synonym: "ventral principal nucleus of medial geniculate body" EXACT [FMA:62217] xref: ABA:MGv xref: BM:Die-Th-MG-MGv xref: BTO:0002671 xref: FMA:62217 xref: NIF_GrossAnatomy:birnlex_845 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0001927 ! medial geniculate body property_value: spatially_disjoint_from UBERON:0002758 property_value: spatially_disjoint_from UBERON:0002759 [Term] id: UBERON:0002986 name: neurofilament namespace: uberon def: "." [Wikipedia:Neurofilament] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "neuronal intermediate filament" EXACT [FMA:63859] xref: FMA:63859 xref: GO:0005883 xref: NIF_GrossAnatomy:birnlex_846 xref: NIF_Subcellular:sao1316272517 xref: UMLS:C0027834 xref: ncithesaurus:Neurofilament is_a: UBERON:0003000 ! intermediate filament [Term] id: UBERON:0002987 name: anterior spinocerebellar tract namespace: uberon def: "The ventral spinocerebellar tract conveys proprioceptive information from the body to the cerebellum. It is part of the somatosensory system and runs in parallel with the dorsal spinocerebellar tract. Both these tracts involve two neurons and end up on the same side of the body. The ventral tract (under L2/L3) gets its proprioceptive/fine touch/vibration information from a first order neuron, with its cell body in a dorsal ganglion. The axon runs via the fila radicularia to the dorsal horn of the grey matter. There it makes a synapse with the dendrites of two neurons: they send their axons bilaterally to the ventral border of the lateral funiculi. The ventral spinocerebellar tract then enters the cerebellum via the superior cerebellar peduncle. This is in contrast with the dorsal spinocerebellar tract (C8 - L2/L3), which only has 1 unilateral axon that has its cell body in the Clarke's nuclei (only at the level of C8 - L2/L3). The fibers of the ventral spinocerebellar tract then eventually enter the cerebellum via the superior cerebellar peduncle. This is one of the few afferent tracts through the superior cerebellar peduncle. Originates from ventral horn at lumbosacral spinal levels. Axons first cross midline in the spinal cord and run in the ventral border of the lateral funiculi. These axons ascend up to the pons where they join the superior cerebellar peduncle to enter the cerebellum. Once in the deep white matter of the cerebellum, the axons recross the midline, give off collaterals to the globose and emboliform nuclei, and terminate in the cortex of the anterior lobe and vermis of the posterior lobe. [WP,unvetted]." [Wikipedia:Ventral_spinocerebellar_tract] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gower's tract" EXACT [NIF_GrossAnatomy:birnlex_848] synonym: "gowers' tract" EXACT [FMA:72642] synonym: "ventral spinocerebellar tract" EXACT [FMA:72642] xref: FMA:72642 xref: NIF_GrossAnatomy:birnlex_848 xref: SCTID:369285001 xref: http://upload.wikimedia.org/wikipedia/commons/b/b2/Spinal_cord_tracts_-_English.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fe/Medulla_spinalis_-_tracts_-_English.svg/200px-Medulla_spinalis_-_tracts_-_English.svg.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_function_in GO:0019230 ! proprioception relationship: part_of UBERON:0001896 ! medulla oblongata relationship: part_of UBERON:0005413 ! spinocerebellar tract [Term] id: UBERON:0002988 name: first dorsal interosseous of manus namespace: uberon synonym: "abductor indicis" EXACT [FMA:37424] synonym: "first dorsal interosseous of hand" EXACT [FMA:37424] xref: FMA:37424 xref: SCTID:245003002 is_a: UBERON:0001503 ! dorsal interosseous of manus [Term] id: UBERON:0002989 name: anconeus muscle namespace: uberon def: "small muscle on the posterior aspect of the elbow joint." [Wikipedia:Anconeus_muscle] comment: Some consider anconeus to be a continuation of the triceps brachii muscle. Some sources consider it to be part of the posterior compartment of the arm, while others consider it part of the posterior compartment of the forearm. synonym: "anconeus" EXACT [Wikipedia:Anconeus_muscle] synonym: "m. anconeus" EXACT [AAO:0010714] synonym: "musculus anconeus" RELATED LATIN [Wikipedia:Anconeus_muscle] xref: AAO:0010714 xref: FMA:37704 xref: SCTID:244993003 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray1232.png is_a: UBERON:0004255 ! forelimb stylopod muscle relationship: has_muscle_insertion UBERON:0006810 ! olecranon relationship: has_muscle_origin UBERON:0006807 ! ectepicondyle of humerus relationship: innervated_by UBERON:0001492 ! radial nerve [Term] id: UBERON:0002990 name: mammillothalamic tract of hypothalamus namespace: uberon xref: FMA:62059 xref: NIF_GrossAnatomy:birnlex_855 xref: SCTID:369139008 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0002770 ! posterior hypothalamic region relationship: part_of UBERON:0006695 ! mammillary axonal complex [Term] id: UBERON:0002991 name: supramammillary commissure namespace: uberon synonym: "commissure of forel" EXACT [] synonym: "commissure y" EXACT [FMA:62056] synonym: "postmammillary decussation" EXACT [FMA:62056] synonym: "supramammillary decussation" EXACT [FMA:62056] xref: FMA:62056 xref: NIF_GrossAnatomy:birnlex_859 xref: SCTID:369148003 is_a: UBERON:0011590 ! commissure of diencephalon relationship: part_of UBERON:0002770 ! posterior hypothalamic region [Term] id: UBERON:0002992 name: paratenial nucleus namespace: uberon def: "One of the median nuclei of the thalamus, situated ventral and medial to the stria medullaris." [BTO:0002457] synonym: "nucleus parataenialis" EXACT LATIN [BTO:0002457, FMA:62151, FMA:TA] synonym: "nucleus parataenialis thalami" RELATED [BTO:0002457] synonym: "parataenial nucleus" EXACT [FMA:62151] synonym: "paratenial nucleus of thalamus" RELATED [BTO:0002457] synonym: "paratenial thalamic nucleus" EXACT [FMA:62151] xref: ABA:PT xref: BTO:0002457 xref: FMA:62151 xref: NIF_GrossAnatomy:birnlex_860 xref: SCTID:422800004 is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0007692 ! nucleus of thalamus relationship: part_of UBERON:0002705 ! midline nuclear group property_value: spatially_disjoint_from UBERON:0001920 [Term] id: UBERON:0002993 name: inferior central nucleus namespace: uberon comment: todo - compare with UBERON:0002881 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "inferior central nucleus (of roller)" EXACT [FMA:72466] synonym: "inferior central nucleus of raphe" EXACT [FMA:72466] synonym: "inferior central tegmental nucleus" EXACT [FMA:72466] xref: FMA:72466 xref: NIF_GrossAnatomy:birnlex_861 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007413 ! nucleus of pontine reticular formation relationship: part_of UBERON:0002573 ! pontine reticular formation [Term] id: UBERON:0002994 name: nucleus of pretectal area namespace: uberon synonym: "pretectal area nucleus" EXACT [FMA:72401] xref: FMA:72401 xref: NIF_GrossAnatomy:birnlex_864 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003047 ! regional part of pretectal region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001944 ! pretectal region [Term] id: UBERON:0002995 name: substantia nigra pars lateralis namespace: uberon def: "Regional part of substantia nigra consisting of loosely packed cells, generally located ventral and lateral to the pars compacta. Many cells in this region use GABA as a neurotransmitter (MM)." [NIF_GrossAnatomy:birnlex_866] comment: _:comment___:_:@___:_:source__NIF___:.__disjointness violation - relationship: part_of UBERON:0001966 synonym: "Substantia nigra, lateral part" EXACT [ABA:SNI] synonym: "lateral part of substantia nigra" EXACT [FMA:76844] synonym: "pars lateralis" EXACT [NIF_GrossAnatomy:birnlex_866] xref: ABA:SNI xref: FMA:76844 xref: MA:0001065 xref: NIF_GrossAnatomy:birnlex_866 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0002950 ! regional part of midbrain relationship: part_of UBERON:0002038 ! substantia nigra property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0003040 [Term] id: UBERON:0002996 name: nucleus of optic tract namespace: uberon synonym: "large-celled nucleus of optic tract" EXACT [FMA:72403] synonym: "lentiform nucleus of pretectal area" EXACT [FMA:72403] synonym: "nucleus of the optic tract" EXACT [NIF_GrossAnatomy:birnlex_868] synonym: "optic tract nucleus" EXACT [FMA:72403] xref: ABA:NOT xref: FMA:72403 xref: NIF_GrossAnatomy:birnlex_868 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003047 ! regional part of pretectal region is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0011214 ! nucleus of midbrain tectum relationship: part_of UBERON:0001944 ! pretectal region property_value: spatially_disjoint_from UBERON:0002565 property_value: spatially_disjoint_from UBERON:0002711 property_value: spatially_disjoint_from UBERON:0006848 [Term] id: UBERON:0002997 name: nucleus of medial eminence namespace: uberon synonym: "medial eminence nucleus" EXACT [FMA:72467] synonym: "nucleus of eminentia teres" EXACT [FMA:72467] xref: FMA:72467 xref: NIF_GrossAnatomy:birnlex_870 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0002998 name: inferior frontal gyrus namespace: uberon def: "The inferior frontal gyrus is a gyrus of the frontal lobe of the human brain. Its superior border is the inferior frontal sulcus, its inferior border the lateral fissure, and its posterior border is the inferior precentral sulcus. Above it is the middle frontal gyrus, behind it the precentral gyrus. [WP,unvetted]." [Wikipedia:Inferior_frontal_gyrus] comment: ncit has two classes, but these are exact synonyms in FMA subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus frontalis inferior" RELATED LATIN [Wikipedia:Inferior_frontal_gyrus] synonym: "inferior frontal convolution" EXACT [FMA:61860] xref: BTO:0004835 xref: FMA:61860 xref: NIF_GrossAnatomy:birnlex_873 xref: SCTID:362333004 xref: UMLS:C0152298 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Inferior_frontal_gyrus.png xref: ncithesaurus:Inferior_Frontal_Convolution xref: ncithesaurus:Inferior_Frontal_Gyrus is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001870 ! frontal cortex [Term] id: UBERON:0002999 name: oral pontine reticular nucleus namespace: uberon def: "The oral pontine reticular nucleus is delineated from its caudal brother, with which it shares its first three names. This nucleus tapers into the lower mesencephalic reticular formation and contains sporadic giant cells. Different populations of the pontis oralis have displayed discharge patterns which coordinate with phasic movements to and from paradoxical sleep. From this information it has been implied that the n.r. pontis oralis is involved in the mediation of changing to and from REM sleep. [WP,unvetted]." [Wikipedia:Oral_pontine_reticular_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nucleus reticularis pontis oralis" RELATED LATIN [Wikipedia:Oral_pontine_reticular_nucleus] synonym: "pontine reticular nucleus, rostral part" EXACT [FMA:72468] xref: ABA:PRNv xref: FMA:72468 xref: NIF_GrossAnatomy:birnlex_875 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007413 ! nucleus of pontine reticular formation relationship: part_of UBERON:0003023 ! pontine tegmentum [Term] id: UBERON:0003000 name: intermediate filament namespace: uberon def: "." [Wikipedia:Intermediate_filament] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:63851 xref: GAID:1079 xref: GO:0005882 xref: MESH:A11.284.195.190.750.410 xref: NIF_GrossAnatomy:birnlex_879 xref: NIF_Subcellular:sao952483289 xref: UMLS:C0021770 xref: ncithesaurus:Intermediate_Filament is_a: UBERON:0000470 ! cell part [Term] id: UBERON:0003001 name: lemniscus namespace: uberon def: "A bundle or band of sensory nerve fibers. ribbon, from Greek lemniskos." [NIF_GrossAnatomy:birnlex_881, Wikipedia:Lemniscus_(anatomy)] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:76742 xref: NIF_GrossAnatomy:birnlex_881 is_a: UBERON:0002616 ! regional part of brain [Term] id: UBERON:0003002 name: medial lemniscus namespace: uberon def: "The medial lemniscus, also known as Reil's band or Reil's ribbon, is a pathway in the brainstem that carries sensory information from the gracile and cuneate nuclei to the thalamus. [WP,unvetted]." [Wikipedia:Medial_lemniscus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lemniscus medialis" RELATED LATIN [Wikipedia:Medial_lemniscus] xref: BM:LM xref: FMA:83675 xref: NIF_GrossAnatomy:birnlex_887 xref: SCTID:362398006 xref: http://upload.wikimedia.org/wikipedia/commons/6/66/Gray759.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/66/Gray759.png/200px-Gray759.png is_a: UBERON:0002316 ! white matter is_a: UBERON:0003001 ! lemniscus is_a: UBERON:0003544 ! brain white matter [Term] id: UBERON:0003003 name: microfilament namespace: uberon def: "." [Wikipedia:Microfilament] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "actin filament" EXACT [FMA:63850] synonym: "microfilament" EXACT [FMA:63850] synonym: "microfilamentum" EXACT [FMA:63850] xref: FMA:63850 xref: GAID:1080 xref: GO:0005884 xref: MESH:A11.284.195.190.750.510 xref: NIF_GrossAnatomy:birnlex_888 xref: NIF_Subcellular:sao2006047981 xref: UMLS:C0025979 xref: ncithesaurus:Actin_Filament is_a: UBERON:0000470 ! cell part [Term] id: UBERON:0003004 name: median raphe nucleus namespace: uberon def: "The median raphe nucleus (or superior central nucleus) is composed of polygonal, fusiform and pyriform neurons and exists rostral to the nucleus raphe pontis. One trait of the MRN is its inhibition by lysergic acid diethylamide and psilocin, two serotonin antagonist hallucinogens. The inactivation of the nucleus centralis superior via LSD produces a dose dependent inactivation in the MRN, but not in the raphe pallidus[WP,unvetted]." [Wikipedia:Median_raphe_nucleus, https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3248146&group_id=36855] comment: TODO: The term medial raphe nucleus refers to a composite structure that consists of the superior central nucleus and the inferior central nucleus of the pontine reticular formation ( Carpenter-1983 )[http://braininfo.rprc.washington.edu/centraldirectory.aspx?type=h&ID=1391] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "MRN" EXACT [] synonym: "cell group b8" EXACT [] synonym: "medial raphe nucleus" EXACT [] synonym: "median nucleus of the raphe" EXACT [FMA:72465] synonym: "nucleus raphes medianus" EXACT LATIN [FMA:72465, FMA:TA] synonym: "nucleus raphes medianus, nucleus centralis superior" RELATED LATIN [Wikipedia:Median_raphe_nucleus] synonym: "superior central nucleus" EXACT [FMA:72465] synonym: "superior central nucleus raphe" EXACT [FMA:72465] synonym: "superior central tegmental nucleus" EXACT [FMA:72465] xref: ABA:CS xref: BM:MR xref: FMA:72465 xref: NIF_GrossAnatomy:birnlex_889 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007415 ! nucleus of midbrain reticular formation relationship: part_of UBERON:0002639 ! midbrain reticular formation relationship: part_of UBERON:0004684 ! raphe nuclei property_value: spatially_disjoint_from UBERON:0002047 property_value: spatially_disjoint_from UBERON:0002148 property_value: spatially_disjoint_from UBERON:0002267 property_value: spatially_disjoint_from UBERON:0002587 [Term] id: UBERON:0003005 name: dorsal longitudinal fasciculus of midbrain namespace: uberon def: "A dorsal longitudinal fasciculus that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "bundle of Schutz of midbrain" EXACT [OBOL:automatic] synonym: "fasciculus of Schutz of midbrain" EXACT [OBOL:automatic] synonym: "midbrain bundle of Schutz" EXACT [OBOL:automatic] synonym: "midbrain dorsal longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "midbrain fasciculus of Schutz" EXACT [OBOL:automatic] synonym: "midbrain posterior longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "posterior longitudinal fasciculus of midbrain" EXACT [OBOL:automatic] xref: FMA:72453 xref: NIF_GrossAnatomy:birnlex_893 is_a: UBERON:0003045 ! dorsal longitudinal fasciculus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum intersection_of: UBERON:0003045 ! dorsal longitudinal fasciculus intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0003006 name: dorsal nucleus of lateral lemniscus namespace: uberon synonym: "dorsal nucleus of the lateral lemniscus" EXACT [FMA:72483] synonym: "nucleus of the lateral lemniscus, dorsal part" EXACT [ABA:NLLd] synonym: "nucleus posterior lemnisci lateralis" EXACT LATIN [FMA:72483, FMA:TA] synonym: "posterior nucleus of lateral lemniscus" EXACT [FMA:72483] xref: ABA:NLLd xref: BM:LLD xref: FMA:72483 xref: NIF_GrossAnatomy:birnlex_894 is_a: UBERON:0006840 ! nucleus of lateral lemniscus [Term] id: UBERON:0003007 name: lateral parabrachial nucleus namespace: uberon def: "The lateral parabrachial nucleus induces thirst by stimulating the median preoptic nucleus. It gets its name from its location relative to the superior cerebellar peduncles, which is also known as the 'brachia conjunctiva'. [WP,unvetted]." [Wikipedia:Lateral_parabrachial_nucleus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: FMA:72481 xref: NIF_GrossAnatomy:birnlex_897 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0003008 name: dorsal longitudinal fasciculus of hypothalamus namespace: uberon def: "A dorsal longitudinal fasciculus that is part of a hypothalamus [Automatically generated definition]." [OBOL:automatic] synonym: "bundle of Schutz of hypothalamus" EXACT [OBOL:automatic] synonym: "bundle of Schutz of preoptico-hypothalamic area" EXACT [OBOL:automatic] synonym: "bundle of Schutz of preoptico-hypothalamic region" EXACT [OBOL:automatic] synonym: "dorsal longitudinal fasciculus of preoptico-hypothalamic area" EXACT [OBOL:automatic] synonym: "dorsal longitudinal fasciculus of preoptico-hypothalamic region" EXACT [OBOL:automatic] synonym: "fasciculus of Schutz of hypothalamus" EXACT [OBOL:automatic] synonym: "fasciculus of Schutz of preoptico-hypothalamic area" EXACT [OBOL:automatic] synonym: "fasciculus of Schutz of preoptico-hypothalamic region" EXACT [OBOL:automatic] synonym: "hypothalamus bundle of Schutz" EXACT [OBOL:automatic] synonym: "hypothalamus dorsal longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "hypothalamus fasciculus of Schutz" EXACT [OBOL:automatic] synonym: "hypothalamus posterior longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "posterior longitudinal fasciculus of hypothalamus" EXACT [OBOL:automatic] synonym: "posterior longitudinal fasciculus of preoptico-hypothalamic area" EXACT [OBOL:automatic] synonym: "posterior longitudinal fasciculus of preoptico-hypothalamic region" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic area bundle of Schutz" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic area dorsal longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic area fasciculus of Schutz" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic area posterior longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic region bundle of Schutz" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic region dorsal longitudinal fasciculus" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic region fasciculus of Schutz" EXACT [OBOL:automatic] synonym: "preoptico-hypothalamic region posterior longitudinal fasciculus" EXACT [OBOL:automatic] xref: FMA:62063 xref: NIF_GrossAnatomy:birnlex_898 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003045 ! dorsal longitudinal fasciculus is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0002430 ! lateral hypothalamic area intersection_of: UBERON:0003045 ! dorsal longitudinal fasciculus intersection_of: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0003009 name: dorsal tegmental decussation namespace: uberon synonym: "Meynert's decussation" EXACT [FMA:72451] synonym: "decussatio tegmentalis posterior" EXACT LATIN [FMA:72451, FMA:TA] synonym: "dorsal fountain decussation" EXACT [FMA:72451] synonym: "fountain decussation of Meynert" EXACT [] synonym: "posterior tegmental decussation" EXACT [FMA:72451] xref: FMA:72451 xref: NIF_GrossAnatomy:birnlex_901 xref: SCTID:369248009 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0003010 name: lateral pes lemniscus namespace: uberon synonym: "deep pes lemniscus" EXACT [FMA:72459] synonym: "lateral pontine bundle" EXACT [FMA:72459] synonym: "laterale haubenfussschleife" EXACT [] synonym: "laterale pontine buendel" EXACT [] xref: FMA:72459 xref: NIF_GrossAnatomy:birnlex_902 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: UBERON:0003011 name: facial motor nucleus namespace: uberon def: "The facial motor nucleus is a collection of neurons in the brainstem that belong to the facial nerve. These lower motor neurons innervate the muscles of facial expression and the stapedius. [WP,unvetted]." [Wikipedia:Facial_motor_nucleus] comment: see comments for facial nucleus. also check ZFA/pons subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "branchiomotor nucleus of facial nerve" EXACT [FMA:54582] synonym: "facial motor nucleus" EXACT [FMA:54582] synonym: "facial nerve motor nucleus" EXACT [ZFA:0000206] synonym: "facial nucleus" RELATED [Wikipedia:Facial_nucleus] synonym: "motor nucleus VII" EXACT [ZFA:0000206] synonym: "motor nucleus of VII" EXACT [FMA:54582] synonym: "motor nucleus of facial nerve" EXACT [FMA:54582] synonym: "n. nervi facialis" RELATED LATIN [Wikipedia:Facial_motor_nucleus] synonym: "nVII" EXACT [ZFA:0000206] synonym: "nucleus motorius nervi facialis" EXACT [ZFA:0000206] xref: ABA:VII xref: FMA:54582 xref: NIF_GrossAnatomy:birnlex_903 xref: TAO:0000206 xref: ZFA:0000206 xref: http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray788.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6b/Gray788.png/200px-Gray788.png is_a: UBERON:0000127 ! facial nucleus property_value: spatially_disjoint_from UBERON:0002143 property_value: spatially_disjoint_from UBERON:0002147 property_value: spatially_disjoint_from UBERON:0002149 property_value: spatially_disjoint_from UBERON:0002151 property_value: spatially_disjoint_from UBERON:0002633 property_value: spatially_disjoint_from UBERON:0002682 property_value: spatially_disjoint_from UBERON:0002963 property_value: spatially_disjoint_from UBERON:0002968 property_value: spatially_disjoint_from UBERON:0007632 [Term] id: UBERON:0003012 name: flocculonodular lobe namespace: uberon def: "The flocculonodular lobe is a lobe of the cerebellum consisting of the nodule and the flocculus. It is closely associated with the vestibulocerebellum. [WP,unvetted]." [Wikipedia:Flocculonodular_lobe] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebellum flocculonodular lobe" EXACT [MA:0002965] synonym: "flocculonodular lobe" EXACT [FMA:72253] synonym: "flocculonodular lobe of cerebellum" EXACT [FMA:72253] synonym: "lobus flocculonodularis" EXACT LATIN [FMA:72253, FMA:TA] synonym: "posterior lobe-2 of cerebellum" EXACT [FMA:72253] xref: EV:0100297 xref: FMA:72253 xref: MA:0002965 xref: NIF_GrossAnatomy:birnlex_904 xref: SCTID:279361008 xref: http://upload.wikimedia.org/wikipedia/commons/4/43/CerebellumDiv.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/43/CerebellumDiv.png/200px-CerebellumDiv.png is_a: UBERON:0005293 ! cerebellum lobe [Term] id: UBERON:0003013 name: alar central lobule namespace: uberon def: "The lobulus centralis is a small square lobule, situated in the anterior cerebellar notch. It overlaps the lingula, from which it is separated by the precentral fissure; laterally, it extends along the upper and anterior part of each hemisphere, where it forms a wing-like prolongation, the alar central lobule. [WP,unvetted]." [Wikipedia:Alar_central_lobule] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "ala lobuli centralis" RELATED LATIN [Wikipedia:Alar_central_lobule] synonym: "alae of central lobule" EXACT [FMA:72517] synonym: "lobules II, III of vermis" EXACT [FMA:72517] xref: FMA:72517 xref: NIF_GrossAnatomy:birnlex_907 xref: http://upload.wikimedia.org/wikipedia/commons/8/8d/Gray702.png is_a: UBERON:0004003 ! cerebellum hemisphere lobule relationship: part_of UBERON:0003021 ! central lobule [Term] id: UBERON:0003015 name: anterior quadrangular lobule namespace: uberon synonym: "anterior crescentic lobule of cerebellum" EXACT [FMA:72516] synonym: "anterior quadrangular lobule of cerebellum" EXACT [FMA:72516] synonym: "anterior quadrangular lobule of cerebellum [H IV et V]" EXACT [FMA:72516] synonym: "anterior semilunar lobule" EXACT [FMA:72516] synonym: "lobulus quadrangularis anterior cerebelli [h iv et v]" EXACT LATIN [FMA:72516, FMA:TA] synonym: "semilunar lobule-1 (anterior)" EXACT [FMA:72516] xref: FMA:72516 xref: NIF_GrossAnatomy:birnlex_913 xref: SCTID:369041006 is_a: UBERON:0004003 ! cerebellum hemisphere lobule is_a: UBERON:0004004 ! cerebellum lobule [Term] id: UBERON:0003016 name: postcommissural fornix namespace: uberon xref: FMA:62062 xref: NIF_GrossAnatomy:birnlex_914 is_a: UBERON:0000052 ! fornix of brain is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0002430 ! lateral hypothalamic area [Term] id: UBERON:0003017 name: substantia innominata namespace: uberon def: "The substantia innominata (literally 'unnamed substance') of Meynert is a stratum consisting partly of gray and partly of white substance, which lies below the anterior part of the thalamus and lentiform nucleus. The gross anatomical structure is called anterior perforated substance because to the naked eye looks perforated by many holes. Holes are due to many blood vessels that pass through this area. It is part of the basal forebrain. [WP,unvetted]." [Wikipedia:Substantia_innominata] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "innominate substance" EXACT [FMA:61885] synonym: "nucleus of substantia innominata" EXACT [FMA:61885] synonym: "substantia innominata of Reichert" RELATED [BTO:0002447] synonym: "substantia innominata of Reil" RELATED [BTO:0002447] xref: ABA:SI xref: BM:Tel-SI xref: BTO:0002447 xref: FMA:61885 xref: GAID:638 xref: MESH:A08.186.211.577.820 xref: NIF_GrossAnatomy:birnlex_915 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Substantia_innominata_MRI.PNG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/36/Substantia_innominata_MRI.PNG/200px-Substantia_innominata_MRI.PNG is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002743 ! basal forebrain relationship: part_of UBERON:0002778 ! ventral pallidum property_value: spatially_disjoint_from UBERON:0007627 [Term] id: UBERON:0003018 name: parvicellular part of ventral posteromedial nucleus namespace: uberon synonym: "gustatory nucleus (thalamus)" EXACT [NIF_GrossAnatomy:birnlex_917] synonym: "gustatory thalamic nucleus" EXACT [FMA:62207] synonym: "nucleus ventralis posterior medialis thalami, pars parvicellularis" EXACT [NIF_GrossAnatomy:birnlex_917] synonym: "pars parvicellularis nuclei ventralis posteromedialis thalami" EXACT LATIN [FMA:62207, FMA:TA] synonym: "parvicellular part of ventral posteromedial nucleus of thalamus" EXACT [FMA:62207] synonym: "ventral posteromedial nucleus of thalamus, parvicellular part" EXACT [FMA:62207] synonym: "ventral posteromedial nucleus, parvocellular part" EXACT [FMA:62207] synonym: "ventral posteromedial thalamic nucleus, parvicellular part" EXACT [FMA:62207] synonym: "ventroposteromedial nucleus of the thalamus, parvicellular part" EXACT [NIF_GrossAnatomy:birnlex_917] xref: ABA:VPMpc xref: FMA:62207 xref: NIF_GrossAnatomy:birnlex_917 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0003019 name: oral part of ventral posterolateral nucleus namespace: uberon synonym: "nucleus lateralis intermedius lateralis" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus posteroventralis oralis" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus ventralis intermedius (dewulf)" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus ventralis intermedius (walker)" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus ventralis intermedius thalami" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus ventralis posterior lateralis, pars oralis" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "nucleus ventrointermedius" EXACT [NIF_GrossAnatomy:birnlex_918] synonym: "ventral part of ventral lateral posterior nucleus (jones)" EXACT [] synonym: "ventral posterolateral nucleus, oral part" EXACT [FMA:62205] synonym: "ventral posterolateral thalamic nucleus, oral part" EXACT [FMA:62205] xref: FMA:62205 xref: NIF_GrossAnatomy:birnlex_918 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0003020 name: subcallosal area namespace: uberon def: "The subcallosal area (parolfactory area of Broca, area parolfactoria) is a small triangular field on the medial surface of the hemisphere in front of the subcallosal gyrus, from which it is separated by the posterior parolfactory sulcus; it is continuous below with the olfactory trigone, and above and in front with the cingulate gyrus; it is limited anteriorly by the anterior parolfactory sulcus. [WP,unvetted]." [Wikipedia:Subcallosal_area] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "adolfactory area" EXACT [FMA:61890] synonym: "area paraolfactoria" EXACT LATIN [FMA:61890, FMA:TA] synonym: "area subcallosa, area parolfactoria" RELATED LATIN [Wikipedia:Subcallosal_area] synonym: "paraolfactory area" EXACT [FMA:61890] synonym: "parolfactory area" EXACT [FMA:61890] xref: FMA:61890 xref: NIF_GrossAnatomy:birnlex_919 xref: SCTID:362357004 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray732.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/4/4d/Gray732.png/200px-Gray732.png is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0003021 name: central lobule namespace: uberon def: "The central lobule is a small square lobule, situated in the anterior cerebellar notch. It overlaps the lingula, from which it is separated by the precentral fissure; laterally, it extends along the upper and anterior part of each hemisphere, where it forms a wing-like prolongation, the ala lobuli centralis. [WP,unvetted]." [Wikipedia:Central_lobule] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "central lobule of cerebellum" EXACT [FMA:72519] synonym: "central lobule of cerebellum [II and III]" EXACT [FMA:72519] synonym: "lobulus centralis" RELATED LATIN [Wikipedia:Central_lobule] synonym: "lobulus centralis cerebelli [ii et iii]" EXACT LATIN [FMA:72519, FMA:TA] xref: ABA:CENT xref: FMA:72519 xref: NIF_GrossAnatomy:birnlex_920 xref: SCTID:279383007 xref: http://upload.wikimedia.org/wikipedia/commons/e/e4/Gray703.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e4/Gray703.png/200px-Gray703.png is_a: UBERON:0004003 ! cerebellum hemisphere lobule property_value: spatially_disjoint_from UBERON:0004077 [Term] id: UBERON:0003022 name: lobe parts of cerebral cortex namespace: uberon comment: check w.r.t regional part of cerebreal cortex synonym: "cerebral cortical segment" RELATED [FMA:68603] synonym: "regional organ part of cerebral cortex" RELATED [FMA:68603] synonym: "segment of cerebral cortex" RELATED [NIF_GrossAnatomy:birnlex_922] xref: FMA:68603 xref: NIF_GrossAnatomy:birnlex_922 is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: UBERON:0003023 name: pontine tegmentum namespace: uberon def: "The pontine tegmentum is a part of the pons of the brain involved in the initiation of REM sleep. It includes the pedunculopontine nucleus and the laterodorsal tegmental nucleus, among others, and is located near the raphe nucleus and the locus ceruleus. The trapezoid body is part of the pontine tegmentum. [WP,unvetted]." [Wikipedia:Pontine_tegmentum] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "dorsal portion of pons" EXACT [FMA:71108] synonym: "tegmental portion of pons" EXACT [FMA:71108] synonym: "tegmentum of pons" EXACT [FMA:71108] synonym: "tegmentum pontis" EXACT LATIN [FMA:71108, FMA:TA, Wikipedia:Pontine_tegmentum] xref: FMA:71108 xref: NIF_GrossAnatomy:birnlex_923 xref: SCTID:362401009 xref: http://upload.wikimedia.org/wikipedia/commons/9/9c/Brainstem_Abducens.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9c/Brainstem_Abducens.png/200px-Brainstem_Abducens.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0002047 ! pontine raphe nucleus relationship: has_part UBERON:0002128 ! superior olivary complex relationship: has_part UBERON:0002148 ! locus ceruleus relationship: has_part UBERON:0002149 ! superior salivatory nucleus relationship: part_of UBERON:0000988 ! pons [Term] id: UBERON:0003024 name: principal part of ventral posteromedial nucleus namespace: uberon synonym: "nucleus ventralis posteromedialis, pars prinicipalis" EXACT [NIF_GrossAnatomy:birnlex_927] xref: FMA:62208 xref: NIF_GrossAnatomy:birnlex_927 is_a: UBERON:0002020 ! gray matter of neuraxis [Term] id: UBERON:0003025 name: brachium of inferior colliculus namespace: uberon def: "The Brachium of inferior colliculus (or inferior brachium) carries auditory afferent fibers from the inferior colliculus of the mesencephalon to the medial geniculate nucleus. [WP,unvetted]." [Wikipedia:Brachium_of_inferior_colliculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "brachium colliculi inferioris" RELATED LATIN [Wikipedia:Brachium_of_inferior_colliculus] synonym: "brachium of medial geniculate" EXACT [FMA:71114] synonym: "inferior brachium" EXACT [FMA:71114] synonym: "inferior collicular brachium" EXACT [FMA:71114] synonym: "inferior colliculus brachium" EXACT [FMA:71114] synonym: "inferior quadrigeminal brachium" EXACT [FMA:71114] synonym: "peduncle of inferior colliculus" EXACT [FMA:71114] xref: BM:MB-BSC xref: FMA:71114 xref: NIF_GrossAnatomy:birnlex_929 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Human_brainstem-thalamus_posterior_view_description.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Human_brainstem-thalamus_posterior_view_description.JPG/200px-Human_brainstem-thalamus_posterior_view_description.JPG is_a: UBERON:0002316 ! white matter is_a: UBERON:0003544 ! brain white matter relationship: part_of UBERON:0001946 ! inferior colliculus [Term] id: UBERON:0003026 name: limitans nucleus namespace: uberon synonym: "limitans thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_931] synonym: "nucleus limitans" EXACT [NIF_GrossAnatomy:birnlex_931] synonym: "nucleus limitans opticus (hassler)" EXACT [NIF_GrossAnatomy:birnlex_931] synonym: "nucleus limitans thalami" EXACT [NIF_GrossAnatomy:birnlex_931] xref: BM:Die-Th-L xref: FMA:62220 xref: NIF_GrossAnatomy:birnlex_931 xref: SCTID:369181002 is_a: UBERON:0002308 ! nucleus of brain [Term] id: UBERON:0003027 name: cingulate cortex namespace: uberon def: "The cingulate cortex is a part of the brain situated in the medial aspect of the cortex. It is extended from the corpus callosum below to the cingulate sulcus above, at least anteriorly. [WP,unvetted]." [Wikipedia:Cingulate_cortex] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "gyrus cingulatus" RELATED LATIN [Wikipedia:Cingulate_cortex] xref: BM:Tel-Cx-Cg xref: BTO:0003975 xref: EFO:0000343 xref: MA:0000904 xref: NIF_GrossAnatomy:birnlex_934 xref: UMLS:C0598179 xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Gray727_cingulate_gyrus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/dc/Gray727_cingulate_gyrus.png/200px-Gray727_cingulate_gyrus.png xref: ncithesaurus:Cingulate_Cortex is_a: UBERON:0003022 ! lobe parts of cerebral cortex [Term] id: UBERON:0003028 name: commissure of inferior colliculus namespace: uberon def: "A commissure that is part of a inferior colliculus [Automatically generated definition]." [OBOL:automatic] synonym: "caudal colliculus commissure" EXACT [OBOL:automatic] synonym: "commissure of caudal colliculus" EXACT [OBOL:automatic] synonym: "commissure of inferior colliculi" EXACT [FMA:71115] synonym: "commissure of posterior colliculus" EXACT [OBOL:automatic] synonym: "commissure of posterior corpus quadrigeminum" EXACT [OBOL:automatic] synonym: "inferior collicular commissure" EXACT [FMA:71115] synonym: "inferior colliculus commissure" EXACT [FMA:71115] synonym: "posterior colliculus commissure" EXACT [OBOL:automatic] synonym: "posterior corpus quadrigeminum commissure" EXACT [OBOL:automatic] xref: FMA:71115 xref: NIF_GrossAnatomy:birnlex_935 xref: SCTID:369260005 is_a: UBERON:0001020 ! commissure is_a: UBERON:0005970 ! brain commissure relationship: part_of UBERON:0001946 ! inferior colliculus intersection_of: UBERON:0001020 ! commissure intersection_of: part_of UBERON:0001946 ! inferior colliculus [Term] id: UBERON:0003029 name: stria terminalis namespace: uberon def: "The stria terminalis (terminal stria) is a structure in the brain consisting of a band of fibers running along the lateral margin of the ventricular surface of the thalamus. Serving as a major output pathway of the amygdala, the stria terminalis runs from its corticomedial division to the ventral medial nucleus of the hypothalamus. [WP,unvetted]." [Wikipedia:Stria_terminalis] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "semicircular stria" EXACT [FMA:61974] synonym: "stria terminalis" RELATED LATIN [Wikipedia:Stria_terminalis] synonym: "terminal stria" EXACT [Wikipedia:Terminal_stria] xref: BM:ST xref: BM:STr xref: BTO:0004616 xref: FMA:61974 xref: NIF_GrossAnatomy:birnlex_937 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Gray683.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ed/Gray683.png/200px-Gray683.png is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0003030 name: posterior nucleus of thalamus namespace: uberon subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "caudal thalamic nucleus" RELATED [TAO:0000325] synonym: "nucleus posterior thalami" EXACT [NIF_GrossAnatomy:birnlex_939] xref: BM:Die-Th-Po xref: FMA:62221 xref: NIF_GrossAnatomy:birnlex_939 xref: SCTID:424901000 xref: TAO:0000325 xref: UMLS:C0262315 xref: ZFA:0000325 xref: ncithesaurus:Posterior_Nucleus_of_the_Thalamus is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0003031 name: submedial nucleus namespace: uberon synonym: "gelatinosus thalamic nucleus" EXACT [FMA:62223] synonym: "nucleus submedialis thalami" EXACT LATIN [FMA:62223, FMA:TA] synonym: "nucleus submedius thalami" EXACT [NIF_GrossAnatomy:birnlex_946] synonym: "submedial nucleus of thalamus" EXACT [FMA:62223] synonym: "submedial nucleus thalamus" EXACT [NIF_GrossAnatomy:birnlex_946] synonym: "submedial thalamic nucleus" EXACT [NIF_GrossAnatomy:birnlex_946] xref: ABA:SMT xref: EV:0100203 xref: FMA:62223 xref: NIF_GrossAnatomy:birnlex_946 xref: SCTID:279151007 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002739 [Term] id: UBERON:0003033 name: suprageniculate nucleus namespace: uberon synonym: "nucleus suprageniculatus" EXACT [NIF_GrossAnatomy:birnlex_953] synonym: "suprageniculate thalamic nucleus" EXACT [FMA:62222] xref: ABA:SGN xref: BM:Die-Th-SG xref: FMA:62222 xref: NIF_GrossAnatomy:birnlex_953 xref: SCTID:369180001 is_a: UBERON:0002308 ! nucleus of brain property_value: spatially_disjoint_from UBERON:0002709 property_value: spatially_disjoint_from UBERON:0002983 [Term] id: UBERON:0003034 name: central dorsal nucleus namespace: uberon synonym: "nucleus centralis dorsalis thalami" EXACT [NIF_GrossAnatomy:birnlex_956] synonym: "nucleus centralis superior lateralis" EXACT [NIF_GrossAnatomy:birnlex_956] synonym: "nucleus centralis superior lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_956] synonym: "nucleus circularis" EXACT [NIF_GrossAnatomy:birnlex_956] xref: ABA:NC xref: FMA:62169 xref: NIF_GrossAnatomy:birnlex_956 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter [Term] id: UBERON:0003035 name: regional part of cerebellar white matter namespace: uberon def: "A multi-tissue structure that is part of a white matter of cerebellum." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of cerebellar white matter" EXACT [NIF_GrossAnatomy:birnlex_959] xref: FMA:72547 xref: NIF_GrossAnatomy:birnlex_959 is_a: UBERON:0000073 ! regional part of nervous system intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002317 ! white matter of cerebellum [Term] id: UBERON:0003036 name: central lateral nucleus namespace: uberon synonym: "central lateral nucleus of thalamus" EXACT [FMA:62170] synonym: "central lateral thalamic nucleus" EXACT [FMA:62170] synonym: "centrolateral thalamic nucleus" EXACT [FMA:62170] synonym: "nucleus centralis lateralis of thalamus" EXACT [NIF_GrossAnatomy:birnlex_961] synonym: "nucleus centralis lateralis thalami" EXACT [NIF_GrossAnatomy:birnlex_961] xref: ABA:CL xref: BM:Die-CL xref: EV:0100205 xref: FMA:62170 xref: NIF_GrossAnatomy:birnlex_961 xref: SCTID:279153005 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001922 property_value: spatially_disjoint_from UBERON:0001923 property_value: spatially_disjoint_from UBERON:0001924 property_value: spatially_disjoint_from UBERON:0002955 [Term] id: UBERON:0003037 name: septum namespace: uberon def: "a wall, dividing a cavity or structure into smaller ones[WP]." [Wikipedia:Septum] comment: general anatomical term in FMA synonym: "septa" EXACT PLURAL [] xref: AAO:0011127 xref: BM:Tel-Spt xref: FMA:86461 xref: OpenCyc:Mx4rrqot_on_EdaAAAACs0uFOQ is_a: UBERON:0000061 ! anatomical structure relationship: located_in UBERON:0002553 ! anatomical cavity property_value: has_relational_adjective "septal" xsd:string [Term] id: UBERON:0003038 name: thoracic spinal cord namespace: uberon def: "The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted]." [Wikipedia:Thoracic_spinal_cord] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "segmenta thoracica medullae spinalis [1-12]" EXACT LATIN [FMA:71167, FMA:TA] synonym: "thoracic region of spinal cord" EXACT [FMA:71167] synonym: "thoracic segment of spinal cord" EXACT [FMA:71167] synonym: "thoracic segments of spinal cord [1-12]" EXACT [FMA:71167] synonym: "thoracic spinal cord" EXACT [FMA:71167] xref: FMA:71167 xref: NIF_GrossAnatomy:birnlex_966 xref: SCTID:278750009 xref: UMLS:C0581620 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/68/Gray820.png/200px-Gray820.png xref: ncithesaurus:Thoracic_Spinal_Cord relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003039 name: anterior commissure anterior part namespace: uberon def: "the horseshoe-shaped tract that connects the two olfactory bulbs." [MP:0010859] synonym: "anterior commissure pars anterior" EXACT [MP:0010859] synonym: "anterior commissure, anterior part" EXACT [FMA:61963] synonym: "anterior part of anterior commissure" EXACT [FMA:61963, MP:0008230] synonym: "olfactory limb of anterior commissure" EXACT [FMA:61963] synonym: "olfactory part of anterior commissure" EXACT [FMA:61963] synonym: "pars anterior" BROAD [MP:0008230] synonym: "pars anterior commissurae anterioris" EXACT [MP:0008230] xref: FMA:61963 xref: NIF_GrossAnatomy:birnlex_969 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter relationship: part_of UBERON:0000935 ! anterior commissure disjoint_from: UBERON:0006964 ! pars distalis of adenohypophysis [Term] id: UBERON:0003040 name: central gray substance of midbrain namespace: uberon def: "Periaqueductal gray (PAG; also called the 'central gray') is the gray matter located around the cerebral aqueduct within the midbrain. It plays a role in the descending modulation of pain and in defensive behaviour. The ascending pain and temperature fibers of the spinothalamic tract also send information to the PAG via the spinomesencephalic tract. The spinomesencephalic tract is so-named because the fibers originate in the spine and terminate in the mesencephalon, another name for the midbrain, the part of the brain in which the PAG resides. [WP,unvetted]." [Wikipedia:Periaqueductal_gray, https://sourceforge.net/tracker/?func=detail&aid=3209233&group_id=76834&atid=1205376] comment: TODO - resolve MA - see tracker subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anulus of cerebral aqueduct" EXACT [FMA:74510] synonym: "central (periaqueductal) gray" EXACT [FMA:74510] synonym: "central grey" RELATED [MA:0000209] synonym: "griseum centrale" EXACT [NIF_GrossAnatomy:birnlex_973] synonym: "midbrain periaqueductal grey" EXACT [MA:0000209] synonym: "periaquectuctal grey" EXACT DUBIOUS [MA:0002895, https://sourceforge.net/tracker/?func=detail&aid=3209233&group_id=76834&atid=1205376] synonym: "periaqueductal gray" EXACT [FMA:74510] synonym: "periaqueductal gray matter" EXACT [FMA:74510] synonym: "periaqueductal gray of tegmentum" EXACT [FMA:74510] synonym: "periaqueductal grey" EXACT [MA:0002895] synonym: "periaqueductal grey matter" EXACT [EV:0100249] synonym: "periaqueductal grey substance" EXACT [FMA:74510] synonym: "s. grisea centralis" RELATED LATIN [Wikipedia:Periaqueductal_gray] synonym: "substantia grisea centralis" EXACT [NIF_GrossAnatomy:birnlex_973] xref: ABA:PAG xref: BM:MB-PAG xref: BTO:0002701 xref: EFO:0002470 xref: EV:0100249 xref: FMA:74510 xref: GAID:585 xref: MA:0000209 xref: MA:0002895 xref: MESH:A08.186.211.132.659.822.595 xref: NIF_GrossAnatomy:birnlex_973 xref: SCTID:369233003 xref: TAO:0000518 xref: ZFA:0000518 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Cn3nucleus.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Cn3nucleus.png/200px-Cn3nucleus.png is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0003528 ! brain grey matter property_value: spatially_disjoint_from UBERON:0001715 property_value: spatially_disjoint_from UBERON:0001944 property_value: spatially_disjoint_from UBERON:0001947 property_value: spatially_disjoint_from UBERON:0001966 property_value: spatially_disjoint_from UBERON:0002141 property_value: spatially_disjoint_from UBERON:0002438 property_value: spatially_disjoint_from UBERON:0002691 property_value: spatially_disjoint_from UBERON:0002696 property_value: spatially_disjoint_from UBERON:0002722 property_value: spatially_disjoint_from UBERON:0002995 [Term] id: UBERON:0003041 name: trigeminal nerve fibers namespace: uberon synonym: "central part of trigeminal nerve" EXACT [FMA:72501] synonym: "trigeminal nerve fibers" EXACT [FMA:72501] synonym: "trigeminal nerve tract" EXACT [FMA:72501] xref: FMA:72501 xref: NIF_GrossAnatomy:birnlex_974 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0003043 name: posterior part of anterior commissure namespace: uberon def: "the major forebrain commissure that connects the two temporal lobes of the cortex." [MP:0010860] synonym: "anterior commissure pars posterior" EXACT [MP:0010860] synonym: "anterior commissure temporal limb" EXACT [MP:0008230] synonym: "anterior commissure, posterior part" EXACT [FMA:61964] synonym: "pars posterior" BROAD [MP:0008229] synonym: "temporal limb of anterior commissure" EXACT [FMA:61964] xref: FMA:61964 xref: NIF_GrossAnatomy:birnlex_977 is_a: UBERON:0002316 ! white matter is_a: UBERON:0002437 ! cerebral white matter relationship: part_of UBERON:0000935 ! anterior commissure disjoint_from: UBERON:0003217 ! neural lobe of neurohypophysis [Term] id: UBERON:0003044 name: uncinate fasciculus namespace: uberon def: "The uncinate fasciculus is a white matter tract in the human brain that connects parts of the limbic system such as the hippocampus and amygdala in the temporal lobe with frontal ones such as the orbitofrontal cortex. Its function is unknown though it is affected in several psychiatric conditions. It is the last white matter tract to mature in the human brain. [WP,unvetted]." [Wikipedia:Uncinate_fasciculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cerebral uncinate fasciculus" EXACT [FMA:77636] xref: FMA:77636 xref: NIF_GrossAnatomy:birnlex_983 xref: SCTID:369083001 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray751.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d1/Gray751.png/200px-Gray751.png is_a: UBERON:0001019 ! fascicle [Term] id: UBERON:0003045 name: dorsal longitudinal fasciculus namespace: uberon def: "The dorsal longitudinal fasciculus (DLF) (not to be confused with the medial longitudinal fasciculus) is a white matter fiber tract located within the brain stem, specifically in the dorsal brainstem tegmentum. The DLF travels through the periaqueductal gray matter. The tract is comprised of a diffuse brainstem pathway located in the periventricular gray matter comprising ascending visceral sensory axons and descending hypothalamic axons. As with all white matter tracts, the DLF consists of myelinated axons carrying information between neurons. The DLF, carries both ascending and descending fibers, conveys visceral motor and sensory signals. [WP,unvetted]." [Wikipedia:Dorsal_longitudinal_fasciculus] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "DLF" RELATED [ZFA:0005266] synonym: "bundle of Schutz" EXACT [FMA:83845] synonym: "fasciculus longitudinalis posterior" EXACT LATIN [FMA:83845, FMA:TA] synonym: "fasciculus longitudinalis posterior; fasciculus longitudinalis dorsalis" RELATED LATIN [Wikipedia:Dorsal_longitudinal_fasciculus] synonym: "fasciculus of Schutz" EXACT [FMA:83845] synonym: "posterior longitudinal fasciculus" EXACT [FMA:83845] xref: FMA:83845 xref: NIF_GrossAnatomy:birnlex_986 xref: SCTID:369082006 xref: ZFA:0005266 is_a: UBERON:0001019 ! fascicle is_a: UBERON:0005838 ! fasciculus of brain [Term] id: UBERON:0003046 name: ventral acoustic stria namespace: uberon synonym: "anterior acoustic stria" EXACT [FMA:72498] synonym: "stria cochlearis anterior" EXACT LATIN [FMA:72498, FMA:TA] xref: FMA:72498 xref: NIF_GrossAnatomy:birnlex_991 is_a: UBERON:0002316 ! white matter [Term] id: UBERON:0003047 name: regional part of pretectal region namespace: uberon def: "A regional part of brain that is part of a pretectal region [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "pretectal region segment" EXACT [FMA:74519] synonym: "segment of pretectal region" EXACT [NIF_GrossAnatomy:birnlex_993] xref: FMA:74519 xref: NIF_GrossAnatomy:birnlex_993 is_a: UBERON:0002966 ! regional part of midbrain tectum intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001944 ! pretectal region [Term] id: UBERON:0003048 name: regional part of hypothalamus namespace: uberon def: "A regional part of brain that is part of a hypothalamus [Automatically generated definition]." [OBOL:automatic] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "hypothalamus segment" EXACT [FMA:67706] synonym: "segment of hypothalamus" EXACT [NIF_GrossAnatomy:birnlex_995] xref: FMA:67706 xref: NIF_GrossAnatomy:birnlex_995 xref: SCTID:360454003 is_a: UBERON:0002784 ! regional part of diencephalon intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0003049 name: collagen and cuticulin-based cuticle namespace: uberon alt_id: UBERON:WBbt_0005755 def: "A rigid external coating which is secreted by the hypodermis, seam and some transitional epithelial cells which covers the outer body, the major openings into the body cavity from the exterior, and two large sensory bristles, the male spicules. The cuticle of the spicules, the hook, and of some portions of the spicule channels is especially rigid and is probably sclerotized. Similar sclerotic features are occasionally noted in the ventral surface of the male tail fan[WBbt]. The main structural components of the nematode cuticle are proteins, highly cross-linked collagens and specialised insoluble proteins known as cuticlins, together with glycoproteins and lipids[WP]." [UBERON:cjm, WA:dh] comment: Note that GO has a superclass protein-based cuticle development // taxonomic restriction may be too strict subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nematode cuticle" RELATED [] xref: WBbt:0005755 is_a: UBERON:0001002 ! cuticle [Term] id: UBERON:0003050 name: olfactory placode namespace: uberon def: "A thick plate of cells derived from the neural ectoderm in the head region of the embryo that develops into the olfactory region of the nasal cavity." [Wikipedia:Nasal_placode, XAO:0000005] comment: Olfactory placodes are the only ectodermal placodes to produce glia, a cell type typically derived from neural crest // Note that NBK53171 classifies this as non-neurogenic subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "nasal I placode" RELATED [] synonym: "nasal placode" RELATED [] synonym: "olfactory placodes" EXACT PLURAL [] synonym: "placoda nasalis" EXACT LATIN [] synonym: "placoda olfactoria" EXACT LATIN [] xref: AAO:0011076 xref: EFO:0003420 xref: EHDAA2:0001232 xref: EHDAA:1504 xref: EMAPA:16543 xref: TAO:0000048 xref: VHOG:0000186 xref: XAO:0000005 xref: ZFA:0000048 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0009955 ! neurogenic placode is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0002346 ! neurectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000922 ! embryo property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (2) neurogenic placodes (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003051 name: ear vesicle namespace: uberon alt_id: UBERON:0004373 def: "The saccular invagination of ectoderm from which the vertebrate inner ear develops[BTO]. Epithelial sac present beside the fifth rhombomere; forms the semicircular canals dorsally and the otolith organs ventrally, and houses the acoustico-vestibular sensory epithelia (maculae) of hair cells[ZFA]. epithelial sac of invaginated ectoderm formed from the otic placode that gives rise to the structures of the inner ear[MP]" [BTO:0002661, MP:0009806, Wikipedia:Otic_vesicle, ZFIN:curator] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "OV" RELATED [] synonym: "acoustic vesicle" RELATED [VHOG:0001148] synonym: "auditory vesicle" RELATED [BTO:0002661] synonym: "otic vesicle" EXACT [] synonym: "otocyst" RELATED [] xref: AAO:0011080 xref: BTO:0002661 xref: EHDAA2:0001342 xref: EMAPA:16669 xref: SCTID:308792006 xref: TAO:0000051 xref: UMLS:C1518678 xref: VHOG:0001148 xref: XAO:0000006 xref: ZFA:0000051 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray40.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2d/Gray40.png/200px-Gray40.png xref: ncithesaurus:Otic_Vesicle is_a: UBERON:0005085 ! ectodermal placode is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0009123 ! otic cup relationship: part_of UBERON:0000922 ! embryo intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_into UBERON:0001846 ! internal ear intersection_of: part_of UBERON:0000924 ! ectoderm property_value: external_definition "Epithelial sac present beside the fifth rhombomere; forms the semicircular canals dorsally and the otolith organs ventrally, and houses the acoustico-vestibular sensory epithelia (maculae) of hair cells. Kimmel et al, 1995. (Also see Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" xsd:string property_value: external_definition "One of the paired sacs of invaginated ectoderm that develop into the membranous labyrinth of the internal ear. [Biology_online][VHOG]" xsd:string property_value: homology_notes "The inner ear develops embryonically in all vertebrates as an invagination of the ectodermal otic placode to form an otic vesicle.[well established][VHOG]" xsd:string [Term] id: UBERON:0003052 name: midbrain-hindbrain boundary namespace: uberon def: "The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate." [GO:0021555] comment: editor note: consider adding class for organizer. Consider adding separate class for isthmus as a structure subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "MHB" EXACT [] synonym: "isthmo-cerebellar region" RELATED [VHOG:0000649] synonym: "isthmus" RELATED [] synonym: "isthmus/MHB" RELATED [Geisha:syn, NCBITaxon:8782] synonym: "mid-hindbrain boundary" EXACT [] synonym: "mid-hindbrain junction" EXACT [] synonym: "midbrain hindbrain boundary" EXACT [] xref: AAO:0011064 xref: EHDAA2:0004395 xref: EHDAA:5789 xref: TAO:0000042 xref: VHOG:0000649 xref: XAO:0000016 xref: ZFA:0000042 is_a: UBERON:0006800 ! anatomical line relationship: develops_from UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: part_of UBERON:0000955 ! brain intersection_of: UBERON:0006800 ! anatomical line intersection_of: adjacent_to UBERON:0001891 ! midbrain intersection_of: adjacent_to UBERON:0002028 ! hindbrain property_value: homology_notes "Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG]" xsd:string [Term] id: UBERON:0003053 name: ventricular zone namespace: uberon def: "Proliferative region that is part of the ventricular system." [ZFA:0001083] comment: in BTO this is restricted to the 4th ventricle - however this class also represents the early ventricular zone as well as its post-natal remnants. The MA class is named 'ventricular zone of brain' and is presumably restricted to the post-natal zone subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "VZ" EXACT [] synonym: "brain ventricular zone" EXACT [MA:0000819] synonym: "ventricular zone of brain" EXACT [] xref: AAO:0011112 xref: BTO:0003654 xref: EFO:0003624 xref: MA:0000819 xref: TAO:0001083 xref: VHOG:0001224 xref: XAO:0000021 xref: ZFA:0001083 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0005281 ! ventricular system of central nervous system property_value: external_definition "Proliferative zone in the region of the neural tube adjacent to the lumen." xsd:string property_value: external_definition "There are two primary regions that are thought to give rise to neurons that make up the cerebellum. The first region is the ventricular zone (the roof of the fourth ventricle). This area produces Purkinje cells and deep cerebellar nuclear neurons[BTO:0003654]." xsd:string [Term] id: UBERON:0003054 name: roof plate namespace: uberon def: "a single row of glia at the dorsal midline of the developing neural tube. This region provides inductive signals for the specification of neuronal cell types and of the specification of neural crest cells. The cells comprising the roof plate are the precursors to radial glial cells." [GO:0021509, PMID:15378040] comment: TODO - Note that although this is classically defined as being located on the neural tube, in many AOs the roof plate continues post-embryonically after the neural tube has ceased to exist. Consider 'roof plate of neural tube'. TODO - alar plate vs roof plate subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "alar plate" RELATED [Wikipedia:Roof_plate] synonym: "roofplate" EXACT [] xref: AAO:0011097 xref: TAO:0007058 xref: ZFA:0007058 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001049 ! neural tube property_value: external_definition "Multi-tissue structure that is the dorsal-most aspect of the devleloping neural tube.[TAO]" xsd:string [Term] id: UBERON:0003055 name: periderm namespace: uberon def: "A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis." [ISBN:9780878932504] comment: Originally the epidermis is one layer thick, in most vertebrates it soon becomes a two-layered structure. The outer layer gives rise to the periderm. The periderm goes through distinct developmental phases and is ultimately sloughed into the amniotic fluid when differentiation of the underlying epidermal layers is complete. The function of the periderm is not known, but is thought to be related to transport/exchange between the fetus and the amniotic fluid (http://courses.washington.edu/hubio567/devbio/periderm.html) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "EVL" RELATED [ZFA:0001185] synonym: "epidermis epithelial layer" RELATED [] synonym: "epidermis outer layer" RELATED [] synonym: "periderm" RELATED [] synonym: "skin periderm" EXACT [EHDAA2:0001846] xref: EHDAA2:0001846 xref: EHDAA:6538 xref: TAO:0001185 xref: UMLS:C1518973 xref: VHOG:0001680 xref: XAO:0000029 xref: ZFA:0001185 xref: ncithesaurus:Periderm is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: develops_from UBERON:0007383 ! enveloping layer of ectoderm relationship: part_of UBERON:0002199 ! integument property_value: axiom_lost_from_external_ontology "relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO]" xsd:string property_value: external_definition "The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO]" xsd:string [Term] id: UBERON:0003056 name: pre-chordal neural plate namespace: uberon def: "The portion of neural plate anterior to the mid-hindbrain junction." [XB:curator] comment: This class was created automatically from a combination of ontologies synonym: "anterior neural plate" RELATED [] xref: AAO:0011084 xref: TAO:0007016 xref: VHOG:0001200 xref: XAO:0000045 xref: ZFA:0007016 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: anterior_to UBERON:0009774 ! embryonic midbrain hindbrain boundary relationship: part_of UBERON:0003075 ! neural plate property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003057 name: chordal neural plate namespace: uberon def: "The portion of neural plate posterior to the mid-hindbrain junction." [XB:curator] comment: This class was created automatically from a combination of ontologies synonym: "posterior neural plate" RELATED [] xref: TAO:0007017 xref: VHOG:0001201 xref: XAO:0000046 xref: ZFA:0007017 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0003075 ! neural plate relationship: posterior_to UBERON:0009774 ! embryonic midbrain hindbrain boundary property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003058 name: hypochord namespace: uberon def: "The hypochord is a transient rod-like structure in the embryos of fish, lampreys and amphibians that is located immediately ventral to the notochord. The hypochord may play a role in positioning the dorsal aorta[GO]. near metamorphosis the hypochord fuses to the coccyx, thereby forming the urostyle[AAO]" [AAO:0000733, GO:0055016, ISBN:0815318960, PMID:10648245] comment: Unlike in frogs and axolotl, the hypochord does not appear to be endodermally derived[ZFA] subset: dubious_grouping ! Indicates that subclasses in AOs may be inappropriately linked synonym: "subnotochordal rod" EXACT [GO:0055016, PMID:10648245] xref: AAO:0000733 xref: EFO:0003475 xref: TAO:0000031 xref: VHOG:0000081 xref: XAO:0000056 xref: ZFA:0000031 is_a: UBERON:0000479 ! tissue is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0000925 ! endoderm property_value: external_definition "A transient rod-like structure which is endodermally derived and located immediately ventral to the notochord. The hypochord is thought to play a role in positioning the dorsal aorta. Eriksson and Lofberg, 2000.[TAO]" xsd:string property_value: external_definition "Unsegmented ventral structure in the caudal region of anuran larvae; near metamorphosis the hypochord fuses to the coccyx, thereby forming the urostyle.[AAO]" xsd:string property_value: homology_notes "In other words, we identified variations in gene expression patterns that may contribute to a molecular basis of evolutionary variation of axial structures between Teleostei and Mammalia in the determination of body axis. As already mentioned, one such difference is illustrated by the hypochord present in lower vertebrates but absent in higher animals. Perhaps, Tbx-b and Tbx-c are involved in the mechanisms underlying the formation of this organ that were lost during later evolution leading to the disappearance of the hypochord itself, similarly to other organs, such as the lateral line.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0003059 name: presomitic mesoderm namespace: uberon def: "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995." [ZFIN:curator] synonym: "PSM" RELATED [] synonym: "presumptive somite mesoderm" RELATED [] synonym: "segmental plate" EXACT [] synonym: "somitogenic mesoderm" RELATED [] synonym: "unsegmented mesenchyme" RELATED [VHOG:0000559] synonym: "unsegmented paraxial mesoderm" EXACT [UBERON:cjm] xref: AAO:0011086 xref: EFO:0001982 xref: TAO:0000279 xref: VHOG:0000559 xref: XAO:0000057 xref: ZFA:0000279 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0007282 ! presumptive segmental plate relationship: part_of UBERON:0003077 ! paraxial mesoderm property_value: external_definition "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG]" xsd:string [Term] id: UBERON:0003060 name: pronephric duct namespace: uberon def: "In mammals, the pronephric duct is the predecessor of the Wolffian duct[WP]." [Wikipedia:Pronephric_duct] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "archinephric duct" RELATED [VHOG:0000082] synonym: "ductus pronephricus" RELATED LATIN [Wikipedia:Pronephric_duct] xref: AAO:0011088 xref: SCTID:361406002 xref: TAO:0000150 xref: UMLS:C1283945 xref: VHOG:0000082 xref: XAO:0000063 xref: ZFA:0000150 xref: ncithesaurus:Pronephric_Duct is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0009201 ! nephric duct is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0003064 ! intermediate mesoderm relationship: develops_from UBERON:0005721 ! pronephric mesoderm relationship: part_of UBERON:0002120 ! pronephros property_value: external_definition "Duct of the embryonic kidney, present bilaterally ventral to the somites and leading to the anal region where it empties separately from, and just posterior to the anus. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "The first-formed kidney duct, which drains the kidney of most anamniotes and becomes the ductus deferens of male amniotes. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-3, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes " (...) in all craniates, the archinephric duct develops in embryogeny.[well established][VHOG]" xsd:string [Term] id: UBERON:0003061 name: blood island namespace: uberon def: "Blood islands are structures in the developing embryo which lead to many different parts of the circulatory system. They primarily derive from plexuses formed from angioblasts. Within them, vacuoles appear through liquefaction of the central part of the syncytium into plasma. The lumen of the blood vessels thus formed is probably intracellular. The flattened cells at the periphery form the endothelium. The nucleated red blood corpuscles develop either from small masses of the original angioblast left attached to the inner wall of the lumen or directly from the flat endothelial cells. In either case the syncytial mass thus formed projects from and is attached to the wall of the vessel. Such a mass is known as a blood island and hemoglobin gradually accumulates within it. Later the cells on the surface round up, giving the mass a mulberry-like appearance. Then the red blood cells break loose and are carried away in the plasma. Such free blood cells continue to divide. Blood islands have been seen in the area vasculosa in the omphalomesenteric vein and arteries, and in the dorsal aorta[WP, unvetted]." [Wikipedia:Blood_island_of_umbilical_vesicle] comment: AO notes: EHDAA2 distinguishes 3 types, but does not have a superclass. The VHOG class may refer to yolk sac subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "VBI" RELATED [] synonym: "blood islands" EXACT PLURAL [] synonym: "caudal hematopoietic tissue" RELATED [] synonym: "posterior ICM" RELATED [] synonym: "posterior blood island" RELATED [] synonym: "ventral blood island" RELATED [] synonym: "ventral lateral plate mesoderm" BROAD [] xref: AAO:0011006 xref: EFO:0003489 xref: EHDAA:207 xref: TAO:0000094 xref: TE:E5.11.2.0.0.0.4 xref: UMLS:C1511224 xref: VHOG:0000085 xref: XAO:0000067 xref: ZFA:0000094 xref: ncithesaurus:Blood_Island is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: develops_into UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0000922 ! embryo relationship: site_of GO:0001525 ! angiogenesis relationship: site_of GO:0030097 ! hemopoiesis property_value: axiom_lost_from_external_ontology "relationship loss: part_of intermediate cell mass of mesoderm (TAO:0000033)[TAO]" xsd:string property_value: external_definition "Nests of developing blood cells arising late in the segmentation period from the intermediate mass, and located in the anterior-ventral tail, just posterior to the yolk extension. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Region located on the ventral surface of the developing embryo that is a site of hematopoiesis and that is analogous to the yolk sac blood islands of higher vertebrates.[AAO]" xsd:string property_value: homology_notes "Small clusters of mesodermal cells called blood islands mark the embryonic debut of the cardiovascular system (in vertebrates) (reference 1); In birds and mammals, primitive hemangioblasts are extraembryonic, populating the yolk sac as the so-called blood islands (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0003062 name: primitive knot namespace: uberon alt_id: UBERON:0004018 def: "organizer for gastrulation in vertebrates. The primitive knot starts as a regional knot of cells that forms on the blastodisc immediately anterior to where the outer layer of cells will begin to migrate inwards - an area known as the primitive streak. Posterior to the node is the primitive pit, where the cells of the epiblast (the upper layer of embryonic cells) initially begin to invaginate. This invagination expands posteriorly into the primitive groove as the cells layers continue to move into the space between the embryonic cells and the yolk. This differentiates the embryo into the germ layers - endoderm, mesoderm, and ectoderm. The primitive knot migrates posteriorly as gastrulation proceeds, eventually being absorbed into the tail bud.[WP]. the regional thickening of cells at the rostral tip of the vertebrate primitive streak through which gastrulating cells migrate anteriorally to form tissues in the future head and neck; this region organizes the formation of the three embryonic layers and establishes the longitudinal axis and the polarity of the embryo[MP]." [MP:0004066, Wikipedia:Primitive_knot, Wikipedia:Regional_specification#Dorsal.2Fventral_axis_.26_organizer] comment: This class groups together possibly disparate structures, following homology class in vHOG; early development terms need review subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "DMZ" RELATED [VHOG:0000598] synonym: "Hensen node" EXACT SENSU [GAID:1312, Wikipedia:Primitive_knot] synonym: "Hensen's node" EXACT SENSU [GAID:1312, Wikipedia:Primitive_knot] synonym: "Spemann Mangold organizer" EXACT SENSU [ZFA:0000071] synonym: "Spemann's organizer" EXACT SENSU [ZFA:0000071] synonym: "dorsal marginal zone" RELATED [XAO:0000072] synonym: "embryo organizer" EXACT [GAID:1312] synonym: "embryonic organizer" EXACT [GAID:1312] synonym: "embryonic shield" EXACT [http://zfin.org/zf_info/zfbook/stages/gast.html] synonym: "node" BROAD [EMAPA:16075, ISBN:9780878932504] synonym: "nodus primitivus" RELATED LATIN [Wikipedia:Primitive_knot] synonym: "organizer" EXACT [ZFA:0000071] synonym: "primitive node" EXACT [Wikipedia:Primitive_knot] synonym: "shield" EXACT [ZFA:0000071] xref: AAO:0000346 xref: BILA:0000053 xref: BTO:0003395 xref: EHDAA2:0001272 xref: EHDAA:549 xref: EMAPA:16075 xref: GAID:1312 xref: MESH:A16.254.650 xref: SCTID:361464001 xref: TAO:0000071 xref: UMLS:C1283999 xref: VHOG:0000598 xref: XAO:0000072 xref: ZFA:0000071 xref: ncithesaurus:Primitive_Node is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010188 ! protuberance relationship: develops_from UBERON:0007283 ! presumptive shield relationship: part_of UBERON:0002541 ! germ ring relationship: part_of UBERON:0004341 ! primitive streak property_value: external_definition "A signaling center that directs the development of the whole embryo or of part of the embryo.[AAO]" xsd:string property_value: external_definition "Embryonic structure that is a local accumulation of cells along the germ ring. The shield marks the dorsal side of the embryo[ZFIN:ZDB-PUB-961014-576]." xsd:string property_value: homology_notes "The organizer is a central feature of vertebrate embryogenesis. It was first characterized in functional terms in amphibians by Spemann and Mangold (1924), and homologous tissues have since been identified in representatives of most other vertebrate classes, including mammals (the node), birds (Henson's node) and teleost fish (the embryonic shield).[well established][VHOG]" xsd:string [Term] id: UBERON:0003063 name: prechordal plate namespace: uberon alt_id: UBERON:0004881 def: "a thickening of the endoderm at the cranial end of the primitive streak formed by the involution of Spemann's organizer cells. The prechordal plate and the notochord induce the formation of the neural plate from the overlying ectodermal cells[GO]. Axial hypoblast located anterior to the chordamesoderm; the polster is its most anterior region[ZFA]. Uniquely thickened portion of the endoderm that is in contact with ectoderm immediately rostral to the cephalic tip of the notochord[WP]." [Wikipedia:Prechordal_plate, ZFIN:curator] comment: todo - check; developmental relationship to anterior hypoblast in ZFA? subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "head mesenchyme" BROAD [XAO:0000079] synonym: "head mesoderm" BROAD [XAO:0000079] xref: AAO:0011085 xref: EHDAA2:0001493 xref: EHDAA:181 xref: TAO:0000060 xref: VHOG:0000086 xref: XAO:0000079 xref: ZFA:0000060 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0003068 ! axial mesoderm property_value: external_definition "Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Axial mesoderm that lies anterior to the notochord and that underlies the forebrain. [Amphioxus_goosecoid_and_the_evolution_of_the_head_organizer_and_prechordal_plate._Evolution_and_Development_(2008)_2(6):303-310, Neidert_AH, Panopoulou_G_and_Langeland_JA][VHOG]" xsd:string property_value: homology_notes "There are two opposing models that can potentially explain the differences in gsc (goosecoid) expression between amphioxus and vertebrates. In one model, the vertebrate gsc expression pattern more closely resembles the common ancestral state and the amphioxus gsc expression pattern is a derivation associated with its unique morphology. (...) In an alternate model, the amphioxus gsc expression pattern most closely represents the common ancestral state and the vertebrate pattern is derived. This model suggests that the evolution of vertebrates was accompanied by the segregation of gsc expression, from a more general domain underlying the entire brain anlage to a distinct forebrain organizer domain and subsequent prechordal plate. We feel this second model is more parsimonious than the first model in that what would be novel anterior gsc expression in vertebrates directly correlates with a novel vertebrate anterior structure, the prechordal plate.[well established][VHOG]" xsd:string [Term] id: UBERON:0003064 name: intermediate mesoderm namespace: uberon def: "The intermediate mesoderm is located between the lateral mesoderm and the paraxial mesoderm. It develops into the kidney and gonads." [GOC:curators, Wikipedia:Intermediate_mesoderm] comment: note that all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm'). subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "IM" RELATED [] synonym: "intermediate mesenchyme" RELATED [UBERONREF:0000002] synonym: "intermediate plate mesoderm" RELATED [UBERON:cjm] synonym: "mesenchyma intermedium" RELATED LATIN [Wikipedia:Intermediate_mesoderm] xref: AAO:0010575 xref: EMAPA:16178 xref: SCTID:361476001 xref: TAO:0001206 xref: UMLS:C1284010 xref: VHOG:0000087 xref: XAO:0000085 xref: ZFA:0001206 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Intermediate_Mesoderm is_a: UBERON:0005423 ! developing anatomical structure relationship: adjacent_to UBERON:0003077 ! paraxial mesoderm relationship: adjacent_to UBERON:0003081 ! lateral plate mesoderm relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000926 ! mesoderm relationship: part_of UBERON:0005256 ! trunk mesenchyme property_value: external_definition "Mesoderm between somite and lateral plate. Traditionally thought to give rise to the urogenital system.[AAO]" xsd:string property_value: homology_notes "(...)the mesoderm of a developing vertebrate transitionally differentiates into the following sub-types: Chordamesoderm (also known as axial mesoderm) which later on gives rise to notochord in all chordates, Paraxial mesoderm, Intermediate mesoderm, Lateral plate mesoderm (reference 1); The mesoderm is present in Bilateria, therefore they are sometimes called triploblasts. Ectoderm and endoderm are usually organized as epithelial layers, while mesoderm can be epithelial or a compact, three-dimensional tissue.[well established][VHOG]" xsd:string [Term] id: UBERON:0003065 name: ciliary marginal zone namespace: uberon def: "Region at the periphery of the retina where retinal stem cells are located. After 60 hpf, the CMZ is the source of most retinal growth. Wehman et al, 2005." [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "CMZ" RELATED [] synonym: "circumferential germinal zone" RELATED [] synonym: "peripheral growth zone" EXACT [ZFA:0001289] xref: AAO:0010342 xref: EFO:0003668 xref: TAO:0001289 xref: VHOG:0000088 xref: XAO:0000086 xref: ZFA:0001289 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000966 ! retina property_value: external_definition "Region at the periphery of the retina where retinal stem cells are located. After 60 hpf, the CMZ is the source of most retinal growth. Wehman et al, 2005.[TAO]" xsd:string property_value: homology_notes "The retina of all vertebrates develops via similar mechanisms. Toward the end of retinal histogenesis, proliferating progenitors and newly generated cells are confined to peripheral regions of the retina. In fish and amphibians, this region is maintained after embryonic development and becomes the CMZ (ciliary margin zone). A CMZ exists in birds but compared to that of fish and amphibians this region produces much less new retina as the globe of the eye expands postnatally. At least some of the molecular mechanisms that regulate the addition of new cells in this zone appear to have been conserved from fish to birds.[well established][VHOG]" xsd:string [Term] id: UBERON:0003066 name: pharyngeal arch 2 namespace: uberon def: "assists in forming the side and front of the neck." [Wikipedia:Second_pharyngeal_arch] comment: In XAO, develops from visceral pouch 2 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "2nd arch" RELATED [EHDAA2:0000050] synonym: "2nd pharyngeal arch" EXACT [] synonym: "2nd visceral arch" RELATED [VHOG:0000297] synonym: "arcus pharyngeus secundus" EXACT LATIN [Wikipedia:Second_pharyngeal_arch] synonym: "branchial arch 2" EXACT SENSU [] synonym: "hyoid arch" EXACT [XAO:0000098] synonym: "hyoid bars" RELATED [] synonym: "pharyngeal arch 2" EXACT [] synonym: "pharyngeal arches 2" RELATED [VHOG:0000297] synonym: "second branchial arch" EXACT SENSU [] synonym: "second pharyngeal arch" EXACT [] synonym: "second visceral arch" EXACT SENSU [] synonym: "visceral arch 2" EXACT SENSU [] xref: AAO:0010363 xref: EHDAA2:0000050 xref: EHDAA:611 xref: EMAPA:16272 xref: SCTID:308768003 xref: TAO:0001596 xref: VHOG:0000297 xref: XAO:0000098 xref: ZFA:0001611 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Gray41.png/200px-Gray41.png xref: ncithesaurus:Second_Pharyngeal_Arch is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The second of the series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string property_value: pharyngeal_arch_number "2" xsd:nonNegativeInteger [Term] id: UBERON:0003067 name: dorsolateral placode namespace: uberon def: "Lateral neurogenic placodes positioned dorsal of the epibranchial placodes." [ZFIN:curator] comment: The only remaining dorsolateral placode in land vertebrates is the otic/octaval placode synonym: "dorsolateral placodes" EXACT PLURAL [ZFA:0001310] xref: TAO:0001310 xref: VHOG:0000103 xref: XAO:0000187 xref: ZFA:0001310 is_a: UBERON:0009955 ! neurogenic placode relationship: dorsal_to UBERON:0003078 ! epibranchial placode property_value: homology_notes "In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" xsd:string [Term] id: UBERON:0003068 name: axial mesoderm namespace: uberon def: "The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." [GO:0048318, Wikipedia:Chordamesoderm] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chordamesoderm" RELATED [Wikipedia:Chordamesoderm] xref: AAO:0011017 xref: EFO:0003647 xref: TAO:0001204 xref: VHOG:0000107 xref: XAO:0000205 xref: ZFA:0001204 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000926 ! mesoderm property_value: external_definition "The portion of the mesoderm underlying the midline of the embryo. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string [Term] id: UBERON:0003069 name: otic placode namespace: uberon def: "A cranial placode which, once specified, invaginates to form an otic cup, which eventually separates from the surface ectoderm to form the otic vesicle or otocyst, a rounded structure without appar- ent polarity. As the otic placode invaginates into a cup neuroblasts delaminate from the anterior ventral aspect of the otic epithelium to give rise to neurons of the vestibulocochlear (statoacoustic) ganglion of cranial nerve VIII[NBK]" [NBK:NBK53175, Wikipedia:Otic_placode] comment: With the exception of the pigment cells of the stria vascularis and the secretory epithelium of the cochlea, which are of neural crest origin, all compo- nents of the inner ear derive from the otic placode. In most species the thickening of the ectoderm into a placode occurs in a region adjacent to rhombomere 5 (reviewed in Ohyama et al., 2007), while in amphibians the otic placode is centered onto rhombomere 4 (Ruiz i Altaba and Jessell, 1991).[NBK53175] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "auditory placode" RELATED [] synonym: "ear placode" RELATED [] synonym: "ear/otic placode" RELATED [] synonym: "octaval VIII placode" RELATED [ISBN10:0471888893] synonym: "octaval placode" RELATED [ISBN10:0471888893] synonym: "placoda otica" EXACT LATIN [] xref: AAO:0011079 xref: EFO:0003429 xref: EHDAA2:0001339 xref: EHDAA:506 xref: EMAPA:16195 xref: TAO:0000138 xref: UMLS:C1518677 xref: VHOG:0000235 xref: XAO:0000223 xref: ZFA:0000138 xref: ncithesaurus:Otic_Placodes is_a: UBERON:0003067 ! dorsolateral placode relationship: part_of UBERON:0001690 ! ear property_value: external_definition "Primordium of the ear epithelium before it hollows into the otic vesicle, present beside the hindbrain rudiment in the midsegmentation period. Kimmel et al, 1995. (Also see Anatomical Atlas entry for ear by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (2) neurogenic placodes (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003070 name: trigeminal placode namespace: uberon def: "The ectodermal rudiment of the trigeminal ganglion." [VHOG:0000109] comment: Fig9-5 of ISBN10:0471888893 calls this the profundus placode; XAO says 'profundal and the trigeminal ganglia are separate distally but fused at their proximal end...' synonym: "profundus V placode" RELATED INCONSISTENT [ISBN10:0471888893] synonym: "profundus placode" RELATED INCONSISTENT [ISBN10:0471888893] synonym: "trigeminal V placode" EXACT [] xref: EFO:0003433 xref: EHDAA2:0004209 xref: TAO:0000162 xref: VHOG:0000109 xref: XAO:0000225 xref: ZFA:0000162 is_a: UBERON:0003067 ! dorsolateral placode property_value: external_definition "The ectodermal precursor of the trigeminal ganglion. The profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24.[XAO]" xsd:string property_value: external_definition "The ectodermal rudiment of the trigeminal ganglion, distinguishable during much of the segmentation period. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "The dorsolateral placodes (trigeminal and vestibular) develop from ectoderm lateral to the brain (...). In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" xsd:string [Term] id: UBERON:0003071 name: eye primordium namespace: uberon alt_id: UBERON:0005060 def: "Portion of tissue that is part of the anterior neural keel and will form the optic vesicle[ZFA]. A paired ectodermal placode that becomes invaginated to form the embryonic lens vesicles." [GO:0046619, ZFA:0000570] comment: AO notes: TODO - check that GO's optic placode is the same as ZFA's eye primordium; we may want to have separate term for ocular primordium precursor. XAO has both optic field and eye primordium synonym: "eye anlage" RELATED [XAO:0000227] synonym: "eye field" RELATED [] synonym: "eye placode" EXACT [OBOL:automatic] synonym: "occular primordium" EXACT [] synonym: "ocular primordium" EXACT [] synonym: "optic field" RELATED [] synonym: "optic placode" EXACT [GO:0046619] synonym: "optic placode of camera-type eye" EXACT [GO:0046619, UBERON:cjm] synonym: "optic primordium" EXACT [] xref: AAO:0011038 xref: EFO:0003541 xref: EHDAA2:0004431 xref: TAO:0000570 xref: XAO:0000227 xref: XAO:0004090 xref: ZFA:0000570 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: part_of UBERON:0003056 ! pre-chordal neural plate intersection_of: UBERON:0001048 ! primordium intersection_of: develops_into UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003072 name: optic cup namespace: uberon def: "Multi-tissue structure that is comprised of neural and non-neural epithelial layers which will form the retina and retinal pigmented epithelium of the mature eye[ZFA]. double walled structured formed by expansion and invagination of the distal end of the optic vesicle that develops into the pigmented and sensory layers of the retina while the mouth of the optic cup eventually forms the pupil of the eye[MP]." [MP:0004269, Optic_cup_(embryology), ZFA:0001202] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "eye cup" RELATED [] synonym: "ocular cup" RELATED [VHOG:0000167] xref: EHDAA2:0001303 xref: EHDAA:2912 xref: EMAPA:16674 xref: SCTID:308789007 xref: TAO:0001202 xref: UMLS:C0231109 xref: VHOG:0000167 xref: ZFA:0001202 xref: ncithesaurus:Optic_Cup is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0004128 ! optic vesicle relationship: induced_by UBERON:0003073 ! lens placode relationship: part_of UBERON:0010312 ! immature eye property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" xsd:string [Term] id: UBERON:0003073 name: lens placode namespace: uberon def: "A thickened portion of ectoderm which serves as the precursor to the lens. SOX2 and Pou2f1 are involved in its development[WP]." [Wikipedia:Lens_placode, ZFIN:curator] comment: Classical transplantation experiments using amphibian embryos suggested that the optic vesicle is the source of lens-inducing signals sufficient to generate lens tissues in competent ectoderm (reviewed in Grainger et al., 1996). More recent findings suggest a multistep model for lens induction. There is now good evidence that lens specification occurs at the neurula stage, before the optic vesicle contact the surface ectoderm, and that neural crest cell migration in the frontonasal region is required to restrict the position of the lens placode (Bailey et al., 2006)[NBK53175] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "placoda lentis" RELATED LATIN [Wikipedia:Lens_placode] xref: AAO:0011055 xref: EFO:0003494 xref: EHDAA2:0000982 xref: EHDAA:2908 xref: EMAPA:16672 xref: TAO:0000122 xref: UMLS:C1517770 xref: VHOG:0000166 xref: XAO:0000240 xref: ZFA:0000122 xref: http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png xref: ncithesaurus:Lens_Placodes is_a: UBERON:0002546 ! cranial placode is_a: UBERON:0010312 ! immature eye is_a: UBERON:0011814 ! non-neurogenic ectodermal placode relationship: induced_by UBERON:0004128 ! optic vesicle relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0010312 ! immature eye intersection_of: UBERON:0005085 ! ectodermal placode intersection_of: develops_into UBERON:0000965 ! lens of camera-type eye property_value: external_definition "Ectodermal primordium of the lens of the eye. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string [Term] id: UBERON:0003074 name: mesonephric duct namespace: uberon def: "Paired organ that connects the primitive kidney Wolffian body (or mesonephros) to the cloaca and serves as the anlage for certain male reproductive organs. the Wolffian duct is what remains of the pronephric duct after the atrophy of the pronephros[WP]. In Zebrafish: Duct of the adult kidney (mesonephros), present bilaterally ventral to the somites and leading to the cloacal chamber[ZFA]." [Wikipedia:Mesonephric_duct, ZFIN:curator] comment: TODO - mesonephric portion of the nephric duct. Development notes: In the male the Wolffian duct persists, and forms for example the epididymis, the ductus deferens, the ejaculatory duct, seminal vesicle and efferent ducts. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Leydig's duct" RELATED [Wikipedia:Wolffian_duct] synonym: "Wolffian duct" EXACT [GOC:yaf, Wikipedia:Wolffian_duct, ZFA:0000546] synonym: "archinephric duct" RELATED [VHOG:0000082, Wikipedia:Wolffian_duct] synonym: "ductus mesonephricus; ductus Wolffi" RELATED LATIN [Wikipedia:Mesonephric_duct] synonym: "renal duct" RELATED [] xref: AAO:0000637 xref: EHDAA2:0001243 xref: EHDAA:1590 xref: EMAPA:16577 xref: GAID:1315 xref: MESH:A16.254.940 xref: SCTID:308800003 xref: TAO:0000546 xref: UMLS:C0043204 xref: VHOG:0000082 xref: XAO:0000242 xref: ZFA:0000546 xref: http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/6d/Gray1109.png/200px-Gray1109.png xref: ncithesaurus:Mesonephric_Duct is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0009201 ! nephric duct relationship: develops_from UBERON:0003060 ! pronephric duct relationship: part_of UBERON:0000080 ! mesonephros property_value: external_definition "Anatomical structure consisting of either of a pair of longitudinal ducts which carry urine and in males, sperm, to the cloaca.[AAO]" xsd:string property_value: external_definition "The first-formed kidney duct, which drains the kidney of most anamniotes and becomes the ductus deferens of male amniotes. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-3, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: homology_notes " (...) in all craniates, the archinephric duct develops in embryogeny.[well established][VHOG]" xsd:string [Term] id: UBERON:0003075 name: neural plate namespace: uberon def: "A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]" [ISBN:0815318960, OMD:neural+plate, Wikipedia:Neural_plate, ZFIN:curator] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "lamina neuralis" RELATED LATIN [Wikipedia:Neural_plate] synonym: "presumptive central nervous system" RELATED [] xref: AAO:0011072 xref: BTO:0001765 xref: EHDAA:346 xref: EHDAA:902 xref: EMAPA:16095 xref: EMAPA:16527 xref: EMAPA:16756 xref: RETIRED_EHDAA2:0001252 xref: TAO:0000132 xref: UMLS:C0920623 xref: VHOG:0000068 xref: XAO:0000249 xref: ZFA:0000132 xref: http://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png xref: ncithesaurus:Neural_Plate is_a: UBERON:0000483 ! epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0002346 ! neurectoderm relationship: develops_from UBERON:0007284 ! presumptive neural plate relationship: induced_by UBERON:0002328 ! notochord relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0002346 ! neurectoderm property_value: external_definition "The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003076 name: posterior neural tube namespace: uberon comment: This class was created automatically from a combination of ontologies xref: AAO:0011082 xref: TAO:0007037 xref: VHOG:0001383 xref: XAO:0000250 xref: ZFA:0007037 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003057 ! chordal neural plate relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001049 ! neural tube property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003077 name: paraxial mesoderm namespace: uberon def: "The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]" [GO:0048339, Wikipedia:Paraxial_mesoderm] comment: AO notes: note that all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm'). Also in ZFA it is part of the trunk whereas this conflicts with the division into head and trunk in ehdaa2 (which we follow here) subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mesoderma paraxiale" RELATED LATIN [Wikipedia:Paraxial_mesoderm] synonym: "paraxial mesenchyme" EXACT [UBERONREF:0000002, ZFA:0000255] synonym: "somitic mesoderm" EXACT [ISBN:9780878932504] xref: AAO:0010568 xref: EFO:0003515 xref: EMAPA:16183 xref: EMAPA:16751 xref: SCTID:361475002 xref: TAO:0000255 xref: UMLS:C1284009 xref: VHOG:0000114 xref: XAO:0000259 xref: ZFA:0000255 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Paraxial_Mesoderm is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0007285 ! presumptive paraxial mesoderm relationship: part_of UBERON:0000926 ! mesoderm property_value: external_definition "Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO]" xsd:string property_value: homology_notes "Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG]" xsd:string [Term] id: UBERON:0003078 name: epibranchial placode namespace: uberon def: "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia." [VHOG:0000117] comment: Epibranchial placodes-derived neurons innervate internal organs to transmit information such as heart rate, blood pressure, and visceral distension from the periphery to the central nervous system (Baker and Bronner-Fraser, 2001). From rostral to caudal the epibranchial placodes comprise the geniculate, petrosal, and nodose placodes, each associated in sequence with the first, second and third branchial clefts. Each placode contributes sensory neurons to cranial nerves VII (facial nerve), IX (glossopharyngeal nerve), and X (vagal nerve), respectively[NBK53175]. AO notes: in XAO this develops_from dorsolateral placode, but in NBK53175, this is a separate group synonym: "epibranchial placodes" EXACT PLURAL [ZFA:0001294] synonym: "ventrolateral placode" RELATED [ISBN10:0471888893] xref: AAO:0011036 xref: EFO:0003455 xref: TAO:0001294 xref: VHOG:0000117 xref: XAO:0000284 xref: ZFA:0001294 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0009955 ! neurogenic placode is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000010 ! peripheral nervous system relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia. [Graham_A, The_development_and_evolution_of_the_pharyngeal_arches._J_Anat_(2001)_199:_133-141][VHOG]" xsd:string property_value: homology_notes "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003079 name: floor plate namespace: uberon def: "A ventral region of glial cells in the neural tube that provides inductive signals for the specification of neuronal cell types. The floor plate is evident at the ventral midline by the neural fold stage[GO]. A structure integral to the developing nervous system of vertebrate organisms. Located on the ventral midline of the embryonic neural tube, the floor plate is a specialized glial structure that spans the anteroposterior axis from the midbrain to the tail regions. It has been shown that the floor plate is conserved among vertebrates with homologous structures in invertebrates such as the fruit fly Drosophila and the nematode C. elegans. Functionally, the structure serves as an organizer to ventralize tissues in the embryo as well as to guide neuronal positioning and differentiation along the dorsoventral axis of the neural tube[WP]." [GO:0021508, PMID:15738958, Wikipedia:Floor_plate] comment: Note that although this is classically defined as being located on the neural tube, in many AOs the floor plate continues post-embryonically after the neural tube has ceased to exist. Consider 'floor plate of neural tube'. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "FP" RELATED [TAO:0000022] synonym: "bodenplatte" RELATED [BTO:0001720] synonym: "floorplate" EXACT [] synonym: "ventral plate" RELATED [BTO:0001720] xref: AAO:0011041 xref: BTO:0001720 xref: EFO:0003473 xref: RETIRED_EHDAA2:0000545 xref: TAO:0000022 xref: ZFA:0000022 xref: http://upload.wikimedia.org/wikipedia/commons/8/89/Gray642.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/89/Gray642.png/200px-Gray642.png is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0002328 ! notochord relationship: develops_from UBERON:0007286 ! presumptive floor plate relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001016 ! nervous system property_value: external_definition "Organizing center consisting of a small group of cells located at the ventral midline of the neural tube that influences the development of the nervous system, governing the specification of neuronal cell types and directing axonal trajectories.[AAO]" xsd:string [Term] id: UBERON:0003080 name: anterior neural tube namespace: uberon comment: editor note: TODO - add grouping class for the anterior end of the neural tube at all stages xref: AAO:0011012 xref: TAO:0007038 xref: VHOG:0001384 xref: XAO:0000307 xref: ZFA:0007038 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001049 ! neural tube property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003081 name: lateral plate mesoderm namespace: uberon alt_id: UBERON:0006258 def: "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." [MP:0010117, Wikipedia:Lateral_plate_mesoderm] comment: AO notes: subclass of mesoderm in ZFA. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral mesoderm" EXACT [GO:0048368] synonym: "lateral plate" RELATED [] synonym: "lateral plate mesenchyme" RELATED [EHDAA2:0000919] synonym: "mesoderma laminae lateralis" RELATED LATIN [Wikipedia:Lateral_plate_mesoderm] xref: AAO:0010574 xref: EHDAA2:0000919 xref: EHDAA:379 xref: EMAPA:16179 xref: SCTID:361477005 xref: TAO:0000121 xref: UMLS:C1517749 xref: VHOG:0000118 xref: XAO:0000311 xref: ZFA:0000121 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/64/Gray19_with_color.png/200px-Gray19_with_color.png xref: ncithesaurus:Lateral_Mesoderm is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000926 ! mesoderm relationship: surrounds UBERON:0003887 ! intraembryonic coelom property_value: external_definition "Portion of mesoderm traditionally thought to give rise to limb bones and parts of the girdles.[AAO]" xsd:string property_value: external_definition "The portion of the mesoderm of the trunk of vertebrate embryos lying lateral to the intermediate mesoderm. [...] [It] subdivides into two plates: one dorsal, called the somatopleure, and one ventral, called the splanchnopleure. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string property_value: homology_notes "A ventrolateral zone of amphioxus mesoderm grows down to surround the gut. Homology of this zone to the lateral plate mesoderm of vertebrates is supported by site of origin and fate.[well established][VHOG]" xsd:string [Term] id: UBERON:0003082 name: myotome namespace: uberon def: "A group of tissues formed from somites that develop into the body wall muscle[WP]. Somitic compartment that is a precursor of muscle. mesoderm that is derived from the somite that is fated to become the musculature[MP]. Portion of the somites giving rise to body wall muscle masses[ZFA]" [MP:0003939, PMID:17313522, Wikipedia:Myotome, ZFIN:curator] comment: Editors note: The term \"myotome\" is also used to describe the muscles served by a single nerve root / spinal segment - consider adding new class. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "muscle plate" RELATED [] synonym: "myomere" RELATED [] synonym: "myomeres" EXACT PLURAL [TAO:0001056] synonym: "myotome region" RELATED [] synonym: "myotomes" RELATED [] synonym: "myotomus" RELATED LATIN [Wikipedia:Myotome] xref: AAO:0011067 xref: AEO:0001018 xref: BTO:0000742 xref: EHDAA2:0003431 xref: EHDAA:1721 xref: EHDAA:1727 xref: EHDAA:1733 xref: EHDAA:1739 xref: SCTID:344535001 xref: TAO:0001056 xref: UMLS:C1513802 xref: VHOG:0001244 xref: XAO:0000315 xref: ZFA:0001056 xref: http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/96/Gray65.png/200px-Gray65.png xref: ncithesaurus:Myotome_Region is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0004290 ! dermomyotome relationship: part_of UBERON:0000926 ! mesoderm property_value: external_definition "Portion of the somites giving rise to body wall muscle masses. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "In all vertebrates, the skeletal muscle of the body axis is chiefly derived from an early embryonic compartment, known as the myotome.[well established][VHOG]" xsd:string [Term] id: UBERON:0003083 name: trunk neural crest namespace: uberon def: "Trunk portion of the neural crest. The trunk neural crest lies between the vagal and sacral neural crest and gives rise to two groups of cells. One group migrates dorsolateral and populates the skin, forming pigment cells and the other migrates ventrolateral through the anterior sclerotome to become the epinephrine-producing cells of the adrenal gland and the neurons of the sympathetic nervous system. Some cells remain in the sclerotome to form the dorsal root ganglia [Wikipedia]." [ISBN:0815318960, Wikipedia:Trunk_neural_crest] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "trunk crest" RELATED [] xref: AAO:0010582 xref: EFO:0003605 xref: EHDAA2:0001901 xref: TAO:0001024 xref: VHOG:0000062 xref: XAO:0000319 xref: ZFA:0001024 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: has_part CL:0000011 ! migratory trunk neural crest cell relationship: part_of UBERON:0002342 ! neural crest property_value: external_definition "Post-cranial portion of the neural crest. Exact anatomical derivations not experimentally resolved in amphibians.[AAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003084 name: heart primordium namespace: uberon def: "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone." [ZFIN:curator] comment: editor note: should probably be fused with heart rudiment. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fused heart primordium" RELATED [] xref: AAO:0011044 xref: BTO:0001887 xref: TAO:0000028 xref: UMLS:C1514450 xref: XAO:0000336 xref: ZFA:0000028 xref: ncithesaurus:Primordium_of_the_Heart is_a: UBERON:0001048 ! primordium relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: develops_from UBERON:0004140 ! heart field relationship: develops_from UBERON:0007005 ! cardiac mesoderm relationship: part_of UBERON:0004535 ! cardiovascular system property_value: axiom_lost_from_external_ontology "relationship loss: develops_from lateral mesoderm (TAO:0001065)[TAO]" xsd:string property_value: external_definition "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO]" xsd:string property_value: external_definition "The fused aspects of ventral mesoderm, which have migrated from either side of the prechordal plate, and fused ventrally, just behind the cement gland. They will give rise to the endocardium at NF stage 27&28.[AAO]" xsd:string [Term] id: UBERON:0003085 name: ventral aorta namespace: uberon def: "The artery in vertebrate embryos that carries blood from the ventricle of the heart to the aortic arches. In adult fish it branches into afferent branchial arteries supplying the gills. In adult tetrapods it is represented by the ascending part of the aorta[BTO]. The ventral aorta is a blood vessel in a single-pass circulatory system that carries de-oxygenated blood from the heart to the gills. In a single-pass circulatory system blood passes once through the heart to supply the body once[GO]." [BTO:0004674, GO:0035908] comment: Taxon notes (via vHOG): \"When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.\" Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective, Third Edition (2001) Orlando Fla.: Harcourt College Publishers, p.620. // in Reptiles, splits to form bases of 3 arteries: left aortic arch, right aortic arch and pulmonary trunk. In birds, the right systemic arch becomes predominant, the left never fully develops [Kardong] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AAO:0010412 xref: BTO:0004674 xref: TAO:0000604 xref: VHOG:0000121 xref: XAO:0000338 xref: ZFA:0000604 is_a: UBERON:0000947 ! aorta relationship: channels_from UBERON:0000948 ! heart relationship: homologous_to UBERON:0001496 ! ascending aorta property_value: external_definition "Outflow artery from the heart to the aortic arches. Kimmel et al, 1995.[TAO]" xsd:string property_value: homology_notes "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string [Term] id: UBERON:0003086 name: caudal artery namespace: uberon def: "Extension of the dorsal aorta in the tail. Kimmel et al, 1995." [Wikipedia:Caudal_artery, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "CA" RELATED [] xref: AAO:0011023 xref: EFO:0003472 xref: TAO:0000011 xref: VHOG:0000123 xref: XAO:0000364 xref: ZFA:0000011 is_a: UBERON:0001637 ! artery property_value: axiom_lost_from_external_ontology "relationship loss: part_of axial vasculature (TAO:0001073)[TAO]" xsd:string property_value: external_definition "Extension of the dorsal aorta in the tail. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "The posterior extension of the dorsal aorta to the tail region, which degenerates at metamorphosis.[AAO]" xsd:string [Term] id: UBERON:0003087 name: anterior cardinal vein namespace: uberon alt_id: UBERON:0009770 def: "One of the the two paired cardinal veins draining the cephalic part of the body." [ISBN10:0073040584, MP:0004784, Wikipedia:Anterior_cardinal_vein] comment: contribute to the formation of the internal jugular veins and together with the common cardinal vein form the superior vena cava. In an anastomosis by anterior cardinal veins, the left brachiocephalic vein is produced[WP] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "ACV" RELATED [] synonym: "precardinal vein" RELATED [FMA:70309, Wikipedia:Anterior_cardinal_vein] synonym: "rostral cardinal vein" EXACT [ZFA:0000423] synonym: "rostral cardinal veins" RELATED [] synonym: "superior cardinal vein" RELATED [http://www.embryology.ch/anglais/pcardio/venen01.html] xref: AAO:0011011 xref: BTO:0004387 xref: EHDAA:1312 xref: EMAPA:16241 xref: EMAPA:16355 xref: FMA:70309 xref: SCTID:308780006 xref: TAO:0000423 xref: UMLS:C0231086 xref: VHOG:0000113 xref: XAO:0000383 xref: ZFA:0000423 xref: ncithesaurus:Anterior_Cardinal_Vein is_a: UBERON:0004344 ! cardinal vein relationship: channels_from UBERON:0002200 ! vasculature of head property_value: external_definition "The anterior cardinal vein returns blood from the dorsal head and drains into the duct of Cuvier via the pronephric sinus.[AAO]" xsd:string property_value: homology_notes "In primitive vertebrates, the basic early embryonic pattern is retained, and blood from anterior and posterior systemic tissues is returned in anterior and posterior cardinal veins, both pairs of veins uniting in common cardinal veins near the heart. In derived vertebrates, the cardinals appear but usually persist only in the embryo, being functionally replaced by alternative adult vessels, the precava and postcava (anterior and posterior venae cavae).[well established][VHOG]" xsd:string [Term] id: UBERON:0003088 name: caudal vein namespace: uberon def: "Vein in the tail returning blood from the trunk and tail to the heart, leads directly into the posterial cardinal vein in the posterior trunk. Kimmel et al, 1995.[ZFIN]" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "CV" RELATED [] xref: AAO:0011025 xref: EFO:0003616 xref: TAO:0000180 xref: VHOG:0000126 xref: XAO:0000390 xref: ZFA:0000180 xref: ncithesaurus:Caudal_Vein is_a: UBERON:0001638 ! vein property_value: axiom_lost_from_external_ontology "relationship loss: develops_from caudal vein plexus (TAO:0001286)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of axial vasculature (TAO:0001073)[TAO]" xsd:string property_value: external_definition "Vein in the tail returning blood from the trunk and tail to the heart, leads directly into the posterial cardinal vein in the posterior trunk. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Vein in the tail returning blood from the trunk and tail to the heart, leads directly into the posterior cardinal vein in the posterior trunk[XB:curator]." xsd:string [Term] id: UBERON:0003089 name: sclerotome namespace: uberon def: "Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]." [Wikipedia:Sclerotome, XB:curator] comment: AO notes: part_of somite in XAO subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "sclerotomes" EXACT PLURAL [TAO:0001080] synonym: "sclerotomus" RELATED LATIN [Wikipedia:Sclerotome] xref: AAO:0010571 xref: AEO:0000212 xref: EHDAA2:0003439 xref: TAO:0001080 xref: UMLS:C0183176 xref: VHOG:0000680 xref: XAO:0000397 xref: ZFA:0001080 xref: http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/96/Gray65.png/200px-Gray65.png xref: ncithesaurus:Sclerotome is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005856 ! developing mesenchymal condensation is_a: UBERON:0007530 ! migrating mesenchyme population relationship: develops_from UBERON:0002329 ! somite property_value: external_definition "Skeletogenic portion of somites.[AAO]" xsd:string property_value: homology_notes "The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]" xsd:string [Term] id: UBERON:0003090 name: supraorbital lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "supraorbital line" EXACT [ZFA:0000443] xref: AAO:0011103 xref: TAO:0000443 xref: VHOG:0000128 xref: XAO:0000442 xref: ZFA:0000443 is_a: UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: part_of anterior lateral line (TAO:0001470)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: external_definition "The lateral line that is located above the eye. [Butler_AB_and_Hodos_W, Comparative_vertebrate_neuroanatomy:_Evolution_and_Adaptation_(1996)_New_York:_Wiley-Liss_Inc., p.27][VHOG]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0003091 name: thyroid primordium namespace: uberon def: "The initial thyroid precursor, the thyroid primordium, starts as a simple midline thickening and develops to form the thyroid diverticulum. This structure is initially hollow, although it later solidifies and becomes bilobed. The 2 lobes are located on either side of the midline and are connected via an isthmus." [http://emedicine.medscape.com/article/845125-overview] comment: In all vertebrates the thyroid arises from the ventral aspect of the second pouch[PMID:16313389]. Note that we follow EHDAA2 in dividing this into endoderm and mesenchyme. In this ontology we place the broad developmental relationship at this level, and include specific relationships to the pharyngeal endoderm at the level of the endoderm subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0011106 xref: BTO:0004709 xref: EHDAA2:0002033 xref: EHDAA:952 xref: EMAPA:16361 xref: EMAPA:16558 xref: TAO:0001081 xref: UMLS:C1519512 xref: XAO:0000444 xref: ZFA:0001081 xref: ncithesaurus:Thyroid_Primordium is_a: UBERON:0000479 ! tissue is_a: UBERON:0001048 ! primordium is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0007123 ! pharyngeal pouch 2 relationship: part_of UBERON:0000949 ! endocrine system property_value: external_definition "Portion of tissue part of the pharyngeal endoderm that is fated to become thyroid follicle[ZFIN:curator]." xsd:string [Term] id: UBERON:0003092 name: ultimobranchial body namespace: uberon def: "Pharyngeal pouch derivative, usually paired cell masses located in the neck region[Kardong]. The ultimobranchial body or gland is a small organ found in the neck region of many animals. In humans, the ultimobranchial body is an embryological structure that gives rise to the calcitonin-producing cells—also called parafollicular cells or clear cells—of the thyroid gland. In humans, this body is a derivative of the ventral recess of the fourth pharyngeal pouch (or fifth) [WP,unvetted]. The ultimobranchial bodies of lower vertebrates contain large amounts of calcitonin. In mammals the bodies fuse with the thyroid gland and are thought to develop into the parafollicular cells. (Stedman, 25th ed)" [ISBN10:0073040584, MESH:A13.939, Wikipedia:Ultimopharyngeal_body] comment: Developmental origins vary across species. PMID:16313389 says: the most posterior pouch generates the ultimobranchial bodies in most vertebrate classes, but mammals do not contain this structure // The neural crest is the source of ultimobranchial cells[Kardong]. WP says pouch 4, but this isn't supported by Kardong (table 13.1 or fig 15.5). EHDAA2 says 6th arch mesenchyme subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "corpus ultimopharyngeum" EXACT [Wikipedia:Ultimobranchial_body] synonym: "postbranchial body" RELATED [Wikipedia:Ultimobranchial_body] synonym: "ultimobranchial" RELATED [Wikipedia:Ultimobranchial_body] synonym: "ultimobranchial bodies" RELATED PLURAL [Wikipedia:Ultimobranchial_body] synonym: "ultimobranchial gland" EXACT [Wikipedia:Ultimobranchial_body] synonym: "ultimopharyngeal body" EXACT [Wikipedia:Ultimobranchial_body] synonym: "ultimopharyngeal gland" EXACT [Wikipedia:Ultimobranchial_body] xref: AAO:0010547 xref: EHDAA2:0002103 xref: EHDAA:2987 xref: EHDAA:9139 xref: GAID:1246 xref: MESH:A13.939 xref: SCTID:345552007 xref: TAO:0001448 xref: VHOG:0001185 xref: XAO:0000452 xref: ZFA:0001448 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003117 ! pharyngeal arch 6 relationship: develops_from UBERON:0004117 ! pharyngeal pouch relationship: develops_from UBERON:0007126 ! pharyngeal pouch 5 relationship: has_part CL:0000570 ! parafollicular cell relationship: part_of UBERON:0000949 ! endocrine system property_value: external_definition "Anatomical structure which includes small, calcitonin producing glands originating as epithelial growths from the sixth pharyngeal pouch.[AAO]" xsd:string property_value: external_definition "The glandular tissue originating from the fifth branchial pouch which combines with the buccal cavity outgrowth to form the thyroid and contributes calcitonin-secreting cells to the gland. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) ultimobranchial bodies that develop in all vertebrates from the ventral or posterior surface of the last pair of pharyngeal pouches. The ultimobranchial bodies are vestigial in most mammals (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003093 name: occipital lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "supratemporal lateral line" RELATED [] xref: AAO:0011075 xref: TAO:0000400 xref: VHOG:0000131 xref: XAO:0000458 xref: ZFA:0000400 is_a: UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: part_of anterior lateral line (TAO:0001470)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0003094 name: infraorbital lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "infraorbital line" EXACT [ZFA:0000524] xref: AAO:0011053 xref: TAO:0000524 xref: VHOG:0000132 xref: XAO:0000459 xref: ZFA:0000524 is_a: UBERON:0010202 ! lateral line relationship: part_of UBERON:0002540 ! lateral line system property_value: axiom_lost_from_external_ontology "relationship loss: part_of anterior lateral line (TAO:0001470)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: external_definition "The lateral line that is located below the eye. [Butler_AB_and_Hodos_W, Comparative_vertebrate_neuroanatomy:_Evolution_and_Adaptation_(1996)_New_York:_Wiley-Liss_Inc., p.27][VHOG]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0003095 name: dorsal lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: AAO:0011030 xref: TAO:0005112 xref: VHOG:0001677 xref: XAO:0000462 xref: ZFA:0005112 is_a: UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: part_of posterior lateral line system (TAO:0001471)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0003096 name: middle lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms xref: TAO:0000344 xref: VHOG:0000133 xref: XAO:0000463 xref: ZFA:0000344 is_a: UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: develops_from middle lateral line primordium (TAO:0005118)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of anterior lateral line (TAO:0001470)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of middle lateral line system (TAO:0005114)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string property_value: homology_notes "The mechanosensory lateral line system is widely distributed in aquatic anamniotes. It was apparently present in the earliest vertebrates, as it has been identified in agnathans, cartilaginous fishes, bony fishes, lungfishes, the crossopterygian Latimeria, and aquatic amphibians.[well established][VHOG]" xsd:string [Term] id: UBERON:0003097 name: dorsal fin namespace: uberon def: "Median fin located on the dorsal surface of the organism." [VSAO:0000165, Wikipedia:Dorsal_fin] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "nageoire dorsale@fr" RELATED [VSAO:0000165] synonym: "notoptcC)rygie@fr" RELATED [VSAO:0000165] xref: AAO:0010378 xref: BTO:0004650 xref: OpenCyc:Mx4rvVjbzZwpEbGdrcN5Y29ycA xref: SCTID:417127006 xref: TAO:0001173 xref: VSAO:0000165 xref: XAO:0000469 xref: ZFA:0001173 is_a: UBERON:0008897 ! fin relationship: has_developmental_contribution_from UBERON:0003083 ! trunk neural crest relationship: in_median_plane_of UBERON:0001137 ! dorsum property_value: axiom_lost_from_external_ontology "is_a median fin[TAO]" xsd:string [Term] id: UBERON:0003098 name: optic stalk namespace: uberon def: "The optic vesicles project toward the sides of the head, and the peripheral part of each expands to form a hollow bulb, while the proximal part remains narrow and constitutes the optic stalk. [WP,unvetted]." [Wikipedia:Optic_stalk] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "pedunculus opticus" RELATED LATIN [Wikipedia:Optic_stalk] xref: AAO:0011077 xref: EHDAA2:0001318 xref: EHDAA:3816 xref: EMAPA:16678 xref: SCTID:308788004 xref: TAO:0000137 xref: UMLS:C0231107 xref: VHOG:0000223 xref: XAO:0000475 xref: ZFA:0000137 xref: http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2f/Gray864.png/200px-Gray864.png xref: ncithesaurus:Optic_Stalk is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0003072 ! optic cup relationship: part_of UBERON:0001894 ! diencephalon property_value: external_definition "The evagination from the neural tube of the developing embryo which develops the optic cup at its extremity; the stalk persists as the optic nerve. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" xsd:string [Term] id: UBERON:0003099 name: cranial neural crest namespace: uberon def: "The cranial neural crest arises in the anterior and populates the face and the pharyngeal arches giving rise to bones, cartilage, nerves and connective tissue [Wikipedia]." [Wikipedia:Cranial_neural_crest, ZFA:0001194, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cephalic neural crest" RELATED [EMAPA:16091] synonym: "crista neuralis cranialis" RELATED LATIN [Wikipedia:Cranial_neural_crest] synonym: "head crest" RELATED [] synonym: "head neural crest" RELATED [] xref: AAO:0010580 xref: EFO:0003645 xref: EHDAA2:0004420 xref: EMAPA:16091 xref: TAO:0001194 xref: VHOG:0000063 xref: XAO:0001001 xref: ZFA:0001194 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: has_part CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0002342 ! neural crest property_value: external_definition "Anterior most portion of the neural crest. Migrates in three highly conserved streams: mandibular, hyoid and branchial.[AAO]" xsd:string property_value: external_definition "Neural crest that is part of the head.[TAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003100 name: female organism namespace: uberon def: "Gonochoristic organism that can produce female gametes." [CARO:0000028] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "female" RELATED [TAO:0000303] synonym: "female human body" NARROW SENSU [FMA:67812] xref: AAO:0010030 xref: BILA:0000028 xref: CARO:0000028 xref: FBbt:00007011 xref: FMA:67812 xref: HAO:0000028 xref: SCTID:362608006 xref: TAO:0000303 xref: TGMA:0001839 xref: XAO:0003005 xref: ZFA:0000303 is_a: UBERON:0000468 ! multi-cellular organism disjoint_from: UBERON:0003101 ! male organism property_value: spatially_disjoint_from UBERON:0003101 [Term] id: UBERON:0003101 name: male organism namespace: uberon def: "Gonochoristic organism that can produce male gametes." [CARO:0000027] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "male" RELATED [TAO:0000242] synonym: "male human body" NARROW SENSU [FMA:67811] xref: AAO:0010033 xref: BILA:0000027 xref: CARO:0000027 xref: FBbt:00007004 xref: FMA:67811 xref: HAO:0000027 xref: SCTID:362609003 xref: TAO:0000242 xref: TGMA:0001838 xref: WBbt:0007850 xref: XAO:0003006 xref: ZFA:0000242 is_a: UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0003102 name: surface structure namespace: uberon def: "Organism subdivision that is the collection of anatomical structures on the body surface[ZFA]." [VSAO:0000001, Wikipedia:Surface_structure, ZFA:0000292, http://purl.obolibrary.org/obo/uberon/tracker/24] subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "anatomical surface feature" EXACT [EHDAA2:0003010] synonym: "surface feature" RELATED [] synonym: "surface region" RELATED [] xref: AAO:0010337 xref: AEO:0000010 xref: EHDAA2:0003010 xref: TAO:0000292 xref: VSAO:0000001 xref: XAO:0003028 xref: ZFA:0000292 xref: galen:SurfaceRegion intersection_of: UBERON:0000061 ! anatomical structure intersection_of: adjacent_to UBERON:0013514 ! space surrounding organism intersection_of: overlaps UBERON:0007376 ! outer epithelial layer property_value: external_definition "Organism subdivision which is the collection of anatomical structures on the body surface.[ZFA]" xsd:string [Term] id: UBERON:0003103 name: compound organ namespace: uberon def: "Anatomical structure that has as its parts two or more multi-tissue structures of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona fide boundaries from other distinct anatomical structures of different types." [CARO:0000024] subset: organ_slim ! organs, excluding individual muscles and skeletal elements subset: upper_level ! abstract upper-level terms not directly useful for analysis synonym: "organ" RELATED [] xref: AAO:0010015 xref: AEO:0000024 xref: BILA:0000024 xref: CARO:0000024 xref: EHDAA2:0003024 xref: HAO:0000024 xref: TADS:0000598 xref: TAO:0000496 xref: TGMA:0001837 xref: VHOG:0001723 xref: XAO:0003041 xref: ZFA:0000496 is_a: UBERON:0000062 ! organ [Term] id: UBERON:0003104 name: mesenchyme namespace: uberon def: "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage[XAO]. A mesh-like cell arrangement, less compact than an epithelium[ZFA]. The part of the embryonic mesoderm, consisting of loosely packed, unspecialized cells set in a gelatinous ground substance, from which connective tissue, bone, cartilage, and the circulatory and lymphatic systems develop[BTO]." [BTO:0001393, Wikipedia:Mesenchyme, ZFIN:curator] comment: Editors notes: the relationship to mesoderm is weaker than develops_from in order to have classes such as 'head mesenchyme from mesoderm' make sense subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mesenchyma" RELATED LATIN [Wikipedia:Mesenchyme] synonym: "mesenchymal tissue" EXACT [] synonym: "mesenchyme tissue" EXACT [] synonym: "portion of mesenchymal tissue" EXACT [] synonym: "portion of mesenchyme tissue" EXACT [] xref: AAO:0010427 xref: AEO:0000145 xref: BTO:0001393 xref: EHDAA2:0003145 xref: EV:0100007 xref: TAO:0000393 xref: UMLS:C0162415 xref: VHOG:0000170 xref: XAO:0003046 xref: ZFA:0000393 xref: http://upload.wikimedia.org/wikipedia/commons/f/f4/Mesenchymal_Stem_Cell.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f4/Mesenchymal_Stem_Cell.jpg/200px-Mesenchymal_Stem_Cell.jpg xref: ncithesaurus:Mesenchyme is_a: UBERON:0000479 ! tissue relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0009142 ! entire mesenchyme property_value: external_definition "A mesh-like cell arrangement, less compact than an epithelium. Kimmel et al, 1995.[TAO]" xsd:string property_value: external_definition "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage.[AAO]" xsd:string property_value: has_relational_adjective "mesenchymal" xsd:string [Term] id: UBERON:0003105 name: dorsal lateral plate region namespace: uberon def: "Region located near the pronephros and pronephric ducts that is a site of hematopoiesis in the embryo. // Region where blood progenitor markers are expressed. Probable site of definitive hematopoiesis between 36hpf and 4dpf." [PMID:9618755, ZFIN:curator] comment: This class was created automatically from a combination of ontologies subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "AGM" RELATED [] synonym: "AGM region" RELATED [] synonym: "DA roof" RELATED [ZFA:0005028] synonym: "DA-PCV joint " EXACT [ZFA:0005028] synonym: "DLP" EXACT [] synonym: "DP joint" EXACT [ZFA:0005028] synonym: "aorta gonad mesonephros region" RELATED [] synonym: "aorta-gonads-mesonephros region" RELATED [] synonym: "dorsal aorta - posterior cardinal vein joint" EXACT [ZFA:0005028] synonym: "ventral wall of dorsal aorta" EXACT [] xref: AAO:0011008 xref: EFO:0003699 xref: TAO:0005028 xref: XAO:0003051 xref: ZFA:0005028 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0000947 ! aorta relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0003081 ! lateral plate mesoderm property_value: external_definition "Region located near the pronephros and pronephric ducts that is a site of hematopoiesis in the embryo.[AAO]" xsd:string property_value: external_definition "Region where blood progenitor markers are expressed. Probable site of definitive hematopoiesis between 36hpf and 4dpf.[TAO]" xsd:string [Term] id: UBERON:0003106 name: urostyle namespace: uberon def: "In teleosts: Anatomical cluster that is the result of fusion of preural centrum 1 with one or more adjacent ural centra[AAO]; Rodlike caudal bony structure unique to anurans that lies within a compartment formed by the elongated, anteriorly oriented pelvic girdle. The urostyle is formed by the fusion of the coccyx and the hypochord[AAO]." [AAO:0000732, TAO:0000158] comment: In zebrafish, it is composed of preural vertebra 1 and ural centra 1 and 2. The number of ural centra that become fused with preural centrum 1 varies among teleost subgroups. Because of varying developmental origins the urostyle may not be homologous across species.[TAO]. Grouping with AAO dubious subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "compound caudal centrum" RELATED [TAO:0000158] synonym: "compound centrum" RELATED [] synonym: "compound terminal centrum" RELATED [TAO:0000158] synonym: "compound terminal vertebra" RELATED [TAO:0000158] synonym: "last vertebra" RELATED [] synonym: "terminal centrum" RELATED [TAO:0000158] synonym: "ultimate vertebra" RELATED [] xref: AAO:0000732 xref: TAO:0000158 xref: XAO:0003080 xref: ZFA:0000158 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002090 ! postcranial axial skeleton property_value: axiom_lost_from_external_ontology "relationship loss: part_of caudal fin skeleton (VSAO:0000167)[TAO]" xsd:string property_value: external_comment "In zebrafish, it is composed of preural vertebra 1 and ural centra 1 and 2. The number of ural centra that become fused with preural centrum 1 varies among teleost subgroups. Because of varying developmental origins the urostyle may not be homologous across species.[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is the result of fusion of preural centrum 1 with one or more adjacent ural centra.[TAO]" xsd:string property_value: external_definition "Rodlike caudal bony structure unique to anurans that lies within a compartment formed by the elongated, anteriorly oriented pelvic girdle. The urostyle is formed by the fusion of the coccyx and the hypochord.[AAO]" xsd:string [Term] id: UBERON:0003107 name: Meckel's cartilage namespace: uberon def: "Meckel's cartilage is the bilaterally paired, rod-like, cartilaginous ventral component of the lower jar, or ventral mandibular arch. It is typically resorbed in adults." [PMID:3693112, Wikipedia:Meckel's_cartilage] comment: Taxon notes: functional lower jaw of Elasmobranchii and Holocephali, the embryonic lower jaw of other gnathostomous vertebrates[http://www.briancoad.com] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "Meckels cartilage" EXACT [] synonym: "cartilago arcus pharyngei primi" EXACT LATIN [] synonym: "primary mandinle" EXACT [http://www.briancoad.com] synonym: "ventral mandibular cartilage" EXACT [ZFA:0001205] xref: AAO:0000289 xref: EHDAA2:0001072 xref: EHDAA:7997 xref: EMAPA:17635 xref: EMAPA:17907 xref: MA:0001580 xref: SCTID:308773009 xref: TAO:0001205 xref: VHOG:0000249 xref: XAO:0003085 xref: ZFA:0001205 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: develops_from UBERON:0006263 ! Meckel's cartilage pre-cartilage condensation relationship: part_of UBERON:0003278 ! skeleton of lower jaw relationship: part_of UBERON:0008895 ! splanchnocranium property_value: external_definition "Paired, rod-shaped elements that extend the length of the mandible and lie between the dentaries and the angulosplenials. Can be reduced to various extent in adults.[AAO]" xsd:string property_value: external_definition "Pharyngeal arch cartilage that is the cartilaginous embryonic component of the lower jaw, or ventral mandibular arch. It develops into the endochondral articular and retroarticular bones. Meckel's cartilage is paired.[TAO]" xsd:string property_value: homology_notes "In all jawed vertebrates, including fish, the first pharyngeal arch generates the jaw apparatus. The neural crest cells of this arch migrate to form Meckel's cartilage, the precursor of the jaw.[well established][VHOG]" xsd:string [Term] id: UBERON:0003108 name: suspensorium namespace: uberon def: "(1) the arrangement of bones which supports the jaw from the braincase; (2) in teleost fish, a large, usually triangular, bone which supports the jaw. The teleost suspensorium is formed by fusion of various elements which vary among different taxa." [http://palaeos.com/vertebrates/glossary/glossarySq.html] comment: Editor notes: requires review, possible split; TAO/ZFA structure is splanchoncranium (but includes some dermal bones as parts). Note AAO also includes 'palatoquadrate and suspensorium' as a class synonym: "hyopalatine" EXACT [TAO:0000444] synonym: "mandibular suspensorium" RELATED [] synonym: "suspensoria" EXACT [TAO:0000444] xref: AAO:0000596 xref: TAO:0000444 xref: XAO:0003086 xref: ZFA:0000444 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0008895 ! splanchnocranium [Term] id: UBERON:0003109 name: parapophysis namespace: uberon def: "Endochondral bone that forms from a lateral outgrowth of the basiventral arcualia and connects the rib with the vertebral centrum[TAO]. A lateral or ventrolateral projections of vertebrae to which ribs are attached in Danio rerio. ZFA: They can arise through replacement ossification of a basiventral or form directly in bone. They are separated from the centrum in basal teleosts, e.g., Leptolepis coryphaenoides, Megalops and Elops." [ZFIN:curator] comment: TODO - check subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "lateral process of basiventral" RELATED [] synonym: "parapophyses" EXACT PLURAL [TAO:0001362] synonym: "transverse apophyses" EXACT PLURAL [TAO:0001362] synonym: "transverse apophysis" EXACT [TAO:0001362] xref: AAO:0000708 xref: TAO:0001362 xref: ZFA:0001362 is_a: UBERON:0001077 ! transverse process of vertebra relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0002513 ! endochondral bone property_value: axiom_lost_from_external_ontology "relationship loss: develops_from basiventral (TAO:0001361)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of non-Weberian precaudal vertebra (TAO:0001582)[TAO]" xsd:string property_value: external_definition "Endochondral bone that forms from a lateral outgrowth of the basiventral arcualia and connects the rib with the vertebral centrum.[TAO]" xsd:string property_value: external_definition "Paired processes, which arise near the dorsolateral part of the vertebral centrum, for the attachment of the capitulum of two-headed ribs.[AAO]" xsd:string property_value: external_definition "Projections on each side of the vertebra from the point where the neural arch lamina joins the pedicel for the articulation with the head of a single-headed rib or the upper head of a double-headed rib. Also called diapophyses. They provide surfaces for the attachment of muscles. In anurans, the term transverse process is used in reference to the processes associated with the presacral and postsacral vertebrae.[AAO]" xsd:string [Term] id: UBERON:0003110 name: otic region namespace: uberon comment: AO notes UBERONREF:0000007 has this as a syn for otic capsule synonym: "cranial vault" RELATED [ZFA:0000189] xref: AAO:0010208 xref: TAO:0000189 xref: XAO:0003175 xref: ZFA:0000189 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium property_value: axiom_lost_from_external_ontology "relationship loss: overlaps hyomandibular-otic region joint (TAO:0001947)[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is a posterolateral part of the cranium and structurally supports the vestibuloauditory system.[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is a posterolateral part of the neurocranium and structurally supports the vestibuloauditory system.[AAO]" xsd:string [Term] id: UBERON:0003111 name: sphenoid region namespace: uberon def: "Anatomical cluster that forms the floor and sidewalls of the middle part of the cranium." [TAO:0000290, UBERONREF:0000007] xref: AAO:0010207 xref: TAO:0000290 xref: XAO:0003174 xref: ZFA:0000290 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium property_value: external_definition "Anatomical cluster that forms the floor and sidewalls of the middle part of the neurocranium.[AAO]" xsd:string [Term] id: UBERON:0003112 name: olfactory region namespace: uberon def: "Anatomical cluster that is located in the anterior region of the cranium and provides structural support for the olfactory organ." [TAO:0000351] synonym: "ethmoid region" RELATED [ZFA:0000351] xref: AAO:0010206 xref: EFO:0003525 xref: TAO:0000351 xref: XAO:0003172 xref: ZFA:0000351 xref: ncithesaurus:Olfactory_Region is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium property_value: external_definition "Anatomical cluster that is located in the anterior region of the cranium and provides structural support for the peripheral olfactory organ.[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is located in the anterior region of the neurocranium and provides structural support for the olfactory organs.[AAO]" xsd:string [Term] id: UBERON:0003113 name: dermatocranium namespace: uberon def: "Subdivision of skeleton that includes all dermal bones in the cranial skeleton[ZFA,modified]." [Wikipedia:Skull_roof, ZFA:0000863] comment: Editor notes: wikipedia treats skull roof and dermatocranium as synonymous, but some sources treat the roof as being part of the dermatocranium - see UBERONREF:0000007 synonym: "dendrocranium" EXACT [TAO:0000863] synonym: "dermal bone cranium" RELATED [ZFA:0000863] synonym: "dermal part of skull" RELATED [] synonym: "exocranium" EXACT [UBERONREF:0000007] synonym: "roof of skull" RELATED [Wikipedia:Skull_roof] synonym: "roofing bones of the skull" RELATED [Wikipedia:Skull_roof] synonym: "skull roof" RELATED [Wikipedia:Skull_roof] xref: AAO:0010154 xref: TAO:0000863 xref: VHOG:0001665 xref: XAO:0003169 xref: ZFA:0000863 is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system relationship: part_of UBERON:0010323 ! cranial skeletal system property_value: never_in_taxon NCBITaxon:7777 property_value: external_definition "Anatomical cluster that is part of the cranium and composed of dermally derived bones.[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is part of the cranium which consists of dermally derived bones.[AAO]" xsd:string [Term] id: UBERON:0003114 name: pharyngeal arch 3 namespace: uberon def: "The third branchial arch contributes to the development of the hyoid bone, stylopharyngeus muscle, inferior parathyroid gland, and thymus." [MP:0006339] comment: in XAO, called branchial arch 1 and df VP3 subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "3rd arch" RELATED [EHDAA2:0000069] synonym: "3rd pharyngeal arch" EXACT [] synonym: "3rd visceral arch" RELATED [VHOG:0000298] synonym: "branchial arch 1" RELATED SENSU [AAO:0010365, ZFA:0001606] synonym: "first branchial arch" RELATED SENSU [ZFA:0001606] synonym: "first gill arch" EXACT SENSU [ZFA:0001606] synonym: "gill arch 1" EXACT SENSU [ZFA:0001606] synonym: "third pharyngeal arch" EXACT [] synonym: "third visceral arch" EXACT [] synonym: "visceral arch 3" EXACT [] xref: AAO:0010365 xref: EHDAA2:0000069 xref: EHDAA:1080 xref: EMAPA:16399 xref: SCTID:308769006 xref: TAO:0001598 xref: VHOG:0000298 xref: XAO:0000447 xref: ZFA:0001606 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The most anterior, or first, pharygeal/branchial arch, composed of the mandibular process, forming the posterior border of the stomodeum, and the maxillary process anterior to the stomodeum, contains the first aortic arch.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string property_value: pharyngeal_arch_number "3" xsd:nonNegativeInteger [Term] id: UBERON:0003115 name: pharyngeal arch 4 namespace: uberon def: "contributes to development of the cartilage of the larynx, laryngeal, pharyngeal, and soft palate muscles, superior parathyroid gland, and C-cells of the thymus" [MP:0006340] comment: in XAO, called branchial arch 2 and df VP4 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "4th arch" RELATED [EHDAA2:0000086] synonym: "4th branchial arch" EXACT SENSU [] synonym: "4th pharyngeal arch" EXACT [] synonym: "4th visceral arch" EXACT [] synonym: "branchial arch 2" RELATED SENSU [AAO:0010366, ZFA:0001607] synonym: "fourth pharyngeal arch" EXACT [] synonym: "fourth visceral arch" RELATED [VHOG:0000299] synonym: "gill arch 2" EXACT SENSU [ZFA:0001607] synonym: "second branchial arch" RELATED SENSU [ZFA:0001607] synonym: "second gill arch" EXACT SENSU [ZFA:0001607] synonym: "visceral arch 4" EXACT [] xref: AAO:0010366 xref: EHDAA2:0000086 xref: EHDAA:1663 xref: EMAPA:16760 xref: SCTID:308770007 xref: TAO:0001599 xref: VHOG:0000299 xref: XAO:0000449 xref: ZFA:0001607 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The second pharyngeal/branchial arch; arises as a thickening of the pharygeal wall between the first and second branchial clefts; contains the second aortic arch; forms part of the hyoid bone, tongue and facial musculature.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string property_value: pharyngeal_arch_number "4" xsd:nonNegativeInteger [Term] id: UBERON:0003116 name: pharyngeal arch 5 namespace: uberon comment: A fifth arch never establishes itself in amniotes // in XAO, called branchial arch 3 and df VP5 synonym: "5th pharyngeal arch" RELATED [VHOG:0001204] synonym: "5th visceral arch" RELATED [VHOG:0001204] synonym: "branchial arch 3" RELATED SENSU [AAO:0010367, XAO:0000451, ZFA:0001608] synonym: "fifth pharyngeal arch" RELATED [VHOG:0001204] synonym: "fifth visceral arch" EXACT [XAO:0000451] synonym: "gill arch 3" EXACT [ZFA:0001608] synonym: "third branchial arch" RELATED SENSU [XAO:0000451] synonym: "visceral arch 5" EXACT [ZFA:0001608] xref: AAO:0010367 xref: SCTID:308771006 xref: TAO:0001600 xref: VHOG:0001204 xref: XAO:0000451 xref: ZFA:0001608 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The third in a series of paired bars in the wall of the pharynx, within which are formed the third aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string property_value: pharyngeal_arch_number "5" xsd:nonNegativeInteger [Term] id: UBERON:0003117 name: pharyngeal arch 6 namespace: uberon alt_id: UBERON:0004349 def: "The 6th pharyngeal arch. contributes to the development of the sternocleidomastoid and trapezius muscles" [MP:0006347] synonym: "6th arch" EXACT [EHDAA2:0004075] synonym: "6th pharyngeal arch" RELATED [VHOG:0001205] synonym: "6th visceral arch" RELATED [VHOG:0001205] synonym: "branchial arch 4" RELATED SENSU [AAO:0010368, ZFA:0001609] synonym: "fourth branchial arch" RELATED SENSU [] synonym: "gill arch 4" EXACT [ZFA:0001609] synonym: "sixth branchial arch" EXACT [] synonym: "sixth pharyngeal arch" RELATED [VHOG:0001205] synonym: "sixth visceral arch" RELATED [XAO:0000453] synonym: "visceral arch 6" EXACT [ZFA:0001609] xref: AAO:0010368 xref: EHDAA2:0004075 xref: SCTID:308772004 xref: TAO:0001601 xref: VHOG:0001205 xref: XAO:0000453 xref: ZFA:0001609 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "The forth in a series of paired bars in the wall of the pharynx, within which are formed the forth aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" xsd:string property_value: homology_notes "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string property_value: pharyngeal_arch_number "6" xsd:nonNegativeInteger [Term] id: UBERON:0003118 name: aortic arch 1 namespace: uberon alt_id: UBERON:0004371 def: "the vessels formed within the first pair of branchial arches in embryogenesis" [MP:0006356] comment: ZFA: The paired aortic arch 1 arteries branch off of the ventral aorta, and empty into the right and left lateral dorsal aortas. // Disappears early in development in tetrapods subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "1st arch artery" EXACT [EMAPA:16685] synonym: "AA1" EXACT [ZFA:0005005] synonym: "first aortic arch" EXACT [XAO:0000342] synonym: "first branchial arch artery" EXACT [] synonym: "mandibular aortic arch" EXACT [ZFA:0005005] xref: AAO:0010415 xref: EHDAA2:0000007 xref: EMAPA:16202 xref: EMAPA:16685 xref: SCTID:308774003 xref: TAO:0005005 xref: VHOG:0000149 xref: XAO:0000342 xref: ZFA:0005005 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 [Term] id: UBERON:0003119 name: aortic arch 2 namespace: uberon alt_id: UBERON:0004372 def: "The first and second arches disappear early, but the dorsal end of the second gives origin to the stapedial artery, a vessel which atrophies in humans but persists in some mammals. It passes through the ring of the stapes and divides into supraorbital, infraorbital, and mandibular branches which follow the three divisions of the trigeminal nerve. The infraorbital and mandibular arise from a common stem, the terminal part of which anastomoses with the external carotid. On the obliteration of the stapedial artery this anastomosis enlarges and forms the internal maxillary artery, and the branches of the stapedial artery are now branches of this vessel. The common stem of the infraorbital and mandibular branches passes between the two roots of the auriculotemporal nerve and becomes the middle meningeal artery; the original supraorbital branch of the stapedial is represented by the orbital twigs of the middle meningeal[WP]." [Wikipedia:Aortic_arches#Arches_1_and_2] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "2nd arch artery" EXACT [EHDAA2:0000051] synonym: "AA2" EXACT [ZFA:0005006] synonym: "hyoid aortic arch" EXACT [ZFA:0005006] synonym: "second aortic arch" EXACT [XAO:0000343] synonym: "second branchial arch artery" EXACT [] xref: AAO:0010418 xref: EHDAA2:0000051 xref: EMAPA:16203 xref: EMAPA:16686 xref: SCTID:308775002 xref: TAO:0005006 xref: VHOG:0000148 xref: XAO:0000343 xref: ZFA:0005006 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0003066 ! pharyngeal arch 2 property_value: external_definition "The second in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 2 that is part of hyoid arch.[AAO]" xsd:string [Term] id: UBERON:0003120 name: aortic arch 3 namespace: uberon alt_id: UBERON:0004352 def: "The third aortic arch constitutes the commencement of the internal carotid artery, and is therefore named the carotid arch[WP]." [Wikipedia:Aortic_arches#Arch_3] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "3rd arch artery" EXACT [EHDAA2:0000070] synonym: "AA3" EXACT [ZFA:0005007] synonym: "carotid arch" EXACT [Wikipedia:Aortic_arches#Arch_3] synonym: "third aortic arch" EXACT [XAO:0000344] synonym: "third branchial arch artery" EXACT [] xref: AAO:0010419 xref: EHDAA2:0000070 xref: EMAPA:16687 xref: SCTID:308776001 xref: TAO:0005007 xref: VHOG:0000147 xref: XAO:0000344 xref: ZFA:0005007 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0003114 ! pharyngeal arch 3 property_value: external_definition "Aortic arches 3 and 4 are not remodeled but are retained largely intact as the branchial arteries providing circulation through the gills. These areches are direct branches from the ventral aorta to the lateral dorsal aorta. Isogai et al. 2001.[TAO]" xsd:string property_value: external_definition "The third in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 3 lies within the 3rd branchial arch and branches directly from the ventral aorta to the lateral dorsal aorta, and are retained as the branchial arteries providing circulation through the gills in the adult.[AAO]" xsd:string [Term] id: UBERON:0003121 name: aortic arch 4 namespace: uberon alt_id: UBERON:0004350 def: "The fourth right arch forms the right subclavian as far as the origin of its internal mammary branch; while the fourth left arch constitutes the arch of the aorta between the origin of the left carotid artery and the termination of the ductus arteriosus[WP]." [Wikipedia:Aortic_arches#Arch_4] comment: Development notes: Normally, the left fourth arch becomes the aortic arch, the right fourth arch contributes to the innominate artery[http://emedicine.medscape.com/article/899609-overview] in birds it is the right fourth arch which forms the permanent aorta // proximal right subclavian subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "4th arch artery" EXACT [EHDAA2:0000087] synonym: "AA4" EXACT [ZFA:0005008] synonym: "fourth aortic arch" EXACT [XAO:0000355] synonym: "fourth branchial arch artery" EXACT [] synonym: "systemic arch" RELATED [ISBN10:0073040584, XAO:0000355] xref: AAO:0010420 xref: EHDAA2:0000087 xref: EMAPA:17004 xref: SCTID:308777005 xref: TAO:0005008 xref: VHOG:0000146 xref: XAO:0000355 xref: ZFA:0005008 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0003115 ! pharyngeal arch 4 property_value: external_definition "Aortic arches 3 and 4 are not remodeled but are retained largely intact as the branchial arteries providing circulation through the gills. These areches are direct branches from the ventral aorta to the lateral dorsal aorta. Isogai et al. 2001.[TAO]" xsd:string property_value: external_definition "The forth in a series paired arterial connections between the dorsal and ventral aortae, lies within the 4th branchial arch. The paired aortic arch 4 arteries branch directly from the ventral aorta to the lateral dorsal aorta, and are retained as the branchial arteries providing circulation through the gills in the adult.[AAO]" xsd:string [Term] id: UBERON:0003122 name: aortic arch 5 namespace: uberon def: "The fifth arch disappears on both sides[WP]." [Wikipedia:Aortic_arches#Arch_5] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "AA5" EXACT [ZFA:0005009] synonym: "fifth aortic arch" EXACT [XAO:0000352] xref: AAO:0010421 xref: SCTID:308778000 xref: TAO:0005009 xref: VHOG:0000145 xref: XAO:0000352 xref: ZFA:0005009 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0003116 ! pharyngeal arch 5 property_value: external_definition "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" xsd:string property_value: external_definition "The fifth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 5 artery is paired and has a common trunk with aortic arch 6 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. Aortic arches 5 and 6 supply the trunk and tail with oxygenated blood.[AAO]" xsd:string [Term] id: UBERON:0003123 name: aortic arch 6 namespace: uberon alt_id: UBERON:0004351 def: "The sixth right arch disappears; the sixth left arch gives off the pulmonary arteries and forms the ductus arteriosus; this duct remains pervious during the whole of fetal life, but then closes within the first few days after birth due to increased O2 concentration. Oxygen concentration causes the production of bradykinin which causes the ductus to constrict occluding all flow. Within 1-3 months, the ductus is obliterated and becomes the ligamentum arteriosus. His showed that in the early embryo the right and left arches each gives a branch to the lungs, but that later both pulmonary arteries take origin from the left arch[WP]." [Wikipedia:Aortic_arches#Arch_6] comment: Development notes: the distal left sixth arch becomes the ductus arteriosus, the proximal sixth arches bilaterally contribute to the proximal branch pulmonary arteries[http://emedicine.medscape.com/article/899609-overview] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "6th arch artery" EXACT [EMAPA:17005] synonym: "AA6" EXACT [ZFA:0005016] synonym: "pulmonary arch" RELATED [ISBN10:0073040584] synonym: "sixth aortic arch" EXACT [XAO:0000353] synonym: "sixth branchial arch artery" EXACT [] xref: AAO:0010422 xref: EHDAA2:0000102 xref: EMAPA:17005 xref: SCTID:308779008 xref: TAO:0005016 xref: VHOG:0000144 xref: XAO:0000353 xref: ZFA:0005016 intersection_of: UBERON:0004363 ! aortic arch intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 property_value: external_definition "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" xsd:string property_value: external_definition "The sixth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 6 artery is paired and has a common trunk with aortic arch 5 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. It forms part of the pulmonary arteries, and in the later embryo, the ductus arteriosis. Aortic arches 5 and 6 together supply the trunk and tail with oxygenated blood.[AAO]" xsd:string [Term] id: UBERON:0003124 name: chorion namespace: uberon def: "The chorion is one of the membranes that exists during pregnancy between the developing fetus and mother. It is formed by extraembryonic mesoderm and the two layers of trophoblast and surrounds the embryo and other membranes. The chorionic villi emerge from the chorion, invade the endometrium, and allow transfer of nutrients from maternal blood to fetal blood." [Wikipedia:Chorion] comment: Development notes: Extra-embryonic ectoderm[PMID:19829370]. Taxon notes: The chorion of placentals is bilaminar as in reptiles and birds, but forms from the trophoblast and includes the ajdacent mesodermal layer [ISBN10:0073040584 \"Vertebrates, Kardong\"]. subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "chorion (vertebrates)" EXACT [] synonym: "chorion frondosum" RELATED [Wikipedia:Chorion] synonym: "chorionic sac" RELATED [Wikipedia:Chorion] synonym: "embryonic chorion" EXACT [] synonym: "fetal chorion" EXACT [] xref: BTO:0000252 xref: EFO:0002780 xref: EHDAA2:0000245 xref: EHDAA:150 xref: EMAPA:16112 xref: EV:0100121 xref: FMA:80224 xref: GAID:1299 xref: MESH:A16.254.403.473 xref: UMLS:C0008503 xref: UMLS:C1516505 xref: VHOG:0000200 xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Gray24.png xref: ncithesaurus:Chorion xref: ncithesaurus:Chorionic_Sac is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005631 ! extraembryonic membrane relationship: adjacent_to UBERON:0000922 ! embryo relationship: develops_from UBERON:0005971 ! amniotic fold relationship: has_part UBERON:0003265 ! chorionic mesoderm relationship: has_part UBERON:0003374 ! chorionic ectoderm property_value: external_definition "The outer membrane enclosing the embryo in reptiles, birds, and mammals. [TFD][VHOG]" xsd:string property_value: external_definition "The outer membrane of the two membranes enclosing the embryo in reptiles, birds, and mammals. In placental mammals it contributes to the development of the placenta[BTO:0000252]." xsd:string property_value: has_relational_adjective "chorionic" xsd:string property_value: homology_notes "Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG]" xsd:string [Term] id: UBERON:0003125 name: vitelline membrane namespace: uberon def: "a structure directly adjacent to the outer surface of the plasma membrane of an ovum. It is composed mostly of protein fibers, with protein receptors needed for sperm binding, binding to sperm plasma membrane receptors. The species-specificity between these receptors contributes to prevention of breeding between different species [Wikipedia]. A protective layer around the egg[FBbt]." [Wikipedia:Vitelline_membrane] comment: TODO - consider GO CC request. GO:0030704-vitelline membrane formation considered a subclass of CC organization subset: dubious_grouping ! Indicates that subclasses in AOs may be inappropriately linked synonym: "m. vitellina" RELATED LATIN [Wikipedia:Vitelline_membrane] synonym: "yolk sac membrane" RELATED [BTO:0001450] synonym: "zona pellucida" RELATED [] synonym: "zona pellucida - vitelline membrane" BROAD [VHOG:0000720] xref: AAO:0010332 xref: BTO:0001450 xref: FBbt:00000042 xref: GAID:1318 xref: MESH:A16.631.886 xref: VHOG:0000720 xref: XAO:0000030 is_a: UBERON:0000061 ! anatomical structure relationship: surrounds CL:0000025 ! egg property_value: axiom_lost_from_external_ontology "relationship loss: part_of zygote (AAO:0010324)[AAO]" xsd:string property_value: external_definition "Thin membrane enclosing and immediately adjacent to the ovum. Produced in the ovary.[AAO]" xsd:string property_value: homology_notes "Outside the plasma membrane, three envelopes surround the ovum. The first, the primary egg envelope, lies between the plasma membrane and the surrounding cells of the ovary. The most consistent component of this primary layer is the vitelline membrane, a transparent jacket of fibrous protein. In mammals, the homologous structure is called the zona pellucida.[well established][VHOG]" xsd:string [Term] id: UBERON:0003126 name: trachea namespace: uberon def: "The trachea is the portion of the airway that attaches to the bronchi as it branches [GO:dph]." [GO:0060438, Wikipedia:Vertebrate_trachea] comment: Taxon notes: in mouse 15-18 C-rings, 15-20 in human. [ISBN10:0123813611]. In birds, the trachea runs from the pharynx to the syrinx, from which the primary bronchi diverge. Swans have an unusually elongated trachea, part of which is coiled beneath the sternum; this may act as a resonator to amplify sound. In some birds, the cartilagenous rings are complete, and may even be ossified. In amphibians, the trachea is normally extremely short, and leads directly into the lungs, without clear primary bronchi. A longer trachea is, however found in some long-necked salamanders, and in caecilians. While there are irregular cartilagenous nodules on the amphibian trachea, these do not form the rings found in amniotes. The only vertebrate to have lungs, but no trachea, is Polypterus, in which the lungs arise directly from the pharynx. subset: major_organ ! somewhat fuzzy grouping for analysis purposes, currently composed of something like: liver, heart, skeletal, kidney, bladder, brain, skin, mouth, esophagus, stomach, small intestine, large intestines, trachea nose, lungs, brain, spinal cord, peripheral nerves, kidneys, ureters, bladder, urethra, gonads subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilaginous trachea" EXACT [] synonym: "tracheal tubule" RELATED [BTO:0001388] synonym: "vertebrate trachea" EXACT SENSU [] synonym: "windpipe" EXACT [] xref: AAO:0010140 xref: BTO:0001388 xref: EFO:0000935 xref: EHDAA2:0002066 xref: EHDAA:3078 xref: EMAPA:16853 xref: EV:0100040 xref: FMA:7394 xref: GAID:361 xref: MA:0000441 xref: MAT:0000137 xref: MESH:A04.889 xref: MIAA:0000137 xref: OpenCyc:Mx4rvViOX5wpEbGdrcN5Y29ycA xref: SCTID:181213009 xref: UMLS:C0040578 xref: VHOG:0000371 xref: XAO:0000118 xref: http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/c/c3/Illu_conducting_passages.jpg/200px-Illu_conducting_passages.jpg xref: ncithesaurus:Trachea is_a: UBERON:0000117 ! respiratory tube relationship: develops_from UBERON:0008947 ! respiratory primordium relationship: located_in UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0007196 ! tracheobronchial tree property_value: external_definition "An elongated tube which carries air to and from the lungs.[AAO]" xsd:string property_value: external_definition "The respiratory tube between the larynx and the bronchi. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-29, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string property_value: has_relational_adjective "tracheal" xsd:string property_value: homology_notes "In primitive fishes and most tetrapods, the lungs of adults are usually paired. They lie ventral to the digestive tract and are connected to the outside environment through the trachea.[well established][VHOG]" xsd:string [Term] id: UBERON:0003127 name: open tracheal system trachea namespace: uberon def: "A trachea composed of composed of spiracles, tracheae, and tracheoles [Wikipedia]. An open tracheal system is a respiratory system, a branched network of epithelial tubes that supplies oxygen to target tissues via spiracles. An example of this is found in Drosophila melanogaster." [GO:0007424, Wikipedia:Invertebrate_trachea] comment: TODO check if is_a epithelium subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "invertebrate trachea" EXACT [] synonym: "trachea" BROAD SENSU [FBbt:00005043] xref: FBbt:00005043 xref: SPD:0000434 xref: TADS:0000315 is_a: UBERON:0001005 ! respiratory airway relationship: has_part UBERON:0003914 ! epithelial tube [Term] id: UBERON:0003128 name: cranium namespace: uberon def: "Upper portion of the skull that excludes the mandible (when present in the organism)." [Wikipedia:Cranium_(anatomy)] comment: The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton[WP]. AO notes: the inclusion of the FMA class here is probably not quite correct, as this class includes as parts sutures, whereas this is not part of the bones of the cranium subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bones of cranium" EXACT [FMA:71325] synonym: "calvarium" RELATED [BTO:0001328] synonym: "epicranial plate" RELATED [] synonym: "ossa cranii" EXACT LATIN [FMA:71325, FMA:TA] synonym: "set of bones of cranium" EXACT [FMA:71325] synonym: "skeletal system of head" RELATED [] synonym: "skull minus mandible" EXACT [] synonym: "upper part of skull" EXACT [] xref: BTO:0001328 xref: EFO:0000831 xref: EHDAA:6029 xref: FMA:71325 xref: MA:0000316 xref: MAT:0000340 xref: MIAA:0000340 xref: OpenCyc:Mx4rvVlEyJwpEbGdrcN5Y29ycA xref: SCTID:181889008 xref: VHOG:0000334 is_a: UBERON:0000075 ! subdivision of skeletal system relationship: part_of UBERON:0003129 ! skull property_value: spatially_disjoint_from UBERON:0003278 property_value: has_relational_adjective "cranial" xsd:string [Term] id: UBERON:0003129 name: skull namespace: uberon def: "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." [PMID:11523816, Wikipedia:Skull, http://sourceforge.net/tracker/?func=detail&aid=2962656&group_id=76834&atid=1205376] comment: In FMA the skull is divided into orbit, neurocranium (8 parts), viscerocranium (26 parts). Here we have a separate overlapping division into cranium and mandible. // A skull that is missing a mandible is only a cranium; this is the source of a very commonly made error in terminology. Those animals having skulls are called craniates[WP]. Editor/AO notes: in many ontologies, the structure called the cranium is inclusive of the mandible/lower jaw skeleton subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cranial skeleton" RELATED [] synonym: "skeletal system of head" RELATED [] xref: BTO:0001295 xref: EHDAA2:0000325 xref: EMAPA:17680 xref: FMA:46565 xref: GAID:82 xref: MESH:A02.835.232.781 xref: OpenCyc:Mx4rvVjOsZwpEbGdrcN5Y29ycA xref: SCTID:110530005 xref: UMLS:C0037303 xref: WikipediaCategory:Skull xref: galen:Skull xref: ncithesaurus:Skull is_a: UBERON:0000075 ! subdivision of skeletal system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0003128 ! cranium relationship: has_part UBERON:0003278 ! skeleton of lower jaw relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0010323 ! cranial skeletal system [Term] id: UBERON:0003130 name: arthropod sternum namespace: uberon def: "ventral portion of a segment of an arthropod thorax or abdomen. In insects, the sterna are usually single, large sclerites, and external. However, they can sometimes be divided in two or more, in which case the subunits are called sternites, and may also be modified on the terminal abdominal segments so as to form part of the functional genitalia, in which case they are frequently reduced in size and development, and may become internalized and/or membranous." [Wikipedia:Sternum_(arthropod)] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology synonym: "sternum" BROAD [] xref: FBbt:00004557 xref: HAO:0000956 is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0003131 name: arthropod tibia namespace: uberon def: "A section of the arthropod leg." [Wikipedia:Arthropod_leg] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology. Homology notes: homology of leg segments between groups are difficult to prove and are the source of much argument. Some authors posit up to eleven segments per leg for the most recent common ancestor of extant arthropods [1], but modern arthropods have eight or fewer. It has been argued [2][3] that the ancestral leg need not have been so complex, and that other events, such as the successive loss of function of a Hox-gene could result in parallel gains of leg segments. xref: FBbt:00004642 xref: HAO:0001017 xref: TADS:0000281 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0005895 ! insect leg [Term] id: UBERON:0003132 name: arthropod hypopharynx namespace: uberon def: "A median tonguelike structure arising from the mouth." [http://www.britannica.com/EBchecked/topic/279974/hypopharynx] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology xref: FBbt:00005751 xref: HAO:0000409 xref: TGMA:0000090 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0006562 ! pharynx [Term] id: UBERON:0003133 name: reproductive organ namespace: uberon def: "An organ involved in reproduction" [UBERON:xp] comment: GO uses genitalia for the singular organ subset: functional_classification ! functional_classification subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "genital organ" EXACT [] synonym: "genitalia" RELATED PLURAL [] synonym: "reproductive system organ" EXACT [] synonym: "sex organ" EXACT [] xref: EMAPA:17381 xref: MA:0001752 xref: MESH:A05.360 xref: OpenCyc:Mx4rwO39aJwpEbGdrcN5Y29ycA xref: SCTID:128181006 xref: TGMA:0000591 xref: UMLS:C0017420 xref: WBbt:0008422 xref: ncithesaurus:Genitalia is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000990 ! reproductive system intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0000003 ! reproduction [Term] id: UBERON:0003134 name: female reproductive organ namespace: uberon def: "A female organ involved in reproduction" [UBERON:xp] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "female organism reproductive organ" EXACT [OBOL:automatic] synonym: "female organism reproductive structure" EXACT [OBOL:automatic] synonym: "female organism reproductive system organ" EXACT [OBOL:automatic] synonym: "female organism sex organ" EXACT [OBOL:automatic] synonym: "female reproductive gland/organ" EXACT [MA:0000544] synonym: "female reproductive system organ" EXACT [] synonym: "female sex organ" EXACT [] synonym: "reproductive organ of female organism" EXACT [OBOL:automatic] synonym: "reproductive structure of female organism" EXACT [OBOL:automatic] synonym: "reproductive system organ of female organism" EXACT [OBOL:automatic] synonym: "sex organ of female organism" EXACT [OBOL:automatic] xref: EMAPA:17959 xref: MA:0000544 is_a: UBERON:0003133 ! reproductive organ relationship: part_of UBERON:0000474 ! female reproductive system intersection_of: UBERON:0003133 ! reproductive organ intersection_of: part_of UBERON:0003100 ! female organism [Term] id: UBERON:0003135 name: male reproductive organ namespace: uberon def: "A male organ involved in reproduction" [UBERON:xp] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "male organism reproductive organ" EXACT [OBOL:automatic] synonym: "male organism reproductive structure" EXACT [OBOL:automatic] synonym: "male organism reproductive system organ" EXACT [OBOL:automatic] synonym: "male organism sex organ" EXACT [OBOL:automatic] synonym: "male reproductive gland/organ" EXACT [MA:0000545] synonym: "male reproductive system organ" EXACT [] synonym: "male sex organ" EXACT [] synonym: "reproductive organ of male organism" EXACT [OBOL:automatic] synonym: "reproductive structure of male organism" EXACT [OBOL:automatic] synonym: "reproductive system organ of male organism" EXACT [OBOL:automatic] synonym: "sex organ of male organism" EXACT [OBOL:automatic] xref: MA:0000545 is_a: UBERON:0003133 ! reproductive organ relationship: part_of UBERON:0000079 ! male reproductive system intersection_of: UBERON:0003133 ! reproductive organ intersection_of: part_of UBERON:0003101 ! male organism [Term] id: UBERON:0003136 name: obsolete tagma namespace: uberon is_obsolete: true consider: FBbt:00000002 consider: HAO:0000988 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003137 name: obsolete antennal segment namespace: uberon is_obsolete: true consider: FBbt:00000009 consider: HAO:0000104 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003138 name: obsolete thoracic segment namespace: uberon is_obsolete: true consider: FBbt:00000016 consider: HAO:0001013 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003139 name: obsolete larval tagma namespace: uberon is_obsolete: true consider: FBbt:00001728 consider: HAO:0000462 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003140 name: obsolete larval thorax namespace: uberon is_obsolete: true consider: FBbt:00001741 consider: HAO:0000463 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003141 name: obsolete larval abdomen namespace: uberon is_obsolete: true consider: FBbt:00001746 consider: HAO:0000460 [Term] id: UBERON:0003142 name: prepupa namespace: uberon synonym: "PP" RELATED [FBbt:00002952] xref: BTO:0001110 xref: FBbt:00002952 xref: HAO:0000812 is_a: UBERON:0000468 ! multi-cellular organism relationship: develops_from UBERON:0002548 ! larva [Term] id: UBERON:0003143 name: pupa namespace: uberon def: "Organism at the pupal stage. The pupal stage is a life stage of some insects undergoing transformation. The pupal stage is found only in holometabolous insects, those that undergo a complete metamorphosis, going through four life stages; embryo, larva, pupa and imago." [Wikipedia:Pupa] synonym: "aurelia" NARROW [NCBITaxon:37572, Wikipedia:Pupa] synonym: "chrysalides" NARROW PLURAL [NCBITaxon:37572, Wikipedia:Pupa] synonym: "chrysalis" NARROW [NCBITaxon:37572, Wikipedia:Pupa] synonym: "pupae" RELATED PLURAL [] xref: BTO:0001143 xref: EFO:0002684 xref: FBbt:00002953 xref: HAO:0000886 xref: OpenCyc:Mx4rwQCBr5wpEbGdrcN5Y29ycA intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_and_ends_during UBERON:0000070 ! pupal stage property_value: has_relational_adjective "pupal" xsd:string [Term] id: UBERON:0003144 name: obsolete adult tagma namespace: uberon is_obsolete: true consider: FBbt:00003005 consider: HAO:0000089 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003145 name: obsolete adult arthropod thorax namespace: uberon is_obsolete: true consider: FBbt:00003018 consider: HAO:0000090 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003146 name: obsolete adult arthropod abdomen namespace: uberon is_obsolete: true consider: FBbt:00003023 consider: HAO:0000088 [Term] id: UBERON:0003147 name: obsolete peritreme namespace: uberon def: "That part of the integument of an insect which surrounds the spiracles." [http://www.answers.com/topic/peritreme] is_obsolete: true consider: FBbt:00003121 consider: HAO:0000712 comment: arthropod specific groupings belong in separate ontology. term also used for edge of the aperture of a univalve shell synonym: "rim" RELATED [FBbt:00003121] [Term] id: UBERON:0003148 name: obsolete sclerite namespace: uberon def: "hardened portions of arthropod exoskeletons." [Wikipedia:Sclerite] is_obsolete: true consider: FBbt:00004475 consider: HAO:0000909 comment: arthropod specific groupings belong in separate ontology synonym: "plate" RELATED [FBbt:00004475] [Term] id: UBERON:0003149 name: obsolete tergite namespace: uberon is_obsolete: true consider: FBbt:00004476 consider: HAO:0001005 comment: arthropod specific groupings belong in separate ontology synonym: "abdominal tergite" EXACT [FBbt:00004476] [Term] id: UBERON:0003150 name: obsolete sternite namespace: uberon is_obsolete: true consider: FBbt:00004477 consider: HAO:0000955 comment: arthropod specific groupings belong in separate ontology synonym: "abdominal sternite" EXACT [FBbt:00004477] [Term] id: UBERON:0003151 name: obsolete foramen namespace: uberon is_obsolete: true consider: FBbt:00004478 consider: HAO:0000345 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003152 name: obsolete phragma namespace: uberon def: "The lamella that serves as the site of attachment of the longitudinal flight muscle [HAO]." [HAO:0000716] is_obsolete: true consider: FBbt:00004480 consider: HAO:0000716 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003153 name: head capsule namespace: uberon xref: BTO:0004711 xref: EFO:0001927 xref: FBbt:00004482 xref: HAO:0000398 is_a: UBERON:0000477 ! anatomical cluster [Term] id: UBERON:0003154 name: obsolete gena namespace: uberon is_obsolete: true consider: FBbt:00004491 consider: HAO:0000371 comment: arthropod specific groupings belong in separate ontology synonym: "cheek" RELATED [FBbt:00004491] [Term] id: UBERON:0003155 name: arthropod occiput namespace: uberon comment: arthropod specific groupings belong in separate ontology, but this is retained for disambiguation purposes synonym: "occiput" RELATED SENSU [FBbt:00004492] xref: FBbt:00004492 xref: HAO:0000658 xref: TGMA:0000041 is_a: UBERON:0006056 ! posterior surface of head disjoint_from: UBERON:0006054 ! surface of occiput [Term] id: UBERON:0003156 name: obsolete postocciput namespace: uberon is_obsolete: true consider: FBbt:00004494 consider: HAO:0000790 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003157 name: obsolete postgena namespace: uberon is_obsolete: true consider: FBbt:00004496 consider: HAO:0000776 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003158 name: obsolete tentorial pit namespace: uberon is_obsolete: true consider: FBbt:00004501 consider: HAO:0000999 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003159 name: obsolete anterior tentorial pit namespace: uberon is_obsolete: true consider: FBbt:00004502 consider: HAO:0000126 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003160 name: obsolete posterior tentorial pit namespace: uberon is_obsolete: true consider: FBbt:00004503 consider: HAO:0000768 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003161 name: dorsal ocellus namespace: uberon def: "A simple visual organ of insects[GO]. Two ocelli appear on the vertical and one on the frontal plate[FBbt]. The multi-tissue structure that is located on the top of the head, composed of the corneal lens, pigment cell, rhabdoms and synaptic plexus[HAO]. Two evolutionary distinct ocellus types exist [2]: dorsal ocelli (or simply 'ocelli'), found in most insects, and lateral ocelli (or stemmata), which are found in the larvae of some insect orders. They are structurally and functionally very different. Simple eyes of other animals, e.g. cnidarians may also be referred to as 'ocelli', but again the structure and anatomy of these eyes is quite distinct from those of the dorsal ocelli of insects[Wikipedia]." [FBbt:00004505, GO:0008056, HAO:0000661, Wikipedia:Ocellus#Ocelli] synonym: "dorsal ocelli" RELATED PLURAL [] synonym: "ocelli" RELATED PLURAL [] synonym: "ocellus" EXACT [] xref: BTO:0001758 xref: FBbt:00004505 xref: HAO:0000661 is_a: UBERON:0000963 ! head sensillum [Term] id: UBERON:0003162 name: lateral ocellus namespace: uberon def: "The ocellus that is paired[HAO]. The number, form, and function of the dorsal ocelli varies markedly throughout insect orders. They tend to be larger and more strongly expressed in flying insects (particularly bees, wasps, dragonflies and locusts), where they are typically found as a triplet. Two lateral ocelli are directed to the left and right of the head respectively, while a central (median) ocellus is directed frontally. In some terrestrial insects (e.g. some ants and cockroaches), only two lateral ocelli are present: the median ocellus is absent. Note that the unfortunately labelled 'lateral ocelli' here refers to the sideways facing position of the ocelli, which are of the dorsal type. They should not be confused with the lateral ocelli of some insect larvae (see stemmata)[Wikipedia]." [HAO:0000481, Wikipedia:Ocellus#Ocelli] xref: FBbt:00004506 xref: HAO:0000481 is_a: UBERON:0003161 ! dorsal ocellus [Term] id: UBERON:0003163 name: obsolete mouthpart namespace: uberon is_obsolete: true consider: FBbt:00004520 consider: HAO:0000639 comment: TODO [Term] id: UBERON:0003164 name: obsolete clypeus namespace: uberon is_obsolete: true consider: FBbt:00004521 consider: HAO:0000212 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003165 name: obsolete cibarium namespace: uberon is_obsolete: true consider: FBbt:00004526 consider: HAO:0000201 comment: arthropod specific groupings belong in separate ontology synonym: "atrium" RELATED [FBbt:00004526] [Term] id: UBERON:0003166 name: obsolete prementum namespace: uberon is_obsolete: true consider: FBbt:00004534 consider: HAO:0000804 comment: arthropod specific groupings belong in separate ontology synonym: "theca" RELATED [FBbt:00004534] [Term] id: UBERON:0003167 name: obsolete lacinia namespace: uberon is_obsolete: true consider: FBbt:00004536 consider: HAO:0000457 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003168 name: obsolete mentum namespace: uberon is_obsolete: true consider: FBbt:00004544 consider: HAO:0000534 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003169 name: obsolete cervical sclerite namespace: uberon is_obsolete: true consider: FBbt:00004548 consider: HAO:0000195 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003170 name: obsolete tergum namespace: uberon is_obsolete: true consider: FBbt:00004552 consider: HAO:0001006 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003171 name: obsolete episternum namespace: uberon is_obsolete: true consider: FBbt:00004554 consider: HAO:0000303 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003172 name: obsolete epimeron namespace: uberon is_obsolete: true consider: FBbt:00004556 consider: HAO:0000299 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003173 name: obsolete pronotum namespace: uberon is_obsolete: true consider: FBbt:00004561 consider: HAO:0000853 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003174 name: obsolete furcasternum namespace: uberon is_obsolete: true consider: FBbt:00004570 consider: HAO:0000367 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003175 name: obsolete prescutum namespace: uberon is_obsolete: true consider: FBbt:00004582 consider: HAO:0000815 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003176 name: obsolete anterior notal wing process namespace: uberon is_obsolete: true consider: FBbt:00004585 consider: HAO:0000120 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003177 name: obsolete posterior notal wing process namespace: uberon is_obsolete: true consider: FBbt:00004586 consider: HAO:0000758 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003178 name: obsolete postnotum namespace: uberon is_obsolete: true consider: FBbt:00004588 consider: HAO:0000786 comment: arthropod specific groupings belong in separate ontology synonym: "postscutellum" RELATED [FBbt:00004588] [Term] id: UBERON:0003179 name: obsolete pleural wing process namespace: uberon is_obsolete: true consider: FBbt:00004595 consider: HAO:0000726 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003180 name: obsolete anepisternum namespace: uberon is_obsolete: true consider: FBbt:00004597 consider: HAO:0000094 comment: arthropod specific groupings belong in separate ontology synonym: "mesopleurite" RELATED [FBbt:00004597] [Term] id: UBERON:0003181 name: obsolete scutoscutellar suture namespace: uberon is_obsolete: true consider: FBbt:00004601 consider: HAO:0000920 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003182 name: obsolete pleural suture namespace: uberon is_obsolete: true consider: FBbt:00004603 consider: HAO:0000725 [Term] id: UBERON:0003183 name: obsolete notopleural suture namespace: uberon is_obsolete: true consider: FBbt:00004604 consider: HAO:0000649 [Term] id: UBERON:0003184 name: obsolete mesofurca namespace: uberon is_obsolete: true consider: FBbt:00004619 consider: HAO:0000547 comment: arthropod specific groupings belong in separate ontology synonym: "mesothoracic sternal apophysis" RELATED [FBbt:00004619] [Term] id: UBERON:0003185 name: obsolete metafurca namespace: uberon is_obsolete: true consider: FBbt:00004638 consider: HAO:0000592 comment: arthropod specific groupings belong in separate ontology synonym: "metathoracic sternal apophysis" RELATED [FBbt:00004638] [Term] id: UBERON:0003186 name: obsolete coxa namespace: uberon is_obsolete: true consider: FBbt:00004641 consider: HAO:0000228 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003187 name: obsolete pretarsus namespace: uberon is_obsolete: true consider: FBbt:00004653 consider: HAO:0000820 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003188 name: obsolete auxilia namespace: uberon is_obsolete: true consider: FBbt:00004654 consider: HAO:0000153 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003189 name: obsolete unguitractor plate namespace: uberon is_obsolete: true consider: FBbt:00004658 consider: HAO:0001043 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003190 name: obsolete empodium namespace: uberon is_obsolete: true consider: FBbt:00004659 consider: HAO:0000288 [Term] id: UBERON:0003191 name: obsolete tegula namespace: uberon is_obsolete: true consider: FBbt:00004730 consider: HAO:0000993 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003192 name: obsolete axillary sclerite namespace: uberon is_obsolete: true consider: FBbt:00004737 consider: HAO:0000159 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003193 name: obsolete axillary cord namespace: uberon is_obsolete: true consider: FBbt:00004744 consider: HAO:0000157 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003194 name: imaginal disc-derived wing vein namespace: uberon xref: FBbt:00004751 xref: HAO:0001095 is_a: UBERON:0000476 ! acellular anatomical structure relationship: part_of UBERON:0000984 ! imaginal disc-derived wing [Term] id: UBERON:0003195 name: obsolete crossvein namespace: uberon is_obsolete: true consider: FBbt:00004765 consider: HAO:0000236 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003196 name: obsolete wing cell namespace: uberon is_obsolete: true consider: FBbt:00004769 consider: HAO:0001091 comment: arthropod specific groupings belong in separate ontology synonym: "intervein" RELATED [FBbt:00004769] [Term] id: UBERON:0003197 name: obsolete costal cell namespace: uberon is_obsolete: true consider: FBbt:00004770 consider: HAO:0000226 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003198 name: obsolete aedeagus namespace: uberon is_obsolete: true consider: FBbt:00004850 consider: HAO:0000091 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003199 name: egg chamber namespace: uberon synonym: "follicle" RELATED [FBbt:00004894] synonym: "germarium derived egg chamber" EXACT [FBbt:00004894] xref: FBbt:00004894 xref: HAO:0000287 xref: UMLS:C1571705 xref: ncithesaurus:Follicle is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0003200 name: obsolete pedicel namespace: uberon is_obsolete: true consider: FBbt:00004920 consider: HAO:0000706 [Term] id: UBERON:0003201 name: exocuticle namespace: uberon def: "The outer layer of the procuticle of certain crustaceans and arthropods, which contains cuticulin, chitin, and phenolic substances that are oxidized to produce the dark pigment of the cuticle;nThe hard and usually darkened layer of the cuticle lying between the endocuticle and epicuticle." [BTO:0001602] xref: BTO:0001602 xref: FBbt:00004973 xref: HAO:0000311 is_a: UBERON:0000476 ! acellular anatomical structure [Term] id: UBERON:0003202 name: endocuticle namespace: uberon def: "The inner layer of the procuticle in certain crustaceans and arthropods, which is almost entirely composed of protein and chitin." [BTO:0001603] xref: BTO:0001603 xref: FBbt:00004974 xref: HAO:0000290 is_a: UBERON:0000476 ! acellular anatomical structure [Term] id: UBERON:0003203 name: obsolete apodeme namespace: uberon is_obsolete: true consider: FBbt:00005091 consider: HAO:0000142 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003204 name: obsolete epipharynx namespace: uberon is_obsolete: true consider: FBbt:00005750 consider: HAO:0000301 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003205 name: obsolete articulation namespace: uberon is_obsolete: true consider: FBbt:00005811 consider: HAO:0000151 consider: ncithesaurus:Articulation comment: incorrect grouping [Term] id: UBERON:0003206 name: obsolete apophysis namespace: uberon is_obsolete: true consider: FBbt:00005813 consider: FMA:75428 consider: HAO:0000143 comment: incorrect grouping [Term] id: UBERON:0003207 name: obsolete arthropod appendage segment namespace: uberon is_obsolete: true consider: HAO:0000145 comment: arthropod specific groupings belong in separate ontology [Term] id: UBERON:0003209 name: blood nerve barrier namespace: uberon def: "barrier between the perineurium of peripheral nerves and the vascular endothelium of endoneurial capillaries. The perineurium acts as a diffusion barrier, but ion permeability at the blood-nerve barrier is still higher than at the blood-brain barrier[GO]." [GO:0008065, Wikipedia:Blood-nerve_barrier] synonym: "blood-nerve barrier" EXACT [] is_a: UBERON:0000119 ! cell layer relationship: adjacent_to UBERON:0000179 ! haemolymphatic fluid relationship: adjacent_to UBERON:0001021 ! nerve [Term] id: UBERON:0003210 name: blood-cerebrospinal fluid barrier namespace: uberon def: "barrier in the choroid plexus located in the lateral, third, and fourth brain ventricles that controls the entrance of substances into the cerebrospinal fluid from the blood[MP]." [MP:0006088] is_a: UBERON:0000119 ! cell layer relationship: adjacent_to UBERON:0000178 ! blood relationship: adjacent_to UBERON:0001359 ! cerebrospinal fluid [Term] id: UBERON:0003211 name: median ocellus namespace: uberon def: "The ocellus that is is located medially on the cranium[HAO]. The number, form, and function of the dorsal ocelli varies markedly throughout insect orders. They tend to be larger and more strongly expressed in flying insects (particularly bees, wasps, dragonflies and locusts), where they are typically found as a triplet. Two lateral ocelli are directed to the left and right of the head respectively, while a central (median) ocellus is directed frontally. In some terrestrial insects (e.g. some ants and cockroaches), only two lateral ocelli are present: the median ocellus is absent. Note that the unfortunately labelled 'lateral ocelli' here refers to the sideways facing position of the ocelli, which are of the dorsal type. They should not be confused with the lateral ocelli of some insect larvae (see stemmata)[Wikipedia]." [HAO:0000526, Wikipedia:Ocellus#Ocelli] xref: FBbt:00004507 xref: HAO:0000526 is_a: UBERON:0003161 ! dorsal ocellus [Term] id: UBERON:0003212 name: gustatory organ namespace: uberon def: "Any sense organ that functions in (some) detection of chemical stimulus involved in sensory perception of taste (GO:0050912)." [FBC:auto_generated_definition] synonym: "gustatory organ system organ" EXACT [OBOL:automatic] synonym: "gustatory system organ" EXACT [OBOL:automatic] synonym: "organ of gustatory organ system" EXACT [OBOL:automatic] synonym: "organ of gustatory system" EXACT [OBOL:automatic] synonym: "organ of taste system" EXACT [OBOL:automatic] synonym: "taste organ" EXACT [] synonym: "taste system organ" EXACT [OBOL:automatic] xref: FBbt:00005159 xref: FMA:77853 is_a: UBERON:0000005 ! chemosensory organ relationship: part_of UBERON:0001033 ! gustatory system intersection_of: UBERON:0000062 ! organ intersection_of: has_function_in GO:0050912 ! detection of chemical stimulus involved in sensory perception of taste [Term] id: UBERON:0003214 name: mammary gland alveolus namespace: uberon def: "a sac-like structure that is found in the mature gland[GO]." [GO:0060749] synonym: "alveolus of lactiferous gland" EXACT [OBOL:automatic] synonym: "alveolus of lobe of breast" EXACT [OBOL:automatic] synonym: "alveolus of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "alveolus of mammary gland" EXACT [OBOL:automatic] synonym: "lactiferous alveolus" EXACT [] synonym: "lactiferous gland alveolus" EXACT [] synonym: "lobe of breast alveolus" EXACT [OBOL:automatic] synonym: "lobe of mammary gland alveolus" EXACT [OBOL:automatic] synonym: "mammary alveolus" EXACT [] xref: FMA:73285 xref: MA:0002760 is_a: UBERON:0003215 ! alveolus is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0001911 ! mammary gland relationship: part_of UBERON:0001912 ! lobule of lactiferous gland intersection_of: UBERON:0003215 ! alveolus intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0003215 name: alveolus namespace: uberon def: "organ part that has the form of a hollow cavity[WP]." [Wikipedia:Alveolus] xref: EFO:0002513 xref: EV:0100043 xref: FMA:82493 xref: OpenCyc:Mx4rwN8NFZwpEbGdrcN5Y29ycA xref: UMLS:C0034051 xref: ncithesaurus:Alveolus is_a: UBERON:0000064 ! organ part property_value: has_relational_adjective "alveolar" xsd:string [Term] id: UBERON:0003216 name: hard palate namespace: uberon def: "anterior portion of the palate consisting of bone and mucous membranes[GO]. The hard palate is formed from bony processes of the maxilla, premaxilla and palatine[Kardong]." [GO:0060022, Wikipedia:Hard_palate] comment: In FMA this is divided into bony parts and submucosa subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "hard palate" EXACT [] synonym: "palatum durum" EXACT LATIN [Wikipedia:Hard_palate] xref: EMAPA:18952 xref: FMA:55023 xref: GAID:221 xref: MA:0002477 xref: MAT:0000161 xref: MESH:A02.835.232.781.324.502.660 xref: MIAA:0000161 xref: SCTID:245778002 xref: UMLS:C0226901 xref: http://upload.wikimedia.org/wikipedia/commons/f/f6/Illu_mouth.jpg xref: ncithesaurus:Hard_Palate is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001716 ! secondary palate [Term] id: UBERON:0003217 name: neural lobe of neurohypophysis namespace: uberon def: "The posterior pituitary (or neurohypophysis) comprises the posterior lobe of the pituitary gland and is part of the endocrine system. Despite its name, the posterior pituitary gland is not a gland, per se; rather, it is largely a collection of axonal projections from the hypothalamus that terminate behind the anterior pituitary gland. [WP,unvetted]." [Wikipedia:Neurohypophysis#cite_note-1] comment: TODO - compare with UBERON:0002198 subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pars nervosa" RELATED [MA:0000860] synonym: "pars nervosa (neurohypophysis)" EXACT LATIN [FMA:74636, FMA:TA] synonym: "pars nervosa neurohypophysis" EXACT LATIN [FMA:74636, FMA:TA] synonym: "pars nervosa of hypophysis" EXACT [] synonym: "pars nervosa of neurohypophysis" EXACT [] synonym: "pars nervosa of posterior lobe of pituitary gland" EXACT [] synonym: "pars nervosa pituitary gland" EXACT [NIF_GrossAnatomy:birnlex_941] synonym: "pars posterior" EXACT [MA:0000860] synonym: "posterior lobe" BROAD [BTO:0000561] synonym: "posterior lobe of neurohypophysis" EXACT [FMA:74636] synonym: "posterior lobe-3" EXACT [] xref: BTO:0000561 xref: EHDAA2:0001418 xref: EHDAA:7542 xref: FMA:74636 xref: MA:0000860 xref: NIF_GrossAnatomy:birnlex_941 xref: SCTID:424523008 xref: VHOG:0001180 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b9/Pituitary_gland_representation.PNG/200px-Pituitary_gland_representation.PNG is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002198 ! neurohypophysis property_value: homology_notes "It (the hypophysis) develops embryonically in all vertebrates from two ectodermal evaginations that meet and unite. An infundibulum grows ventrally from the diencephalon of the brain, and Rathke's pouch extends dorsally from the roof of the developing mouth, or stomodaeum. The infundibulum remains connected to the floor of the diencephalon, which becomes the hypothalamus, and gives rise to the part of the gland known as the neurohypophysis. (...) Rathke's pouch loses its connection with the stomodaeum in most adult vertebrates and gives rise to the rest of the gland, the adenohypophysis. (...) A well-developed hypophyseal system with functional connections to the hypothalamus is unique to craniates.[well established][VHOG]" xsd:string [Term] id: UBERON:0003218 name: ovary septum namespace: uberon def: "Septum that divides the ovary, the basal portion of a carpel or group of fused carpels, that encloses the ovule(s)[GO]." [GO:0080126] is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003037 ! septum intersection_of: part_of UBERON:0000992 ! female gonad [Term] id: UBERON:0003219 name: shell septum namespace: uberon def: "Septum that divides the internal chambers (camerae) of the shell of a cephalopod, namely nautiloids or ammonoids." [GO:0080126, Wikipedia:Septum_(marine_biology)] intersection_of: UBERON:0003037 ! septum intersection_of: part_of UBERON:0006612 ! shell [Term] id: UBERON:0003220 name: metanephric mesenchyme namespace: uberon def: "one of the two embryological structures that give rise to the kidney (the other is the ureteric bud). The metanephric blastema mostly develops into nephrons, but can also form parts of the collecting duct system.[WP]. Metanephric mesenchyme is the tissue made up of loosely connected mesenchymal cells in the metanephros[GO]" [GO:0072075, Wikipedia:Metanephric_blastema] comment: Genes: The positional specification of the metanephrogenic mesenchyme is negatively regulated by Foxc1 and Foxc2. Next the permanent kidney forming metanephrogenic mesenchyme is specified by Hox11 genes. The competence to respond to ureteric bud inducers is regulated by WT1. GDNF secretion restricted to posterior region by Robo2 and Sprouty1. The receptors for GDNF are synthesized in the nephric ducts and later in ureteric buds [ISBN:9780878932504 \"Developmental Biology\"] synonym: "metanephric blastema" EXACT [Wikipedia:Metanephric_blastema] synonym: "metanephric mesoderm" EXACT [Wikipedia:Metanephric_blastema] synonym: "metanephrogenic mesenchyme" EXACT [EHDAA:5021] synonym: "metanephros associated mesenchyme" EXACT [RETIRED_EHDAA2:0001139] xref: EHDAA2:0004062 xref: EHDAA:4041 xref: EHDAA:5021 xref: EHDAA:5915 xref: EMAPA:17208 xref: EMAPA:17375 xref: EMAPA:29990 xref: SCTID:361529008 xref: VHOG:0000540 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003918 ! kidney mesenchyme is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003074 ! mesonephric duct relationship: induced_by UBERON:0000084 ! ureteric bud relationship: part_of UBERON:0000922 ! embryo intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_into UBERON:0000081 ! metanephros property_value: external_definition "A mass of intermediate mesodermal cells around the distal end of the ureteric bud that gives rise to nephrons in the metanephric kidney. [TFD][VHOG]" xsd:string property_value: homology_notes "When the ureteric buds emerge from the nephric duct, they enter the metanephrogenic mesenchyme. The ureteric buds induce this mesenchymal tissue to condense around them and differentiate into the nephrons of the mammalian kidney. As this mesenchyme differentiates, it tells the ureteric bud to branch and grow.[well established][VHOG]" xsd:string [Term] id: UBERON:0003221 name: phalanx namespace: uberon def: "Endochondral bones that are often elongate and arranged in rows of articulating elements, and form the visible part of the digits." [VSAO:0000199, Wikipedia:Phalanx_bones] comment: Taxon notes: In primates such as humans and monkeys, the thumb and big toe have two phalanges, while the other fingers and toes consist of three[WP] synonym: "digit long bone" EXACT [OBOL:automatic] synonym: "long bone of digit" EXACT [OBOL:automatic] synonym: "phalange" EXACT [] synonym: "phalanges" EXACT PLURAL [] synonym: "phalanx bone" EXACT [Wikipedia:Phalanx_bones] xref: MA:0000304 xref: OpenCyc:Mx4rvolPZpwpEbGdrcN5Y29ycA xref: SCTID:290029003 xref: UMLS:C0222682 xref: VSAO:0000199 xref: galen:Phalanx xref: ncithesaurus:Phalanx is_a: UBERON:0002495 ! long bone is_a: UBERON:0003606 ! limb long bone is_a: UBERON:0012357 ! digitopodium bone relationship: develops_from UBERON:0010701 ! phalanx cartilage condensation relationship: part_of UBERON:0010543 ! acropodial skeleton intersection_of: UBERON:0002495 ! long bone intersection_of: part_of UBERON:0002544 ! digit property_value: has_relational_adjective "phalangeal" xsd:string [Term] id: UBERON:0003222 name: flexor digitorum superficialis namespace: uberon def: "an extrinsic flexor muscle of the fingers at the proximal interphalangeal joints. The muscle has two classically described heads - the humeroulnar and radial - and it is between these heads that the median nerve and ulnar artery pass. The ulnar collateral ligament of elbow joint gives its origin to part of this muscle. The primary function of flexor digitorum superficialis is flexion of the middle phalanges of the fingers at the proximal interphalangeal joints, however under continued action it also flexes the metacarpophalangeal joints and wrist joint[WP]." [Wikipedia:Flexor_digitorum_superficialis_muscle] synonym: "flexor digitorum superficialis muscle" EXACT [Wikipedia:Flexor_digitorum_superficialis_muscle] synonym: "musculus flexor digitorum superficialis" RELATED LATIN [Wikipedia:Flexor_digitorum_superficialis_muscle] xref: FMA:38469 xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray421.png is_a: UBERON:0004254 ! forelimb zeugopod muscle relationship: has_muscle_antagonist UBERON:0007612 ! extensor digitorum communis relationship: has_muscle_insertion UBERON:0004301 ! middle phalanx relationship: has_muscle_origin UBERON:0006806 ! entepicondyle of humerus relationship: innervated_by UBERON:0001148 ! median nerve [Term] id: UBERON:0003224 name: chorion syncytiotrophoblast namespace: uberon def: "An extraembryonic structure that develops_from a syncytiotrophoblast and is part of a chorion." [OBOL:automatic] comment: todo - check xref: EHDAA2:0001973 xref: EHDAA:156 is_a: UBERON:0003265 ! chorionic mesoderm intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: develops_from UBERON:0000371 ! syncytiotrophoblast intersection_of: part_of UBERON:0003124 ! chorion [Term] id: UBERON:0003228 name: supinator muscle namespace: uberon def: "a muscle which originates on the distal humerus, inserts on the radius and accomplishes supination (rotation of the wrist)." [Wikipedia:Supinator_muscle] comment: TODO: The term \"supinator\" can also refer more generally to a muscle that causes supination of a part of the body. In older texts, the term \"supinator longus\" was used to refer to the brachioradialis, and \"supinator brevis\" was used to the muscle now known as the supinator. synonym: "musculus supinator" RELATED LATIN [Wikipedia:Supinator_muscle] synonym: "supinator" EXACT [] synonym: "supinator brevus" RELATED DEPRECATED [Wikipedia:Supinator_muscle] xref: FMA:38512 xref: FMA:75002 xref: SCTID:181634007 xref: http://upload.wikimedia.org/wikipedia/commons/c/c6/Gray420.png is_a: UBERON:0004254 ! forelimb zeugopod muscle relationship: has_muscle_antagonist UBERON:0001520 ! pronator teres relationship: has_muscle_insertion UBERON:0001423 ! radius bone relationship: has_muscle_origin UBERON:0001424 ! ulna relationship: has_muscle_origin UBERON:0006807 ! ectepicondyle of humerus relationship: innervated_by UBERON:0001492 ! radial nerve [Term] id: UBERON:0003229 name: epithelium of elbow namespace: uberon def: "An epithelium that is part of a elbow [Automatically generated definition]." [OBOL:automatic] synonym: "cubital region epithelial tissue" EXACT [OBOL:automatic] synonym: "cubital region epithelium" EXACT [OBOL:automatic] synonym: "elbow epithelial tissue" EXACT [OBOL:automatic] synonym: "elbow epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of cubital region" EXACT [OBOL:automatic] synonym: "epithelial tissue of elbow" EXACT [OBOL:automatic] synonym: "epithelium of cubital region" EXACT [OBOL:automatic] xref: EHDAA2:0000430 xref: EHDAA:4168 xref: EHDAA:6214 xref: EMAPA:17415 xref: VHOG:0001044 is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001461 ! elbow [Term] id: UBERON:0003230 name: epithelium of carpal region namespace: uberon def: "An epithelium that is part of a wrist [Automatically generated definition]." [OBOL:automatic] synonym: "carpal region epithelial tissue" EXACT [OBOL:automatic] synonym: "carpal region epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of carpal region" EXACT [OBOL:automatic] synonym: "epithelial tissue of wrist" EXACT [OBOL:automatic] synonym: "epithelium of wrist" EXACT [OBOL:automatic] synonym: "wrist epithelial tissue" EXACT [OBOL:automatic] synonym: "wrist epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0000219 xref: EHDAA:5198 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0004452 ! carpal region [Term] id: UBERON:0003231 name: epithelium of hip namespace: uberon def: "An epithelium that is part of a hip [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of hip" EXACT [OBOL:automatic] synonym: "epithelial tissue of hip region" EXACT [OBOL:automatic] synonym: "epithelial tissue of regio coxae" EXACT [OBOL:automatic] synonym: "epithelium of hip region" EXACT [OBOL:automatic] synonym: "epithelium of regio coxae" EXACT [OBOL:automatic] synonym: "hip epithelial tissue" EXACT [OBOL:automatic] synonym: "hip epithelium" EXACT [OBOL:automatic] synonym: "hip region epithelial tissue" EXACT [OBOL:automatic] synonym: "hip region epithelium" EXACT [OBOL:automatic] synonym: "regio coxae epithelial tissue" EXACT [OBOL:automatic] synonym: "regio coxae epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0000784 xref: EHDAA:5155 xref: EHDAA:6180 xref: EMAPA:17491 xref: VHOG:0000779 is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003371 ! pelvic appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001464 ! hip [Term] id: UBERON:0003232 name: epithelium of knee namespace: uberon def: "An epithelium that is part of a knee [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of knee" EXACT [OBOL:automatic] synonym: "knee epithelial tissue" EXACT [OBOL:automatic] synonym: "knee epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0000896 xref: EHDAA:5161 xref: EHDAA:6186 xref: EMAPA:17494 xref: VHOG:0000810 is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003371 ! pelvic appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001465 ! knee [Term] id: UBERON:0003233 name: epithelium of shoulder namespace: uberon def: "An epithelium that is part of a shoulder [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of shoulder" EXACT [OBOL:automatic] synonym: "shoulder epithelial tissue" EXACT [OBOL:automatic] synonym: "shoulder epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001835 xref: EHDAA:4182 xref: EHDAA:6230 xref: EMAPA:17422 xref: VHOG:0000761 is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003234 name: extensor pollicis longus muscle namespace: uberon def: "The Extensor pollicis longus is much larger than the Extensor pollicis brevis muscle, the origin of which it partly covers." [Wikipedia:Extensor_pollicis_longus_muscle] synonym: "extensor pollicis longis" RELATED [Wikipedia:Extensor_pollicis_longus_muscle] synonym: "extensor pollicis longus" EXACT [FMA:38521] synonym: "musculus extensor pollicis longus" RELATED LATIN [Wikipedia:Extensor_pollicis_longus_muscle] xref: FMA:38521 xref: SCTID:361820003 xref: http://upload.wikimedia.org/wikipedia/commons/3/3e/Extensor_pollicis_longus_muscle.png is_a: UBERON:0011024 ! extrinsic extensor muscle of manus relationship: has_muscle_antagonist UBERON:0008446 ! flexor pollicis longus muscle relationship: has_muscle_antagonist UBERON:0011012 ! flexor pollicis brevis muscle relationship: has_muscle_insertion UBERON:0001463 ! manual digit 1 relationship: has_muscle_insertion UBERON:0004300 ! distal phalanx relationship: has_muscle_origin UBERON:0001424 ! ulna [Term] id: UBERON:0003235 name: epithelium of upper jaw namespace: uberon def: "An epithelium that is part of a upper jaw [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of palatoquadrate arch" EXACT [OBOL:automatic] synonym: "epithelial tissue of upper jaw" EXACT [OBOL:automatic] synonym: "epithelium of palatoquadrate arch" EXACT [OBOL:automatic] synonym: "palatoquadrate arch epithelial tissue" EXACT [OBOL:automatic] synonym: "palatoquadrate arch epithelium" EXACT [OBOL:automatic] synonym: "upper jaw epithelial tissue" EXACT [OBOL:automatic] synonym: "upper jaw epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0002119 xref: EHDAA:8027 xref: EMAPA:17943 xref: EMAPA:18971 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0003236 name: epithelium of lower jaw namespace: uberon def: "An epithelium that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lower jaw" EXACT [OBOL:automatic] synonym: "epithelial tissue of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "epithelium of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "lower jaw epithelial tissue" EXACT [OBOL:automatic] synonym: "lower jaw epithelium" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelial tissue" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001019 xref: EHDAA:7999 xref: EMAPA:17922 xref: EMAPA:18968 xref: VHOG:0000802 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003238 name: epithelium of superior semicircular canal namespace: uberon def: "An epithelium that is part of an anterior semicircular canal [Automatically generated definition]." [OBOL:automatic] synonym: "anterior semicircular canal epithelial tissue" EXACT [OBOL:automatic] synonym: "anterior semicircular canal epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of anterior semicircular canal" EXACT [OBOL:automatic] synonym: "epithelial tissue of superior semicircular canal" EXACT [OBOL:automatic] synonym: "epithelium of anterior semicircular canal" EXACT [OBOL:automatic] synonym: "superior semicircular canal epithelial tissue" EXACT [OBOL:automatic] synonym: "superior semicircular canal epithelium" EXACT [OBOL:automatic] xref: EHDAA:7806 xref: EMAPA:17301 xref: RETIRED_EHDAA2:0001961 xref: VHOG:0001039 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001841 ! anterior semicircular canal [Term] id: UBERON:0003239 name: epithelium of posterior semicircular canal namespace: uberon def: "An epithelium that is part of a posterior semicircular canal [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of posterior semicircular canal" EXACT [OBOL:automatic] synonym: "posterior semicircular canal epithelial tissue" EXACT [OBOL:automatic] synonym: "posterior semicircular canal epithelium" EXACT [OBOL:automatic] xref: EHDAA:7800 xref: EMAPA:17298 xref: RETIRED_EHDAA2:0001491 xref: VHOG:0000758 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001842 ! posterior semicircular canal [Term] id: UBERON:0003240 name: epithelium of lateral semicircular canal namespace: uberon def: "An epithelium that is part of a lateral semicircular canal [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lateral semicircular canal" EXACT [OBOL:automatic] synonym: "lateral semicircular canal epithelial tissue" EXACT [OBOL:automatic] synonym: "lateral semicircular canal epithelium" EXACT [OBOL:automatic] xref: EHDAA:7794 xref: EMAPA:17823 xref: RETIRED_EHDAA2:0000922 xref: VHOG:0000480 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001843 ! lateral semicircular canal [Term] id: UBERON:0003241 name: epithelium of utricle namespace: uberon def: "An epithelium that is part of a utricle of membranous labyrinth [Automatically generated definition]." [OBOL:automatic] comment: todo - check relationships w.r.t macula synonym: "epithelial tissue of membranous labyrinth utricle" EXACT [OBOL:automatic] synonym: "epithelial tissue of utricle" EXACT [OBOL:automatic] synonym: "epithelial tissue of utricle of membranous labyrinth" EXACT [OBOL:automatic] synonym: "epithelial tissue of utriculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "epithelium of macula of utricle of membranous labyrinth" NARROW [FMA:75604] synonym: "epithelium of membranous labyrinth utricle" EXACT [OBOL:automatic] synonym: "epithelium of utricle of membranous labyrinth" EXACT [OBOL:automatic] synonym: "epithelium of utriculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "membranous labyrinth utricle epithelial tissue" EXACT [OBOL:automatic] synonym: "membranous labyrinth utricle epithelium" EXACT [OBOL:automatic] synonym: "utricle epithelial tissue" EXACT [OBOL:automatic] synonym: "utricle epithelium" EXACT [OBOL:automatic] synonym: "utricle of membranous labyrinth epithelial tissue" EXACT [OBOL:automatic] synonym: "utricle of membranous labyrinth epithelium" EXACT [OBOL:automatic] synonym: "utriculus (labyrinthus vestibularis) epithelial tissue" EXACT [OBOL:automatic] synonym: "utriculus (labyrinthus vestibularis) epithelium" EXACT [OBOL:automatic] xref: EHDAA:4730 xref: EMAPA:17295 xref: EMAPA:17298 xref: EMAPA:17301 xref: EMAPA:17820 xref: EMAPA:17823 xref: FMA:75604 xref: MA:0001204 xref: RETIRED_EHDAA2:0002155 xref: VHOG:0000634 is_a: UBERON:0006932 ! vestibular epithelium is_a: UBERON:0006934 ! sensory epithelium relationship: has_part CL:0002316 ! supporting cell of vestibular epithelium relationship: has_part CL:1000379 ! type 1 vestibular sensory cell of epithelium of macula of utricle of membranous labyrinth relationship: has_part CL:1000383 ! type 2 vestibular sensory cell of epithelium of macula of utricle of membranous labyrinth relationship: part_of UBERON:0002214 ! macula of utricle of membranous labyrinth intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001853 ! utricle of membranous labyrinth [Term] id: UBERON:0003242 name: epithelium of saccule namespace: uberon def: "An epithelium that is part of a saccule of membranous labyrinth [Automatically generated definition]." [OBOL:automatic] comment: todo - check relationships w.r.t macula synonym: "epithelial tissue of membranous labyrinth saccule" EXACT [OBOL:automatic] synonym: "epithelial tissue of saccule" EXACT [OBOL:automatic] synonym: "epithelial tissue of saccule of membranous labyrinth" EXACT [OBOL:automatic] synonym: "epithelial tissue of sacculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "epithelium of macula of saccule of membranous labyrinth" RELATED [FMA:75605] synonym: "epithelium of membranous labyrinth saccule" EXACT [OBOL:automatic] synonym: "epithelium of saccule of membranous labyrinth" EXACT [OBOL:automatic] synonym: "epithelium of sacculus (labyrinthus vestibularis)" EXACT [OBOL:automatic] synonym: "membranous labyrinth saccule epithelial tissue" EXACT [OBOL:automatic] synonym: "membranous labyrinth saccule epithelium" EXACT [OBOL:automatic] synonym: "saccule epithelial tissue" EXACT [OBOL:automatic] synonym: "saccule epithelium" EXACT [OBOL:automatic] synonym: "saccule of membranous labyrinth epithelial tissue" EXACT [OBOL:automatic] synonym: "saccule of membranous labyrinth epithelium" EXACT [OBOL:automatic] synonym: "sacculus (labyrinthus vestibularis) epithelial tissue" EXACT [OBOL:automatic] synonym: "sacculus (labyrinthus vestibularis) epithelium" EXACT [OBOL:automatic] xref: EHDAA:4724 xref: EMAPA:17292 xref: FMA:75605 xref: MA:0001202 xref: RETIRED_EHDAA2:0001771 xref: VHOG:0000633 is_a: UBERON:0006932 ! vestibular epithelium is_a: UBERON:0006934 ! sensory epithelium relationship: has_part CL:0002316 ! supporting cell of vestibular epithelium relationship: has_part CL:1000380 ! type 1 vestibular sensory cell of epithelium of macula of saccule of membranous labyrinth relationship: has_part CL:1000384 ! type 2 vestibular sensory cell of epithelium of macula of saccule of membranous labyrinth intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001854 ! saccule of membranous labyrinth [Term] id: UBERON:0003243 name: epithelium of cochlear duct namespace: uberon def: "An epithelium that is part of a cochlear duct of membranous labyrinth [Automatically generated definition]." [OBOL:automatic] synonym: "Reissner's canal epithelial tissue" EXACT [OBOL:automatic] synonym: "Reissner's canal epithelium" EXACT [OBOL:automatic] synonym: "cochlear duct epithelial tissue" EXACT [OBOL:automatic] synonym: "cochlear duct epithelium" EXACT [OBOL:automatic] synonym: "cochlear duct of membranous labyrinth epithelial tissue" EXACT [OBOL:automatic] synonym: "cochlear duct of membranous labyrinth epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of Reissner's canal" EXACT [OBOL:automatic] synonym: "epithelial tissue of cochlear duct" EXACT [OBOL:automatic] synonym: "epithelial tissue of cochlear duct of membranous labyrinth" EXACT [OBOL:automatic] synonym: "epithelium of Reissner's canal" EXACT [OBOL:automatic] synonym: "epithelium of cochlear duct of membranous labyrinth" EXACT [OBOL:automatic] xref: EHDAA:4722 xref: EMAPA:17600 xref: RETIRED_EHDAA2:0000264 xref: VHOG:0000640 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001855 ! cochlear duct of membranous labyrinth [Term] id: UBERON:0003244 name: epithelium of mammary gland namespace: uberon def: "An epithelium that is part of a lactiferous gland [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lactiferous gland" EXACT [OBOL:automatic] synonym: "epithelial tissue of lobe of breast" EXACT [OBOL:automatic] synonym: "epithelial tissue of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "epithelial tissue of mammary gland" EXACT [OBOL:automatic] synonym: "epithelium of lactiferous gland" EXACT [FMA:74445] synonym: "epithelium of lobe of breast" EXACT [OBOL:automatic] synonym: "epithelium of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "lactiferous gland epithelial tissue" EXACT [OBOL:automatic] synonym: "lactiferous gland epithelium" EXACT [OBOL:automatic] synonym: "lobe of breast epithelial tissue" EXACT [OBOL:automatic] synonym: "lobe of breast epithelium" EXACT [OBOL:automatic] synonym: "lobe of mammary gland epithelial tissue" EXACT [OBOL:automatic] synonym: "lobe of mammary gland epithelium" EXACT [OBOL:automatic] synonym: "mammary epithelium" EXACT [BTO:0001430] synonym: "mammary gland epithelial tissue" EXACT [OBOL:automatic] synonym: "mammary gland epithelium" EXACT [OBOL:automatic] xref: BTO:0001430 xref: EHDAA2:0001057 xref: EHDAA:6526 xref: EMAPA:17760 xref: FMA:74445 xref: MA:0000792 xref: UMLS:C0596882 xref: VHOG:0001088 xref: ncithesaurus:Mammary_Epithelium is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0011272 ! embryonic skin basal layer intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0003246 name: epithelium of endolymphatic sac namespace: uberon def: "An epithelium that is part of a endolymphatic sac [Automatically generated definition]." [OBOL:automatic] synonym: "endolymphatic sac epithelial tissue" EXACT [OBOL:automatic] synonym: "endolymphatic sac epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of endolymphatic sac" EXACT [OBOL:automatic] xref: EHDAA:7765 xref: EMAPA:17595 xref: RETIRED_EHDAA2:0000443 is_a: UBERON:0006937 ! inner ear epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002223 ! endolymphatic sac [Term] id: UBERON:0003247 name: epithelium of forearm namespace: uberon def: "An epithelium that is part of a lower arm [Automatically generated definition]." [OBOL:automatic] synonym: "antebrachial region epithelial tissue" EXACT [OBOL:automatic] synonym: "antebrachial region epithelium" EXACT [OBOL:automatic] synonym: "arm middle limb segment epithelial tissue" EXACT [OBOL:automatic] synonym: "arm middle limb segment epithelium" EXACT [OBOL:automatic] synonym: "arm zeugopod epithelial tissue" EXACT [OBOL:automatic] synonym: "arm zeugopod epithelium" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment epithelial tissue" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment epithelium" EXACT [OBOL:automatic] synonym: "brachial region zeugopod epithelial tissue" EXACT [OBOL:automatic] synonym: "brachial region zeugopod epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of antebrachial region" EXACT [OBOL:automatic] synonym: "epithelial tissue of arm middle limb segment" EXACT [OBOL:automatic] synonym: "epithelial tissue of arm zeugopod" EXACT [OBOL:automatic] synonym: "epithelial tissue of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "epithelial tissue of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "epithelial tissue of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "epithelial tissue of lower arm" EXACT [OBOL:automatic] synonym: "epithelial tissue of lower segment of arm" EXACT [OBOL:automatic] synonym: "epithelial tissue of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "epithelial tissue of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "epithelial tissue of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "epithelial tissue of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "epithelial tissue of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "epithelial tissue of zeugopod of arm" EXACT [OBOL:automatic] synonym: "epithelial tissue of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "epithelial tissue of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "epithelium of antebrachial region" EXACT [OBOL:automatic] synonym: "epithelium of arm middle limb segment" EXACT [OBOL:automatic] synonym: "epithelium of arm zeugopod" EXACT [OBOL:automatic] synonym: "epithelium of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "epithelium of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "epithelium of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "epithelium of lower arm" EXACT [OBOL:automatic] synonym: "epithelium of lower segment of arm" EXACT [OBOL:automatic] synonym: "epithelium of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "epithelium of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "epithelium of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "epithelium of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "epithelium of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "epithelium of zeugopod of arm" EXACT [OBOL:automatic] synonym: "epithelium of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "epithelium of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "intermediate segment of free upper limb epithelial tissue" EXACT [OBOL:automatic] synonym: "intermediate segment of free upper limb epithelium" EXACT [OBOL:automatic] synonym: "lower arm epithelial tissue" EXACT [OBOL:automatic] synonym: "lower arm epithelium" EXACT [OBOL:automatic] synonym: "lower segment of arm epithelial tissue" EXACT [OBOL:automatic] synonym: "lower segment of arm epithelium" EXACT [OBOL:automatic] synonym: "middle limb segment of arm epithelial tissue" EXACT [OBOL:automatic] synonym: "middle limb segment of arm epithelium" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region epithelial tissue" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region epithelium" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb epithelial tissue" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb epithelium" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment epithelial tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment epithelium" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod epithelial tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod epithelium" EXACT [OBOL:automatic] synonym: "zeugopod of arm epithelial tissue" EXACT [OBOL:automatic] synonym: "zeugopod of arm epithelium" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region epithelial tissue" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region epithelium" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb epithelial tissue" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0000554 xref: EHDAA:4174 xref: EHDAA:6220 xref: EMAPA:17418 xref: VHOG:0001096 is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002386 ! forelimb zeugopod [Term] id: UBERON:0003248 name: epithelium of footplate namespace: uberon def: "An epithelium that is part of a footplate." [OBOL:automatic] synonym: "foot plate epithelium" EXACT [] synonym: "footplate epithelium" EXACT [EHDAA2:0000548] xref: EHDAA2:0000548 xref: EHDAA:5145 xref: EHDAA:6144 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0006871 ! footplate [Term] id: UBERON:0003249 name: epithelium of otic placode namespace: uberon def: "An epithelium that is part of a otic placode [Automatically generated definition]." [OBOL:automatic] comment: editor note - check ZFA, placemeant, appears to refer to both adult structures and primordium synonym: "epithelial tissue of otic placode" EXACT [OBOL:automatic] synonym: "otic epithelium" EXACT [UBERON:cjm] synonym: "otic placode epithelial tissue" EXACT [OBOL:automatic] synonym: "otic placode epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001341 xref: EHDAA:510 xref: EMAPA:16197 xref: VHOG:0000636 xref: ZFA:0007068 is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003069 ! otic placode [Term] id: UBERON:0003250 name: rectus capitis lateralis namespace: uberon def: "The Rectus capitis lateralis, a short, flat muscle, arises from the upper surface of the transverse process of the atlas, and is inserted into the under surface of the jugular process of the occipital bone." [Wikipedia:Rectus_capitis_lateralis_muscle] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "lateral rectus capitis" EXACT [FMA:46316] synonym: "musculus rectus capitis lateralis" RELATED LATIN [Wikipedia:Rectus_capitis_lateralis_muscle] synonym: "rectus capitis lateralis" RELATED [Wikipedia:Rectus_capitis_lateralis_muscle] synonym: "rectus capitus lateralis" RELATED [Wikipedia:Rectus_capitis_lateralis_muscle] synonym: "rectus capitus lateralis muscle" RELATED [Wikipedia:Rectus_capitis_lateralis_muscle] xref: FMA:46316 xref: SCTID:244841001 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Rectus_capitis_lateralis_muscle.PNG is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_origin UBERON:0001077 ! transverse process of vertebra relationship: has_muscle_origin UBERON:0001092 ! cervical vertebra 1 [Term] id: UBERON:0003251 name: temporal part of head namespace: uberon comment: Editor notes: see UBERONREF:0000007 'temporal region' synonym: "temporal region" RELATED [FMA:63867] synonym: "temporal region of head" RELATED [FMA:63867] xref: FMA:63867 xref: SCTID:362620003 is_a: UBERON:0001444 ! subdivision of head [Term] id: UBERON:0003252 name: rib cage namespace: uberon def: "Subdivision of skeletal system that consists of all ribs in an organism connected via the sternum." [UBERON:cjm, Wikipedia:Rib_cage] synonym: "cavea thoracis" EXACT LATIN [FMA:7480, FMA:TA, Wikipedia:Human_rib_cage] synonym: "rib series" EXACT [TAO:0002100] synonym: "thoracic cage" EXACT [FMA:7480] xref: FMA:7480 xref: SCTID:361741004 xref: TAO:0002100 xref: galen:RibCage xref: http://upload.wikimedia.org/wikipedia/commons/8/88/Gray112.png is_a: UBERON:0000075 ! subdivision of skeletal system is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002090 ! postcranial axial skeleton property_value: never_in_taxon NCBITaxon:7778 property_value: external_definition "Anatomical cluster that consists of more than one rib in an individual.[TAO]" xsd:string [Term] id: UBERON:0003253 name: neck of rib namespace: uberon def: "The neck of the rib is the flattened portion which extends lateralward from the head; it is about 2.5 cm. long, and is placed in front of the transverse process of the lower of the two vertebrC& with which the head articulates. Its anterior surface is flat and smooth, its posterior rough for the attachment of the ligament of the neck, and perforated by numerous foramina. Of its two borders the superior presents a rough crest (crista colli costE) for the attachment of the anterior costotransverse ligament; its inferior border is rounded. On the posterior surface at the junction of the neck and body, and nearer the lower than the upper border, is an eminencebthe tubercle; it consists of an articular and a non-articular portion. The articular portion, the lower and more medial of the two, presents a small, oval surface for articulation with the end of the transverse process of the lower of the two vertebrC& to which the head is connected. The non-articular portion is a rough elevation, and affords attachment to the ligament of the tubercle. The tubercle is much more prominent in the upper than in the lower ribs." [Wikipedia:Neck_of_rib] synonym: "collum costae" EXACT LATIN [Wikipedia:Neck_of_rib] synonym: "rib neck" EXACT [FMA:7576] xref: FMA:7576 xref: SCTID:263359009 xref: http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray122.png is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0010388 ! proximal segment of rib intersection_of: UBERON:0001560 ! neck of organ intersection_of: part_of UBERON:0002228 ! rib [Term] id: UBERON:0003254 name: amniotic ectoderm namespace: uberon alt_id: UBERON:0008359 comment: Editor note: we make the germ layer relationship develops_from, as currently the germ layers are declared to be purely embryonic. TODO - check. WP:Amnion - In the human embryo the earliest stages of the formation of the amnion have not been observed; in the youngest embryo which has been studied the amnion was already present as a closed sac, and appears in the inner cell-mass as a cavity. This cavity is roofed in by a single stratum of flattened, ectodermal cells, the amniotic ectoderm, and its floor consists of the prismatic ectoderm of the embryonic diskbthe continuity between the roof and floor being established at the margin of the embryonic disk. Outside the amniotic ectoderm is a thin layer of mesoderm, which is continuous with that of the somatopleure and is connected by the body-stalk with the mesodermal lining of the chorion. synonym: "amnion ectoderm" EXACT [EHDAA2:0000117, OBOL:automatic] synonym: "amnion epithelium" RELATED [BTO:0000897] synonym: "amnionic ectoderm" EXACT [ISBN:9780878932504] xref: BTO:0000897 xref: EHDAA2:0000117 xref: EHDAA:138 xref: EMAPA:16110 xref: VHOG:0000621 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005292 ! extraembryonic tissue is_a: UBERON:0010303 ! extraembryonic epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0002532 ! epiblast (generic) relationship: part_of UBERON:0000305 ! amnion [Term] id: UBERON:0003255 name: obsolete ectoderm of embryo namespace: uberon is_obsolete: true comment: deleted because the original definition was unclear. Me may reconstitute this and to distinguish extramebryonic from embryonic germ layers. See amniotic ectoderm and amniotic mesoderm synonym: "developmental tissue ectoderm" EXACT [OBOL:automatic] synonym: "ectoderm of developmental tissue" EXACT [OBOL:automatic] synonym: "embryo ectoderm" EXACT [OBOL:automatic] xref: EHDAA:132 [Term] id: UBERON:0003256 name: obsolete endoderm of embryo namespace: uberon is_obsolete: true comment: deleted because the original definition was unclear. Me may reconstitute this and to distinguish extramebryonic from embryonic germ layers. See amniotic ectoderm and amniotic mesoderm synonym: "developmental tissue endoderm" EXACT [OBOL:automatic] synonym: "embryo endoderm" EXACT [OBOL:automatic] synonym: "endoderm of developmental tissue" EXACT [OBOL:automatic] xref: EHDAA:94 [Term] id: UBERON:0003257 name: yolk sac endoderm namespace: uberon def: "An extraembryonic structure that develops_from a endoderm and is part of a yolk sac." [OBOL:automatic] comment: TODO - check xref: EHDAA2:0002215 xref: EHDAA:166 xref: EMAPA:16086 xref: VHOG:0000626 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000478 ! extraembryonic structure intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001040 ! yolk sac [Term] id: UBERON:0003258 name: endoderm of foregut namespace: uberon def: "An endoderm that is part of a foregut [Automatically generated definition]." [OBOL:automatic] comment: TODO - check synonym: "foregut endoderm" EXACT [OBOL:automatic] xref: EHDAA2:0000566 xref: EHDAA:524 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0003259 name: endoderm of midgut namespace: uberon def: "An endoderm that is part of a midgut [Automatically generated definition]." [OBOL:automatic] comment: TODO - check synonym: "midgut endoderm" EXACT [OBOL:automatic] xref: EHDAA:987 xref: EMAPA:16257 xref: RETIRED_EHDAA2:0001194 xref: VHOG:0001080 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001045 ! midgut [Term] id: UBERON:0003260 name: endoderm of hindgut namespace: uberon def: "An endoderm that is part of a hindgut [Automatically generated definition]." [OBOL:automatic] comment: TODO - check synonym: "hindgut endoderm" EXACT [OBOL:automatic] xref: EHDAA:979 xref: RETIRED_EHDAA2:0000781 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001046 ! hindgut [Term] id: UBERON:0003261 name: thyroid primordium endoderm namespace: uberon alt_id: UBERON:0005235 def: "An endoderm that is part of a thyroid primordium." [OBOL:automatic] synonym: "endoderm of thyroid primordium" EXACT [OBOL:automatic] xref: EHDAA:956 xref: EMAPA:16560 xref: EMAPA:25357 xref: RETIRED_EHDAA2:0002035 xref: VHOG:0001089 is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0003091 ! thyroid primordium [Term] id: UBERON:0003262 name: amniotic mesoderm namespace: uberon alt_id: UBERON:0003411 comment: Editor note: we make the germ layer relationship develops_from, as currently the germ layers are declared to be purely embryonic. TODO - check. WP:Amnion - In the human embryo the earliest stages of the formation of the amnion have not been observed; in the youngest embryo which has been studied the amnion was already present as a closed sac, and appears in the inner cell-mass as a cavity. This cavity is roofed in by a single stratum of flattened, ectodermal cells, the amniotic ectoderm, and its floor consists of the prismatic ectoderm of the embryonic diskbthe continuity between the roof and floor being established at the margin of the embryonic disk. Outside the amniotic ectoderm is a thin layer of mesoderm, which is continuous with that of the somatopleure and is connected by the body-stalk with the mesodermal lining of the chorion. synonym: "amnion mesenchyme" EXACT [EHDAA2:0000118] synonym: "amnion mesoderm" EXACT [OBOL:automatic] synonym: "mesenchyme of amnion" EXACT [EMAPA:16265] xref: EHDAA2:0000118 xref: EHDAA:140 xref: EMAPA:16111 xref: EMAPA:16265 xref: VHOG:0000622 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005292 ! extraembryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010333 ! extraembryonic membrane mesenchyme is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0005728 ! extraembryonic mesoderm relationship: part_of UBERON:0000305 ! amnion intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000305 ! amnion [Term] id: UBERON:0003264 name: mesoderm of yolk sac namespace: uberon def: "A mesoderm that is part of a yolk sac [Automatically generated definition]." [OBOL:automatic] comment: TODO - check synonym: "yolk sac mesoderm" EXACT [OBOL:automatic] xref: EHDAA:168 xref: EMAPA:16087 xref: VHOG:0000617 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0001040 ! yolk sac [Term] id: UBERON:0003265 name: chorionic mesoderm namespace: uberon alt_id: UBERON:0003423 comment: TODO - check synonym: "chorion mesenchyme" EXACT [OBOL:automatic] synonym: "chorion mesoderm" EXACT [RETIRED_EHDAA2:0000247] synonym: "chorionic mesenchyme" EXACT [EHDAA2:0003245] synonym: "mesenchyme of chorion" EXACT [] synonym: "mesenchyme of chorion (vertebrates)" EXACT [OBOL:automatic] xref: EHDAA2:0003245 xref: EHDAA:154 xref: EMAPA:16114 xref: EMAPA:16266 xref: RETIRED_EHDAA2:0000247 xref: VHOG:0000620 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005292 ! extraembryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010333 ! extraembryonic membrane mesenchyme is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0004871 ! somatic layer of lateral plate mesoderm relationship: develops_from UBERON:0005728 ! extraembryonic mesoderm intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: develops_from UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0003124 ! chorion [Term] id: UBERON:0003266 name: obsolete nerve of central nervous system namespace: uberon is_obsolete: true consider: EHDAA:2851 consider: EMAPA:17263 comment: obsoleted pending formal definition of nerve, with explicit reference to PNS vs CNS [Term] id: UBERON:0003267 name: tooth of upper jaw namespace: uberon def: "A calcareous tooth that is part of a upper jaw [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: Note that we follow EHDAA2 and consider teeth part of the jaw skeleton synonym: "upper jaw tooth" EXACT [MA:0001909] xref: EHDAA2:0002129 xref: EHDAA:8045 xref: EMAPA:17938 xref: MA:0001909 xref: UMLS:C1710581 xref: ncithesaurus:Upper_Jaw_Tooth is_a: UBERON:0004119 ! endoderm-derived structure relationship: attaches_to UBERON:0011597 ! bone of upper jaw relationship: part_of UBERON:0009680 ! set of upper jaw teeth intersection_of: UBERON:0001091 ! calcareous tooth intersection_of: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0003268 name: tooth of lower jaw namespace: uberon def: "A calcareous tooth that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "calcareous tooth of lower jaw" EXACT [OBOL:automatic] synonym: "calcareous tooth of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "dentine containing tooth of lower jaw" EXACT [OBOL:automatic] synonym: "dentine containing tooth of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "lower jaw calcareous tooth" EXACT [OBOL:automatic] synonym: "lower jaw dentine containing tooth" EXACT [OBOL:automatic] synonym: "lower jaw tooth" EXACT [OBOL:automatic] synonym: "lower jaw vertebrate tooth" EXACT [OBOL:automatic] synonym: "tooth of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "ventral mandibular arch calcareous tooth" EXACT [OBOL:automatic] synonym: "ventral mandibular arch dentine containing tooth" EXACT [OBOL:automatic] synonym: "ventral mandibular arch tooth" EXACT [OBOL:automatic] synonym: "ventral mandibular arch vertebrate tooth" EXACT [OBOL:automatic] synonym: "vertebrate tooth of lower jaw" EXACT [OBOL:automatic] synonym: "vertebrate tooth of ventral mandibular arch" EXACT [OBOL:automatic] xref: EHDAA2:0001029 xref: EHDAA:8009 xref: EMAPA:17917 xref: MA:0001907 xref: UMLS:C1708757 xref: ncithesaurus:Lower_Jaw_Tooth is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: attaches_to UBERON:0004768 ! bone of lower jaw relationship: part_of UBERON:0009679 ! set of lower jaw teeth intersection_of: UBERON:0001091 ! calcareous tooth intersection_of: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003269 name: skeletal muscle of eye namespace: uberon def: "A portion of skeletal muscle tissue that is part of a eye [Automatically generated definition]." [OBOL:automatic] synonym: "eye skeletal muscle" EXACT [OBOL:automatic] synonym: "eye skeletal muscle group" RELATED [EHDAA2:0000486] synonym: "eye skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of eye" EXACT [OBOL:automatic] xref: EHDAA2:0000486 xref: EHDAA:2923 xref: EMAPA:17844 is_a: UBERON:0003899 ! skeletal muscle of head is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003270 name: skeletal muscle of leg namespace: uberon def: "A portion of skeletal muscle tissue that is part of a tetrapod leg [Automatically generated definition]." [OBOL:automatic] synonym: "leg skeletal muscle" EXACT [OBOL:automatic] synonym: "leg skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of leg" EXACT [OBOL:automatic] xref: EHDAA:8291 xref: EMAPA:19144 xref: EMAPA:19318 xref: RETIRED_EHDAA2:0000974 relationship: part_of UBERON:0004466 ! musculature of leg intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0000978 ! leg [Term] id: UBERON:0003271 name: skeletal muscle of pelvic girdle namespace: uberon def: "A portion of skeletal muscle tissue that is part of a pelvic girdle [Automatically generated definition]." [OBOL:automatic] synonym: "girdle-pelvic skeletal muscle" EXACT [OBOL:automatic] synonym: "girdle-pelvic skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "pelvic girdle bone skeletal muscle" EXACT [OBOL:automatic] synonym: "pelvic girdle bone skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "pelvic girdle skeletal muscle" EXACT [OBOL:automatic] synonym: "pelvic girdle skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle of girdle-pelvic" EXACT [OBOL:automatic] synonym: "skeletal muscle of pelvic girdle bone" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of girdle-pelvic" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of pelvic girdle" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of pelvic girdle bone" EXACT [OBOL:automatic] xref: EHDAA:8326 xref: EMAPA:18185 xref: RETIRED_EHDAA2:0001430 relationship: part_of UBERON:0004470 ! musculature of pelvic girdle intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001271 ! pelvic girdle region [Term] id: UBERON:0003272 name: skeletal muscle of arm namespace: uberon def: "A portion of skeletal muscle tissue that is part of an arm [Automatically generated definition]." [OBOL:automatic] synonym: "arm skeletal muscle" EXACT [OBOL:automatic] synonym: "arm skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "brachial region skeletal muscle" EXACT [OBOL:automatic] synonym: "brachial region skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb skeletal muscle" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle of brachial region" EXACT [OBOL:automatic] synonym: "skeletal muscle of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of arm" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of brachial region" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of proximal segment of free upper limb" EXACT [OBOL:automatic] xref: EHDAA:8277 xref: EMAPA:19107 xref: RETIRED_EHDAA2:0000142 relationship: part_of UBERON:0004474 ! musculature of arm intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0003273 name: skeletal muscle of tongue namespace: uberon def: "A portion of skeletal muscle tissue that is part of a tongue [Automatically generated definition]." [OBOL:automatic] synonym: "skeletal muscle tissue of tongue" EXACT [OBOL:automatic] synonym: "tongue skeletal muscle" EXACT [OBOL:automatic] synonym: "tongue skeletal muscle tissue" EXACT [OBOL:automatic] xref: EHDAA2:0002065 xref: EHDAA:9146 xref: EMAPA:17883 xref: EMAPA:18879 xref: MA:0001596 xref: UMLS:C1710437 xref: VHOG:0001390 xref: ncithesaurus:Tongue_Skeletal_Muscle_Tissue is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003899 ! skeletal muscle of head relationship: develops_from UBERON:0005594 ! head somite relationship: part_of UBERON:0000378 ! tongue muscle relationship: part_of UBERON:0004477 ! tongue musculature intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001723 ! tongue property_value: homology_notes "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" xsd:string [Term] id: UBERON:0003274 name: mesothelium of omental bursa namespace: uberon def: "A mesothelium that is part of a lesser sac [Automatically generated definition]." [OBOL:automatic] synonym: "lesser sac mesothelium" EXACT [EHDAA2:0004557] synonym: "omental bursa mehomhelium" RELATED [VHOG:0000441] synonym: "omental bursa mesothelium" EXACT [OBOL:automatic] xref: EHDAA2:0004557 xref: EHDAA:2339 xref: EMAPA:16890 xref: EMAPA:18459 xref: RETIRED_EHDAA2:0001299 xref: VHOG:0000441 intersection_of: UBERON:0001136 ! mesothelium intersection_of: part_of UBERON:0001341 ! lesser sac [Term] id: UBERON:0003276 name: skeleton of embryo namespace: uberon def: "A skeletal system that is part of a embryo [Automatically generated definition]." [OBOL:automatic] synonym: "developmental tissue set of all bones" EXACT [OBOL:automatic] synonym: "developmental tissue set of bones of body" EXACT [OBOL:automatic] synonym: "developmental tissue skeletal system" EXACT [OBOL:automatic] synonym: "developmental tissue skeleton" EXACT [OBOL:automatic] synonym: "developmental tissue skeleton system" EXACT [OBOL:automatic] synonym: "embryo set of all bones" EXACT [OBOL:automatic] synonym: "embryo set of bones of body" EXACT [OBOL:automatic] synonym: "embryo skeletal system" EXACT [OBOL:automatic] synonym: "embryo skeleton" EXACT [OBOL:automatic] synonym: "embryo skeleton system" EXACT [OBOL:automatic] synonym: "set of all bones of developmental tissue" EXACT [OBOL:automatic] synonym: "set of all bones of embryo" EXACT [OBOL:automatic] synonym: "set of bones of body of developmental tissue" EXACT [OBOL:automatic] synonym: "set of bones of body of embryo" EXACT [OBOL:automatic] synonym: "skeletal system of developmental tissue" EXACT [OBOL:automatic] synonym: "skeletal system of embryo" EXACT [OBOL:automatic] synonym: "skeleton of developmental tissue" EXACT [OBOL:automatic] synonym: "skeleton system of developmental tissue" EXACT [OBOL:automatic] synonym: "skeleton system of embryo" EXACT [OBOL:automatic] xref: EHDAA:5047 xref: EMAPA:17213 is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0001434 ! skeletal system intersection_of: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0003277 name: skeleton of upper jaw namespace: uberon def: "A subdivision of skeleton that is part of the upper jaw region[Automatically generated definition]." [OBOL:automatic] synonym: "upper jaw" BROAD [MA:0001908] synonym: "upper jaw skeleton" EXACT [] xref: AAO:0000622 xref: EHDAA2:0002128 xref: EHDAA:8041 xref: EMAPA:17927 xref: FMA:54397 xref: FMA:59399 xref: MA:0001908 xref: VHOG:0000429 xref: XAO:0003087 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001708 ! jaw skeleton relationship: part_of UBERON:0001709 ! upper jaw region intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0001709 ! upper jaw region property_value: homology_notes "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" xsd:string [Term] id: UBERON:0003278 name: skeleton of lower jaw namespace: uberon def: "A subdivision of skeleton that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] comment: in EHDAA2, this does not include the mandible; it includes the teeth and Meckel's cartilage synonym: "lower jaw" BROAD [MA:0001906, ZFA:0001273] synonym: "lower jaw skeleton" EXACT [AAO:0000274] synonym: "mandible" BROAD [ZFA:0001273] synonym: "mandibles" RELATED PLURAL [TAO:0001273] synonym: "mandibular series" RELATED [ZFA:0001273] xref: AAO:0000274 xref: EHDAA2:0004606 xref: EHDAA:8005 xref: EMAPA:17910 xref: FMA:54398 xref: MA:0001906 xref: TAO:0001273 xref: VHOG:0000428 xref: XAO:0003084 xref: ZFA:0001273 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: overlaps UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0001708 ! jaw skeleton relationship: part_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0011156 ! facial skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0001710 ! lower jaw region property_value: axiom_lost_from_external_ontology "relationship type change: subclass anatomical cluster (CARO:0000041) CHANGED TO: develops_from anatomical cluster (UBERON:0000477)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass anatomical cluster (CARO:0000041) CHANGED TO: overlaps anatomical cluster (UBERON:0000477)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass anatomical cluster (CARO:0000041) CHANGED TO: part_of anatomical cluster (UBERON:0000477)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass anatomical cluster (CARO:0000041) CHANGED TO: subdivision_of anatomical cluster (UBERON:0000477)[TAO]" xsd:string property_value: external_definition "The ventral portion of the first pharyngeal arch, comprising the lower jaw.[TAO]" xsd:string property_value: homology_notes "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" xsd:string [Term] id: UBERON:0003279 name: endothelium of trachea namespace: uberon def: "An endothelium that is part of a trachea." [OBOL:automatic] synonym: "endothelium of windpipe" EXACT [OBOL:automatic] synonym: "trachea endothelium" EXACT [OBOL:automatic] synonym: "windpipe endothelium" EXACT [OBOL:automatic] xref: EHDAA:3082 xref: RETIRED_EHDAA2:0002068 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001901 ! epithelium of trachea intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003280 name: endothelium of main bronchus namespace: uberon def: "An endothelium that is part of a main bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "bronchus principalis endothelium" EXACT [OBOL:automatic] synonym: "endothelium of bronchus principalis" EXACT [OBOL:automatic] synonym: "endothelium of primary bronchus" EXACT [OBOL:automatic] synonym: "endothelium of principal bronchus" EXACT [OBOL:automatic] synonym: "main bronchus endothelium" EXACT [OBOL:automatic] synonym: "primary bronchus endothelium" EXACT [OBOL:automatic] synonym: "principal bronchus endothelium" EXACT [OBOL:automatic] xref: EHDAA:3076 xref: RETIRED_EHDAA2:0001046 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002340 ! epithelium of main bronchus intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0003281 name: mesentery of stomach namespace: uberon def: "The portion of the primitive mesentery that encloses the stomach; from its dorsal sheet, the greater omentum develops, and from its ventral sheet, the lesser omentum." [http://medical-dictionary.thefreedictionary.com/mesogastrium] comment: todo - check primitive vs developed synonym: "mesentery of ventriculus" EXACT [OBOL:automatic] synonym: "mesogaster" EXACT [http://medical-dictionary.thefreedictionary.com/mesogastrium] synonym: "mesogastium" EXACT [MA:0001617] synonym: "mesogastrium" EXACT [http://www.vivo.colostate.edu/hbooks/pathphys/misc_topics/peritoneum.html] synonym: "stomach mesentery" EXACT [Obol:obol] synonym: "ventriculus mesentery" EXACT [OBOL:automatic] xref: EHDAA2:0001922 xref: EHDAA:2999 xref: EMAPA:17024 xref: EMAPA:18902 xref: MA:0001617 xref: SCTID:261623000 xref: VHOG:0000358 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004854 ! gastrointestinal system mesentery is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0000945 ! stomach intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0000945 ! stomach property_value: external_definition "The portion of the primitive mesentery that encloses the stomach; from its dorsal sheet, the greater omentum develops, and from its ventral sheet, the lesser omentum. [TFD][VHOG]" xsd:string [Term] id: UBERON:0003282 name: mesentery of heart namespace: uberon def: "A mesentery that surrounds the heart." [MA:th] synonym: "heart mesentery" EXACT [OBOL:automatic] synonym: "mesocardium" RELATED [MA:0000098] xref: EHDAA:432 xref: EMAPA:16212 xref: RETIRED_EHDAA2:0000739 xref: VHOG:0000353 is_a: UBERON:0005983 ! heart layer intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0003283 name: mesentery of oesophagus namespace: uberon def: "A mesentery that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophagus mesentery" EXACT [OBOL:automatic] synonym: "gullet mesentery" EXACT [OBOL:automatic] synonym: "mesentery of esophagus" EXACT [OBOL:automatic] synonym: "mesentery of gullet" EXACT [OBOL:automatic] synonym: "oesophagus mesentery" EXACT [OBOL:automatic] xref: EHDAA2:0001288 xref: EHDAA:2943 xref: EMAPA:16836 xref: EMAPA:18864 xref: MA:0001569 xref: VHOG:0000415 is_a: UBERON:0001975 ! serosa of esophagus intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001043 ! esophagus property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0003284 name: mesentery of midgut namespace: uberon def: "A mesentery that is part of a midgut [Automatically generated definition]." [OBOL:automatic] synonym: "midgut mesentery" EXACT [OBOL:automatic] xref: EHDAA2:0001202 xref: EHDAA:3031 xref: EMAPA:16721 xref: EMAPA:17039 xref: EMAPA:17045 xref: EMAPA:17197 xref: VHOG:0000413 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001045 ! midgut property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0003285 name: obsolete limb of embryo namespace: uberon is_obsolete: true consider: UBERON:0002101 ! limb [Term] id: UBERON:0003286 name: foregut region of duodenum namespace: uberon synonym: "foregut duodenum" EXACT [OBOL:automatic] xref: EHDAA2:0000560 xref: EHDAA:3830 xref: EMAPA:17178 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: develops_from UBERON:0001041 ! foregut relationship: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0003287 name: midgut region of duodenum namespace: uberon synonym: "midgut duodenum" EXACT [OBOL:automatic] xref: EHDAA2:0001189 xref: EHDAA:3937 xref: EMAPA:17193 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: develops_from UBERON:0001045 ! midgut relationship: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0003288 name: meninx of midbrain namespace: uberon def: "A meninx that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: consider changing genus to subdivision of meninx synonym: "meninges of midbrain" EXACT PLURAL [OBOL:automatic] synonym: "mesencephalon meninges" RELATED PLURAL [VHOG:0000012] synonym: "midbrain meninges" EXACT PLURAL [OBOL:automatic] synonym: "midbrain meninx" EXACT [OBOL:automatic] xref: EHDAA2:0001174 xref: EHDAA:3708 xref: EMAPA:17791 xref: MA:0001058 xref: RETIRED_EHDAA2:0001109 xref: VHOG:0000012 is_a: UBERON:0003547 ! brain meninx intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0001891 ! midbrain property_value: external_definition "Meninges that are part of the midbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003289 name: meninx of telencephalon namespace: uberon def: "A meninx that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: consider changing genus to subdivision of meninx synonym: "meninges of telencephalon" EXACT PLURAL [OBOL:automatic] synonym: "telencephalon meninges" EXACT PLURAL [OBOL:automatic] synonym: "telencephalon meninx" EXACT [OBOL:automatic] xref: EHDAA2:0001990 xref: EHDAA:5476 xref: EMAPA:17774 xref: MA:0000979 xref: VHOG:0000010 is_a: UBERON:0003548 ! forebrain meninges intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0001893 ! telencephalon property_value: external_definition "Meninges that are part of the telencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003290 name: meninx of diencephalon namespace: uberon def: "A meninx that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: consider changing genus to subdivision of meninx synonym: "between brain meninges" EXACT [OBOL:automatic] synonym: "between brain meninx" EXACT [OBOL:automatic] synonym: "diencephalon meninges" EXACT [OBOL:automatic] synonym: "diencephalon meninx" EXACT [OBOL:automatic] synonym: "interbrain meninges" EXACT [OBOL:automatic] synonym: "interbrain meninx" EXACT [OBOL:automatic] synonym: "mature diencephalon meninges" EXACT [OBOL:automatic] synonym: "mature diencephalon meninx" EXACT [OBOL:automatic] synonym: "meninges of between brain" EXACT [OBOL:automatic] synonym: "meninges of diencephalon" EXACT [OBOL:automatic] synonym: "meninges of interbrain" EXACT [OBOL:automatic] synonym: "meninges of mature diencephalon" EXACT [OBOL:automatic] synonym: "meninx of between brain" EXACT [OBOL:automatic] synonym: "meninx of interbrain" EXACT [OBOL:automatic] synonym: "meninx of mature diencephalon" EXACT [OBOL:automatic] xref: EHDAA2:0000399 xref: EHDAA:5458 xref: EMAPA:17764 xref: MA:0000826 xref: VHOG:0000009 is_a: UBERON:0003548 ! forebrain meninges intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0001894 ! diencephalon property_value: external_definition "Meninges that are part of the diencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003291 name: meninx of hindbrain namespace: uberon def: "A meninx that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: consider changing genus to subdivision of meninx synonym: "hindbrain meninges" EXACT [OBOL:automatic] synonym: "hindbrain meninx" EXACT [OBOL:automatic] synonym: "meninges of hindbrain" EXACT [OBOL:automatic] synonym: "rhomencephalon meninges" RELATED PLURAL [VHOG:0000011] xref: EHDAA2:0000770 xref: EHDAA:3688 xref: EMAPA:17783 xref: MA:0000987 xref: VHOG:0000011 is_a: UBERON:0003547 ! brain meninx is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: immediate_transformation_of UBERON:0010091 ! future hindbrain meninges intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "Meninges that are part of the hindbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003292 name: meninx of spinal cord namespace: uberon def: "A meninx that is part of a spinal cord [Automatically generated definition]." [OBOL:automatic] synonym: "menines of spinal cord" EXACT PLURAL [] synonym: "meninges of spinal cord" EXACT [OBOL:automatic] synonym: "spinal cord meninges" EXACT [OBOL:automatic] synonym: "spinal cord meninx" EXACT [OBOL:automatic] synonym: "spinal meninges" EXACT PLURAL [] synonym: "spinal meninx" EXACT [] xref: EHDAA2:0001895 xref: EHDAA:2865 xref: EMAPA:17804 xref: MA:0001130 xref: SCTID:181097002 xref: UMLS:C0037938 xref: VHOG:0000443 xref: ncithesaurus:Spinal_Meninges is_a: UBERON:0005174 ! back organ intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0002240 ! spinal cord property_value: external_definition "Meninges that are part of the spinal cord. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003294 name: gland of foregut namespace: uberon def: "A gland that is part of a foregut [Automatically generated definition]." [OBOL:automatic] synonym: "foregut gland" EXACT [OBOL:automatic] xref: EHDAA2:0000567 xref: EHDAA:950 xref: EMAPA:16557 xref: VHOG:0000650 is_a: UBERON:0003408 ! gland of gut intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0003295 name: pharyngeal gland namespace: uberon def: "Racemose mucous glands beneath the mucous membrane of the pharynx." [Biology-Online_Dictionary:http://www.biology-online.org/dictionary/] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "glandulae pharyngeae" RELATED [BTO:0004849] synonym: "pharynx gland" EXACT [EHDAA2:0001461] xref: BTO:0004849 xref: EHDAA2:0001461 xref: EHDAA:2967 xref: FMA:55075 is_a: UBERON:0003408 ! gland of gut relationship: part_of UBERON:0001042 ! chordate pharynx intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0003296 name: gland of diencephalon namespace: uberon def: "A gland that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "between brain gland" EXACT [OBOL:automatic] synonym: "diencephalon gland" EXACT [OBOL:automatic] synonym: "gland of between brain" EXACT [OBOL:automatic] synonym: "gland of interbrain" EXACT [OBOL:automatic] synonym: "gland of mature diencephalon" EXACT [OBOL:automatic] synonym: "interbrain gland" EXACT [OBOL:automatic] synonym: "mature diencephalon gland" EXACT [OBOL:automatic] xref: EHDAA2:0000395 xref: EHDAA:4475 xref: EMAPA:16646 xref: EMAPA:16897 xref: VHOG:0000653 is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0003297 name: gland of integumental system namespace: uberon def: "A gland that is part of a integumental system [Automatically generated definition]." [OBOL:automatic] synonym: "integumental system gland" EXACT [OBOL:automatic] xref: EHDAA2:0000837 xref: EHDAA:6522 xref: EMAPA:17758 xref: MA:0000144 xref: VHOG:0000654 intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0003298 name: roof plate of neural tube namespace: uberon def: "A roof plate that is part of a neural tube [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "neural tube roof plate" EXACT [OBOL:automatic] synonym: "neural tube roofplate" EXACT [OBOL:automatic] synonym: "roof plate neural tube" EXACT [VHOG:0000303] synonym: "roof plate neural tube region" EXACT [ZFA:0001436] synonym: "roofplate of neural tube" EXACT [OBOL:automatic] xref: EHDAA2:0001270 xref: EHDAA:2891 xref: EHDAA:916 xref: EMAPA:16168 xref: EMAPA:16535 xref: TAO:0001436 xref: VHOG:0000303 xref: ZFA:0001436 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001049 ! neural tube intersection_of: part_of UBERON:0003054 ! roof plate [Term] id: UBERON:0003299 name: roof plate of midbrain namespace: uberon def: "A roof plate that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "midbrain roof plate" EXACT [OBOL:automatic] synonym: "midbrain roofplate" EXACT [OBOL:automatic] synonym: "roof plate mesencephalon" RELATED [VHOG:0000772] synonym: "roof plate midbrain" EXACT [VHOG:0000772] synonym: "roof plate midbrain region" EXACT [ZFA:0000355] synonym: "roofplate midbrain" RELATED [VHOG:0000772] synonym: "roofplate of midbrain" EXACT [OBOL:automatic] xref: EHDAA2:0001177 xref: EHDAA:3712 xref: EMAPA:16981 xref: RETIRED_EHDAA2:0001111 xref: TAO:0000355 xref: VHOG:0000772 xref: ZFA:0000355 is_a: UBERON:0003298 ! roof plate of neural tube intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001891 ! midbrain intersection_of: part_of UBERON:0003054 ! roof plate property_value: external_definition "Roof plate that is part of the midbrain. [Bgee_curator][VHOG]" xsd:string [Term] id: UBERON:0003300 name: roof plate of telencephalon namespace: uberon def: "A roof plate that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "roof plate telencephalon" EXACT [VHOG:0000774] synonym: "roofplate medulla telencephalon" RELATED [VHOG:0000774] synonym: "roofplate of telencephalon" EXACT [OBOL:automatic] synonym: "telencephalon roof plate" EXACT [OBOL:automatic] synonym: "telencephalon roofplate" EXACT [OBOL:automatic] xref: EHDAA2:0001994 xref: EHDAA:3512 xref: EMAPA:16657 xref: VHOG:0000774 is_a: UBERON:0003298 ! roof plate of neural tube intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001893 ! telencephalon intersection_of: part_of UBERON:0003054 ! roof plate property_value: external_definition "Roof plate that is part of the telencephalon. [Bgee_curator][VHOG]" xsd:string [Term] id: UBERON:0003301 name: roof plate of diencephalon namespace: uberon def: "A roof plate that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "between brain roof plate" EXACT [OBOL:automatic] synonym: "between brain roofplate" EXACT [OBOL:automatic] synonym: "diencephalon roof plate" EXACT [OBOL:automatic] synonym: "diencephalon roofplate" EXACT [OBOL:automatic] synonym: "interbrain roof plate" EXACT [OBOL:automatic] synonym: "interbrain roofplate" EXACT [OBOL:automatic] synonym: "mature diencephalon roof plate" EXACT [OBOL:automatic] synonym: "mature diencephalon roofplate" EXACT [OBOL:automatic] synonym: "roof plate diencephalic region" EXACT [ZFA:0001358] synonym: "roof plate diencephalon" EXACT [VHOG:0000771] synonym: "roof plate of between brain" EXACT [OBOL:automatic] synonym: "roof plate of interbrain" EXACT [OBOL:automatic] synonym: "roof plate of mature diencephalon" EXACT [OBOL:automatic] synonym: "roofplate medulla diencephalon" RELATED [VHOG:0000771] synonym: "roofplate of between brain" EXACT [OBOL:automatic] synonym: "roofplate of diencephalon" EXACT [OBOL:automatic] synonym: "roofplate of interbrain" EXACT [OBOL:automatic] synonym: "roofplate of mature diencephalon" EXACT [OBOL:automatic] xref: EHDAA2:0000402 xref: EHDAA:1979 xref: EHDAA:2657 xref: EHDAA:3494 xref: EMAPA:16651 xref: EMAPA:16909 xref: TAO:0001358 xref: VHOG:0000771 xref: ZFA:0001358 is_a: UBERON:0003298 ! roof plate of neural tube intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001894 ! diencephalon intersection_of: part_of UBERON:0003054 ! roof plate property_value: external_definition "Roof plate that is part of the diencephalon. [Bgee_curator][VHOG]" xsd:string [Term] id: UBERON:0003302 name: roof plate of metencephalon namespace: uberon def: "A roof plate that is part of a metencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "epencephalon-2 roof plate" EXACT [OBOL:automatic] synonym: "epencephalon-2 roofplate" EXACT [OBOL:automatic] synonym: "metencephalon roof plate" EXACT [OBOL:automatic] synonym: "metencephalon roofplate" EXACT [OBOL:automatic] synonym: "roof plate metencephalon" EXACT [VHOG:0000770] synonym: "roof plate of epencephalon-2" EXACT [OBOL:automatic] synonym: "roofplate medulla metencephalon" RELATED [VHOG:0000770] synonym: "roofplate of epencephalon-2" EXACT [OBOL:automatic] synonym: "roofplate of metencephalon" EXACT [OBOL:automatic] xref: EHDAA2:0001160 xref: EHDAA:5524 xref: EMAPA:17098 xref: EMAPA:17105 xref: VHOG:0000770 is_a: UBERON:0003298 ! roof plate of neural tube is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001895 ! metencephalon intersection_of: part_of UBERON:0003054 ! roof plate property_value: external_definition "Roof plate that is part of the metencephalon. [Bgee_curator][VHOG]" xsd:string [Term] id: UBERON:0003303 name: roof plate of medulla oblongata namespace: uberon def: "A roof plate that is part of a medulla oblongata [Automatically generated definition]." [OBOL:automatic] synonym: "bulb roof plate" EXACT [OBOL:automatic] synonym: "bulb roofplate" EXACT [OBOL:automatic] synonym: "medulla oblongata roof plate" EXACT [OBOL:automatic] synonym: "medulla oblongata roofplate" EXACT [OBOL:automatic] synonym: "medulla oblonmgata roof plate" EXACT [OBOL:automatic] synonym: "medulla oblonmgata roofplate" EXACT [OBOL:automatic] synonym: "metepencephalon roof plate" EXACT [OBOL:automatic] synonym: "metepencephalon roofplate" EXACT [OBOL:automatic] synonym: "roof plate medulla oblongata" EXACT [VHOG:0000776] synonym: "roof plate of bulb" EXACT [OBOL:automatic] synonym: "roof plate of medulla oblonmgata" EXACT [OBOL:automatic] synonym: "roof plate of metepencephalon" EXACT [OBOL:automatic] synonym: "roofplate medulla oblongata" RELATED [VHOG:0000776] synonym: "roofplate of bulb" EXACT [OBOL:automatic] synonym: "roofplate of medulla oblongata" EXACT [OBOL:automatic] synonym: "roofplate of medulla oblonmgata" EXACT [OBOL:automatic] synonym: "roofplate of metepencephalon" EXACT [OBOL:automatic] xref: EHDAA2:0001099 xref: EHDAA:7614 xref: VHOG:0000776 is_a: UBERON:0003298 ! roof plate of neural tube is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0001896 ! medulla oblongata intersection_of: part_of UBERON:0003054 ! roof plate property_value: external_definition "Roof plate that is part of the medulla oblongata. [Bgee_curator][VHOG]" xsd:string [Term] id: UBERON:0003304 name: mesoderm blood island namespace: uberon alt_id: UBERON:0003305 def: "A blood island that is part of a mesoderm." [OBOL:automatic] comment: in EHDAA2, gives rise to blood and dorsal aorta synonym: "mesenchyme blood island" RELATED [OBOL:automatic] synonym: "mesoderm blood islands" EXACT PLURAL [EHDAA2:0003241] xref: EHDAA2:0003241 xref: EHDAA:170 xref: EMAPA:16115 xref: EMAPA:16268 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007497 ! developing epithelial placode is_a: UBERON:0007503 ! epithelial vesicle is_a: UBERON:0012275 ! meso-epithelium is_a: UBERON:0012429 ! hemopoietic tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0007798 ! vascular system intersection_of: UBERON:0003061 ! blood island intersection_of: part_of UBERON:0000926 ! mesoderm [Term] id: UBERON:0003306 name: floor plate of neural tube namespace: uberon def: "A floor plate that is part of a neural tube [Automatically generated definition]." [OBOL:automatic] comment: Note that although 'floor plate' is classically defined as being located on the neural tube, in many AOs the floor plate continues post-embryonically after the neural tube has ceased to exist. We introduce this class for the neural tube specific structure subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "floor plate neural tube" EXACT [ZFA:0001434] synonym: "floorplate neural tube" RELATED [VHOG:0000300] synonym: "floorplate of neural tube" EXACT [OBOL:automatic] synonym: "neural tube floor plate" EXACT [OBOL:automatic] synonym: "neural tube floorplate" EXACT [OBOL:automatic] xref: EFO:0003688 xref: EHDAA2:0001256 xref: EHDAA:2871 xref: EHDAA:910 xref: EMAPA:16165 xref: EMAPA:16531 xref: TAO:0001434 xref: VHOG:0000300 xref: ZFA:0001434 is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001049 ! neural tube intersection_of: part_of UBERON:0003079 ! floor plate property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003307 name: floor plate of midbrain namespace: uberon def: "A floor plate that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "floor plate mesencephalon" RELATED [VHOG:0000780] synonym: "floor plate midbrain" EXACT [VHOG:0000780] synonym: "floor plate midbrain region" EXACT [ZFA:0001677] synonym: "floorplate midbrain" RELATED [VHOG:0000780] synonym: "floorplate of midbrain" EXACT [OBOL:automatic] synonym: "midbrain floor plate" EXACT [OBOL:automatic] synonym: "midbrain floorplate" EXACT [OBOL:automatic] xref: EFO:0003567 xref: EHDAA2:0001164 xref: EHDAA:3698 xref: EMAPA:16975 xref: RETIRED_EHDAA2:0001106 xref: TAO:0002196 xref: VHOG:0000780 xref: ZFA:0001677 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002950 ! regional part of midbrain is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001891 ! midbrain intersection_of: part_of UBERON:0003079 ! floor plate property_value: axiom_lost_from_external_ontology "relationship type change: subclass multi-tissue structure (CARO:0000055) CHANGED TO: develops_from multi-tissue structure (UBERON:0000481)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass multi-tissue structure (CARO:0000055) CHANGED TO: part_of multi-tissue structure (UBERON:0000481)[TAO]" xsd:string property_value: external_definition "Floor plate that is part of the midbrain.[TAO]" xsd:string property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003308 name: floor plate of telencephalon namespace: uberon def: "A floor plate that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "floor plate telencephalic region" EXACT [ZFA:0000914] synonym: "floor plate telencephalon" EXACT [VHOG:0000783] synonym: "floorplate of telencephalon" EXACT [OBOL:automatic] synonym: "floorplate telencephalon" EXACT [ZFA:0000914] synonym: "telencephalon floor plate" EXACT [OBOL:automatic] synonym: "telencephalon floorplate" EXACT [OBOL:automatic] xref: EHDAA2:0001983 xref: EHDAA:3498 xref: EMAPA:16655 xref: TAO:0000914 xref: VHOG:0000783 xref: ZFA:0000914 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001893 ! telencephalon intersection_of: part_of UBERON:0003079 ! floor plate property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003309 name: floor plate of diencephalon namespace: uberon def: "A floor plate that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "between brain floor plate" EXACT [OBOL:automatic] synonym: "between brain floorplate" EXACT [OBOL:automatic] synonym: "diencephalon floor plate" EXACT [OBOL:automatic] synonym: "diencephalon floorplate" EXACT [OBOL:automatic] synonym: "floor plate diencephalic region" EXACT [ZFA:0000871] synonym: "floor plate diencephalon" EXACT [VHOG:0000782] synonym: "floor plate of between brain" EXACT [OBOL:automatic] synonym: "floor plate of interbrain" EXACT [OBOL:automatic] synonym: "floor plate of mature diencephalon" EXACT [OBOL:automatic] synonym: "floorplate diencephalon" EXACT [ZFA:0000871] synonym: "floorplate of between brain" EXACT [OBOL:automatic] synonym: "floorplate of diencephalon" EXACT [OBOL:automatic] synonym: "floorplate of interbrain" EXACT [OBOL:automatic] synonym: "floorplate of mature diencephalon" EXACT [OBOL:automatic] synonym: "interbrain floor plate" EXACT [OBOL:automatic] synonym: "interbrain floorplate" EXACT [OBOL:automatic] synonym: "mature diencephalon floor plate" EXACT [OBOL:automatic] synonym: "mature diencephalon floorplate" EXACT [OBOL:automatic] xref: EHDAA2:0000388 xref: EHDAA:1975 xref: EHDAA:2651 xref: EHDAA:3480 xref: EMAPA:16645 xref: EMAPA:16903 xref: TAO:0000871 xref: VHOG:0000782 xref: ZFA:0000871 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002784 ! regional part of diencephalon is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001894 ! diencephalon intersection_of: part_of UBERON:0003079 ! floor plate property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003310 name: floor plate of metencephalon namespace: uberon def: "A floor plate that is part of a metencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "epencephalon-2 floor plate" EXACT [OBOL:automatic] synonym: "epencephalon-2 floorplate" EXACT [OBOL:automatic] synonym: "floor plate metencephalon" EXACT [VHOG:0000784] synonym: "floor plate of epencephalon-2" EXACT [OBOL:automatic] synonym: "floorplate metencephalon" RELATED [VHOG:0000784] synonym: "floorplate of epencephalon-2" EXACT [OBOL:automatic] synonym: "floorplate of metencephalon" EXACT [OBOL:automatic] synonym: "metencephalon floor plate" EXACT [OBOL:automatic] synonym: "metencephalon floorplate" EXACT [OBOL:automatic] xref: EHDAA2:0001158 xref: EHDAA:5500 xref: EMAPA:17093 xref: EMAPA:17100 xref: EMAPA:17258 xref: VHOG:0000784 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002680 ! regional part of metencephalon is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001895 ! metencephalon intersection_of: part_of UBERON:0003079 ! floor plate property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003311 name: floor plate of medulla oblongata namespace: uberon def: "A floor plate that is part of a medulla oblongata [Automatically generated definition]." [OBOL:automatic] synonym: "bulb floor plate" EXACT [OBOL:automatic] synonym: "bulb floorplate" EXACT [OBOL:automatic] synonym: "floor plate medulla oblongata" EXACT [VHOG:0000786] synonym: "floor plate of bulb" EXACT [OBOL:automatic] synonym: "floor plate of medulla oblonmgata" EXACT [OBOL:automatic] synonym: "floor plate of metepencephalon" EXACT [OBOL:automatic] synonym: "floorplate medulla oblongata" RELATED [VHOG:0000786] synonym: "floorplate of bulb" EXACT [OBOL:automatic] synonym: "floorplate of medulla oblongata" EXACT [OBOL:automatic] synonym: "floorplate of medulla oblonmgata" EXACT [OBOL:automatic] synonym: "floorplate of metepencephalon" EXACT [OBOL:automatic] synonym: "medulla oblongata floor plate" EXACT [OBOL:automatic] synonym: "medulla oblongata floorplate" EXACT [OBOL:automatic] synonym: "medulla oblonmgata floor plate" EXACT [OBOL:automatic] synonym: "medulla oblonmgata floorplate" EXACT [OBOL:automatic] synonym: "metepencephalon floor plate" EXACT [OBOL:automatic] synonym: "metepencephalon floorplate" EXACT [OBOL:automatic] xref: EHDAA2:0001097 xref: EHDAA:7590 xref: EMAPA:17551 xref: VHOG:0000786 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002678 ! regional part of medulla oblongata is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001896 ! medulla oblongata intersection_of: part_of UBERON:0003079 ! floor plate property_value: homology_notes "In summary, the available data for tunicates, amphioxus, and vertebrates indicate that a floorplate-like structure was already present in the proximate invertebrate ancestor of the vertebrates and that the genetic mechanisms for DV patterning of the nerve cord were also largely in place.[well established][VHOG]" xsd:string [Term] id: UBERON:0003312 name: mesenchyme of testis namespace: uberon def: "Mesenchyme that is part of a testis [Automatically generated definition]." [OBOL:automatic] synonym: "testis mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0002010 xref: EHDAA:8150 xref: VHOG:0001442 is_a: UBERON:0003855 ! gonad mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000473 ! testis [Term] id: UBERON:0003314 name: eye mesenchyme namespace: uberon def: "Mesenchyme that is part of a camera-type eye." [OBOL:automatic] comment: todo - change mesenchyme relationships to precursor_of synonym: "mesenchyme of eye" EXACT [OBOL:automatic] xref: EHDAA2:0000485 xref: EHDAA:2910 xref: EMAPA:16324 xref: EMAPA:16673 xref: EMAPA:17833 xref: EMAPA:17836 xref: VHOG:0001084 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009891 ! facial mesenchyme relationship: develops_from UBERON:0009920 ! optic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003315 name: mesenchyme of ovary namespace: uberon def: "Mesenchyme that is part of a ovary [Automatically generated definition]." [OBOL:automatic] synonym: "female reproductive system gonad mesenchyme" EXACT [OBOL:automatic] synonym: "female reproductive system gonada mesenchyme" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system mesenchyme" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of female reproductive system gonad" EXACT [OBOL:automatic] synonym: "mesenchyme of female reproductive system gonada" EXACT [OBOL:automatic] synonym: "mesenchyme of gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "mesenchyme of gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "ovary mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001362 xref: EHDAA:8128 xref: VHOG:0001441 is_a: UBERON:0003855 ! gonad mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000992 ! female gonad [Term] id: UBERON:0003316 name: mesenchyme of yolk sac namespace: uberon def: "Mesenchyme that is part of a yolk sac [Automatically generated definition]." [OBOL:automatic] synonym: "yolk sac mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0002216 xref: EHDAA:205 xref: EMAPA:16267 xref: VHOG:0000503 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0010333 ! extraembryonic membrane mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001040 ! yolk sac [Term] id: UBERON:0003317 name: odontogenic papilla of incisor namespace: uberon def: "An odontogenic papilla that is part of a incisor tooth [Automatically generated definition]." [OBOL:automatic] synonym: "incisor dental papilla" EXACT [UBERON:cjm] synonym: "incisor mesenchyme" EXACT [UBERON:cjm] synonym: "incisor odontogenic papilla" EXACT [OBOL:automatic] synonym: "incisor tooth odontogenic papilla" EXACT [OBOL:automatic] synonym: "odontogenic papilla of incisor tooth" EXACT [OBOL:automatic] is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: develops_from UBERON:0010259 ! 1st arch mesenchyme from neural crest intersection_of: UBERON:0001763 ! odontogenic papilla intersection_of: part_of UBERON:0001098 ! incisor tooth [Term] id: UBERON:0003318 name: mesenchyme of elbow namespace: uberon def: "Mesenchyme that is part of a elbow [Automatically generated definition]." [OBOL:automatic] synonym: "cubital region mesenchyme" EXACT [OBOL:automatic] synonym: "elbow mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of cubital region" EXACT [OBOL:automatic] xref: EHDAA2:0000432 xref: EHDAA:4170 xref: EHDAA:6216 xref: EMAPA:17416 xref: VHOG:0001075 is_a: UBERON:0003859 ! forelimb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001461 ! elbow [Term] id: UBERON:0003319 name: mesenchyme of carpal region namespace: uberon def: "Mesenchyme of the carpal region that conributes to the carpal skeleton." [UBERON:cjm] synonym: "carpal region mesenchyme" EXACT [OBOL:automatic] synonym: "carpus mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of wrist" EXACT [OBOL:automatic] synonym: "wrist mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0000220 xref: EHDAA:5200 xref: EMAPA:18485 is_a: UBERON:0003859 ! forelimb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004452 ! carpal region [Term] id: UBERON:0003320 name: mesenchyme of hip namespace: uberon def: "Mesenchyme that is part of a hip [Automatically generated definition]." [OBOL:automatic] synonym: "hip mesenchyme" EXACT [OBOL:automatic] synonym: "hip region mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of hip region" EXACT [OBOL:automatic] synonym: "mesenchyme of regio coxae" EXACT [OBOL:automatic] synonym: "regio coxae mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0000786 xref: EHDAA:5157 xref: EHDAA:6182 xref: EMAPA:17492 xref: VHOG:0001029 intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001464 ! hip [Term] id: UBERON:0003321 name: mesenchyme of knee namespace: uberon def: "Mesenchyme that is part of a knee [Automatically generated definition]." [OBOL:automatic] synonym: "knee mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0000898 xref: EHDAA:5163 xref: EHDAA:6188 xref: EMAPA:17495 xref: VHOG:0001070 is_a: UBERON:0003860 ! hindlimb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001465 ! knee [Term] id: UBERON:0003322 name: mesenchyme of shoulder namespace: uberon def: "Mesenchyme that is part of a shoulder [Automatically generated definition]." [OBOL:automatic] synonym: "shoulder mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001837 xref: EHDAA:4184 xref: EHDAA:6232 xref: EMAPA:17423 xref: VHOG:0001035 intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003323 name: mesenchyme of upper jaw namespace: uberon def: "Mesenchyme that is part of a upper jaw [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyme of palatoquadrate arch" EXACT [OBOL:automatic] synonym: "palatoquadrate arch mesenchyme" EXACT [OBOL:automatic] synonym: "upper jaw mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0002124 xref: EHDAA:8031 xref: EMAPA:17929 xref: VHOG:0001099 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0009891 ! facial mesenchyme is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0009526 ! maxillary process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0003324 name: mesenchyme of lower jaw namespace: uberon def: "Mesenchyme that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "lower jaw mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "ventral mandibular arch mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001024 xref: EHDAA:8003 xref: EMAPA:17916 xref: VHOG:0001069 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0006905 ! mandibular process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003325 name: mesenchyme of pinna namespace: uberon def: "Mesenchyme that is part of a pinna [Automatically generated definition]." [OBOL:automatic] synonym: "auricle mesenchyme" EXACT [OBOL:automatic] synonym: "auricle of ear mesenchyme" EXACT [OBOL:automatic] synonym: "auricle of external ear mesenchyme" EXACT [OBOL:automatic] synonym: "auricula (auris externa) mesenchyme" EXACT [OBOL:automatic] synonym: "auricula mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of auricle" EXACT [OBOL:automatic] synonym: "mesenchyme of auricle of ear" EXACT [OBOL:automatic] synonym: "mesenchyme of auricle of external ear" EXACT [OBOL:automatic] synonym: "mesenchyme of auricula" EXACT [OBOL:automatic] synonym: "mesenchyme of auricula (auris externa)" EXACT [OBOL:automatic] synonym: "mesenchyme of pinna of ear" EXACT [OBOL:automatic] synonym: "pinna mesenchyme" EXACT [OBOL:automatic] synonym: "pinna of ear mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001469 xref: EHDAA:8981 xref: EMAPA:17591 xref: VHOG:0000747 intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0003326 name: mesenchyme of mammary gland namespace: uberon def: "Mesenchyme that is part of a mammary gland." [OBOL:automatic] synonym: "lactiferous gland mesenchyme" EXACT [OBOL:automatic] synonym: "lobe of breast mesenchyme" EXACT [OBOL:automatic] synonym: "lobe of mammary gland mesenchyme" EXACT [OBOL:automatic] synonym: "mammary gland mesenchyme" EXACT [OBOL:automatic] synonym: "mammary mesenchyme" EXACT [] synonym: "mesenchyme of lactiferous gland" EXACT [OBOL:automatic] synonym: "mesenchyme of lobe of breast" EXACT [OBOL:automatic] synonym: "mesenchyme of lobe of mammary gland" EXACT [OBOL:automatic] xref: EHDAA2:0001058 xref: EHDAA:6528 xref: EMAPA:17761 xref: VHOG:0001087 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0003327 name: mesenchyme of forearm namespace: uberon def: "Mesenchyme that is part of a lower arm [Automatically generated definition]." [OBOL:automatic] synonym: "antebrachial region mesenchyme" EXACT [OBOL:automatic] synonym: "arm middle limb segment mesenchyme" EXACT [OBOL:automatic] synonym: "arm zeugopod mesenchyme" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment mesenchyme" EXACT [OBOL:automatic] synonym: "brachial region zeugopod mesenchyme" EXACT [OBOL:automatic] synonym: "intermediate segment of free upper limb mesenchyme" EXACT [OBOL:automatic] synonym: "lower arm mesenchyme" EXACT [OBOL:automatic] synonym: "lower segment of arm mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of antebrachial region" EXACT [OBOL:automatic] synonym: "mesenchyme of arm middle limb segment" EXACT [OBOL:automatic] synonym: "mesenchyme of arm zeugopod" EXACT [OBOL:automatic] synonym: "mesenchyme of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "mesenchyme of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "mesenchyme of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "mesenchyme of lower arm" EXACT [OBOL:automatic] synonym: "mesenchyme of lower segment of arm" EXACT [OBOL:automatic] synonym: "mesenchyme of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "mesenchyme of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "mesenchyme of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "mesenchyme of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "mesenchyme of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "mesenchyme of zeugopod of arm" EXACT [OBOL:automatic] synonym: "mesenchyme of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "mesenchyme of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "middle limb segment of arm mesenchyme" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region mesenchyme" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb mesenchyme" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment mesenchyme" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod mesenchyme" EXACT [OBOL:automatic] synonym: "zeugopod of arm mesenchyme" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region mesenchyme" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0000555 xref: EHDAA:4176 xref: EHDAA:6222 xref: EMAPA:17419 xref: VHOG:0000504 is_a: UBERON:0003859 ! forelimb mesenchyme relationship: part_of UBERON:0002386 ! forelimb zeugopod intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002386 ! forelimb zeugopod [Term] id: UBERON:0003328 name: mesenchyme of footplate namespace: uberon alt_id: UBERON:0005260 def: "Mesenchyme that is part of a footplate." [OBOL:automatic] synonym: "foot plate mesenchyme" EXACT [] xref: EHDAA2:0000549 xref: EHDAA:5149 xref: EHDAA:6172 xref: EMAPA:17252 xref: VHOG_RETIRED:0001055 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0003412 ! pelvic appendage bud mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006871 ! footplate [Term] id: UBERON:0003329 name: submucosa of anal canal namespace: uberon def: "A submucosa that is part of an anal canal [Automatically generated definition]." [OBOL:automatic] synonym: "anal canal submucosa" EXACT [OBOL:automatic] synonym: "anal canal viewed anatomically submucosa" EXACT [OBOL:automatic] synonym: "anal region submucosa" EXACT [OBOL:automatic] synonym: "anatomical anal canal submucosa" EXACT [OBOL:automatic] synonym: "submucosa of anal canal viewed anatomically" EXACT [OBOL:automatic] synonym: "submucosa of anal region" EXACT [OBOL:automatic] synonym: "submucosa of anatomical anal canal" EXACT [OBOL:automatic] xref: EMAPA:27217 xref: EMAPA:27227 xref: EMAPA:27535 xref: FMA:85399 xref: SCTID:7892006 is_a: UBERON:0001208 ! submucosa of large intestine is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0000159 ! anal canal [Term] id: UBERON:0003330 name: submucosa of rectum namespace: uberon def: "The submucous layer of the wall of the rectum." [BTO:0002114] synonym: "rectal submucosa" EXACT [FMA:15034] synonym: "rectum submucosa" EXACT [OBOL:automatic] synonym: "tela submucosa recti" EXACT LATIN [BTO:0002114] xref: BTO:0002114 xref: EMAPA:27083 xref: EMAPA:27323 xref: FMA:15034 xref: SCTID:71683001 is_a: UBERON:0001208 ! submucosa of large intestine is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001052 ! rectum [Term] id: UBERON:0003331 name: submucosa of colon namespace: uberon def: "A submucosa that is part of a colon [Automatically generated definition]." [OBOL:automatic] synonym: "colon submucosa" EXACT [OBOL:automatic] synonym: "colonic submucosa" EXACT [FMA:14985] synonym: "large bowel submucosa" EXACT [OBOL:automatic] synonym: "submucosa of large bowel" EXACT [OBOL:automatic] xref: EMAPA:27379 xref: FMA:14985 xref: SCTID:61647009 is_a: UBERON:0001208 ! submucosa of large intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001155 ! colon [Term] id: UBERON:0003332 name: submucosa of duodenum namespace: uberon def: "A submucosa that is part of a duodenum [Automatically generated definition]." [OBOL:automatic] synonym: "doudenal submucosa" EXACT [FMA:14943] synonym: "duodenal submucosa" EXACT [FMA:14943] synonym: "duodenum submucosa" EXACT [OBOL:automatic] xref: EMAPA:27027 xref: EMAPA:27097 xref: EMAPA:27239 xref: FMA:14943 xref: SCTID:76519004 is_a: UBERON:0001205 ! submucosa of small intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0003333 name: submucosa of jejunum namespace: uberon def: "A submucosa that is part of a jejunum [Automatically generated definition]." [OBOL:automatic] synonym: "jejunal submucosa" EXACT [FMA:14950] synonym: "jejunum submucosa" EXACT [OBOL:automatic] xref: EMAPA:27111 xref: EMAPA:27351 xref: FMA:14950 xref: SCTID:70192009 is_a: UBERON:0001205 ! submucosa of small intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0002115 ! jejunum [Term] id: UBERON:0003334 name: serosa of rectum namespace: uberon def: "A serous membrane that is part of a rectum [Automatically generated definition]." [OBOL:automatic] synonym: "rectal serosa" EXACT [FMA:15039] synonym: "rectum serosa" EXACT [OBOL:automatic] synonym: "rectum serous membrane" EXACT [OBOL:automatic] synonym: "serous membrane of rectum" EXACT [OBOL:automatic] synonym: "visceral peritoneum of rectum" EXACT [FMA:15039] xref: EMAPA:27087 xref: EMAPA:27331 xref: FMA:15039 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0001209 ! serosa of large intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001052 ! rectum [Term] id: UBERON:0003335 name: serosa of colon namespace: uberon def: "A serous membrane that is part of a colon [Automatically generated definition]." [OBOL:automatic] synonym: "colon serosa" EXACT [OBOL:automatic] synonym: "colon serous membrane" EXACT [OBOL:automatic] synonym: "colonic serosa" EXACT [FMA:14990] synonym: "large bowel serosa" EXACT [OBOL:automatic] synonym: "large bowel serous membrane" EXACT [OBOL:automatic] synonym: "serosa of large bowel" EXACT [OBOL:automatic] synonym: "serous membrane of colon" EXACT [OBOL:automatic] synonym: "serous membrane of large bowel" EXACT [OBOL:automatic] synonym: "visceral peritoneum of colon" EXACT [FMA:14990] xref: EMAPA:27387 xref: FMA:14990 xref: SCTID:90132000 is_a: UBERON:0001209 ! serosa of large intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001155 ! colon [Term] id: UBERON:0003336 name: serosa of duodenum namespace: uberon def: "A serous membrane that is part of a duodenum [Automatically generated definition]." [OBOL:automatic] comment: Histology notes: 1st part serosa, 2nd - 4th adventitia synonym: "doudenal serosa" EXACT [FMA:14948] synonym: "duodenal serosa" EXACT [FMA:14948] synonym: "duodenum serosa" EXACT [OBOL:automatic] synonym: "duodenum serous membrane" EXACT [OBOL:automatic] synonym: "serous membrane of duodenum" EXACT [OBOL:automatic] synonym: "visceral peritoneum of duodenum" EXACT [FMA:14948] xref: EMAPA:27247 xref: FMA:14948 xref: SCTID:1236009 is_a: UBERON:0001206 ! serosa of small intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0003337 name: serosa of jejunum namespace: uberon def: "A serous membrane that is part of a jejunum [Automatically generated definition]." [OBOL:automatic] synonym: "jejunal serosa" EXACT [FMA:14955] synonym: "jejunum serosa" EXACT [OBOL:automatic] synonym: "jejunum serous membrane" EXACT [OBOL:automatic] synonym: "serous membrane of jejunum" EXACT [OBOL:automatic] synonym: "visceral peritoneum of jejunum" EXACT [FMA:14955] xref: EMAPA:27115 xref: EMAPA:27359 xref: FMA:14955 is_a: UBERON:0001206 ! serosa of small intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0002115 ! jejunum [Term] id: UBERON:0003338 name: ganglion of peripheral nervous system namespace: uberon def: "A ganglion that is part of a peripheral nervous system [Automatically generated definition]." [OBOL:automatic] comment: We follow MA in including separate classes for ganglion and peripheral nervous system, even though for vertebrates gangia are always in the PNS synonym: "peripheral nervous system ganglion" EXACT [OBOL:automatic] xref: BTO:0001123 xref: EMAPA:18371 xref: MA:0001161 intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0000010 ! peripheral nervous system [Term] id: UBERON:0003339 name: ganglion of central nervous system namespace: uberon def: "A ganglion that is part of a central nervous system [Automatically generated definition]." [OBOL:automatic] comment: this has no subclasses in FMA. In EHDAA2 it has only the cranial ganglia synonym: "central nervous system ganglion" EXACT [OBOL:automatic] synonym: "ganglion of neuraxis" EXACT [OBOL:automatic] synonym: "neuraxis ganglion" EXACT [OBOL:automatic] xref: EHDAA2:0000227 xref: EMAPA:16658 xref: FMA:83843 intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0003340 name: obsolete urethra of urogenital sinus namespace: uberon is_obsolete: true consider: EMAPA:30891 [Term] id: UBERON:0003341 name: obsolete urethra of urinary system namespace: uberon is_obsolete: true [Term] id: UBERON:0003342 name: mucosa of anal canal namespace: uberon def: "A mucosa that is part of an anal canal [Automatically generated definition]." [OBOL:automatic] synonym: "anal canal mucosa" EXACT [OBOL:automatic] synonym: "anal canal mucosa of organ" EXACT [OBOL:automatic] synonym: "anal canal mucous membrane" EXACT [OBOL:automatic] synonym: "anal canal organ mucosa" EXACT [OBOL:automatic] synonym: "anal canal viewed anatomically mucosa" EXACT [OBOL:automatic] synonym: "anal canal viewed anatomically mucosa of organ" EXACT [OBOL:automatic] synonym: "anal canal viewed anatomically mucous membrane" EXACT [OBOL:automatic] synonym: "anal canal viewed anatomically organ mucosa" EXACT [OBOL:automatic] synonym: "anal mucosa" EXACT [FMA:74654] synonym: "anal mucous membrane" EXACT [FMA:74654] synonym: "anal region mucosa" EXACT [OBOL:automatic] synonym: "anal region mucosa of organ" EXACT [OBOL:automatic] synonym: "anal region mucous membrane" EXACT [OBOL:automatic] synonym: "anal region organ mucosa" EXACT [OBOL:automatic] synonym: "anatomical anal canal mucosa" EXACT [OBOL:automatic] synonym: "anatomical anal canal mucosa of organ" EXACT [OBOL:automatic] synonym: "anatomical anal canal mucous membrane" EXACT [OBOL:automatic] synonym: "anatomical anal canal organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of anal canal viewed anatomically" EXACT [OBOL:automatic] synonym: "mucosa of anal region" EXACT [OBOL:automatic] synonym: "mucosa of anatomical anal canal" EXACT [OBOL:automatic] synonym: "mucosa of organ of anal canal" EXACT [OBOL:automatic] synonym: "mucosa of organ of anal canal viewed anatomically" EXACT [OBOL:automatic] synonym: "mucosa of organ of anal region" EXACT [OBOL:automatic] synonym: "mucosa of organ of anatomical anal canal" EXACT [OBOL:automatic] synonym: "mucous membrane of anal canal" EXACT [OBOL:automatic] synonym: "mucous membrane of anal canal viewed anatomically" EXACT [OBOL:automatic] synonym: "mucous membrane of anal region" EXACT [OBOL:automatic] synonym: "mucous membrane of anatomical anal canal" EXACT [OBOL:automatic] synonym: "organ mucosa of anal canal" EXACT [OBOL:automatic] synonym: "organ mucosa of anal canal viewed anatomically" EXACT [OBOL:automatic] synonym: "organ mucosa of anal region" EXACT [OBOL:automatic] synonym: "organ mucosa of anatomical anal canal" EXACT [OBOL:automatic] xref: EMAPA:27531 xref: FMA:74654 xref: SCTID:362170004 xref: UMLS:C0227414 xref: ncithesaurus:Anal_Mucosa is_a: UBERON:0001207 ! mucosa of large intestine is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000159 ! anal canal [Term] id: UBERON:0003343 name: mucosa of oral region namespace: uberon def: "A mucosa that is part of a oral opening [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral region" EXACT [OBOL:automatic] synonym: "mucosa of organ of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucous membrane of oral opening" EXACT [OBOL:automatic] synonym: "mucous membrane of oral part of face" EXACT [OBOL:automatic] synonym: "mucous membrane of oral region" EXACT [OBOL:automatic] synonym: "mucous membrane of subdivision of mouth" EXACT [OBOL:automatic] synonym: "oral opening mucosa" EXACT [OBOL:automatic] synonym: "oral opening mucosa of organ" EXACT [OBOL:automatic] synonym: "oral opening mucous membrane" EXACT [OBOL:automatic] synonym: "oral opening organ mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa of organ" EXACT [OBOL:automatic] synonym: "oral part of face mucous membrane" EXACT [OBOL:automatic] synonym: "oral part of face organ mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa of organ" EXACT [OBOL:automatic] synonym: "oral region mucous membrane" EXACT [OBOL:automatic] synonym: "oral region organ mucosa" EXACT [OBOL:automatic] synonym: "organ mucosa of oral opening" EXACT [OBOL:automatic] synonym: "organ mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "organ mucosa of oral region" EXACT [OBOL:automatic] synonym: "organ mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa of organ" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucous membrane" EXACT [OBOL:automatic] synonym: "subdivision of mouth organ mucosa" EXACT [OBOL:automatic] xref: EMAPA:26937 xref: SCTID:362083000 is_a: UBERON:0003729 ! mouth mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000166 ! oral opening [Term] id: UBERON:0003346 name: mucosa of rectum namespace: uberon def: "A mucosa that is part of a rectum [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of organ of rectum" EXACT [OBOL:automatic] synonym: "mucous membrane of rectum" EXACT [OBOL:automatic] synonym: "organ mucosa of rectum" EXACT [OBOL:automatic] synonym: "rectal mucosa" EXACT [FMA:15033] synonym: "rectal mucous membrane" EXACT [FMA:15033] synonym: "rectum mucosa" EXACT [OBOL:automatic] synonym: "rectum mucosa of organ" EXACT [OBOL:automatic] synonym: "rectum mucous membrane" EXACT [OBOL:automatic] synonym: "rectum organ mucosa" EXACT [OBOL:automatic] xref: EMAPA:27081 xref: EMAPA:27319 xref: FMA:15033 xref: SCTID:362167003 is_a: UBERON:0001207 ! mucosa of large intestine is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001052 ! rectum [Term] id: UBERON:0003350 name: epithelium of mucosa namespace: uberon def: "A layer of epithelial cells on the surface of the mucosa." [BTO:0003752] synonym: "lamina epithelialis mucosa" RELATED [BTO:0003752] synonym: "lamina epithelialis mucosae" RELATED [BTO:0003752] xref: BTO:0003752 xref: EMAPA:18668 xref: EMAPA:18835 xref: EMAPA:18857 xref: EMAPA:18862 xref: EMAPA:18868 xref: EMAPA:18893 xref: EMAPA:18899 xref: EMAPA:18912 xref: EMAPA:18917 xref: EMAPA:18927 xref: EMAPA:18934 xref: EMAPA:18941 xref: EMAPA:19078 xref: EMAPA:26961 xref: EMAPA:26985 xref: EMAPA:27019 xref: EMAPA:27033 xref: EMAPA:27047 xref: EMAPA:27061 xref: EMAPA:27075 xref: EMAPA:27089 xref: EMAPA:27103 xref: EMAPA:27131 xref: EMAPA:27145 xref: EMAPA:27159 xref: EMAPA:27175 xref: EMAPA:27191 xref: EMAPA:27207 xref: EMAPA:27219 xref: EMAPA:27229 xref: EMAPA:27307 intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000344 ! mucosa [Term] id: UBERON:0003351 name: pharyngeal epithelium namespace: uberon def: "An epithelium that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "epithelial tissue of pharynx" EXACT [OBOL:automatic] synonym: "epithelium of pharynx" EXACT [OBOL:automatic] synonym: "pharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "pharynx epithelium" EXACT [OBOL:automatic] xref: EMAPA:16551 xref: EMAPA:16708 xref: MA:0002725 xref: RETIRED_EHDAA2:0001460 xref: TAO:0001174 xref: XAO:0003202 xref: ZFA:0001174 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0004807 ! respiratory system epithelium relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0001042 ! chordate pharynx intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001042 ! chordate pharynx property_value: external_definition "Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO]" xsd:string [Term] id: UBERON:0003352 name: epithelium of midgut namespace: uberon def: "An epithelium that is part of a midgut." [OBOL:automatic] synonym: "epithelial tissue of midgut" EXACT [OBOL:automatic] synonym: "midgut epithelial tissue" EXACT [OBOL:automatic] synonym: "midgut epithelium" EXACT [BTO:0005053, OBOL:automatic] xref: BTO:0005053 xref: EHDAA2:0001195 xref: EMAPA:16569 is_a: UBERON:0003929 ! gut epithelium relationship: part_of UBERON:0001045 ! midgut intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001045 ! midgut [Term] id: UBERON:0003353 name: epithelium of hindgut namespace: uberon def: "An epithelium that is part of a hindgut [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of hindgut" EXACT [OBOL:automatic] synonym: "hindgut epithelial tissue" EXACT [OBOL:automatic] synonym: "hindgut epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0000782 xref: EMAPA:16717 is_a: UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001046 ! hindgut [Term] id: UBERON:0003354 name: epithelium of rectum namespace: uberon def: "An epithelium that is part of a rectum [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of rectum" EXACT [OBOL:automatic] synonym: "rectal epithelium" EXACT [FMA:17510] synonym: "rectum epithelial tissue" EXACT [OBOL:automatic] synonym: "rectum epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001594 xref: EMAPA:17898 xref: FMA:17510 xref: VHOG:0001037 xref: WBbt:0005800 is_a: UBERON:0001278 ! epithelium of large intestine is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001052 ! rectum [Term] id: UBERON:0003355 name: epithelium of incisor namespace: uberon def: "An epithelium that is part of a incisor tooth [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of incisor" EXACT [OBOL:automatic] synonym: "epithelial tissue of incisor tooth" EXACT [OBOL:automatic] synonym: "epithelium of incisor tooth" EXACT [OBOL:automatic] synonym: "incisor epithelial tissue" EXACT [OBOL:automatic] synonym: "incisor epithelium" EXACT [OBOL:automatic] synonym: "incisor tooth epithelial tissue" EXACT [OBOL:automatic] synonym: "incisor tooth epithelium" EXACT [OBOL:automatic] xref: EMAPA:17919 xref: EMAPA:17940 is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001098 ! incisor tooth [Term] id: UBERON:0003356 name: epithelium of nasal septum namespace: uberon def: "An epithelium that is part of a nasal septum [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of nasal septum" EXACT [OBOL:automatic] synonym: "nasal septum epithelial tissue" EXACT [OBOL:automatic] synonym: "nasal septum epithelium" EXACT [OBOL:automatic] xref: EMAPA:18442 is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001706 ! nasal septum [Term] id: UBERON:0003357 name: epithelium of tongue namespace: uberon def: "An epithelium that is part of a tongue [Automatically generated definition]." [OBOL:automatic] comment: examples: tongue squamous epithelium, keratined, non-keratinized and parakeratinized epithelium, as well as gustatory epithelium. Note that not all these subtypes are named in individual anatomy ontologies. synonym: "epithelial tissue of tongue" EXACT [OBOL:automatic] synonym: "lingual epithelium" RELATED [BTO:0000992] synonym: "tongue epithelial tissue" EXACT [OBOL:automatic] synonym: "tongue epithelium" EXACT [OBOL:automatic] xref: BTO:0000992 xref: EHDAA2:0004598 xref: EMAPA:17881 xref: EMAPA:18872 xref: MA:0001592 xref: UMLS:C1710436 xref: ncithesaurus:Tongue_Epithelium is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0003358 name: epithelium of soft palate namespace: uberon def: "An epithelium that is part of a soft palate [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of soft palate" EXACT [OBOL:automatic] synonym: "soft palate epithelial tissue" EXACT [OBOL:automatic] synonym: "soft palate epithelium" EXACT [OBOL:automatic] xref: EMAPA:18950 is_a: UBERON:0003235 ! epithelium of upper jaw is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001733 ! soft palate [Term] id: UBERON:0003359 name: epithelium of submandibular gland namespace: uberon def: "An epithelium that is part of a submandibular gland [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of submandibular gland" EXACT [OBOL:automatic] synonym: "submandibular gland duct epithelium" RELATED [BTO:0004557] synonym: "submandibular gland epithelial tissue" EXACT [OBOL:automatic] synonym: "submandibular gland epithelium" EXACT [OBOL:automatic] xref: BTO:0004557 xref: EMAPA:18813 xref: VHOG:0000989 is_a: UBERON:0003236 ! epithelium of lower jaw intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001736 ! submandibular gland [Term] id: UBERON:0003360 name: epithelium of parotid gland namespace: uberon def: "An epithelium that is part of a parotid gland [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of parotid gland" EXACT [OBOL:automatic] synonym: "epithelium of parotid" EXACT [OBOL:automatic] synonym: "epithelium of parotid gland" EXACT [OBOL:automatic] synonym: "parotid epithelial tissue" EXACT [OBOL:automatic] synonym: "parotid epithelium" EXACT [OBOL:automatic] synonym: "parotid gland duct epithelium" RELATED [BTO:0004555] synonym: "parotid gland epithelial tissue" EXACT [OBOL:automatic] synonym: "parotid gland epithelium" EXACT [OBOL:automatic] xref: BTO:0004555 xref: EMAPA:18538 xref: VHOG:0001434 is_a: UBERON:0003236 ! epithelium of lower jaw intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001831 ! parotid gland [Term] id: UBERON:0003361 name: epithelium of sublingual gland namespace: uberon def: "An epithelium that is part of a sublingual gland [Automatically generated definition]." [OBOL:automatic] synonym: "Rivinus'gland epithelial tissue" EXACT [OBOL:automatic] synonym: "Rivinus'gland epithelium" EXACT [OBOL:automatic] synonym: "ductus sublingualis epithelial tissue" EXACT [OBOL:automatic] synonym: "ductus sublingualis epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of Rivinus'gland" EXACT [OBOL:automatic] synonym: "epithelial tissue of ductus sublingualis" EXACT [OBOL:automatic] synonym: "epithelial tissue of sublingual gland" EXACT [OBOL:automatic] synonym: "epithelium of Rivinus'gland" EXACT [OBOL:automatic] synonym: "epithelium of ductus sublingualis" EXACT [OBOL:automatic] synonym: "sublingual gland duct epithelium" RELATED [BTO:0004559] synonym: "sublingual gland epithelial tissue" EXACT [OBOL:automatic] synonym: "sublingual gland epithelium" EXACT [OBOL:automatic] xref: BTO:0004559 xref: EMAPA:18810 xref: VHOG:0001098 is_a: UBERON:0003929 ! gut epithelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001832 ! sublingual gland [Term] id: UBERON:0003362 name: epithelium of endolymphatic duct namespace: uberon def: "An epithelium that is part of a endolymphatic duct [Automatically generated definition]." [OBOL:automatic] synonym: "endolymphatic duct epithelial tissue" EXACT [OBOL:automatic] synonym: "endolymphatic duct epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of endolymphatic duct" EXACT [OBOL:automatic] xref: EMAPA:18582 is_a: UBERON:0006937 ! inner ear epithelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001860 ! endolymphatic duct [Term] id: UBERON:0003363 name: epithelium of ductus reuniens namespace: uberon def: "An epithelium that is part of a ductus reuniens [Automatically generated definition]." [OBOL:automatic] synonym: "ductus reuniens epithelial tissue" EXACT [OBOL:automatic] synonym: "ductus reuniens epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of ductus reuniens" EXACT [OBOL:automatic] xref: EMAPA:17289 is_a: UBERON:0006932 ! vestibular epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001861 ! ductus reuniens [Term] id: UBERON:0003364 name: epithelium of right lung namespace: uberon def: "An epithelium that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of right lung" EXACT [OBOL:automatic] synonym: "right lung epithelial tissue" EXACT [OBOL:automatic] synonym: "right lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17663 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003365 name: epithelium of left lung namespace: uberon def: "An epithelium that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of left lung" EXACT [OBOL:automatic] synonym: "left lung epithelial tissue" EXACT [OBOL:automatic] synonym: "left lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17655 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003366 name: epithelium of uterine horn namespace: uberon def: "An epithelium that is part of a uterine horn [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of uterine horn" EXACT [OBOL:automatic] synonym: "uterine horn epithelial tissue" EXACT [OBOL:automatic] synonym: "uterine horn epithelium" EXACT [OBOL:automatic] xref: EMAPA:29030 is_a: UBERON:0006955 ! uterine epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002247 ! uterine horn [Term] id: UBERON:0003367 name: epithelium of vomeronasal organ namespace: uberon def: "An epithelium that is part of a vomeronasal organ [Automatically generated definition]." [OBOL:automatic] synonym: "Jacobson's organ epithelial tissue" EXACT [OBOL:automatic] synonym: "Jacobson's organ epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of Jacobson's organ" EXACT [OBOL:automatic] synonym: "epithelial tissue of vomeronasal organ" EXACT [OBOL:automatic] synonym: "epithelium of Jacobson's organ" EXACT [OBOL:automatic] synonym: "vomeronasal epithelium" EXACT [EHDAA2:0004102] synonym: "vomeronasal organ epithelial tissue" EXACT [OBOL:automatic] synonym: "vomeronasal organ epithelium" EXACT [OBOL:automatic] synonym: "vomeronasal organ sensory epithelium" EXACT [MA:0001328] xref: EHDAA2:0004102 xref: EMAPA:18444 xref: MA:0001328 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0001997 ! olfactory epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002255 ! vomeronasal organ [Term] id: UBERON:0003368 name: epithelium of hard palate namespace: uberon def: "An epithelium that is part of a hard palate [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of hard palate" EXACT [OBOL:automatic] synonym: "hard palate epithelial tissue" EXACT [OBOL:automatic] synonym: "hard palate epithelium" EXACT [OBOL:automatic] xref: EMAPA:18953 is_a: UBERON:0003235 ! epithelium of upper jaw is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003216 ! hard palate [Term] id: UBERON:0003369 name: fossa ovalis of heart namespace: uberon def: "Found in the right atrium of the heart, the fossa ovalis is an embryonic remnant of the foramen ovale, which normally closes shortly after birth. In a heart specimen of a neonate, the fossa ovalis is translucent, but later in life the membrane thickens." [Wikipedia:Fossa_ovalis_(heart)] synonym: "fossa ovalis" EXACT [FMA:9246] synonym: "oval fossa" EXACT [FMA:9246] xref: FMA:9246 xref: SCTID:277719009 is_a: UBERON:0006984 ! anatomical surface relationship: develops_from UBERON:0004754 ! foramen ovale of heart relationship: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0003371 name: pelvic appendage bud ectoderm namespace: uberon alt_id: UBERON:0005232 def: "An unilaminar epithelium that surrounds a pelvic appendage bud." [OBOL:automatic] synonym: "hindlimb bud ectoderm" NARROW SENSU [] synonym: "hindlimb ectoderm" EXACT SENSU [VHOG:0001048] synonym: "leg ectoderm" RELATED [OBOL:automatic] synonym: "lower limb bud ectoderm" NARROW SENSU [EHDAA2:0001034] synonym: "pelvic fin bud ectoderm" NARROW SENSU [] xref: EHDAA2:0001034 xref: EMAPA:17254 xref: VHOG:0001048 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0005420 ! pelvic appendage bud intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: surrounds UBERON:0005420 ! pelvic appendage bud [Term] id: UBERON:0003372 name: pectoral appendage bud ectoderm namespace: uberon alt_id: UBERON:0005231 alt_id: UBERON:0005663 def: "An unilaminar epithelium that surrounds a pectoral appendage bud." [OBOL:automatic] synonym: "arm ectoderm" RELATED [OBOL:automatic] synonym: "forelimb bud ectoderm" NARROW SENSU [] synonym: "forelimb ectoderm" NARROW SENSU [VHOG:0001047] synonym: "pectoral fin bud ectoderm" NARROW SENSU [] synonym: "upper limb bud ectoderm" NARROW SENSU [EHDAA2:0002134] synonym: "wing ectoderm" NARROW SENSU [Geisha:syn, NCBITaxon:8782] xref: EHDAA2:0002134 xref: EMAPA:17243 xref: VHOG:0001047 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0005419 ! pectoral appendage bud intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: surrounds UBERON:0005419 ! pectoral appendage bud [Term] id: UBERON:0003373 name: ectoderm of footplate namespace: uberon def: "An ectoderm that is part of a footplate." [OBOL:automatic] xref: EMAPA:17250 intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0006871 ! footplate [Term] id: UBERON:0003374 name: chorionic ectoderm namespace: uberon synonym: "chorion ectoderm" EXACT [OBOL:automatic] synonym: "chorion epithelium" RELATED [] synonym: "chorionic epithelium" RELATED [BTO:0005145] xref: BTO:0005145 xref: EMAPA:16113 is_a: UBERON:0003265 ! chorionic mesoderm is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000924 ! ectoderm intersection_of: UBERON:0000478 ! extraembryonic structure intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0003124 ! chorion [Term] id: UBERON:0003378 name: cardiac muscle of auricular region namespace: uberon def: "A cardiac muscle tissue that is part of a atrium auricular region." [OBOL:automatic] synonym: "auricular region heart muscle" EXACT [] synonym: "cardiac muscle tissue of auricle" EXACT [FMA:84279] xref: FMA:84279 is_a: UBERON:0004490 ! cardiac muscle tissue of atrium relationship: part_of UBERON:0001133 ! cardiac muscle tissue intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0006618 ! atrium auricular region [Term] id: UBERON:0003379 name: cardiac muscle of right atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle of cardiac right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of heart right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of right atrium of heart" EXACT [OBOL:automatic] synonym: "myocardium of right atrium" EXACT [] synonym: "right atrium heart muscle" EXACT [EHDAA2:0004155] synonym: "right atrium myocardium" EXACT [VHOG:0001227] synonym: "textus muscularis of myocardium of right atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of right atrium of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of right cardiac atrium" EXACT [OBOL:automatic] xref: EHDAA2:0004155 xref: EMAPA:17326 xref: FMA:7282 xref: SCTID:362018002 xref: VHOG:0001227 is_a: UBERON:0004490 ! cardiac muscle tissue of atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0003380 name: cardiac muscle of left atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a left atrium [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac left atrium cardiac muscle" EXACT [OBOL:automatic] synonym: "cardiac left atrium cardiac muscle tissue" EXACT [OBOL:automatic] synonym: "cardiac muscle of cardiac left atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart left atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of left atrium of heart" EXACT [OBOL:automatic] synonym: "left atrium heart muscle" EXACT [EHDAA2:0004154] synonym: "left atrium myocardium" EXACT [VHOG:0001225] synonym: "myocardium of left atrium" EXACT [] synonym: "textus muscularis of myocardium of cardiac left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of heart left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left atrium of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left cardiac atrium" EXACT [OBOL:automatic] xref: EHDAA2:0004154 xref: EMAPA:17320 xref: FMA:7285 xref: SCTID:189936008 xref: VHOG:0001225 is_a: UBERON:0004490 ! cardiac muscle tissue of atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002079 ! left atrium [Term] id: UBERON:0003381 name: cardiac muscle of right ventricle namespace: uberon def: "A portion of cardiac muscle tissue that is part of a right ventricle [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle tissue of right ventricle" EXACT [FMA:83452] synonym: "right ventricle cardiac muscle" RELATED [VHOG:0001236] synonym: "right ventricular cardiac muscle tissue" EXACT [GO:0003221] xref: EMAPA:17342 xref: FMA:83452 xref: VHOG:0001236 intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0003382 name: cardiac muscle of left ventricle namespace: uberon def: "A portion of cardiac muscle tissue that is part of a left ventricle [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle tissue of left ventricle" EXACT [FMA:83453] synonym: "left ventricle cardiac muscle" RELATED [VHOG:0001234] synonym: "left ventricular cardiac muscle tissue" EXACT [GO:0003220] xref: EMAPA:17339 xref: FMA:83453 xref: VHOG:0001234 intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0003383 name: cardiac muscle of interventricular septum namespace: uberon def: "A portion of cardiac muscle tissue that is part of a interventricular septum [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle tissue of interventricular septum" EXACT [FMA:84084] synonym: "interventricular septum cardiac muscle" EXACT [VHOG:0000999] synonym: "interventricular septum heart muscle" EXACT [EHDAA2:0004158] synonym: "interventricular septum myocardium" EXACT [VHOG:0000999] xref: EHDAA2:0004158 xref: EMAPA:17335 xref: FMA:84084 xref: VHOG:0000999 is_a: UBERON:0004492 ! cardiac muscle tissue of cardiac septum is_a: UBERON:0004667 ! interventricular septum muscular part intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002094 ! interventricular septum [Term] id: UBERON:0003384 name: skeletal muscle of pharynx namespace: uberon def: "A portion of skeletal muscle tissue that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "pharynx skeletal muscle" EXACT [OBOL:automatic] synonym: "pharynx skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of pharynx" EXACT [OBOL:automatic] xref: EMAPA:18963 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004830 ! respiratory system skeletal muscle intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0003385 name: skeletal muscle of mesenchyme namespace: uberon def: "A portion of skeletal muscle tissue that is part of a mesenchyme [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyme skeletal muscle" EXACT [OBOL:automatic] synonym: "mesenchyme skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:19066 xref: EMAPA:19071 intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0003104 ! mesenchyme [Term] id: UBERON:0003386 name: smooth muscle of eye namespace: uberon def: "A portion of smooth muscle tissue that is part of a eye [Automatically generated definition]." [OBOL:automatic] synonym: "ocular smooth muscle" EXACT [MA:0001268] xref: EMAPA:18807 xref: MA:0001268 is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003387 name: smooth muscle of trachea namespace: uberon alt_id: UBERON:0004244 def: "A portion of smooth muscle tissue that is part of a trachea [Automatically generated definition]." [OBOL:automatic] synonym: "trachea smooth muscle" EXACT [MA:0001863] synonym: "tracheal smooth muscle" EXACT [BTO:0001391] xref: BTO:0001391 xref: EMAPA:19192 xref: FMA:262010 xref: MA:0001863 xref: UMLS:C1710458 xref: ncithesaurus:Trachea_Smooth_Muscle_Tissue is_a: UBERON:0004233 ! lower respiratory tract smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003388 name: mesothelium of pericardial cavity namespace: uberon def: "A mesothelium that is part of a pericardial cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of pericardial sac meso-epithelium" EXACT [OBOL:automatic] synonym: "cavity of pericardial sac mesothelium" EXACT [OBOL:automatic] synonym: "meso-epithelium of cavity of pericardial sac" EXACT [OBOL:automatic] synonym: "meso-epithelium of pericardial cavity" EXACT [OBOL:automatic] synonym: "mesothelium of cavity of pericardial sac" EXACT [OBOL:automatic] synonym: "pericardial cavity meso-epithelium" EXACT [OBOL:automatic] synonym: "pericardial cavity mesothelium" EXACT [OBOL:automatic] xref: EMAPA:18449 xref: RETIRED_EHDAA2:0001436 intersection_of: UBERON:0001136 ! mesothelium intersection_of: located_in UBERON:0001074 ! pericardial cavity [Term] id: UBERON:0003389 name: mesothelium of diaphragm namespace: uberon def: "A mesothelium that is part of a diaphragm [Automatically generated definition]." [OBOL:automatic] synonym: "diaphragm meso-epithelium" EXACT [OBOL:automatic] synonym: "diaphragm mesothelium" EXACT [OBOL:automatic] synonym: "meso-epithelium of diaphragm" EXACT [OBOL:automatic] synonym: "meso-epithelium of thoracic diaphragm" EXACT [OBOL:automatic] synonym: "mesothelium of thoracic diaphragm" EXACT [OBOL:automatic] synonym: "thoracic diaphragm meso-epithelium" EXACT [OBOL:automatic] synonym: "thoracic diaphragm mesothelium" EXACT [OBOL:automatic] xref: EMAPA:18429 is_a: UBERON:0004807 ! respiratory system epithelium intersection_of: UBERON:0001136 ! mesothelium intersection_of: part_of UBERON:0001103 ! diaphragm [Term] id: UBERON:0003390 name: mesothelium of pleural cavity namespace: uberon def: "A mesothelium that is part of a pleural cavity [Automatically generated definition]." [OBOL:automatic] synonym: "meso-epithelium of pleural cavity" EXACT [OBOL:automatic] synonym: "pleural cavity meso-epithelium" EXACT [OBOL:automatic] synonym: "pleural cavity mesothelium" EXACT [OBOL:automatic] xref: BTO:0003155 xref: EHDAA2:0001476 xref: EMAPA:18463 intersection_of: UBERON:0001136 ! mesothelium intersection_of: located_in UBERON:0002402 ! pleural cavity [Term] id: UBERON:0003393 name: mesentery of urinary system namespace: uberon def: "A mesentery that is part of a urinary system [Automatically generated definition]." [OBOL:automatic] synonym: "excretory system mesentery" EXACT [OBOL:automatic] synonym: "mesentery of excretory system" EXACT [OBOL:automatic] synonym: "mesentery of renal system" EXACT [OBOL:automatic] synonym: "mesentery of systema urinaria" EXACT [OBOL:automatic] synonym: "renal system mesentery" EXACT [OBOL:automatic] synonym: "systema urinaria mesentery" EXACT [OBOL:automatic] synonym: "urinary system mesentery" EXACT [OBOL:automatic] xref: EMAPA:17367 is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0003394 name: mesentery of hindgut namespace: uberon def: "A mesentery that is part of a hindgut [Automatically generated definition]." [OBOL:automatic] synonym: "hindgut mesentery" EXACT [OBOL:automatic] xref: EMAPA:16718 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001046 ! hindgut [Term] id: UBERON:0003395 name: mesentery of rectum namespace: uberon def: "A mesentery that is part of a rectum [Automatically generated definition]." [OBOL:automatic] synonym: "rectum mesentery" EXACT [OBOL:automatic] xref: EMAPA:18664 xref: EMAPA:18929 is_a: UBERON:0003334 ! serosa of rectum is_a: UBERON:0004854 ! gastrointestinal system mesentery intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001052 ! rectum [Term] id: UBERON:0003396 name: mesentery of colon namespace: uberon def: "A mesentery that is part of a colon [Automatically generated definition]." [OBOL:automatic] synonym: "colon mesentery" EXACT [OBOL:automatic] synonym: "large bowel mesentery" EXACT [OBOL:automatic] synonym: "large intestinal mesentery" EXACT [FMA:14645] synonym: "mesentery of large bowel" EXACT [OBOL:automatic] synonym: "mesentery of large intestine" EXACT [FMA:14645] xref: EMAPA:18942 xref: FMA:14645 xref: SCTID:245457004 is_a: UBERON:0003335 ! serosa of colon is_a: UBERON:0004854 ! gastrointestinal system mesentery is_a: UBERON:0007826 ! peritoneal mesentery intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0001155 ! colon [Term] id: UBERON:0003397 name: mesentery of duodenum namespace: uberon def: "A mesentery that is part of a duodenum [Automatically generated definition]." [OBOL:automatic] synonym: "duodenum mesentery" EXACT [OBOL:automatic] xref: EMAPA:19081 is_a: UBERON:0001170 ! mesentery of small intestine is_a: UBERON:0003336 ! serosa of duodenum intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0002114 ! duodenum [Term] id: UBERON:0003398 name: mesentery of jejunum namespace: uberon def: "A mesentery that is part of a jejunum [Automatically generated definition]." [OBOL:automatic] synonym: "jejunal mesentery" EXACT [] synonym: "jejunum mesentery" EXACT [] synonym: "mesojejunum" EXACT [http://www.vivo.colostate.edu/hbooks/pathphys/misc_topics/peritoneum.html] xref: EMAPA:18670 xref: EMAPA:18937 xref: FMA:14651 xref: SCTID:261286003 is_a: UBERON:0001170 ! mesentery of small intestine is_a: UBERON:0003337 ! serosa of jejunum intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0002115 ! jejunum [Term] id: UBERON:0003403 name: skin of forearm namespace: uberon def: "A zone of skin that is part of a lower arm [Automatically generated definition]." [OBOL:automatic] synonym: "antebrachial region skin" EXACT [OBOL:automatic] synonym: "arm middle limb segment skin" EXACT [OBOL:automatic] synonym: "arm zeugopod skin" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment skin" EXACT [OBOL:automatic] synonym: "brachial region zeugopod skin" EXACT [OBOL:automatic] synonym: "forearm skin" EXACT [FMA:38265] synonym: "intermediate segment of free upper limb skin" EXACT [OBOL:automatic] synonym: "lower arm skin" EXACT [OBOL:automatic] synonym: "lower segment of arm skin" EXACT [OBOL:automatic] synonym: "middle limb segment of arm skin" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region skin" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb skin" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment skin" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod skin" EXACT [OBOL:automatic] synonym: "skin of antebrachial region" EXACT [OBOL:automatic] synonym: "skin of arm middle limb segment" EXACT [OBOL:automatic] synonym: "skin of arm zeugopod" EXACT [OBOL:automatic] synonym: "skin of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "skin of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "skin of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "skin of lower arm" EXACT [OBOL:automatic] synonym: "skin of lower segment of arm" EXACT [OBOL:automatic] synonym: "skin of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "skin of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "skin of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "skin of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "skin of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "skin of zeugopod of arm" EXACT [OBOL:automatic] synonym: "skin of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "skin of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "zeugopod of arm skin" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region skin" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb skin" EXACT [OBOL:automatic] xref: EMAPA:18056 xref: FMA:38265 xref: MA:0000602 xref: SCTID:181537008 is_a: UBERON:0002427 ! arm skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002386 ! forelimb zeugopod [Term] id: UBERON:0003404 name: lobar bronchus of right lung namespace: uberon def: "A lobar bronchus that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "right lobar bronchus" EXACT [OBOL:automatic] synonym: "right lung lobar bronchus" EXACT [OBOL:automatic] synonym: "right lung secondary bronchus" EXACT [OBOL:automatic] synonym: "secondary bronchus of right lung" EXACT [OBOL:automatic] xref: EMAPA:17664 xref: SCTID:245511004 relationship: part_of UBERON:0006518 ! right lung lobe intersection_of: UBERON:0002183 ! lobar bronchus intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003405 name: lobar bronchus of left lung namespace: uberon def: "A lobar bronchus that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "left lobar bronchus" EXACT [OBOL:automatic] synonym: "left lung lobar bronchus" EXACT [OBOL:automatic] synonym: "left lung secondary bronchus" EXACT [OBOL:automatic] synonym: "secondary bronchus of left lung" EXACT [OBOL:automatic] xref: EMAPA:17388 xref: EMAPA:17656 xref: SCTID:245510003 relationship: part_of UBERON:0008951 ! left lung lobe intersection_of: UBERON:0002183 ! lobar bronchus intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003406 name: cartilage of respiratory system namespace: uberon def: "A cartilage that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius cartilage" EXACT [OBOL:automatic] synonym: "cartilage of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "respiratory system cartilage" EXACT [OBOL:automatic] xref: EMAPA:18694 xref: MA:0001818 is_a: UBERON:0003570 ! respiratory system connective tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003407 name: cartilage of nasal septum namespace: uberon def: "A cartilage that is part of a nasal septum [Automatically generated definition]." [OBOL:automatic] synonym: "cartilago septal nasi" EXACT [FMA:59503] synonym: "nasal septum cartilage" EXACT [OBOL:automatic] synonym: "septal nasal cartilage" EXACT [FMA:59503] xref: EMAPA:25091 xref: FMA:59503 is_a: UBERON:0001823 ! nasal cartilage is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0001706 ! nasal septum [Term] id: UBERON:0003408 name: gland of gut namespace: uberon def: "A gland that is part of a digestive tract [Automatically generated definition]." [OBOL:automatic] synonym: "digestive tract gland" EXACT [OBOL:automatic] synonym: "gland of digestive tract" EXACT [OBOL:automatic] synonym: "gland of lower gastrointestinal tract" EXACT [OBOL:automatic] synonym: "gut gland" EXACT [OBOL:automatic] synonym: "lower gastrointestinal tract gland" EXACT [OBOL:automatic] xref: EMAPA:18815 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0003409 name: gland of tongue namespace: uberon def: "A gland that is part of a tongue [Automatically generated definition]." [OBOL:automatic] synonym: "tongue gland" EXACT [OBOL:automatic] xref: EMAPA:25097 is_a: UBERON:0010047 ! oral gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0003410 name: oropharyngeal gland namespace: uberon def: "A gland that is part of a oropharynx [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "gland of oral part of pharynx" EXACT [OBOL:automatic] synonym: "gland of oropharynx" EXACT [EMAPA:25095] synonym: "oral part of pharynx gland" EXACT [OBOL:automatic] synonym: "oropharynx gland" EXACT [OBOL:automatic] xref: EMAPA:25095 is_a: UBERON:0003295 ! pharyngeal gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001729 ! oropharynx [Term] id: UBERON:0003412 name: pelvic appendage bud mesenchyme namespace: uberon def: "Mesenchyme that is part of a pelvic appendage bud." [OBOL:automatic] synonym: "leg mesenchyme" EXACT [OBOL:automatic] synonym: "lower limb bud mesenchyme" EXACT [EHDAA2:0001035] synonym: "mesoderm pelvic fin bud" NARROW SENSU [ZFA:0001386] synonym: "pelvic fin bud mesenchyme" NARROW SENSU [] xref: EHDAA2:0001035 xref: EMAPA:17255 xref: TAO:0001386 xref: ZFA:0001386 is_a: UBERON:0010329 ! limb/fin bud mesenchyme relationship: develops_from UBERON:0005730 ! pelvic appendage field intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005420 ! pelvic appendage bud property_value: external_definition "Mesoderm part of pelvic fin bud.[TAO]" xsd:string [Term] id: UBERON:0003413 name: pectoral appendage bud mesenchyme namespace: uberon alt_id: UBERON:0005703 def: "Mesenchyme that is part of a pectoral appendage bud." [OBOL:automatic] synonym: "arm mesenchyme" NARROW [OBOL:automatic] synonym: "mesoderm pectoral fin bud" NARROW SENSU [ZFA:0000789] synonym: "pectoral fin bud mesenchyme" NARROW SENSU [] synonym: "upper limb bud mesenchyme" NARROW [EHDAA2:0002135] synonym: "wing mesenchyme" NARROW [OBOL:automatic] xref: EHDAA2:0002135 xref: EHDAA:1703 xref: EMAPA:17244 xref: TAO:0000789 xref: ZFA:0000789 is_a: UBERON:0010329 ! limb/fin bud mesenchyme relationship: develops_from UBERON:0005729 ! pectoral appendage field intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005419 ! pectoral appendage bud property_value: external_definition "Mesoderm that is part of the pectoral fin bud.[TAO]" xsd:string [Term] id: UBERON:0003414 name: mesenchyme of mandible namespace: uberon def: "Mesenchyme that is part of a mandible [Automatically generated definition]." [OBOL:automatic] synonym: "bone of lower jaw mesenchyme" EXACT [OBOL:automatic] synonym: "bone of ventral mandibular arch mesenchyme" EXACT [OBOL:automatic] synonym: "bone organ of lower jaw mesenchyme" EXACT [OBOL:automatic] synonym: "bone organ of ventral mandibular arch mesenchyme" EXACT [OBOL:automatic] synonym: "lower jaw bone mesenchyme" EXACT [OBOL:automatic] synonym: "lower jaw bone organ mesenchyme" EXACT [OBOL:automatic] synonym: "mandible mesenchyme" EXACT [OBOL:automatic] synonym: "mandibulla mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of bone of lower jaw" EXACT [OBOL:automatic] synonym: "mesenchyme of bone of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "mesenchyme of bone organ of lower jaw" EXACT [OBOL:automatic] synonym: "mesenchyme of bone organ of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "mesenchyme of lower jaw bone" EXACT [OBOL:automatic] synonym: "mesenchyme of lower jaw bone organ" EXACT [OBOL:automatic] synonym: "mesenchyme of mandibulla" EXACT [OBOL:automatic] synonym: "mesenchyme of ventral mandibular arch bone" EXACT [OBOL:automatic] synonym: "mesenchyme of ventral mandibular arch bone organ" EXACT [OBOL:automatic] synonym: "ventral mandibular arch bone mesenchyme" EXACT [OBOL:automatic] synonym: "ventral mandibular arch bone organ mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:17912 is_a: UBERON:0003324 ! mesenchyme of lower jaw is_a: UBERON:0009891 ! facial mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001684 ! mandible [Term] id: UBERON:0003415 name: mesenchyme of nasal septum namespace: uberon def: "Mesenchyme that is part of a nasal septum [Automatically generated definition]." [OBOL:automatic] synonym: "nasal septum mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18443 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0009891 ! facial mesenchyme is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001706 ! nasal septum [Term] id: UBERON:0003416 name: mesenchyme of tongue namespace: uberon def: "Mesenchyme that is part of a tongue [Automatically generated definition]." [OBOL:automatic] comment: todo - develops_from synonym: "tongue mesenchyme" EXACT [EHDAA2:0004614] xref: EHDAA2:0004614 xref: EMAPA:17882 xref: EMAPA:18878 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0003417 name: mesenchyme of soft palate namespace: uberon def: "Mesenchyme that is part of a soft palate [Automatically generated definition]." [OBOL:automatic] synonym: "soft palate mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18951 is_a: UBERON:0003323 ! mesenchyme of upper jaw intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001733 ! soft palate [Term] id: UBERON:0003418 name: mesenchyme of submandibular gland namespace: uberon def: "Mesenchyme that is part of a submandibular gland [Automatically generated definition]." [OBOL:automatic] synonym: "submandibular gland mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18814 xref: VHOG:0001110 is_a: UBERON:0003324 ! mesenchyme of lower jaw intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001736 ! submandibular gland [Term] id: UBERON:0003419 name: mesenchyme of parotid namespace: uberon def: "Mesenchyme that is part of a parotid gland [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyme of parotid gland" EXACT [OBOL:automatic] synonym: "parotid gland mesenchyme" EXACT [OBOL:automatic] synonym: "parotid mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18539 xref: VHOG:0001435 is_a: UBERON:0003324 ! mesenchyme of lower jaw is_a: UBERON:0009891 ! facial mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001831 ! parotid gland [Term] id: UBERON:0003420 name: mesenchyme of sublingual gland namespace: uberon def: "Mesenchyme that is part of a sublingual gland [Automatically generated definition]." [OBOL:automatic] synonym: "Rivinus'gland mesenchyme" EXACT [OBOL:automatic] synonym: "ductus sublingualis mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of Rivinus'gland" EXACT [OBOL:automatic] synonym: "mesenchyme of ductus sublingualis" EXACT [OBOL:automatic] synonym: "sublingual gland mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18811 xref: VHOG:0001106 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001832 ! sublingual gland [Term] id: UBERON:0003421 name: mesenchyme of vomeronasal organ namespace: uberon def: "Mesenchyme that is part of a vomeronasal organ [Automatically generated definition]." [OBOL:automatic] synonym: "Jacobson's organ mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of Jacobson's organ" EXACT [OBOL:automatic] synonym: "vomeronasal mesenchyme" EXACT [EHDAA2:0004103] synonym: "vomeronasal organ mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0004103 xref: EMAPA:18445 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009891 ! facial mesenchyme relationship: develops_from UBERON:0009204 ! medial nasal process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002255 ! vomeronasal organ [Term] id: UBERON:0003422 name: mesenchyme of umbilical cord namespace: uberon def: "a gelatinous substance within the umbilical cord, largely made up of mucopolysaccharides (hyaluronic acid and chondroitin sulfate). It also contains some fibroblasts and macrophages. It is derived from Extra Embryonic Mesoderm[WP]" [Wikipedia:Wharton's_jelly] comment: todo - check synonym: "Wharton's jelly" EXACT [EMAPA:26127] synonym: "umbilical cord mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:26127 xref: SCTID:368069009 is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_part CHEBI:37395 ! mucopolysaccharide intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002331 ! umbilical cord [Term] id: UBERON:0003424 name: mesenchyme of hard palate namespace: uberon def: "Mesenchyme that is part of a hard palate [Automatically generated definition]." [OBOL:automatic] synonym: "hard palate mesenchyme" EXACT [OBOL:automatic] xref: EMAPA:18954 is_a: UBERON:0003323 ! mesenchyme of upper jaw intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003216 ! hard palate [Term] id: UBERON:0003425 name: renal lymph node namespace: uberon def: "A lymph node that is part of a kidney [Automatically generated definition]." [OBOL:automatic] synonym: "kidney lymph node" EXACT [OBOL:automatic] synonym: "lymph node of kidney" EXACT [OBOL:automatic] xref: MA:0002882 xref: UMLS:C2699031 xref: ncithesaurus:Renal_Lymph_Node is_a: UBERON:0002507 ! abdominal lymph node is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0000029 ! lymph node intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0003426 name: dermis adipose tissue namespace: uberon def: "An adipose tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] synonym: "adipose tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis fat tissue" EXACT [OBOL:automatic] synonym: "dermis fatty tissue" EXACT [OBOL:automatic] synonym: "fat tissue of dermis" EXACT [OBOL:automatic] synonym: "fatty tissue of dermis" EXACT [OBOL:automatic] xref: MA:0000798 is_a: UBERON:0003585 ! dermis connective tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003427 name: abdominal fat pad namespace: uberon def: "the encapsulated adipose tissue in the abdomen." [MP:0000010] synonym: "abdomen fat pad" EXACT [OBOL:automatic] synonym: "fat pad of abdomen" EXACT [OBOL:automatic] xref: MA:0000472 is_a: UBERON:0003567 ! abdomen connective tissue intersection_of: UBERON:0003916 ! fat pad intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003428 name: gonadal fat pad namespace: uberon def: "the encapsulated adipose tissue associated with the ovaries or testes." [MP:0005335] comment: Editor notes: consider change relationship from part_of. AO notes: we place the amphibian structures here as their definitions state a gonadal association. synonym: "fat pad of gonad" EXACT [OBOL:automatic] synonym: "fat pad of gonads" EXACT [OBOL:automatic] synonym: "gonad fat pad" EXACT [OBOL:automatic] synonym: "gonad-associated fat pad" EXACT [] synonym: "gonadal fat pad" EXACT [OBOL:automatic] xref: AAO:0000157 xref: EFO:0000811 xref: MA:0002547 xref: XAO:0003050 is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003916 ! fat pad intersection_of: part_of UBERON:0000991 ! gonad property_value: external_definition "Anatomical structure associated with the gonads which vary in form among amphibians but are primarily composed of adipose tissue and are thought to be a source of nutrients for the gonads.[AAO]" xsd:string [Term] id: UBERON:0003429 name: abdomen nerve namespace: uberon def: "A nerve that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of abdomen" EXACT [OBOL:automatic] xref: MA:0000521 is_a: UBERON:0003825 ! nerve of abdominal segment intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003430 name: neck nerve namespace: uberon def: "A nerve that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "neck (volume) nerve" EXACT [OBOL:automatic] synonym: "nerve of neck" EXACT [OBOL:automatic] synonym: "nerve of neck (volume)" EXACT [OBOL:automatic] xref: MA:0000588 intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003431 name: leg nerve namespace: uberon def: "A nerve that is part of a leg [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of leg" EXACT [OBOL:automatic] xref: MA:0000673 is_a: UBERON:0003442 ! hindlimb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000978 ! leg [Term] id: UBERON:0003432 name: chest nerve namespace: uberon def: "A nerve that is part of a chest [Automatically generated definition]." [OBOL:automatic] synonym: "anterior thoracic region nerve" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax nerve" EXACT [OBOL:automatic] synonym: "front of thorax nerve" EXACT [OBOL:automatic] synonym: "nerve of anterior thoracic region" EXACT [OBOL:automatic] synonym: "nerve of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "nerve of chest" EXACT [OBOL:automatic] synonym: "nerve of front of thorax" EXACT [OBOL:automatic] xref: MA:0000551 is_a: UBERON:0003824 ! nerve of thoracic segment intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0003433 name: arm nerve namespace: uberon def: "A nerve that is part of an arm [Automatically generated definition]." [OBOL:automatic] synonym: "brachial region nerve" EXACT [OBOL:automatic] synonym: "nerve of arm" EXACT [OBOL:automatic] synonym: "nerve of brachial region" EXACT [OBOL:automatic] synonym: "nerve of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb nerve" EXACT [OBOL:automatic] xref: MA:0000595 is_a: UBERON:0003441 ! forelimb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0003434 name: wrist nerve namespace: uberon def: "A nerve that is part of a wrist [Automatically generated definition]." [OBOL:automatic] synonym: "carpal region nerve" EXACT [OBOL:automatic] synonym: "nerve of carpal region" EXACT [OBOL:automatic] synonym: "nerve of wrist" EXACT [OBOL:automatic] xref: MA:0000637 is_a: UBERON:0003448 ! manus nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0004452 ! carpal region [Term] id: UBERON:0003435 name: pedal digit nerve namespace: uberon def: "A nerve that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "digit of foot nerve" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb nerve" EXACT [OBOL:automatic] synonym: "digitus pedis nerve" EXACT [OBOL:automatic] synonym: "foot digit nerve" EXACT SENSU [MA:0000649, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit nerve" EXACT [OBOL:accepted] synonym: "nerve of digit of foot" EXACT [OBOL:automatic] synonym: "nerve of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "nerve of digitus pedis" EXACT [OBOL:automatic] synonym: "nerve of foot digit" EXACT [OBOL:automatic] synonym: "nerve of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "nerve of toe" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit nerve" EXACT [OBOL:automatic] synonym: "toe nerve" EXACT [OBOL:automatic] xref: MA:0000649 xref: SCTID:300056004 is_a: UBERON:0003445 ! pes nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003436 name: shoulder nerve namespace: uberon def: "A nerve that is part of a shoulder [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of shoulder" EXACT [OBOL:automatic] xref: MA:0000634 intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003437 name: eyelid nerve namespace: uberon def: "A nerve that is part of a eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "blepharon nerve" EXACT [OBOL:automatic] synonym: "nerve of blepharon" EXACT [OBOL:automatic] synonym: "nerve of eyelid" EXACT [OBOL:automatic] xref: MA:0001255 is_a: UBERON:0001647 ! facial nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001711 ! eyelid [Term] id: UBERON:0003438 name: iris nerve namespace: uberon def: "A nerve that is part of a iris [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of iris" EXACT [OBOL:automatic] xref: MA:0001291 is_a: UBERON:0001647 ! facial nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001769 ! iris [Term] id: UBERON:0003439 name: nerve of trunk region namespace: uberon def: "A nerve that is part of a trunk [Automatically generated definition]." [OBOL:automatic] comment: todo - check EMAPA synonym: "nerve of torso" EXACT [OBOL:automatic] synonym: "nerve of trunk" EXACT [OBOL:automatic] synonym: "torso nerve" EXACT [OBOL:automatic] synonym: "trunk nerve" EXACT [MA:0000515] xref: EMAPA:16986 xref: MA:0000515 intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003440 name: limb nerve namespace: uberon def: "A nerve that is part of a limb [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of limb" EXACT [OBOL:automatic] xref: MA:0000693 xref: SCTID:359923002 intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003441 name: forelimb nerve namespace: uberon def: "A nerve that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb nerve" EXACT [OBOL:automatic] synonym: "fore limb nerve" EXACT [OBOL:automatic] synonym: "nerve of anteriormost limb" EXACT [OBOL:automatic] synonym: "nerve of fore limb" EXACT [OBOL:automatic] synonym: "nerve of forelimb" EXACT [OBOL:automatic] synonym: "nerve of superior member" EXACT [OBOL:automatic] synonym: "nerve of upper extremity" EXACT [OBOL:automatic] synonym: "superior member nerve" EXACT [OBOL:automatic] synonym: "upper extremity nerve" EXACT [OBOL:automatic] synonym: "wing nerve" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0000616 is_a: UBERON:0003440 ! limb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003442 name: hindlimb nerve namespace: uberon def: "A nerve that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "hind limb nerve" EXACT [OBOL:automatic] synonym: "inferior member nerve" EXACT [OBOL:automatic] synonym: "lower extremity nerve" EXACT [OBOL:automatic] synonym: "nerve of hind limb" EXACT [OBOL:automatic] synonym: "nerve of hindlimb" EXACT [OBOL:automatic] synonym: "nerve of inferior member" EXACT [OBOL:automatic] synonym: "nerve of lower extremity" EXACT [OBOL:automatic] xref: MA:0000664 is_a: UBERON:0003440 ! limb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003443 name: thoracic cavity nerve namespace: uberon def: "A nerve that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest nerve" EXACT [OBOL:automatic] synonym: "cavity of thorax nerve" EXACT [OBOL:automatic] synonym: "chest cavity nerve" EXACT [OBOL:automatic] synonym: "nerve of cavity of chest" EXACT [OBOL:automatic] synonym: "nerve of cavity of thorax" EXACT [OBOL:automatic] synonym: "nerve of chest cavity" EXACT [OBOL:automatic] synonym: "nerve of pectoral cavity" EXACT [OBOL:automatic] synonym: "nerve of thoracic cavity" EXACT [OBOL:automatic] synonym: "pectoral cavity nerve" EXACT [OBOL:automatic] xref: MA:0000556 intersection_of: UBERON:0001021 ! nerve intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003444 name: pelvis nerve namespace: uberon def: "A nerve that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of pelvis" EXACT [OBOL:automatic] xref: MA:0000542 is_a: UBERON:0003825 ! nerve of abdominal segment intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002355 ! pelvis [Term] id: UBERON:0003445 name: pes nerve namespace: uberon def: "A nerve that is part of a foot [Automatically generated definition]." [OBOL:automatic] synonym: "autopod of hind limb nerve" EXACT [OBOL:automatic] synonym: "autopod of hindlimb nerve" EXACT [OBOL:automatic] synonym: "autopod of inferior member nerve" EXACT [OBOL:automatic] synonym: "autopod of lower extremity nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of hind limb nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of hindlimb nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of inferior member nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of lower extremity nerve" EXACT [OBOL:automatic] synonym: "foot nerve" EXACT [MA:0000653] synonym: "hind limb autopod nerve" EXACT [OBOL:automatic] synonym: "hind limb distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "hindlimb autopod nerve" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "inferior member autopod nerve" EXACT [OBOL:automatic] synonym: "inferior member distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "lower extremity autopod nerve" EXACT [OBOL:automatic] synonym: "lower extremity distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "nerve of autopod of hind limb" EXACT [OBOL:automatic] synonym: "nerve of autopod of hindlimb" EXACT [OBOL:automatic] synonym: "nerve of autopod of inferior member" EXACT [OBOL:automatic] synonym: "nerve of autopod of lower extremity" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of hind limb" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of hindlimb" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of inferior member" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of lower extremity" EXACT [OBOL:automatic] synonym: "nerve of foot" EXACT [OBOL:automatic] synonym: "nerve of hind limb autopod" EXACT [OBOL:automatic] synonym: "nerve of hind limb distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of hindlimb autopod" EXACT [OBOL:automatic] synonym: "nerve of hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of inferior member autopod" EXACT [OBOL:automatic] synonym: "nerve of inferior member distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of lower extremity autopod" EXACT [OBOL:automatic] synonym: "nerve of lower extremity distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb nerve" EXACT [OBOL:automatic] xref: MA:0000653 is_a: UBERON:0003442 ! hindlimb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003446 name: ankle nerve namespace: uberon def: "A nerve that is part of an ankle [Automatically generated definition]." [OBOL:automatic] comment: AO notes: FMA placement dubious synonym: "nerve of ankle" EXACT [OBOL:automatic] synonym: "neural network of ankle" RELATED [FMA:86901] synonym: "tarsal region nerve" EXACT [UBERON:cjm] xref: FMA:86901 xref: MA:0000640 is_a: UBERON:0003445 ! pes nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0004454 ! tarsal region [Term] id: UBERON:0003447 name: digit nerve of manus namespace: uberon def: "A nerve that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "digit of hand nerve" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb nerve" EXACT [OBOL:automatic] synonym: "digitus manus nerve" EXACT [OBOL:automatic] synonym: "finger nerve" EXACT [OBOL:automatic] synonym: "hand digit nerve" EXACT [MA:0000625] synonym: "nerve of digit of hand" EXACT [OBOL:automatic] synonym: "nerve of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "nerve of digitus manus" EXACT [OBOL:automatic] synonym: "nerve of finger" EXACT [OBOL:automatic] synonym: "nerve of hand digit" EXACT [OBOL:automatic] synonym: "nerve of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit nerve" EXACT [OBOL:automatic] xref: MA:0000625 xref: SCTID:181015006 is_a: UBERON:0003448 ! manus nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003448 name: manus nerve namespace: uberon def: "A nerve that is part of a manus [Automatically generated definition]." [OBOL:automatic] synonym: "arm autopod nerve" EXACT [OBOL:automatic] synonym: "arm distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "autopod of arm nerve" EXACT [OBOL:automatic] synonym: "autopod of brachial region nerve" EXACT [OBOL:automatic] synonym: "autopod of proximal segment of free upper limb nerve" EXACT [OBOL:automatic] synonym: "brachial region autopod nerve" EXACT [OBOL:automatic] synonym: "brachial region distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of arm nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of brachial region nerve" EXACT [OBOL:automatic] synonym: "distal free limb segment of proximal segment of free upper limb nerve" EXACT [OBOL:automatic] synonym: "hand nerve" EXACT [MA:0000629] synonym: "nerve of arm autopod" EXACT [OBOL:automatic] synonym: "nerve of arm distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of autopod of arm" EXACT [OBOL:automatic] synonym: "nerve of autopod of brachial region" EXACT [OBOL:automatic] synonym: "nerve of autopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "nerve of brachial region autopod" EXACT [OBOL:automatic] synonym: "nerve of brachial region distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of arm" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of brachial region" EXACT [OBOL:automatic] synonym: "nerve of distal free limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "nerve of manus" EXACT [OBOL:automatic] synonym: "nerve of proximal segment of free upper limb autopod" EXACT [OBOL:automatic] synonym: "nerve of proximal segment of free upper limb distal free limb segment" EXACT [OBOL:automatic] synonym: "nerve of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb autopod nerve" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb distal free limb segment nerve" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb nerve" EXACT [OBOL:automatic] xref: MA:0000629 is_a: UBERON:0003441 ! forelimb nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0003449 name: tail intervertebral disc namespace: uberon def: "An intervertebral disk that is part of a tail [Automatically generated definition]." [OBOL:automatic] synonym: "intervertebral disc of post-vent region" EXACT [OBOL:automatic] synonym: "intervertebral disc of tail" EXACT [OBOL:automatic] synonym: "intervertebral disk of post-vent region" EXACT [OBOL:automatic] synonym: "intervertebral disk of tail" EXACT [OBOL:automatic] synonym: "post-vent region intervertebral disc" EXACT [OBOL:automatic] synonym: "post-vent region intervertebral disk" EXACT [OBOL:automatic] synonym: "post-vent region spinal disc" EXACT [OBOL:automatic] synonym: "spinal disc of post-vent region" EXACT [OBOL:automatic] synonym: "spinal disc of tail" EXACT [OBOL:automatic] synonym: "tail intervertebral disk" EXACT [OBOL:automatic] synonym: "tail spinal disc" EXACT [OBOL:automatic] xref: EMAPA:19592 xref: MA:0000698 intersection_of: UBERON:0001066 ! intervertebral disk intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0003450 name: upper jaw incisor namespace: uberon def: "An incisor tooth that is part of a upper jaw [Automatically generated definition]." [OBOL:automatic] synonym: "incisor of palatoquadrate arch" EXACT [OBOL:automatic] synonym: "incisor of upper jaw" EXACT [OBOL:automatic] synonym: "incisor tooth of palatoquadrate arch" EXACT [OBOL:automatic] synonym: "incisor tooth of upper jaw" EXACT [OBOL:automatic] synonym: "maxillary secondary incisor tooth" RELATED [FMA:55712] synonym: "palatoquadrate arch incisor" EXACT [OBOL:automatic] synonym: "palatoquadrate arch incisor tooth" EXACT [OBOL:automatic] synonym: "premaxillary tooth" RELATED [UBERON:cjm] synonym: "upper incisor" EXACT [OBOL:automatic, UBERON:cjm] synonym: "upper jaw incisor tooth" EXACT [OBOL:automatic] synonym: "upper permanent incisor tooth" RELATED [FMA:55712] synonym: "upper primary incisor tooth" NARROW [FMA:84214] synonym: "upper secondary incisor tooth" RELATED [FMA:55712] xref: EHDAA2:0002121 xref: EMAPA:17939 xref: FMA:55712 xref: MA:0001601 xref: SCTID:421578001 xref: UMLS:C1710579 xref: ncithesaurus:Upper_Jaw_Incisor is_a: UBERON:0003267 ! tooth of upper jaw relationship: attaches_to UBERON:0002244 ! premaxilla intersection_of: UBERON:0001098 ! incisor tooth intersection_of: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0003451 name: lower jaw incisor namespace: uberon def: "An incisor tooth that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "incisor of lower jaw" EXACT [OBOL:automatic] synonym: "incisor of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "incisor tooth of lower jaw" EXACT [OBOL:automatic] synonym: "incisor tooth of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "lower incisor" EXACT [OBOL:automatic, UBERON:cjm] synonym: "lower jaw incisor tooth" EXACT [OBOL:automatic] synonym: "lower permanent incisor tooth" RELATED [FMA:55713] synonym: "lower primary incisor tooth" NARROW [FMA:84215] synonym: "lower secondary incisor tooth" RELATED [FMA:55713] synonym: "mandibular incisor" EXACT [BTO:0001942] synonym: "mandibular secondary incisor tooth" RELATED [FMA:55713] synonym: "ventral mandibular arch incisor" EXACT [OBOL:automatic] synonym: "ventral mandibular arch incisor tooth" EXACT [OBOL:automatic] xref: BTO:0001942 xref: EHDAA2:0001021 xref: EMAPA:17918 xref: FMA:55713 xref: MA:0001600 xref: SCTID:420793009 xref: UMLS:C1708755 xref: ncithesaurus:Lower_Jaw_Incisor is_a: UBERON:0003268 ! tooth of lower jaw intersection_of: UBERON:0001098 ! incisor tooth intersection_of: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003452 name: trabecula carnea cardiac muscle tissue namespace: uberon def: "A portion of cardiac muscle tissue that is part of a trabecula carnea [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "cardiac muscle of trabecula carnea" EXACT [OBOL:automatic] synonym: "cardiac muscle textus muscularis of trabecula carnea" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "heart muscle muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "heart muscle textus muscularis of trabecula carnea" EXACT [OBOL:automatic] synonym: "heart myocardium muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "heart myocardium textus muscularis of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle of heart muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle of heart textus muscularis of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle tissue of cardiac muscle of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle tissue of heart muscle of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle tissue of heart myocardium of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle tissue of muscle of heart of trabecula carnea" EXACT [OBOL:automatic] synonym: "muscle tissue of myocardium of trabecula carnea" EXACT [OBOL:automatic] synonym: "myocardium muscle tissue of trabecula carnea" EXACT [OBOL:automatic] synonym: "myocardium textus muscularis of trabecula carnea" EXACT [OBOL:automatic] synonym: "textus muscularis of cardiac muscle of trabecula carnea" EXACT [OBOL:automatic] synonym: "textus muscularis of heart muscle of trabecula carnea" EXACT [OBOL:automatic] synonym: "textus muscularis of heart myocardium of trabecula carnea" EXACT [OBOL:automatic] synonym: "textus muscularis of muscle of heart of trabecula carnea" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of trabecula carnea" EXACT [OBOL:automatic] synonym: "trabecula carnea cardiac muscle" EXACT [OBOL:automatic] synonym: "trabecula carnea cardiac muscle muscle tissue" EXACT [OBOL:automatic] synonym: "trabecula carnea cardiac muscle textus muscularis" EXACT [OBOL:automatic] synonym: "trabecula carnea heart muscle muscle tissue" EXACT [OBOL:automatic] synonym: "trabecula carnea heart muscle textus muscularis" EXACT [OBOL:automatic] synonym: "trabecula carnea heart myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "trabecula carnea heart myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle of heart muscle tissue" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle of heart textus muscularis" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle tissue of cardiac muscle" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle tissue of heart muscle" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle tissue of heart myocardium" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle tissue of muscle of heart" EXACT [OBOL:automatic] synonym: "trabecula carnea muscle tissue of myocardium" EXACT [OBOL:automatic] synonym: "trabecula carnea myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "trabecula carnea myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "trabecula carnea textus muscularis of cardiac muscle" EXACT [OBOL:automatic] synonym: "trabecula carnea textus muscularis of heart muscle" EXACT [OBOL:automatic] synonym: "trabecula carnea textus muscularis of heart myocardium" EXACT [OBOL:automatic] synonym: "trabecula carnea textus muscularis of muscle of heart" EXACT [OBOL:automatic] synonym: "trabecula carnea textus muscularis of myocardium" EXACT [OBOL:automatic] xref: FMA:84428 xref: MA:0002833 intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002511 ! trabecula carnea [Term] id: UBERON:0003453 name: large intestine Peyer's patch namespace: uberon def: "A Peyer's patch that is part of a large intestine." [OBOL:automatic] comment: Edtor notes: requires expert attention synonym: "Peyer's patch of large intestine" EXACT [OBOL:automatic] synonym: "large intestine Peyer's patch" EXACT [OBOL:automatic] synonym: "solitary lymphatic follicle of large intestine" RELATED [FMA:15658] synonym: "solitary lymphoid follicle of subdivision of large intestine" RELATED [FMA:15658] xref: FMA:15658 xref: MA:0001550 intersection_of: UBERON:0001211 ! Peyer's patch intersection_of: part_of UBERON:0000059 ! large intestine [Term] id: UBERON:0003454 name: small intestine Peyer's patch namespace: uberon def: "nodular lymphoid structures on the serosal surface of the small intestine." [] comment: Editor's note: add subtypes for jejunum, ileum synonym: "Peyer's patch" BROAD [FMA:15054] synonym: "Peyer's patch of small bowel" EXACT [OBOL:automatic] synonym: "Peyer's patch of small intestine" EXACT [OBOL:automatic] synonym: "aggregated lymphoid follicle of small intestine" EXACT [FMA:15054] synonym: "small bowel Peyer's patch" EXACT [OBOL:automatic] synonym: "small intestine Peyer's patch" EXACT [OBOL:automatic] xref: FMA:15054 xref: MA:0001557 xref: SCTID:38986009 relationship: part_of UBERON:0001204 ! mucosa of small intestine intersection_of: UBERON:0001211 ! Peyer's patch intersection_of: part_of UBERON:0002108 ! small intestine [Term] id: UBERON:0003455 name: inner renal medulla loop of henle namespace: uberon def: "A loop of Henle that is part of a inner medulla of kidney [Automatically generated definition]." [OBOL:automatic] synonym: "Henle loop of inner medulla of kidney" EXACT [OBOL:automatic] synonym: "Henle loop of inner renal medulla" EXACT [OBOL:automatic] synonym: "Henle loop of inner zone of medulla of kidney" EXACT [OBOL:automatic] synonym: "Henle loop of inner zone of renal medulla" EXACT [OBOL:automatic] synonym: "henle's loop of inner medulla of kidney" EXACT [OBOL:automatic] synonym: "henle's loop of inner renal medulla" EXACT [OBOL:automatic] synonym: "henle's loop of inner zone of medulla of kidney" EXACT [OBOL:automatic] synonym: "henle's loop of inner zone of renal medulla" EXACT [OBOL:automatic] synonym: "inner medulla of kidney Henle loop" EXACT [OBOL:automatic] synonym: "inner medulla of kidney henle's loop" EXACT [OBOL:automatic] synonym: "inner medulla of kidney loop of Henle" EXACT [OBOL:automatic] synonym: "inner renal medulla Henle loop" EXACT [OBOL:automatic] synonym: "inner renal medulla henle's loop" EXACT [OBOL:automatic] synonym: "inner renal medulla loop of Henle" EXACT [OBOL:automatic] synonym: "inner zone of medulla of kidney Henle loop" EXACT [OBOL:automatic] synonym: "inner zone of medulla of kidney henle's loop" EXACT [OBOL:automatic] synonym: "inner zone of medulla of kidney loop of Henle" EXACT [OBOL:automatic] synonym: "inner zone of renal medulla Henle loop" EXACT [OBOL:automatic] synonym: "inner zone of renal medulla henle's loop" EXACT [OBOL:automatic] synonym: "inner zone of renal medulla loop of Henle" EXACT [OBOL:automatic] synonym: "kidney inner medulla loop of henle" EXACT [MA:0002623] synonym: "loop of Henle of inner medulla of kidney" EXACT [OBOL:automatic] synonym: "loop of Henle of inner renal medulla" EXACT [OBOL:automatic] synonym: "loop of Henle of inner zone of medulla of kidney" EXACT [OBOL:automatic] synonym: "loop of Henle of inner zone of renal medulla" EXACT [OBOL:automatic] xref: MA:0002623 intersection_of: UBERON:0001288 ! loop of Henle intersection_of: part_of UBERON:0001294 ! inner medulla of kidney [Term] id: UBERON:0003456 name: respiratory system lymphatic vessel namespace: uberon def: "A lymphatic vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius lymph vessel" EXACT [OBOL:automatic] synonym: "apparatus respiratorius lymphatic vessel" EXACT [OBOL:automatic] synonym: "lymph vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lymph vessel of respiratory system" EXACT [OBOL:automatic] synonym: "lymphatic vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lymphatic vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system lymph vessel" EXACT [OBOL:automatic] xref: MA:0001824 intersection_of: UBERON:0001473 ! lymphatic vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003457 name: head bone namespace: uberon def: "A bone that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head bone" EXACT [OBOL:automatic] synonym: "adult head bone organ" EXACT [OBOL:automatic] synonym: "bone of adult head" EXACT [OBOL:automatic] synonym: "bone of head" EXACT [OBOL:automatic] synonym: "bone organ of adult head" EXACT [OBOL:automatic] synonym: "bone organ of head" EXACT [OBOL:automatic] synonym: "head bone organ" EXACT [OBOL:automatic] xref: MA:0000576 xref: SCTID:118646007 is_a: UBERON:0007914 ! head or neck bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0003458 name: neck bone namespace: uberon def: "A bone that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "bone of neck" EXACT [OBOL:automatic] synonym: "bone of neck (volume)" EXACT [OBOL:automatic] synonym: "bone organ of neck" EXACT [OBOL:automatic] synonym: "bone organ of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) bone" EXACT [OBOL:automatic] synonym: "neck (volume) bone organ" EXACT [OBOL:automatic] synonym: "neck bone organ" EXACT [OBOL:automatic] xref: MA:0000584 xref: OpenCyc:Mx4rvnpJSJwpEbGdrcN5Y29ycA is_a: UBERON:0007914 ! head or neck bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003459 name: chest bone namespace: uberon def: "A bone that is part of a chest [Automatically generated definition]." [OBOL:automatic] synonym: "anterior thoracic region bone" EXACT [OBOL:automatic] synonym: "anterior thoracic region bone organ" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax bone" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax bone organ" EXACT [OBOL:automatic] synonym: "bone of anterior thoracic region" EXACT [OBOL:automatic] synonym: "bone of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "bone of chest" EXACT [OBOL:automatic] synonym: "bone of front of thorax" EXACT [OBOL:automatic] synonym: "bone organ of anterior thoracic region" EXACT [OBOL:automatic] synonym: "bone organ of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "bone organ of chest" EXACT [OBOL:automatic] synonym: "bone organ of front of thorax" EXACT [OBOL:automatic] synonym: "chest bone organ" EXACT [OBOL:automatic] synonym: "front of thorax bone" EXACT [OBOL:automatic] synonym: "front of thorax bone organ" EXACT [OBOL:automatic] xref: MA:0000547 is_a: UBERON:0003827 ! thoracic segment bone is_a: UBERON:0005175 ! chest organ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0003460 name: arm bone namespace: uberon def: "A bone that is part of the region of the forelimb that includes the zeugopod and stylopod. Examples: patella, femur, tibia" [UBERON:cjm] synonym: "arm bone organ" EXACT [OBOL:automatic] synonym: "bone of arm" EXACT [OBOL:automatic] synonym: "bone of brachial region" EXACT [OBOL:automatic] synonym: "bone of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone of upper extremity" EXACT [GAID:178] synonym: "bone organ of arm" EXACT [OBOL:automatic] synonym: "bone organ of brachial region" EXACT [OBOL:automatic] synonym: "bone organ of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "brachial region bone" EXACT [OBOL:automatic] synonym: "brachial region bone organ" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb bone" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb bone organ" EXACT [OBOL:automatic] xref: MA:0000592 xref: OpenCyc:Mx4rwKTXoJwpEbGdrcN5Y29ycA is_a: UBERON:0008962 ! forelimb bone relationship: part_of UBERON:0001440 ! forelimb skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0003461 name: shoulder bone namespace: uberon def: "A bone that is part of a shoulder [Automatically generated definition]." [OBOL:automatic] comment: AO notes: this is a forelimb bone in MA, but this would lead to part-disjointness violations. Subtypes are clavicle, scapula, humerus synonym: "bone of shoulder" EXACT [OBOL:automatic] synonym: "bone organ of shoulder" EXACT [OBOL:automatic] synonym: "shoulder bone organ" EXACT [OBOL:automatic] xref: MA:0000631 is_a: UBERON:0007829 ! pectoral girdle bone is_a: UBERON:0010741 ! bone of pectoral complex relationship: part_of UBERON:0007831 ! pectoral girdle skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003462 name: facial bone namespace: uberon def: "A bone that is part of a facial skeleton [Automatically generated definition]." [OBOL:automatic] comment: Editors note: test whether 'facial bone' is an exact synonym synonym: "bone of facial skeleton" EXACT [OBOL:automatic] synonym: "bone of viscerocranium" EXACT [OBOL:automatic] synonym: "facial bone" EXACT [EMAPA:19019] synonym: "facial skeleton bone" EXACT [OBOL:automatic] synonym: "viscerocranium bone" EXACT [OBOL:automatic] xref: EMAPA:19019 xref: MA:0001482 xref: SCTID:181799005 xref: UMLS:C0015455 xref: ncithesaurus:Facial_Bone is_a: UBERON:0003457 ! head bone is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0011156 ! facial skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0003463 name: trunk bone namespace: uberon def: "A bone that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "bone of torso" EXACT [OBOL:automatic] synonym: "bone of trunk" EXACT [OBOL:automatic] synonym: "bone organ of torso" EXACT [OBOL:automatic] synonym: "bone organ of trunk" EXACT [OBOL:automatic] synonym: "torso bone" EXACT [OBOL:automatic] synonym: "torso bone organ" EXACT [OBOL:automatic] synonym: "trunk bone organ" EXACT [OBOL:automatic] xref: MA:0000512 xref: SCTID:427358002 is_a: UBERON:0005177 ! trunk organ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003464 name: hindlimb bone namespace: uberon def: "A bone that is part of a hindlimb region. Examples: any pes phalanx, femur. Counter-examples: ischium, pubis (they are part of the pelvic girdle)" [UBERON:cjm] comment: Note that the MA class is actually bone of pelvic complex; in contrast the NCIT class excludes ilium etc synonym: "bone of hind limb" EXACT [OBOL:automatic] synonym: "bone of hindlimb" EXACT [OBOL:automatic] synonym: "bone of inferior member" EXACT [OBOL:automatic] synonym: "bone of lower extremity" EXACT [OBOL:automatic] synonym: "bone organ of hind limb" EXACT [OBOL:automatic] synonym: "bone organ of hindlimb" EXACT [OBOL:automatic] synonym: "bone organ of inferior member" EXACT [OBOL:automatic] synonym: "bone organ of lower extremity" EXACT [OBOL:automatic] synonym: "hind limb bone" EXACT [OBOL:automatic] synonym: "hind limb bone organ" EXACT [OBOL:automatic] synonym: "hindlimb bone organ" EXACT [OBOL:automatic] synonym: "inferior member bone" EXACT [OBOL:automatic] synonym: "inferior member bone organ" EXACT [OBOL:automatic] synonym: "lower extremity bone" EXACT [OBOL:automatic] synonym: "lower extremity bone organ" EXACT [OBOL:automatic] xref: EFO:0003842 xref: GAID:198 xref: SCTID:361370006 xref: UMLS:C0448188 xref: ncithesaurus:Bone_of_the_Lower_Extremity is_a: UBERON:0002428 ! limb bone is_a: UBERON:0010742 ! bone of pelvic complex relationship: develops_from UBERON:0010885 ! hindlimb bone cartilaginous condensation relationship: part_of UBERON:0001441 ! hindlimb skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003465 name: obsolete chondrocranium bone namespace: uberon alt_id: UBERON:0004762 def: "A bone that is part of a chondrocranium [Automatically generated definition]." [OBOL:accepted] is_obsolete: true consider: UBERON:0011164 ! neurocranium bone comment: Made obsolete because it conflated neuro and chondro-cranium; also ZFA:0001544 equivalent was made obsolete. xref: ZFA:0001544 [Term] id: UBERON:0003466 name: forelimb zeugopod bone namespace: uberon def: "A bone that is part of a lower arm [Automatically generated definition]." [OBOL:automatic] synonym: "antebrachial region bone" EXACT [OBOL:automatic] synonym: "antebrachial region bone organ" EXACT [OBOL:automatic] synonym: "arm middle limb segment bone" EXACT [OBOL:automatic] synonym: "arm middle limb segment bone organ" EXACT [OBOL:automatic] synonym: "arm zeugopod bone" EXACT [OBOL:automatic] synonym: "arm zeugopod bone organ" EXACT [OBOL:automatic] synonym: "bone of antebrachial region" EXACT [OBOL:automatic] synonym: "bone of arm middle limb segment" EXACT [OBOL:automatic] synonym: "bone of arm zeugopod" EXACT [OBOL:automatic] synonym: "bone of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "bone of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "bone of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone of lower arm" EXACT [OBOL:automatic] synonym: "bone of lower segment of arm" EXACT [OBOL:automatic] synonym: "bone of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "bone of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "bone of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "bone of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "bone of zeugopod of arm" EXACT [OBOL:automatic] synonym: "bone of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "bone of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone organ of antebrachial region" EXACT [OBOL:automatic] synonym: "bone organ of arm middle limb segment" EXACT [OBOL:automatic] synonym: "bone organ of arm zeugopod" EXACT [OBOL:automatic] synonym: "bone organ of brachial region middle limb segment" EXACT [OBOL:automatic] synonym: "bone organ of brachial region zeugopod" EXACT [OBOL:automatic] synonym: "bone organ of intermediate segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone organ of lower arm" EXACT [OBOL:automatic] synonym: "bone organ of lower segment of arm" EXACT [OBOL:automatic] synonym: "bone organ of middle limb segment of arm" EXACT [OBOL:automatic] synonym: "bone organ of middle limb segment of brachial region" EXACT [OBOL:automatic] synonym: "bone organ of middle limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "bone organ of proximal segment of free upper limb middle limb segment" EXACT [OBOL:automatic] synonym: "bone organ of proximal segment of free upper limb zeugopod" EXACT [OBOL:automatic] synonym: "bone organ of zeugopod of arm" EXACT [OBOL:automatic] synonym: "bone organ of zeugopod of brachial region" EXACT [OBOL:automatic] synonym: "bone organ of zeugopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment bone" EXACT [OBOL:automatic] synonym: "brachial region middle limb segment bone organ" EXACT [OBOL:automatic] synonym: "brachial region zeugopod bone" EXACT [OBOL:automatic] synonym: "brachial region zeugopod bone organ" EXACT [OBOL:automatic] synonym: "intermediate segment of free upper limb bone" EXACT [OBOL:automatic] synonym: "intermediate segment of free upper limb bone organ" EXACT [OBOL:automatic] synonym: "lower arm bone" EXACT [MA:0000598] synonym: "lower segment of arm bone" EXACT [OBOL:automatic] synonym: "lower segment of arm bone organ" EXACT [OBOL:automatic] synonym: "middle limb segment of arm bone" EXACT [OBOL:automatic] synonym: "middle limb segment of arm bone organ" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region bone" EXACT [OBOL:automatic] synonym: "middle limb segment of brachial region bone organ" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb bone" EXACT [OBOL:automatic] synonym: "middle limb segment of proximal segment of free upper limb bone organ" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment bone" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb middle limb segment bone organ" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod bone" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb zeugopod bone organ" EXACT [OBOL:automatic] synonym: "wing zeugopod bone" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] synonym: "zeugopod of arm bone" EXACT [OBOL:automatic] synonym: "zeugopod of arm bone organ" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region bone" EXACT [OBOL:automatic] synonym: "zeugopod of brachial region bone organ" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb bone" EXACT [OBOL:automatic] synonym: "zeugopod of proximal segment of free upper limb bone organ" EXACT [OBOL:automatic] xref: MA:0000598 is_a: UBERON:0003460 ! arm bone relationship: part_of UBERON:0010703 ! forelimb zeugopod skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002386 ! forelimb zeugopod [Term] id: UBERON:0003467 name: sesamoid bone of gastrocnemius namespace: uberon def: "A small sesamoid bone situated behind a condyle of the femur." [MP:0009005, Wikipedia:Fabella, https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=3470151&group_id=76834] synonym: "fabella" RELATED [MA:0001378] synonym: "gastrocnemius sesamoid bone" EXACT [OBOL:automatic] synonym: "m. gastrocnemius sesamoid bone" EXACT [OBOL:automatic] synonym: "sesamoid bone of m. gastrocnemius" EXACT [OBOL:automatic] xref: MA:0001378 xref: SCTID:302749009 xref: galen:Fabella is_a: UBERON:0001479 ! sesamoid bone relationship: adjacent_to UBERON:0001388 ! gastrocnemius relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0003468 name: ureteric segment of renal artery namespace: uberon def: "The ureteral branches of renal artery are small branches which supply the ureter." [Wikipedia:Ureteral_branches_of_renal_artery] synonym: "ureteric artery" BROAD [MA:0002074] xref: FMA:70491 xref: MA:0002074 xref: SCTID:65376008 is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0001184 ! renal artery relationship: part_of UBERON:0001184 ! renal artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0000056 ! ureter [Term] id: UBERON:0003469 name: respiratory system artery namespace: uberon def: "An artery that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: MA:0001804 is_a: UBERON:0003643 ! respiratory system arterial blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003470 name: artery of upper lip namespace: uberon def: "The superior labial artery (superior labial branch of facial artery) is larger and more tortuous than the inferior labial artery. It follows a similar course along the edge of the upper lip, lying between the mucous membrane and the Orbicularis oris, and anastomoses with the artery of the opposite side. It supplies the upper lip, and gives off in its course two or three vessels which ascend to the nose; a septal branch ramifies on the nasal septum as far as the point of the nose, and an alar branch supplies the ala of the nose." [Wikipedia:Superior_labial_artery] synonym: "arteria labialis superior" EXACT LATIN [Wikipedia:Superior_labial_artery] synonym: "ramus labialis superior arteriae facialis" EXACT LATIN [Wikipedia:Superior_labial_artery] synonym: "superior labial artery" EXACT [FMA:49570] synonym: "superior labial branch of facial artery" EXACT [FMA:49570] xref: FMA:49570 xref: MA:0001917 xref: SCTID:145137009 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0001612 ! facial artery relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001834 ! upper lip [Term] id: UBERON:0003471 name: artery of lower lip namespace: uberon def: "The Iinferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery." [Wikipedia:Inferior_labial_artery] synonym: "arteria labialis inferior" EXACT LATIN [Wikipedia:Inferior_labial_artery] synonym: "inferior labial artery" EXACT [FMA:49567] synonym: "inferior labial branch of facial artery" EXACT [FMA:49567] synonym: "ramus labialis inferior (arteria facialis)" EXACT [FMA:TA] synonym: "ramus labialis inferior arteriae facialis" EXACT LATIN [Wikipedia:Inferior_labial_artery] xref: FMA:49567 xref: MA:0001916 xref: SCTID:145036002 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0001612 ! facial artery relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001835 ! lower lip [Term] id: UBERON:0003472 name: cerebellar artery namespace: uberon def: "an artery that supplies blood to the cerebellum." [Wikipedia:Cerebellar_artery] xref: EHDAA2:0000228 xref: EHDAA:5290 xref: MA:0001933 xref: SCTID:278102002 xref: UMLS:C0226246 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e1/CerebellumArteries.jpg/250px-CerebellumArteries.jpg xref: ncithesaurus:Cerebellar_Artery is_a: UBERON:0003496 ! head blood vessel relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002037 ! cerebellum [Term] id: UBERON:0003473 name: thoracic cavity artery namespace: uberon def: "An artery that is part of a thoracic cavity[cjm]." [https://sourceforge.net/tracker/index.php?func=detail&aid=3317815&group_id=76834&atid=1205376] comment: Note that in MA, aorta is classified here - but this is problematic because the abdominal aorta is not in the thoracic cavity xref: MA:0001902 is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003474 name: meningeal artery namespace: uberon def: "One of the arteries supplying the meninix[Automatically generated definition]." [Wikipedia:Meningeal_arteries] xref: GAID:499 xref: MA:0002001 xref: MESH:A07.231.114.545 intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002360 ! meninx [Term] id: UBERON:0003475 name: ureteric vein namespace: uberon def: "A vein that is part of a ureter [Automatically generated definition]." [OBOL:automatic] synonym: "ureter vein" EXACT [OBOL:automatic] synonym: "vein of ureter" EXACT [OBOL:automatic] xref: MA:0002250 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003520 ! pelvis blood vessel is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0006555 ! excretory tube is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0003476 name: respiratory system venous blood vessel namespace: uberon def: "A vein that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius vein" EXACT [OBOL:automatic] synonym: "respiratory system vein" EXACT [OBOL:automatic] synonym: "vein of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "vein of respiratory system" EXACT [OBOL:automatic] xref: MA:0001809 xref: MA:0001810 intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001004 ! respiratory system [Term] id: UBERON:0003477 name: vein of upper lip namespace: uberon def: "The inferior labial vein is the vein receiving blood from the upper lip." [Wikipedia:Superior_labial_vein] synonym: "superior labial vein" EXACT [FMA:52538] synonym: "upper lip vein" EXACT [OBOL:automatic] synonym: "vena labialis superior" EXACT LATIN [] xref: FMA:52538 xref: MA:0002255 xref: SCTID:422755007 is_a: UBERON:0013136 ! vein of lip relationship: tributary_of UBERON:0001653 ! facial vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001834 ! upper lip [Term] id: UBERON:0003478 name: vein of lower lip namespace: uberon def: "The inferior labial vein is the vein receiving blood from the lower lip." [Wikipedia:Inferior_labial_vein] synonym: "inferior labial vein" EXACT [FMA:52541] synonym: "lower lip vein" EXACT [OBOL:automatic] synonym: "vena labialis inferior" EXACT LATIN [] synonym: "venae labiales inferiores" RELATED LATIN [Wikipedia:Inferior_labial_vein] xref: FMA:52541 xref: MA:0002253 xref: SCTID:422955002 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png is_a: UBERON:0013136 ! vein of lip relationship: tributary_of UBERON:0001653 ! facial vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001835 ! lower lip [Term] id: UBERON:0003479 name: thoracic cavity vein namespace: uberon def: "A vein that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest vein" EXACT [OBOL:automatic] synonym: "cavity of thorax vein" EXACT [OBOL:automatic] synonym: "chest cavity vein" EXACT [OBOL:automatic] synonym: "pectoral cavity vein" EXACT [OBOL:automatic] synonym: "vein of cavity of chest" EXACT [OBOL:automatic] synonym: "vein of cavity of thorax" EXACT [OBOL:automatic] synonym: "vein of chest cavity" EXACT [OBOL:automatic] synonym: "vein of pectoral cavity" EXACT [OBOL:automatic] synonym: "vein of thoracic cavity" EXACT [OBOL:automatic] xref: MA:0001903 is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003480 name: vein of clitoris namespace: uberon def: "A vein that is part of a clitoris [Automatically generated definition]." [OBOL:automatic] synonym: "clitoris vein" EXACT [OBOL:automatic] xref: MA:0002252 xref: SCTID:360819004 is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0002411 ! clitoris [Term] id: UBERON:0003481 name: tail vein namespace: uberon def: "A vein that is part of a tail [Automatically generated definition]." [OBOL:automatic, Wikipedia:Tail_vein] comment: Editors note: see also caudal vein synonym: "caudal vein" RELATED [Wikipedia:Tail_vein] synonym: "post-vent region vein" EXACT [OBOL:automatic] synonym: "vein of post-vent region" EXACT [OBOL:automatic] synonym: "vein of tail" EXACT [OBOL:automatic] xref: AAO:0011105 xref: MA:0002233 xref: XAO:0000393 is_a: UBERON:0003524 ! tail blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0003482 name: vein of trabecular bone namespace: uberon def: "A portion of vein that is part of a trabecular bone tissue [Automatically generated definition]." [OBOL:automatic] synonym: "spongy bone vein" EXACT [OBOL:automatic] synonym: "trabecular bone tissue vein" EXACT [OBOL:automatic] synonym: "trabecular bone vein" EXACT [OBOL:automatic] synonym: "vein of spongy bone" EXACT [OBOL:automatic] synonym: "vein of trabecular bone tissue" EXACT [OBOL:automatic] xref: MA:0002254 intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0002483 ! trabecular bone tissue [Term] id: UBERON:0003483 name: thymus lymphoid tissue namespace: uberon def: "A portion of lymphoid tissue that is part of a thymus [Automatically generated definition]." [OBOL:automatic] synonym: "lymphatic tissue of thymus" EXACT [OBOL:automatic] synonym: "lymphatic tissue of thymus gland" EXACT [OBOL:automatic] synonym: "lymphocytic tissue of thymus" EXACT [OBOL:automatic] synonym: "lymphocytic tissue of thymus gland" EXACT [OBOL:automatic] synonym: "lymphoid tissue of thymus" EXACT [OBOL:automatic] synonym: "lymphoid tissue of thymus gland" EXACT [OBOL:automatic] synonym: "thymic lymphocytic tissue" EXACT [OBOL:automatic] synonym: "thymus gland lymphatic tissue" EXACT [OBOL:automatic] synonym: "thymus gland lymphocytic tissue" EXACT [OBOL:automatic] synonym: "thymus gland lymphoid tissue" EXACT [OBOL:automatic] synonym: "thymus lymphatic tissue" EXACT [OBOL:automatic] synonym: "thymus lymphocytic tissue" EXACT [OBOL:automatic] xref: MA:0002673 xref: MESH:A06.407.850 xref: UMLS:C1515429 xref: ncithesaurus:Thymic_Lymphoid_Tissue is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0001744 ! lymphoid tissue intersection_of: part_of UBERON:0002370 ! thymus [Term] id: UBERON:0003484 name: eye sebaceous gland namespace: uberon def: "A sebaceous gland that is part of a camera-type eye [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "camera-type eye sebaceous gland" EXACT [OBOL:automatic] synonym: "sebaceous gland of camera-type eye" EXACT [OBOL:automatic] synonym: "sebaceous gland of vertebrate eye" EXACT [OBOL:automatic] synonym: "vertebrate eye sebaceous gland" EXACT [OBOL:automatic] xref: MA:0002452 is_a: UBERON:0003487 ! skin sebaceous gland is_a: UBERON:0003605 ! eye skin gland intersection_of: UBERON:0001821 ! sebaceous gland intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003485 name: vagina sebaceous gland namespace: uberon def: "A sebaceous gland that is part of a vagina [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "sebaceous gland of vagina" EXACT [OBOL:automatic] xref: MA:0001732 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005398 ! female reproductive gland intersection_of: UBERON:0001821 ! sebaceous gland intersection_of: part_of UBERON:0000996 ! vagina [Term] id: UBERON:0003486 name: mammary gland sebaceous gland namespace: uberon def: "A sebaceous gland that is part of a mammary gland [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "lactiferous gland sebaceous gland" EXACT [OBOL:automatic] synonym: "lobe of breast sebaceous gland" EXACT [OBOL:automatic] synonym: "lobe of mammary gland sebaceous gland" EXACT [OBOL:automatic] synonym: "sebaceous gland of lactiferous gland" EXACT [OBOL:automatic] synonym: "sebaceous gland of lobe of breast" EXACT [OBOL:automatic] synonym: "sebaceous gland of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "sebaceous gland of mammary gland" EXACT [OBOL:automatic] xref: MA:0000794 is_a: UBERON:0005398 ! female reproductive gland intersection_of: UBERON:0001821 ! sebaceous gland intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0003487 name: skin sebaceous gland namespace: uberon def: "A holocrine gland of the dermis that secretes sebum into hair follicles." [MP:0009535] synonym: "cutaneous sebaceous gland" EXACT [] synonym: "sebaceous gland of skin" EXACT [OBOL:automatic] xref: MA:0000149 xref: SCTID:115977007 is_a: UBERON:0001821 ! sebaceous gland relationship: part_of UBERON:0002097 ! skin of body relationship: part_of UBERON:0011932 ! pilosebaceous unit [Term] id: UBERON:0003488 name: abdominal mammary gland namespace: uberon def: "A lactiferous gland that is part of the abdominal region [Automatically generated definition]." [OBOL:automatic] comment: Taxon notes: Female mice normally have five pairs of nipples and mammary glands, three in the thoracic and two in the abdominal region. (There is an additional abdominal pair in female rats.) http://www.informatics.jax.org/greenbook/chapters/chapter13.shtml synonym: "abdomen lactiferous gland" EXACT [OBOL:automatic] synonym: "abdomen lobe of breast" EXACT [OBOL:automatic] synonym: "abdomen lobe of mammary gland" EXACT [OBOL:automatic] synonym: "abdomen mammary gland" EXACT [OBOL:automatic] synonym: "lactiferous gland of abdomen" EXACT [OBOL:automatic] synonym: "lobe of breast of abdomen" EXACT [OBOL:automatic] synonym: "lobe of mammary gland of abdomen" EXACT [OBOL:automatic] synonym: "mammary gland of abdomen" EXACT [OBOL:automatic] xref: MA:0000787 xref: SCTID:113191002 xref: SCTID:68037003 is_a: UBERON:0005172 ! abdomen organ intersection_of: UBERON:0001911 ! mammary gland intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003489 name: respiratory system capillary endothelium namespace: uberon def: "An endothelium of capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary endothelium" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary vessel" EXACT [OBOL:automatic] xref: MA:0001808 is_a: UBERON:0004702 ! respiratory system blood vessel endothelium relationship: part_of UBERON:0003504 ! respiratory system blood vessel relationship: part_of UBERON:0003526 ! respiratory system capillary intersection_of: UBERON:0001915 ! endothelium of capillary intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003490 name: respiratory system reticular lamina namespace: uberon def: "A reticular lamina that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius fibroreticular lamina" EXACT [OBOL:automatic] synonym: "apparatus respiratorius lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "apparatus respiratorius reticular lamina" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of respiratory system" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system fibroreticular lamina" EXACT [OBOL:automatic] synonym: "respiratory system lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "reticular lamina of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "reticular lamina of respiratory system" EXACT [OBOL:automatic] xref: MA:0001817 intersection_of: UBERON:0001967 ! reticular lamina intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003492 name: bronchus reticular lamina namespace: uberon def: "A reticular lamina that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "bronchi fibroreticular lamina" EXACT [OBOL:automatic] synonym: "bronchi lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "bronchi reticular lamina" EXACT [OBOL:automatic] synonym: "bronchial trunk fibroreticular lamina" EXACT [OBOL:automatic] synonym: "bronchial trunk lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "bronchial trunk reticular lamina" EXACT [OBOL:automatic] synonym: "bronchus fibroreticular lamina" EXACT [OBOL:automatic] synonym: "bronchus lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of bronchi" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of bronchial trunk" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of bronchus" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of bronchi" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of bronchial trunk" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of bronchus" EXACT [OBOL:automatic] synonym: "reticular lamina of bronchi" EXACT [OBOL:automatic] synonym: "reticular lamina of bronchial trunk" EXACT [OBOL:automatic] synonym: "reticular lamina of bronchus" EXACT [OBOL:automatic] xref: MA:0001834 is_a: UBERON:0003490 ! respiratory system reticular lamina is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0009652 ! bronchus basement membrane intersection_of: UBERON:0001967 ! reticular lamina intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0003493 name: trachea reticular lamina namespace: uberon def: "A reticular lamina that is part of a trachea [Automatically generated definition]." [OBOL:automatic] synonym: "fibroreticular lamina of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "fibroreticular lamina of windpipe" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "lamina fibroreticularis of windpipe" EXACT [OBOL:automatic] synonym: "reticular lamina of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "reticular lamina of windpipe" EXACT [OBOL:automatic] synonym: "windpipe fibroreticular lamina" EXACT [OBOL:automatic] synonym: "windpipe lamina fibroreticularis" EXACT [OBOL:automatic] synonym: "windpipe reticular lamina" EXACT [OBOL:automatic] xref: MA:0001856 is_a: UBERON:0003490 ! respiratory system reticular lamina is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0009653 ! trachea basement membrane intersection_of: UBERON:0001967 ! reticular lamina intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003494 name: respiratory system venule namespace: uberon def: "A venule that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius venule" EXACT [OBOL:automatic] synonym: "venule of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "venule of respiratory system" EXACT [OBOL:automatic] xref: MA:0001813 is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001979 ! venule intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003495 name: respiratory system arteriole namespace: uberon def: "An arteriole that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: MA:0001803 is_a: UBERON:0003643 ! respiratory system arterial blood vessel relationship: part_of UBERON:0003469 ! respiratory system artery intersection_of: UBERON:0001980 ! arteriole intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003496 name: head blood vessel namespace: uberon def: "A blood vessel that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of adult head" EXACT [OBOL:automatic] synonym: "blood vessel of head" EXACT [OBOL:automatic] xref: MA:0000575 xref: SCTID:127865000 relationship: part_of UBERON:0011362 ! cranial blood vasculature intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0003497 name: abdomen blood vessel namespace: uberon def: "A blood vessel that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of abdomen" EXACT [OBOL:automatic] xref: MA:0000518 is_a: UBERON:0003835 ! abdominal segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000916 ! abdomen property_value: seeAlso UBERON:0012254 [Term] id: UBERON:0003498 name: heart blood vessel namespace: uberon def: "A blood vessel that is part of a heart [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of heart" EXACT [OBOL:automatic] xref: MA:0002483 is_a: UBERON:0005985 ! coronary vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0003499 name: brain blood vessel namespace: uberon def: "A blood vessel that is part of a brain [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of brain" EXACT [OBOL:automatic] xref: MA:0002769 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003500 name: corneal blood vessel namespace: uberon def: "A blood vessel that is part of a cornea [Automatically generated definition]." [UBERON:cjm, https://sourceforge.net/tracker/index.php?func=detail&aid=3564332&group_id=36855&atid=440764] comment: Editor notes: follow up on tracker item synonym: "blood vessel of cornea" EXACT [OBOL:automatic] synonym: "cornea blood vessel" EXACT [OBOL:automatic] xref: MA:0001241 is_a: UBERON:0001772 ! corneal epithelium is_a: UBERON:0003496 ! head blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000964 ! cornea property_value: present_in_taxon NCBITaxon:9775 [Term] id: UBERON:0003501 name: retina blood vessel namespace: uberon def: "A blood vessel that is part of a retina [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of inner layer of eyeball" EXACT [OBOL:automatic] synonym: "blood vessel of retina" EXACT [OBOL:automatic] synonym: "blood vessel of tunica interna of eyeball" EXACT [OBOL:automatic] synonym: "inner layer of eyeball blood vessel" EXACT [OBOL:automatic] synonym: "retinal blood vessel" EXACT [OBOL:automatic] synonym: "tunica interna of eyeball blood vessel" EXACT [OBOL:automatic] xref: GAID:509 xref: MA:0001317 xref: MESH:A07.231.611 xref: SCTID:280692003 xref: XAO:0004153 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium relationship: part_of UBERON:0004864 ! vasculature of retina intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000966 ! retina [Term] id: UBERON:0003502 name: neck blood vessel namespace: uberon def: "A blood vessel that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of neck" EXACT [OBOL:automatic] synonym: "blood vessel of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) blood vessel" EXACT [OBOL:automatic] xref: MA:0000583 intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003503 name: leg blood vessel namespace: uberon def: "A blood vessel that is part of a leg [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of leg" EXACT [OBOL:automatic] xref: MA:0000669 is_a: UBERON:0003516 ! hindlimb blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000978 ! leg [Term] id: UBERON:0003504 name: respiratory system blood vessel namespace: uberon def: "A blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood vessel of respiratory system" EXACT [OBOL:automatic] xref: MA:0001799 is_a: UBERON:0004807 ! respiratory system epithelium intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003505 name: trachea blood vessel namespace: uberon alt_id: UBERON:0003525 def: "A blood vessel that is part of a trachea." [OBOL:automatic] synonym: "blood vessel of trachea" EXACT [OBOL:automatic] xref: MA:0001852 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000117 ! respiratory tube is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0001901 ! epithelium of trachea is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003506 name: chest blood vessel namespace: uberon def: "A blood vessel that is part of a chest [Automatically generated definition]." [OBOL:automatic] synonym: "anterior thoracic region blood vessel" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of anterior thoracic region" EXACT [OBOL:automatic] synonym: "blood vessel of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "blood vessel of chest" EXACT [OBOL:automatic] synonym: "blood vessel of front of thorax" EXACT [OBOL:automatic] synonym: "front of thorax blood vessel" EXACT [OBOL:automatic] xref: MA:0000549 is_a: UBERON:0003834 ! thoracic segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0003507 name: arm blood vessel namespace: uberon def: "A blood vessel that is part of an arm [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of arm" EXACT [OBOL:automatic] synonym: "blood vessel of brachial region" EXACT [OBOL:automatic] synonym: "blood vessel of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "brachial region blood vessel" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb blood vessel" EXACT [OBOL:automatic] xref: MA:0000591 is_a: UBERON:0003515 ! forelimb blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0003508 name: pedal digit blood vessel namespace: uberon def: "A blood vessel that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of digit of foot" EXACT [OBOL:automatic] synonym: "blood vessel of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "blood vessel of digitus pedis" EXACT [OBOL:automatic] synonym: "blood vessel of foot digit" EXACT [OBOL:automatic] synonym: "blood vessel of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "blood vessel of toe" EXACT [OBOL:automatic] synonym: "digit of foot blood vessel" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb blood vessel" EXACT [OBOL:automatic] synonym: "digitus pedis blood vessel" EXACT [OBOL:automatic] synonym: "foot digit blood vessel" EXACT SENSU [MA:0000645, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit blood vessel" EXACT [OBOL:accepted] synonym: "terminal segment of free lower limb digit blood vessel" EXACT [OBOL:automatic] synonym: "toe blood vessel" EXACT [OBOL:automatic] xref: MA:0000645 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0003521 ! pes blood vessel is_a: UBERON:0005226 ! pedal digit epithelium intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003509 name: arterial blood vessel namespace: uberon def: "A blood vessel that is part of the arterial system. Includes artery, arteriole and aorta." [UBERON:cjm] comment: only in MA - supertype of artery, arteriole, aorta. xref: MA:0000061 intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0003510 name: eyelid blood vessel namespace: uberon def: "A blood vessel that is part of a eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "blepharon blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of blepharon" EXACT [OBOL:automatic] synonym: "blood vessel of eyelid" EXACT [OBOL:automatic] xref: MA:0001250 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001711 ! eyelid [Term] id: UBERON:0003511 name: iris blood vessel namespace: uberon def: "A blood vessel that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "blood vessel of iris" EXACT [OBOL:automatic] xref: MA:0001290 xref: ZFA:0005568 is_a: UBERON:0002506 ! iris epithelium is_a: UBERON:0003496 ! head blood vessel relationship: part_of UBERON:0004118 ! vasculature of iris intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001769 ! iris [Term] id: UBERON:0003512 name: lung blood vessel namespace: uberon def: "A blood vessel that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of lung" EXACT [OBOL:automatic] xref: MA:0002457 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0000117 ! respiratory tube is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003513 name: trunk blood vessel namespace: uberon def: "A blood vessel that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of torso" EXACT [OBOL:automatic] synonym: "blood vessel of trunk" EXACT [OBOL:automatic] synonym: "torso blood vessel" EXACT [OBOL:automatic] xref: MA:0000511 intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003514 name: limb blood vessel namespace: uberon def: "A blood vessel that is part of a limb [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of limb" EXACT [OBOL:automatic] xref: MA:0000687 is_a: UBERON:0007301 ! limb/fin blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003515 name: forelimb blood vessel namespace: uberon def: "A blood vessel that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of anteriormost limb" EXACT [OBOL:automatic] synonym: "blood vessel of fore limb" EXACT [OBOL:automatic] synonym: "blood vessel of forelimb" EXACT [OBOL:automatic] synonym: "blood vessel of superior member" EXACT [OBOL:automatic] synonym: "blood vessel of upper extremity" EXACT [OBOL:automatic] synonym: "fore limb blood vessel" EXACT [OBOL:automatic] synonym: "superior member blood vessel" EXACT [OBOL:automatic] synonym: "upper extremity blood vessel" EXACT [OBOL:automatic] synonym: "wing blood vessel" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0000611 is_a: UBERON:0003514 ! limb blood vessel is_a: UBERON:0007300 ! pectoral appendage blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003516 name: hindlimb blood vessel namespace: uberon def: "A blood vessel that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of hind limb" EXACT [OBOL:automatic] synonym: "blood vessel of hindlimb" EXACT [OBOL:automatic] synonym: "blood vessel of inferior member" EXACT [OBOL:automatic] synonym: "blood vessel of lower extremity" EXACT [OBOL:automatic] synonym: "hind limb blood vessel" EXACT [OBOL:automatic] synonym: "inferior member blood vessel" EXACT [OBOL:automatic] synonym: "lower extremity blood vessel" EXACT [OBOL:automatic] xref: MA:0000659 is_a: UBERON:0003514 ! limb blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003517 name: kidney blood vessel namespace: uberon def: "A blood vessel that is part of a kidney [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "blood vessel of kidney" EXACT [OBOL:automatic] synonym: "renal blood vessel" EXACT [OBOL:automatic] xref: MA:0001682 xref: TAO:0005306 xref: ZFA:0005306 is_a: UBERON:0003497 ! abdomen blood vessel is_a: UBERON:0004819 ! kidney epithelium is_a: UBERON:0006555 ! excretory tube relationship: part_of UBERON:0006544 ! kidney vasculature intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0003518 name: main bronchus blood vessel namespace: uberon def: "A blood vessel that is part of a main bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of bronchus principalis" EXACT [OBOL:automatic] synonym: "blood vessel of main bronchus" EXACT [OBOL:automatic] synonym: "blood vessel of primary bronchus" EXACT [OBOL:automatic] synonym: "blood vessel of principal bronchus" EXACT [OBOL:automatic] synonym: "bronchus principalis blood vessel" EXACT [OBOL:automatic] synonym: "primary bronchus blood vessel" EXACT [OBOL:automatic] synonym: "principal bronchus blood vessel" EXACT [OBOL:automatic] xref: MA:0001844 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000117 ! respiratory tube is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0002340 ! epithelium of main bronchus is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0003519 name: thoracic cavity blood vessel namespace: uberon def: "A blood vessel that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of cavity of chest" EXACT [OBOL:automatic] synonym: "blood vessel of cavity of thorax" EXACT [OBOL:automatic] synonym: "blood vessel of chest cavity" EXACT [OBOL:automatic] synonym: "blood vessel of pectoral cavity" EXACT [OBOL:automatic] synonym: "blood vessel of thoracic cavity" EXACT [OBOL:automatic] synonym: "cavity of chest blood vessel" EXACT [OBOL:automatic] synonym: "cavity of thorax blood vessel" EXACT [OBOL:automatic] synonym: "chest cavity blood vessel" EXACT [OBOL:automatic] synonym: "pectoral cavity blood vessel" EXACT [OBOL:automatic] xref: MA:0000554 intersection_of: UBERON:0001981 ! blood vessel intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003520 name: pelvis blood vessel namespace: uberon def: "A blood vessel that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of pelvis" EXACT [OBOL:automatic] xref: MA:0000531 is_a: UBERON:0003835 ! abdominal segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002355 ! pelvis [Term] id: UBERON:0003521 name: pes blood vessel namespace: uberon def: "A blood vessel that is part of a foot [Automatically generated definition]." [OBOL:automatic] synonym: "autopod of hind limb blood vessel" EXACT [OBOL:automatic] synonym: "autopod of hindlimb blood vessel" EXACT [OBOL:automatic] synonym: "autopod of inferior member blood vessel" EXACT [OBOL:automatic] synonym: "autopod of lower extremity blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of hind limb" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of hindlimb" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of inferior member" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of lower extremity" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of hind limb" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of hindlimb" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of inferior member" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of lower extremity" EXACT [OBOL:automatic] synonym: "blood vessel of foot" EXACT [OBOL:automatic] synonym: "blood vessel of hind limb autopod" EXACT [OBOL:automatic] synonym: "blood vessel of hind limb distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of hindlimb autopod" EXACT [OBOL:automatic] synonym: "blood vessel of hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of inferior member autopod" EXACT [OBOL:automatic] synonym: "blood vessel of inferior member distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of lower extremity autopod" EXACT [OBOL:automatic] synonym: "blood vessel of lower extremity distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "distal free limb segment of hind limb blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of hindlimb blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of inferior member blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of lower extremity blood vessel" EXACT [OBOL:automatic] synonym: "foot blood vessel" EXACT [MA:0000642] synonym: "hind limb autopod blood vessel" EXACT [OBOL:automatic] synonym: "hind limb distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "hindlimb autopod blood vessel" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "inferior member autopod blood vessel" EXACT [OBOL:automatic] synonym: "inferior member distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "lower extremity autopod blood vessel" EXACT [OBOL:automatic] synonym: "lower extremity distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb blood vessel" EXACT [OBOL:automatic] xref: MA:0000642 is_a: UBERON:0003516 ! hindlimb blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003522 name: manual digit blood vessel namespace: uberon def: "A blood vessel that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of digit of hand" EXACT [OBOL:automatic] synonym: "blood vessel of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "blood vessel of digitus manus" EXACT [OBOL:automatic] synonym: "blood vessel of finger" EXACT [OBOL:automatic] synonym: "blood vessel of hand digit" EXACT [OBOL:automatic] synonym: "blood vessel of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "digit of hand blood vessel" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb blood vessel" EXACT [OBOL:automatic] synonym: "digitus manus blood vessel" EXACT [OBOL:automatic] synonym: "finger blood vessel" EXACT [OBOL:automatic] synonym: "fore limb digit blood vessel" EXACT [OBOL:accepted] synonym: "hand digit blood vessel" EXACT SENSU [MA:0000621, NCBITaxon:9606, OBOL:accepted] synonym: "terminal segment of free upper limb digit blood vessel" EXACT [OBOL:automatic] xref: MA:0000621 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0003523 ! manus blood vessel is_a: UBERON:0005227 ! manual digit epithelium intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003523 name: manus blood vessel namespace: uberon def: "A blood vessel that is part of a manus [Automatically generated definition]." [OBOL:automatic] synonym: "arm autopod blood vessel" EXACT [OBOL:automatic] synonym: "arm distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "autopod of arm blood vessel" EXACT [OBOL:automatic] synonym: "autopod of brachial region blood vessel" EXACT [OBOL:automatic] synonym: "autopod of proximal segment of free upper limb blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of arm autopod" EXACT [OBOL:automatic] synonym: "blood vessel of arm distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of arm" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of brachial region" EXACT [OBOL:automatic] synonym: "blood vessel of autopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "blood vessel of brachial region autopod" EXACT [OBOL:automatic] synonym: "blood vessel of brachial region distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of arm" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of brachial region" EXACT [OBOL:automatic] synonym: "blood vessel of distal free limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "blood vessel of manus" EXACT [OBOL:automatic] synonym: "blood vessel of proximal segment of free upper limb autopod" EXACT [OBOL:automatic] synonym: "blood vessel of proximal segment of free upper limb distal free limb segment" EXACT [OBOL:automatic] synonym: "blood vessel of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "brachial region autopod blood vessel" EXACT [OBOL:automatic] synonym: "brachial region distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of arm blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of brachial region blood vessel" EXACT [OBOL:automatic] synonym: "distal free limb segment of proximal segment of free upper limb blood vessel" EXACT [OBOL:automatic] synonym: "hand blood vessel" EXACT [MA:0000618] synonym: "proximal segment of free upper limb autopod blood vessel" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb distal free limb segment blood vessel" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb blood vessel" EXACT [OBOL:automatic] xref: MA:0000618 is_a: UBERON:0003515 ! forelimb blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0003524 name: tail blood vessel namespace: uberon def: "A blood vessel that is part of a tail [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of post-vent region" EXACT [OBOL:automatic] synonym: "blood vessel of tail" EXACT [OBOL:automatic] synonym: "post-vent region blood vessel" EXACT [OBOL:automatic] xref: MA:0000695 intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0003526 name: respiratory system capillary namespace: uberon def: "A capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel" EXACT [OBOL:automatic] xref: MA:0001807 is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003527 name: kidney capillary namespace: uberon def: "A capillary that is part of a kidney [Automatically generated definition]." [OBOL:automatic] synonym: "blood capillary of kidney" EXACT [OBOL:automatic] synonym: "capillary of kidney" EXACT [OBOL:automatic] synonym: "capillary vessel of kidney" EXACT [OBOL:automatic] synonym: "kidney blood capillary" EXACT [OBOL:automatic] synonym: "kidney capillary vessel" EXACT [OBOL:automatic] synonym: "renal capillary" EXACT [OBOL:automatic] xref: EMAPA:31443 xref: MA:0002586 xref: SCTID:275409003 is_a: UBERON:0003517 ! kidney blood vessel relationship: part_of UBERON:0006544 ! kidney vasculature intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0003528 name: brain grey matter namespace: uberon def: "A gray matter of neuraxis that is part of a brain [Automatically generated definition]." [OBOL:automatic] synonym: "brain gray matter" EXACT [OBOL:automatic] synonym: "brain gray matter of neuraxis" EXACT [OBOL:automatic] synonym: "brain grey substance" EXACT [OBOL:automatic] synonym: "gray matter of brain" EXACT [OBOL:automatic] synonym: "gray matter of neuraxis of brain" EXACT [OBOL:automatic] synonym: "grey matter of brain" EXACT [OBOL:automatic] synonym: "grey substance of brain" EXACT [OBOL:automatic] xref: MA:0000810 xref: UMLS:C1707348 xref: ncithesaurus:Cerebral_Gray_Matter intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003529 name: respiratory system lymphatic vessel endothelium namespace: uberon def: "An endothelium of lymphatic vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius endothelium of lymph vessel" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of lymphatic vessel" EXACT [OBOL:automatic] synonym: "apparatus respiratorius lymph vessel endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius lymphatic vessel endothelium" EXACT [OBOL:automatic] synonym: "endothelium of lymph vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of lymph vessel of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of lymphatic vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of lymphatic vessel of respiratory system" EXACT [OBOL:automatic] synonym: "lymph vessel endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lymph vessel endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "lymphatic vessel endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lymphatic vessel endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of lymph vessel" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of lymphatic vessel" EXACT [OBOL:automatic] synonym: "respiratory system lymph vessel endothelium" EXACT [OBOL:automatic] xref: MA:0001825 is_a: UBERON:0004807 ! respiratory system epithelium relationship: part_of UBERON:0003456 ! respiratory system lymphatic vessel intersection_of: UBERON:0002042 ! endothelium of lymphatic vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003530 name: pedal digit skin namespace: uberon def: "A zone of skin that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "digit of foot skin" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb skin" EXACT [OBOL:automatic] synonym: "digitus pedis skin" EXACT [OBOL:automatic] synonym: "foot digit skin" EXACT SENSU [MA:0000650, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit skin" EXACT [OBOL:accepted] synonym: "skin of digit of foot" EXACT [OBOL:automatic] synonym: "skin of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "skin of digitus pedis" EXACT [OBOL:automatic] synonym: "skin of foot digit" EXACT [OBOL:automatic] synonym: "skin of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "skin of toe" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit skin" EXACT [OBOL:automatic] synonym: "toe skin" EXACT [OBOL:automatic] xref: FMA:37852 xref: MA:0000650 xref: SCTID:181530005 xref: UMLS:C1708089 xref: ncithesaurus:Foot_Digit_Skin is_a: UBERON:0001513 ! skin of pes intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003531 name: forelimb skin namespace: uberon def: "A zone of skin that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] comment: TODO - check free limb vs pectoral complex synonym: "anteriormost limb skin" EXACT [OBOL:automatic] synonym: "fore limb skin" EXACT [OBOL:automatic] synonym: "skin of anteriormost limb" EXACT [OBOL:automatic] synonym: "skin of fore limb" EXACT [OBOL:automatic] synonym: "skin of forelimb" EXACT [OBOL:automatic] synonym: "skin of superior member" EXACT [OBOL:automatic] synonym: "skin of upper extremity" EXACT [OBOL:automatic] synonym: "skin of upper limb" EXACT [FMA:23101] synonym: "superior member skin" EXACT [OBOL:automatic] synonym: "upper extremity skin" EXACT [OBOL:automatic] synonym: "upper limb skin" EXACT [FMA:23101] synonym: "wing skin" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: FMA:23101 xref: MA:0000617 xref: SCTID:244130001 xref: UMLS:C0222212 xref: ncithesaurus:Skin_of_the_Upper_Limb_and_Shoulder is_a: UBERON:0001419 ! skin of limb intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003532 name: hindlimb skin namespace: uberon def: "A zone of skin that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] comment: TODO - check free limb vs pelvic complex synonym: "hind limb skin" EXACT [OBOL:automatic] synonym: "inferior member skin" EXACT [OBOL:automatic] synonym: "lower extremity skin" EXACT [OBOL:automatic] synonym: "lower limb skin" EXACT [FMA:23102] synonym: "skin of hind limb" EXACT [OBOL:automatic] synonym: "skin of hindlimb" EXACT [OBOL:automatic] synonym: "skin of inferior member" EXACT [OBOL:automatic] synonym: "skin of lower extremity" EXACT [OBOL:automatic] synonym: "skin of lower limb" EXACT [FMA:23102] xref: FMA:23102 xref: MA:0000665 xref: SCTID:181528008 xref: UMLS:C0222268 xref: ncithesaurus:Skin_of_the_Lower_Limb_and_Hip is_a: UBERON:0001419 ! skin of limb intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003533 name: manual digit skin namespace: uberon def: "A zone of skin that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "digit of hand skin" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb skin" EXACT [OBOL:automatic] synonym: "digitus manus skin" EXACT [OBOL:automatic] synonym: "finger skin" EXACT [OBOL:automatic] synonym: "fore limb digit skin" EXACT [OBOL:accepted] synonym: "hand digit skin" EXACT SENSU [MA:0000626, NCBITaxon:9606, OBOL:accepted] synonym: "skin of digit of hand" EXACT [OBOL:automatic] synonym: "skin of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "skin of digitus manus" EXACT [OBOL:automatic] synonym: "skin of finger" EXACT [OBOL:automatic] synonym: "skin of hand digit" EXACT [OBOL:automatic] synonym: "skin of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit skin" EXACT [OBOL:automatic] xref: FMA:38304 xref: MA:0000626 xref: SCTID:361711001 xref: UMLS:C1708318 xref: ncithesaurus:Hand_Digit_Skin is_a: UBERON:0001519 ! skin of manus intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003534 name: tail skin namespace: uberon def: "A zone of skin that is part of a tail [Automatically generated definition]." [OBOL:automatic] synonym: "post-vent region skin" EXACT [OBOL:automatic] synonym: "skin of post-vent region" EXACT [OBOL:automatic] synonym: "skin of tail" EXACT [OBOL:automatic] xref: MA:0000700 xref: SCTID:67214004 intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0003535 name: vagus X nerve trunk namespace: uberon def: "A nerve trunk that is part of a vagus nerve." [OBOL:automatic] synonym: "trunk of vagus nerve" EXACT [FMA:6221] synonym: "vagus neural trunk" EXACT [FMA:6221] xref: FMA:6221 xref: MA:0001150 xref: SCTID:280308004 intersection_of: UBERON:0002464 ! nerve trunk intersection_of: part_of UBERON:0001759 ! vagus nerve [Term] id: UBERON:0003536 name: right lung alveolar duct namespace: uberon def: "An alveolar duct that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "alveolar duct of right lung" EXACT [OBOL:automatic] xref: EMAPA:19185 xref: EMAPA:19187 xref: EMAPA:19189 xref: EMAPA:19191 xref: MA:0001785 xref: UMLS:C1709958 xref: ncithesaurus:Right_Lung_Alveolar_Duct relationship: part_of UBERON:0006526 ! right lung alveolar system intersection_of: UBERON:0002173 ! alveolar duct intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003537 name: left lung alveolar duct namespace: uberon def: "An alveolar duct that is part of a left lung [Automatically generated definition]." [OBOL:automatic] comment: Mice have 1 left lobe synonym: "alveolar duct of left lung" EXACT [OBOL:automatic] xref: EMAPA:19183 xref: MA:0001776 xref: UMLS:C1708672 xref: ncithesaurus:Left_Lung_Alveolar_Duct relationship: part_of UBERON:0006525 ! left lung alveolar system intersection_of: UBERON:0002173 ! alveolar duct intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003538 name: right lung bronchiole namespace: uberon def: "A bronchiole that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiole of right lung" EXACT [OBOL:automatic] synonym: "lobular bronchiole of right lung" EXACT [OBOL:automatic] synonym: "right lung lobular bronchiole" EXACT [OBOL:automatic] xref: MA:0001787 xref: SCTID:200089000 xref: UMLS:C0225670 xref: ncithesaurus:Right_Lung_Bronchiole is_a: UBERON:0003364 ! epithelium of right lung intersection_of: UBERON:0002186 ! bronchiole intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003539 name: left lung bronchiole namespace: uberon def: "A bronchiole that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiole of left lung" EXACT [OBOL:automatic] synonym: "left lung lobular bronchiole" EXACT [OBOL:automatic] synonym: "lobular bronchiole of left lung" EXACT [OBOL:automatic] xref: EMAPA:19000 xref: MA:0001778 xref: SCTID:200484003 xref: UMLS:C0225674 xref: ncithesaurus:Left_Lung_Bronchiole is_a: UBERON:0003365 ! epithelium of left lung intersection_of: UBERON:0002186 ! bronchiole intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003540 name: right lung terminal bronchiole namespace: uberon def: "A terminal bronchiole that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiolus terminalis of right lung" EXACT [OBOL:automatic] synonym: "right lung bronchiolus terminalis" EXACT [OBOL:automatic] synonym: "terminal bronchiole of right lung" EXACT [OBOL:automatic] xref: MA:0001789 xref: UMLS:C1709961 xref: ncithesaurus:Right_Lung_Terminal_Bronchiole is_a: UBERON:0003538 ! right lung bronchiole intersection_of: UBERON:0002187 ! terminal bronchiole intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003541 name: left lung terminal bronchiole namespace: uberon def: "A terminal bronchiole that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiolus terminalis of left lung" EXACT [OBOL:automatic] synonym: "left lung bronchiolus terminalis" EXACT [OBOL:automatic] synonym: "terminal bronchiole of left lung" EXACT [OBOL:automatic] xref: MA:0001780 xref: UMLS:C1708675 xref: ncithesaurus:Left_Lung_Terminal_Bronchiole is_a: UBERON:0003539 ! left lung bronchiole intersection_of: UBERON:0002187 ! terminal bronchiole intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003542 name: right lung respiratory bronchiole namespace: uberon def: "A respiratory bronchiole that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiolus respiratorius of right lung" EXACT [OBOL:automatic] synonym: "respiratory bronchiole of right lung" EXACT [OBOL:automatic] synonym: "right lung bronchiolus respiratorius" EXACT [OBOL:automatic] xref: MA:0001788 xref: UMLS:C1709960 xref: ncithesaurus:Right_Lung_Respiratory_Bronchiole is_a: UBERON:0003538 ! right lung bronchiole intersection_of: UBERON:0002188 ! respiratory bronchiole intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003543 name: left lung respiratory bronchiole namespace: uberon def: "A respiratory bronchiole that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "bronchiolus respiratorius of left lung" EXACT [OBOL:automatic] synonym: "left lung bronchiolus respiratorius" EXACT [OBOL:automatic] synonym: "respiratory bronchiole of left lung" EXACT [OBOL:automatic] xref: MA:0001779 xref: UMLS:C1708674 xref: ncithesaurus:Left_Lung_Respiratory_Bronchiole is_a: UBERON:0003539 ! left lung bronchiole intersection_of: UBERON:0002188 ! respiratory bronchiole intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003544 name: brain white matter namespace: uberon def: "the regions of the brain that are largely or entirely composed of myelinated nerve cell axons and contain few or no neural cell bodies or dendrites." [MP:0008026] synonym: "brain white matter of neuraxis" EXACT [OBOL:automatic] synonym: "brain white substance" EXACT [OBOL:automatic] synonym: "white matter of brain" EXACT [OBOL:automatic] synonym: "white matter of neuraxis of brain" EXACT [OBOL:automatic] synonym: "white substance of brain" EXACT [OBOL:automatic] xref: MA:0000820 xref: UMLS:C1706995 xref: ncithesaurus:Brain_White_Matter intersection_of: UBERON:0002316 ! white matter intersection_of: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003545 name: obsolete brainstem white matter namespace: uberon is_obsolete: true consider: MA:0002741 ! brainstem white matter (mouse) comment: obsoleted as definition is unclear. cerebellar peduncle originally classified here but in ABA brainstem and cerbellum are spatially disjoint [Term] id: UBERON:0003546 name: distal convoluted tubule macula densa namespace: uberon def: "A macula densa that is part of a distal convoluted tubule [Automatically generated definition]." [OBOL:automatic] xref: MA:0001668 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure relationship: part_of UBERON:0001292 ! distal convoluted tubule relationship: part_of UBERON:0002335 ! macula densa intersection_of: UBERON:0002335 ! macula densa intersection_of: part_of UBERON:0001292 ! distal convoluted tubule [Term] id: UBERON:0003547 name: brain meninx namespace: uberon def: "A meninx that is part of a brain [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "brain meninges" EXACT [OBOL:automatic] synonym: "meninges of brain" EXACT [OBOL:automatic] synonym: "meninx of brain" EXACT [OBOL:automatic] xref: EV:0100312 xref: MA:0000813 xref: SCTID:180949007 xref: VHOG:0000013 intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0000955 ! brain property_value: external_definition "Meninges that are part of the brain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003548 name: forebrain meninges namespace: uberon def: "A meninx that is part of a forebrain [Automatically generated definition]." [OBOL:automatic] synonym: "forebrain meninx" EXACT [OBOL:automatic] synonym: "meninges of forebrain" EXACT [OBOL:automatic] synonym: "meninx of forebrain" EXACT [OBOL:automatic] xref: EMAPA:17764 xref: EMAPA:17774 xref: MA:0000883 is_a: UBERON:0003547 ! brain meninx intersection_of: UBERON:0002360 ! meninx intersection_of: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0003549 name: brain pia mater namespace: uberon def: "the fibrous membrane forming the innermost of the three coverings that surrounds the brain within the cranial cavity that is firmly attached to the glial capsule." [MP:0009026] synonym: "brain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "pia mater of brain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of brain" EXACT [OBOL:automatic] xref: EV:0100315 xref: MA:0000816 xref: UMLS:C1706994 xref: VHOG:0000470 xref: ncithesaurus:Brain_Pia_Mater is_a: UBERON:0003547 ! brain meninx intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0000955 ! brain property_value: external_definition "The innermost of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003550 name: forebrain pia mater namespace: uberon def: "A pia mater that is part of a forebrain [Automatically generated definition]." [OBOL:automatic] synonym: "forebrain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "pia mater of forebrain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of forebrain" EXACT [OBOL:automatic] xref: EMAPA:17767 xref: EMAPA:17777 xref: MA:0000886 is_a: UBERON:0003548 ! forebrain meninges is_a: UBERON:0003549 ! brain pia mater intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0003551 name: midbrain pia mater namespace: uberon def: "A pia mater that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "mesencephalon pia mater" RELATED [VHOG:0000467] synonym: "midbrain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "pia mater of midbrain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of midbrain" EXACT [OBOL:automatic] xref: EHDAA2:0001175 xref: EMAPA:17794 xref: MA:0001061 xref: RETIRED_EHDAA2:0001110 xref: VHOG:0000467 is_a: UBERON:0003288 ! meninx of midbrain is_a: UBERON:0003549 ! brain pia mater intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0001891 ! midbrain property_value: external_definition "Pia mater that is part of the midbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003552 name: telencephalon pia mater namespace: uberon def: "A pia mater that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "pia mater of neuraxis of telencephalon" EXACT [OBOL:automatic] synonym: "pia mater of telencephalon" EXACT [OBOL:automatic] synonym: "telencephalon pia mater of neuraxis" EXACT [OBOL:automatic] xref: EHDAA2:0001992 xref: EMAPA:17777 xref: MA:0000982 xref: VHOG:0000476 is_a: UBERON:0003289 ! meninx of telencephalon is_a: UBERON:0003550 ! forebrain pia mater intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0001893 ! telencephalon property_value: external_definition "Pia mater that is part of the telencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003553 name: diencephalon pia mater namespace: uberon def: "A pia mater that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "between brain pia mater" EXACT [OBOL:automatic] synonym: "between brain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "diencephalon pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "interbrain pia mater" EXACT [OBOL:automatic] synonym: "interbrain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "mature diencephalon pia mater" EXACT [OBOL:automatic] synonym: "mature diencephalon pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "pia mater of between brain" EXACT [OBOL:automatic] synonym: "pia mater of diencephalon" EXACT [OBOL:automatic] synonym: "pia mater of interbrain" EXACT [OBOL:automatic] synonym: "pia mater of mature diencephalon" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of between brain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of diencephalon" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of interbrain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of mature diencephalon" EXACT [OBOL:automatic] xref: EHDAA2:0000400 xref: EMAPA:17767 xref: MA:0000829 xref: VHOG:0000475 is_a: UBERON:0003290 ! meninx of diencephalon is_a: UBERON:0003550 ! forebrain pia mater intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0001894 ! diencephalon property_value: external_definition "Pia mater that is part of the diencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003554 name: hindbrain pia mater namespace: uberon def: "A pia mater that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] synonym: "hindbrain pia mater of neuraxis" EXACT [OBOL:automatic] synonym: "pia mater of hindbrain" EXACT [OBOL:automatic] synonym: "pia mater of neuraxis of hindbrain" EXACT [OBOL:automatic] synonym: "rhombencephalon pia mater" RELATED [VHOG:0000466] xref: EHDAA2:0000772 xref: EMAPA:17786 xref: MA:0000990 xref: VHOG:0000466 is_a: UBERON:0003291 ! meninx of hindbrain is_a: UBERON:0003549 ! brain pia mater intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "Pia mater that is part of the hindbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003555 name: spinal cord pia mater namespace: uberon def: "A pia mater that is part of a spinal cord [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "pia mater of neuraxis of spinal cord" EXACT [OBOL:automatic] synonym: "pia mater of spinal cord" EXACT [OBOL:automatic] synonym: "spinal cord pia mater of neuraxis" EXACT [OBOL:automatic] xref: EHDAA2:0001896 xref: EMAPA:17807 xref: MA:0001133 xref: UMLS:C1710148 xref: VHOG:0000468 xref: ncithesaurus:Spinal_Cord_Pia_Mater is_a: UBERON:0003292 ! meninx of spinal cord intersection_of: UBERON:0002361 ! pia mater intersection_of: part_of UBERON:0002240 ! spinal cord property_value: external_definition "The innermost of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003556 name: forebrain arachnoid mater namespace: uberon def: "An arachnoid mater that is part of a forebrain [Automatically generated definition]." [OBOL:automatic] synonym: "arachnoid mater of forebrain" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of forebrain" EXACT [OBOL:automatic] synonym: "arachnoid of forebrain" EXACT [OBOL:automatic] synonym: "forebrain arachnoid" EXACT [OBOL:automatic] synonym: "forebrain arachnoid mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17765 xref: EMAPA:17775 xref: MA:0000884 is_a: UBERON:0003548 ! forebrain meninges intersection_of: UBERON:0002362 ! arachnoid mater intersection_of: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0003557 name: midbrain arachnoid mater namespace: uberon def: "An arachnoid mater that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "arachnoid mater of midbrain" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of midbrain" EXACT [OBOL:automatic] synonym: "arachnoid of midbrain" EXACT [OBOL:automatic] synonym: "mesencephalon arachnoid mater" RELATED [VHOG:0000233] synonym: "midbrain arachnoid" EXACT [OBOL:automatic] synonym: "midbrain arachnoid mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17792 xref: MA:0001059 xref: VHOG:0000233 is_a: UBERON:0003288 ! meninx of midbrain intersection_of: UBERON:0002362 ! arachnoid mater intersection_of: part_of UBERON:0001891 ! midbrain property_value: external_definition "Arachnoid mater that is part of the midbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003558 name: diencephalon arachnoid mater namespace: uberon def: "An arachnoid mater that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "arachnoid mater of between brain" EXACT [OBOL:automatic] synonym: "arachnoid mater of diencephalon" EXACT [OBOL:automatic] synonym: "arachnoid mater of interbrain" EXACT [OBOL:automatic] synonym: "arachnoid mater of mature diencephalon" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of between brain" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of diencephalon" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of interbrain" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of mature diencephalon" EXACT [OBOL:automatic] synonym: "arachnoid of between brain" EXACT [OBOL:automatic] synonym: "arachnoid of diencephalon" EXACT [OBOL:automatic] synonym: "arachnoid of interbrain" EXACT [OBOL:automatic] synonym: "arachnoid of mature diencephalon" EXACT [OBOL:automatic] synonym: "between brain arachnoid" EXACT [OBOL:automatic] synonym: "between brain arachnoid mater" EXACT [OBOL:automatic] synonym: "between brain arachnoid mater of neuraxis" EXACT [OBOL:automatic] synonym: "diencephalon arachnoid" EXACT [OBOL:automatic] synonym: "diencephalon arachnoid mater of neuraxis" EXACT [OBOL:automatic] synonym: "interbrain arachnoid" EXACT [OBOL:automatic] synonym: "interbrain arachnoid mater" EXACT [OBOL:automatic] synonym: "interbrain arachnoid mater of neuraxis" EXACT [OBOL:automatic] synonym: "mature diencephalon arachnoid" EXACT [OBOL:automatic] synonym: "mature diencephalon arachnoid mater" EXACT [OBOL:automatic] synonym: "mature diencephalon arachnoid mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17765 xref: MA:0000827 xref: VHOG:0000231 is_a: UBERON:0003290 ! meninx of diencephalon is_a: UBERON:0003556 ! forebrain arachnoid mater intersection_of: UBERON:0002362 ! arachnoid mater intersection_of: part_of UBERON:0001894 ! diencephalon property_value: external_definition "Arachnoid mater that is part of the diencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003559 name: hindbrain arachnoid mater namespace: uberon def: "An arachnoid mater that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] synonym: "arachnoid mater of hindbrain" EXACT [OBOL:automatic] synonym: "arachnoid mater of neuraxis of hindbrain" EXACT [OBOL:automatic] synonym: "arachnoid of hindbrain" EXACT [OBOL:automatic] synonym: "hindbrain arachnoid" EXACT [OBOL:automatic] synonym: "hindbrain arachnoid mater of neuraxis" EXACT [OBOL:automatic] synonym: "rhombencephalon arachnoid mater" RELATED [VHOG:0000236] xref: EMAPA:17784 xref: MA:0000988 xref: VHOG:0000236 is_a: UBERON:0003291 ! meninx of hindbrain intersection_of: UBERON:0002362 ! arachnoid mater intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "Arachnoid mater that is part of the hindbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003560 name: spinal cord arachnoid mater namespace: uberon def: "An arachnoid mater that is part of a spinal cord [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "arachnoid mater of neuraxis of spinal cord" EXACT [OBOL:automatic] synonym: "arachnoid mater of spinal cord" EXACT [OBOL:automatic] synonym: "arachnoid of spinal cord" EXACT [OBOL:automatic] synonym: "spinal cord arachnoid" EXACT [OBOL:automatic] synonym: "spinal cord arachnoid mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17805 xref: MA:0001131 xref: VHOG:0000234 is_a: UBERON:0003292 ! meninx of spinal cord intersection_of: UBERON:0002362 ! arachnoid mater intersection_of: part_of UBERON:0002240 ! spinal cord property_value: external_definition "The middle membrane of the three mammalian meninges covering the brain and spinal cord. [TFD][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003561 name: forebrain dura mater namespace: uberon def: "A dura mater that is part of a forebrain." [OBOL:automatic] synonym: "dura mater of forebrain" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of forebrain" EXACT [OBOL:automatic] synonym: "forebrain dura mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17766 xref: MA:0000885 is_a: UBERON:0002092 ! brain dura mater is_a: UBERON:0003548 ! forebrain meninges intersection_of: UBERON:0002363 ! dura mater intersection_of: part_of UBERON:0001890 ! forebrain [Term] id: UBERON:0003562 name: midbrain dura mater namespace: uberon def: "A dura mater that is part of a midbrain [Automatically generated definition]." [OBOL:automatic] synonym: "dura mater of midbrain" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of midbrain" EXACT [OBOL:automatic] synonym: "mesencephalon dura mater" RELATED [VHOG:0000410] synonym: "midbrain dura mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17793 xref: MA:0001060 xref: VHOG:0000410 is_a: UBERON:0002092 ! brain dura mater is_a: UBERON:0003288 ! meninx of midbrain intersection_of: UBERON:0002363 ! dura mater intersection_of: part_of UBERON:0001891 ! midbrain property_value: external_definition "Dura mater that is part of the midbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003563 name: telencephalon dura mater namespace: uberon def: "A dura mater that is part of a telencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "dura mater of neuraxis of telencephalon" EXACT [OBOL:automatic] synonym: "dura mater of telencephalon" EXACT [OBOL:automatic] synonym: "telencephalon dura mater of neuraxis" EXACT [OBOL:automatic] xref: MA:0000981 is_a: UBERON:0003289 ! meninx of telencephalon is_a: UBERON:0003561 ! forebrain dura mater intersection_of: UBERON:0002363 ! dura mater intersection_of: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0003564 name: diencephalon dura mater namespace: uberon def: "A dura mater that is part of a diencephalon [Automatically generated definition]." [OBOL:automatic] synonym: "between brain dura mater" EXACT [OBOL:automatic] synonym: "between brain dura mater of neuraxis" EXACT [OBOL:automatic] synonym: "diencephalon dura mater of neuraxis" EXACT [OBOL:automatic] synonym: "dura mater of between brain" EXACT [OBOL:automatic] synonym: "dura mater of diencephalon" EXACT [OBOL:automatic] synonym: "dura mater of interbrain" EXACT [OBOL:automatic] synonym: "dura mater of mature diencephalon" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of between brain" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of diencephalon" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of interbrain" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of mature diencephalon" EXACT [OBOL:automatic] synonym: "interbrain dura mater" EXACT [OBOL:automatic] synonym: "interbrain dura mater of neuraxis" EXACT [OBOL:automatic] synonym: "mature diencephalon dura mater" EXACT [OBOL:automatic] synonym: "mature diencephalon dura mater of neuraxis" EXACT [OBOL:automatic] xref: EMAPA:17766 xref: MA:0000828 xref: VHOG:0000258 is_a: UBERON:0003290 ! meninx of diencephalon is_a: UBERON:0003561 ! forebrain dura mater intersection_of: UBERON:0002363 ! dura mater intersection_of: part_of UBERON:0001894 ! diencephalon property_value: external_definition "Dura mater that is part of the diencephalon. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003565 name: hindbrain dura mater namespace: uberon def: "A dura mater that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] synonym: "dura mater of hindbrain" EXACT [OBOL:automatic] synonym: "dura mater of neuraxis of hindbrain" EXACT [OBOL:automatic] synonym: "hindbrain dura mater of neuraxis" EXACT [OBOL:automatic] synonym: "rhombencephalon dura mater" RELATED [VHOG:0000409] xref: EMAPA:17785 xref: MA:0000989 xref: VHOG:0000409 is_a: UBERON:0002092 ! brain dura mater is_a: UBERON:0003291 ! meninx of hindbrain intersection_of: UBERON:0002363 ! dura mater intersection_of: part_of UBERON:0002028 ! hindbrain property_value: external_definition "Dura mater that is part of the hindbrain. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes "In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0003566 name: head connective tissue namespace: uberon def: "A portion of connective tissue that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head connective tissue" EXACT [OBOL:automatic] synonym: "adult head portion of connective tissue" EXACT [OBOL:automatic] synonym: "adult head textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of adult head" EXACT [OBOL:automatic] synonym: "connective tissue of head" EXACT [OBOL:automatic] synonym: "head portion of connective tissue" EXACT [OBOL:automatic] synonym: "head textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of adult head" EXACT [OBOL:automatic] synonym: "portion of connective tissue of head" EXACT [OBOL:automatic] synonym: "textus connectivus of adult head" EXACT [OBOL:automatic] synonym: "textus connectivus of head" EXACT [OBOL:automatic] xref: MA:0000577 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000033 ! head [Term] id: UBERON:0003567 name: abdomen connective tissue namespace: uberon def: "A portion of connective tissue that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "abdomen portion of connective tissue" EXACT [OBOL:automatic] synonym: "abdomen textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of abdomen" EXACT [OBOL:automatic] synonym: "portion of connective tissue of abdomen" EXACT [OBOL:automatic] synonym: "textus connectivus of abdomen" EXACT [OBOL:automatic] xref: MA:0000519 is_a: UBERON:0003838 ! abdominal segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003568 name: neck connective tissue namespace: uberon def: "A portion of connective tissue that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of neck" EXACT [OBOL:automatic] synonym: "connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) textus connectivus" EXACT [OBOL:automatic] synonym: "neck portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "textus connectivus of neck" EXACT [OBOL:automatic] synonym: "textus connectivus of neck (volume)" EXACT [OBOL:automatic] xref: MA:0000585 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003569 name: leg connective tissue namespace: uberon def: "A portion of connective tissue that is part of a leg [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of leg" EXACT [OBOL:automatic] synonym: "leg portion of connective tissue" EXACT [OBOL:automatic] synonym: "leg textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of leg" EXACT [OBOL:automatic] synonym: "textus connectivus of leg" EXACT [OBOL:automatic] xref: MA:0000671 is_a: UBERON:0003589 ! hindlimb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000978 ! leg [Term] id: UBERON:0003570 name: respiratory system connective tissue namespace: uberon def: "A portion of connective tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius portion of connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "portion of connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "portion of connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system portion of connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus of respiratory system" EXACT [OBOL:automatic] xref: MA:0001814 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003571 name: trachea connective tissue namespace: uberon def: "A connective tissue that is part of a trachea." [OBOL:automatic] synonym: "connective tissue of trachea" EXACT [OBOL:automatic] synonym: "connective tissue of windpipe" EXACT [OBOL:automatic] synonym: "portion of connective tissue of trachea" EXACT [OBOL:automatic] synonym: "portion of connective tissue of windpipe" EXACT [OBOL:automatic] synonym: "textus connectivus of trachea" EXACT [OBOL:automatic] synonym: "textus connectivus of windpipe" EXACT [OBOL:automatic] synonym: "trachea portion of connective tissue" EXACT [OBOL:automatic] synonym: "trachea textus connectivus" EXACT [OBOL:automatic] synonym: "windpipe connective tissue" EXACT [OBOL:automatic] synonym: "windpipe portion of connective tissue" EXACT [OBOL:automatic] synonym: "windpipe textus connectivus" EXACT [OBOL:automatic] xref: MA:0001853 is_a: UBERON:0003580 ! lower respiratory tract connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003572 name: chest connective tissue namespace: uberon def: "A portion of connective tissue that is part of a chest [Automatically generated definition]." [OBOL:automatic] synonym: "anterior thoracic region connective tissue" EXACT [OBOL:automatic] synonym: "anterior thoracic region portion of connective tissue" EXACT [OBOL:automatic] synonym: "anterior thoracic region textus connectivus" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax connective tissue" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "anterolateral part of thorax textus connectivus" EXACT [OBOL:automatic] synonym: "chest portion of connective tissue" EXACT [OBOL:automatic] synonym: "chest textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of anterior thoracic region" EXACT [OBOL:automatic] synonym: "connective tissue of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "connective tissue of chest" EXACT [OBOL:automatic] synonym: "connective tissue of front of thorax" EXACT [OBOL:automatic] synonym: "front of thorax connective tissue" EXACT [OBOL:automatic] synonym: "front of thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "front of thorax textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of anterior thoracic region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of chest" EXACT [OBOL:automatic] synonym: "portion of connective tissue of front of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of anterior thoracic region" EXACT [OBOL:automatic] synonym: "textus connectivus of anterolateral part of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of chest" EXACT [OBOL:automatic] synonym: "textus connectivus of front of thorax" EXACT [OBOL:automatic] xref: MA:0000550 is_a: UBERON:0003837 ! thoracic segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001443 ! chest [Term] id: UBERON:0003573 name: arm connective tissue namespace: uberon def: "A portion of connective tissue that is part of an arm [Automatically generated definition]." [OBOL:automatic] synonym: "arm portion of connective tissue" EXACT [OBOL:automatic] synonym: "arm textus connectivus" EXACT [OBOL:automatic] synonym: "brachial region connective tissue" EXACT [OBOL:automatic] synonym: "brachial region portion of connective tissue" EXACT [OBOL:automatic] synonym: "brachial region textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of arm" EXACT [OBOL:automatic] synonym: "connective tissue of brachial region" EXACT [OBOL:automatic] synonym: "connective tissue of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of arm" EXACT [OBOL:automatic] synonym: "portion of connective tissue of brachial region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of arm" EXACT [OBOL:automatic] synonym: "textus connectivus of brachial region" EXACT [OBOL:automatic] synonym: "textus connectivus of proximal segment of free upper limb" EXACT [OBOL:automatic] xref: MA:0000593 is_a: UBERON:0003588 ! forelimb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001460 ! arm [Term] id: UBERON:0003574 name: elbow connective tissue namespace: uberon def: "A portion of connective tissue that is part of a elbow [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of cubital region" EXACT [OBOL:automatic] synonym: "connective tissue of elbow" EXACT [OBOL:automatic] synonym: "cubital region connective tissue" EXACT [OBOL:automatic] synonym: "cubital region portion of connective tissue" EXACT [OBOL:automatic] synonym: "cubital region textus connectivus" EXACT [OBOL:automatic] synonym: "elbow portion of connective tissue" EXACT [OBOL:automatic] synonym: "elbow textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cubital region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of elbow" EXACT [OBOL:automatic] synonym: "textus connectivus of cubital region" EXACT [OBOL:automatic] synonym: "textus connectivus of elbow" EXACT [OBOL:automatic] xref: MA:0000609 is_a: UBERON:0003573 ! arm connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001461 ! elbow [Term] id: UBERON:0003575 name: wrist connective tissue namespace: uberon def: "A portion of connective tissue that is part of a wrist [Automatically generated definition]." [OBOL:automatic] synonym: "carpal region connective tissue" EXACT [OBOL:automatic] synonym: "carpal region portion of connective tissue" EXACT [OBOL:automatic] synonym: "carpal region textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of carpal region" EXACT [OBOL:automatic] synonym: "connective tissue of wrist" EXACT [OBOL:automatic] synonym: "portion of connective tissue of carpal region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of wrist" EXACT [OBOL:automatic] synonym: "textus connectivus of carpal region" EXACT [OBOL:automatic] synonym: "textus connectivus of wrist" EXACT [OBOL:automatic] synonym: "wrist portion of connective tissue" EXACT [OBOL:automatic] synonym: "wrist textus connectivus" EXACT [OBOL:automatic] xref: MA:0000636 is_a: UBERON:0003598 ! manus connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0004452 ! carpal region [Term] id: UBERON:0003576 name: hip connective tissue namespace: uberon def: "A portion of connective tissue that is part of a hip [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of hip" EXACT [OBOL:automatic] synonym: "connective tissue of hip region" EXACT [OBOL:automatic] synonym: "connective tissue of regio coxae" EXACT [OBOL:automatic] synonym: "hip portion of connective tissue" EXACT [OBOL:automatic] synonym: "hip region connective tissue" EXACT [OBOL:automatic] synonym: "hip region portion of connective tissue" EXACT [OBOL:automatic] synonym: "hip region textus connectivus" EXACT [OBOL:automatic] synonym: "hip textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hip" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hip region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of regio coxae" EXACT [OBOL:automatic] synonym: "regio coxae connective tissue" EXACT [OBOL:automatic] synonym: "regio coxae portion of connective tissue" EXACT [OBOL:automatic] synonym: "regio coxae textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of hip" EXACT [OBOL:automatic] synonym: "textus connectivus of hip region" EXACT [OBOL:automatic] synonym: "textus connectivus of regio coxae" EXACT [OBOL:automatic] xref: MA:0000656 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001464 ! hip [Term] id: UBERON:0003577 name: knee connective tissue namespace: uberon def: "A portion of connective tissue that is part of a knee [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of knee" EXACT [OBOL:automatic] synonym: "knee portion of connective tissue" EXACT [OBOL:automatic] synonym: "knee textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of knee" EXACT [OBOL:automatic] synonym: "textus connectivus of knee" EXACT [OBOL:automatic] xref: MA:0000667 is_a: UBERON:0003569 ! leg connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001465 ! knee [Term] id: UBERON:0003578 name: pedal digit connective tissue namespace: uberon def: "A portion of connective tissue that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of digit of foot" EXACT [OBOL:automatic] synonym: "connective tissue of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "connective tissue of digitus pedis" EXACT [OBOL:automatic] synonym: "connective tissue of foot digit" EXACT [OBOL:automatic] synonym: "connective tissue of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "connective tissue of toe" EXACT [OBOL:automatic] synonym: "digit of foot connective tissue" EXACT [OBOL:automatic] synonym: "digit of foot portion of connective tissue" EXACT [OBOL:automatic] synonym: "digit of foot textus connectivus" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb connective tissue" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb textus connectivus" EXACT [OBOL:automatic] synonym: "digitus pedis connective tissue" EXACT [OBOL:automatic] synonym: "digitus pedis portion of connective tissue" EXACT [OBOL:automatic] synonym: "digitus pedis textus connectivus" EXACT [OBOL:automatic] synonym: "foot digit connective tissue" EXACT SENSU [MA:0000647, NCBITaxon:9606, OBOL:accepted] synonym: "foot digit portion of connective tissue" EXACT [OBOL:automatic] synonym: "foot digit textus connectivus" EXACT [OBOL:automatic] synonym: "hind limb digit connective tissue" EXACT [OBOL:accepted] synonym: "portion of connective tissue of digit of foot" EXACT [OBOL:automatic] synonym: "portion of connective tissue of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of digitus pedis" EXACT [OBOL:automatic] synonym: "portion of connective tissue of foot digit" EXACT [OBOL:automatic] synonym: "portion of connective tissue of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "portion of connective tissue of toe" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit portion of connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of digit of foot" EXACT [OBOL:automatic] synonym: "textus connectivus of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "textus connectivus of digitus pedis" EXACT [OBOL:automatic] synonym: "textus connectivus of foot digit" EXACT [OBOL:automatic] synonym: "textus connectivus of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "textus connectivus of toe" EXACT [OBOL:automatic] synonym: "toe connective tissue" EXACT [OBOL:automatic] synonym: "toe portion of connective tissue" EXACT [OBOL:automatic] synonym: "toe textus connectivus" EXACT [OBOL:automatic] xref: MA:0000647 is_a: UBERON:0003595 ! pes connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003579 name: shoulder connective tissue namespace: uberon def: "A portion of connective tissue that is part of a shoulder [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of shoulder" EXACT [OBOL:automatic] synonym: "portion of connective tissue of shoulder" EXACT [OBOL:automatic] synonym: "shoulder portion of connective tissue" EXACT [OBOL:automatic] synonym: "shoulder textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of shoulder" EXACT [OBOL:automatic] xref: MA:0000632 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003580 name: lower respiratory tract connective tissue namespace: uberon def: "A portion of connective tissue that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower respiratory tract textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "textus connectivus of lower respiratory tract" EXACT [OBOL:automatic] xref: MA:0002409 is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0003581 name: eyelid connective tissue namespace: uberon def: "A portion of connective tissue that is part of a eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "blepharon connective tissue" EXACT [OBOL:automatic] synonym: "blepharon portion of connective tissue" EXACT [OBOL:automatic] synonym: "blepharon textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of blepharon" EXACT [OBOL:automatic] synonym: "connective tissue of eyelid" EXACT [OBOL:automatic] synonym: "eyelid portion of connective tissue" EXACT [OBOL:automatic] synonym: "eyelid textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of blepharon" EXACT [OBOL:automatic] synonym: "portion of connective tissue of eyelid" EXACT [OBOL:automatic] synonym: "textus connectivus of blepharon" EXACT [OBOL:automatic] synonym: "textus connectivus of eyelid" EXACT [OBOL:automatic] xref: MA:0001251 xref: UMLS:C1707989 xref: ncithesaurus:Eyelid_Connective_Tissue is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001711 ! eyelid [Term] id: UBERON:0003582 name: nasopharynx connective tissue namespace: uberon def: "A portion of connective tissue that is part of a nasopharynx [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of nasal part of pharynx" EXACT [OBOL:automatic] synonym: "connective tissue of nasopharynx" EXACT [OBOL:automatic] synonym: "connective tissue of rhinopharynx" EXACT [OBOL:automatic] synonym: "nasal part of pharynx connective tissue" EXACT [OBOL:automatic] synonym: "nasal part of pharynx portion of connective tissue" EXACT [OBOL:automatic] synonym: "nasal part of pharynx textus connectivus" EXACT [OBOL:automatic] synonym: "nasopharynx portion of connective tissue" EXACT [OBOL:automatic] synonym: "nasopharynx textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of nasal part of pharynx" EXACT [OBOL:automatic] synonym: "portion of connective tissue of nasopharynx" EXACT [OBOL:automatic] synonym: "portion of connective tissue of rhinopharynx" EXACT [OBOL:automatic] synonym: "rhinopharynx connective tissue" EXACT [OBOL:automatic] synonym: "rhinopharynx portion of connective tissue" EXACT [OBOL:automatic] synonym: "rhinopharynx textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of nasal part of pharynx" EXACT [OBOL:automatic] synonym: "textus connectivus of nasopharynx" EXACT [OBOL:automatic] synonym: "textus connectivus of rhinopharynx" EXACT [OBOL:automatic] xref: MA:0001864 is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001728 ! nasopharynx [Term] id: UBERON:0003583 name: larynx connective tissue namespace: uberon def: "A portion of connective tissue that is part of a larynx [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of larynx" EXACT [OBOL:automatic] synonym: "larynx portion of connective tissue" EXACT [OBOL:automatic] synonym: "larynx textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of larynx" EXACT [OBOL:automatic] synonym: "textus connectivus of larynx" EXACT [OBOL:automatic] xref: MA:0001754 xref: UMLS:C1708651 xref: ncithesaurus:Laryngeal_Connective_Tissue is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001737 ! larynx [Term] id: UBERON:0003584 name: mammary gland connective tissue namespace: uberon def: "the fibrous supportive tissue of the mammary gland." [MP:0009507] synonym: "connective tissue of lactiferous gland" EXACT [OBOL:automatic] synonym: "connective tissue of lobe of breast" EXACT [OBOL:automatic] synonym: "connective tissue of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "connective tissue of mammary gland" EXACT [OBOL:automatic] synonym: "lactiferous gland connective tissue" EXACT [OBOL:automatic] synonym: "lactiferous gland portion of connective tissue" EXACT [OBOL:automatic] synonym: "lactiferous gland textus connectivus" EXACT [OBOL:automatic] synonym: "lobe of breast connective tissue" EXACT [OBOL:automatic] synonym: "lobe of breast portion of connective tissue" EXACT [OBOL:automatic] synonym: "lobe of breast textus connectivus" EXACT [OBOL:automatic] synonym: "lobe of mammary gland connective tissue" EXACT [OBOL:automatic] synonym: "lobe of mammary gland portion of connective tissue" EXACT [OBOL:automatic] synonym: "lobe of mammary gland textus connectivus" EXACT [OBOL:automatic] synonym: "mammary gland portion of connective tissue" EXACT [OBOL:automatic] synonym: "mammary gland textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lactiferous gland" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lobe of breast" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "portion of connective tissue of mammary gland" EXACT [OBOL:automatic] synonym: "textus connectivus of lactiferous gland" EXACT [OBOL:automatic] synonym: "textus connectivus of lobe of breast" EXACT [OBOL:automatic] synonym: "textus connectivus of lobe of mammary gland" EXACT [OBOL:automatic] synonym: "textus connectivus of mammary gland" EXACT [OBOL:automatic] xref: FMA:74479 xref: MA:0002897 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001911 ! mammary gland [Term] id: UBERON:0003585 name: dermis connective tissue namespace: uberon def: "A portion of connective tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis portion of connective tissue" EXACT [OBOL:automatic] synonym: "dermis textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of dermis" EXACT [OBOL:automatic] synonym: "textus connectivus of dermis" EXACT [OBOL:automatic] xref: MA:0000799 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003586 name: trunk connective tissue namespace: uberon def: "A portion of connective tissue that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of torso" EXACT [OBOL:automatic] synonym: "connective tissue of trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of torso" EXACT [OBOL:automatic] synonym: "portion of connective tissue of trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of torso" EXACT [OBOL:automatic] synonym: "textus connectivus of trunk" EXACT [OBOL:automatic] synonym: "torso connective tissue" EXACT [OBOL:automatic] synonym: "torso portion of connective tissue" EXACT [OBOL:automatic] synonym: "torso textus connectivus" EXACT [OBOL:automatic] synonym: "trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "trunk textus connectivus" EXACT [OBOL:automatic] xref: MA:0000513 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003587 name: limb connective tissue namespace: uberon def: "A portion of connective tissue that is part of a limb [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of limb" EXACT [OBOL:automatic] synonym: "limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "limb textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of limb" EXACT [OBOL:automatic] synonym: "textus connectivus of limb" EXACT [OBOL:automatic] xref: MA:0000689 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003588 name: forelimb connective tissue namespace: uberon def: "A portion of connective tissue that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb connective tissue" EXACT [OBOL:automatic] synonym: "anteriormost limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "anteriormost limb textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of anteriormost limb" EXACT [OBOL:automatic] synonym: "connective tissue of fore limb" EXACT [OBOL:automatic] synonym: "connective tissue of forelimb" EXACT [OBOL:automatic] synonym: "connective tissue of superior member" EXACT [OBOL:automatic] synonym: "connective tissue of upper extremity" EXACT [OBOL:automatic] synonym: "fore limb connective tissue" EXACT [OBOL:automatic] synonym: "fore limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "fore limb textus connectivus" EXACT [OBOL:automatic] synonym: "forelimb portion of connective tissue" EXACT [OBOL:automatic] synonym: "forelimb textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of anteriormost limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of fore limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of forelimb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of superior member" EXACT [OBOL:automatic] synonym: "portion of connective tissue of upper extremity" EXACT [OBOL:automatic] synonym: "superior member connective tissue" EXACT [OBOL:automatic] synonym: "superior member portion of connective tissue" EXACT [OBOL:automatic] synonym: "superior member textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of anteriormost limb" EXACT [OBOL:automatic] synonym: "textus connectivus of fore limb" EXACT [OBOL:automatic] synonym: "textus connectivus of forelimb" EXACT [OBOL:automatic] synonym: "textus connectivus of superior member" EXACT [OBOL:automatic] synonym: "textus connectivus of upper extremity" EXACT [OBOL:automatic] synonym: "upper extremity connective tissue" EXACT [OBOL:automatic] synonym: "upper extremity portion of connective tissue" EXACT [OBOL:automatic] synonym: "upper extremity textus connectivus" EXACT [OBOL:automatic] synonym: "wing connective tissue" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0000613 is_a: UBERON:0003587 ! limb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003589 name: hindlimb connective tissue namespace: uberon def: "A portion of connective tissue that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of hind limb" EXACT [OBOL:automatic] synonym: "connective tissue of hindlimb" EXACT [OBOL:automatic] synonym: "connective tissue of inferior member" EXACT [OBOL:automatic] synonym: "connective tissue of lower extremity" EXACT [OBOL:automatic] synonym: "hind limb connective tissue" EXACT [OBOL:automatic] synonym: "hind limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "hind limb textus connectivus" EXACT [OBOL:automatic] synonym: "hindlimb portion of connective tissue" EXACT [OBOL:automatic] synonym: "hindlimb textus connectivus" EXACT [OBOL:automatic] synonym: "inferior member connective tissue" EXACT [OBOL:automatic] synonym: "inferior member portion of connective tissue" EXACT [OBOL:automatic] synonym: "inferior member textus connectivus" EXACT [OBOL:automatic] synonym: "lower extremity connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hind limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hindlimb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of inferior member" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower extremity" EXACT [OBOL:automatic] synonym: "textus connectivus of hind limb" EXACT [OBOL:automatic] synonym: "textus connectivus of hindlimb" EXACT [OBOL:automatic] synonym: "textus connectivus of inferior member" EXACT [OBOL:automatic] synonym: "textus connectivus of lower extremity" EXACT [OBOL:automatic] xref: MA:0000661 is_a: UBERON:0003587 ! limb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003590 name: main bronchus connective tissue namespace: uberon def: "A portion of connective tissue that is part of a main bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "bronchus principalis connective tissue" EXACT [OBOL:automatic] synonym: "bronchus principalis portion of connective tissue" EXACT [OBOL:automatic] synonym: "bronchus principalis textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of bronchus principalis" EXACT [OBOL:automatic] synonym: "connective tissue of main bronchus" EXACT [OBOL:automatic] synonym: "connective tissue of primary bronchus" EXACT [OBOL:automatic] synonym: "connective tissue of principal bronchus" EXACT [OBOL:automatic] synonym: "main bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "main bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of bronchus principalis" EXACT [OBOL:automatic] synonym: "portion of connective tissue of main bronchus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of primary bronchus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of principal bronchus" EXACT [OBOL:automatic] synonym: "primary bronchus connective tissue" EXACT [OBOL:automatic] synonym: "primary bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "primary bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "principal bronchus connective tissue" EXACT [OBOL:automatic] synonym: "principal bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "principal bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of bronchus principalis" EXACT [OBOL:automatic] synonym: "textus connectivus of main bronchus" EXACT [OBOL:automatic] synonym: "textus connectivus of primary bronchus" EXACT [OBOL:automatic] synonym: "textus connectivus of principal bronchus" EXACT [OBOL:automatic] xref: MA:0001845 is_a: UBERON:0003592 ! bronchus connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0003591 name: lobar bronchus connective tissue namespace: uberon def: "A portion of connective tissue that is part of a lobar bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of lobar bronchus" EXACT [OBOL:automatic] synonym: "connective tissue of secondary bronchus" EXACT [OBOL:automatic] synonym: "lobar bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "lobar bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lobar bronchus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of secondary bronchus" EXACT [OBOL:automatic] synonym: "secondary bronchus connective tissue" EXACT [OBOL:automatic] synonym: "secondary bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "secondary bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of lobar bronchus" EXACT [OBOL:automatic] synonym: "textus connectivus of secondary bronchus" EXACT [OBOL:automatic] xref: MA:0001841 is_a: UBERON:0000114 ! lung connective tissue is_a: UBERON:0003592 ! bronchus connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002183 ! lobar bronchus [Term] id: UBERON:0003592 name: bronchus connective tissue namespace: uberon def: "A portion of connective tissue that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "bronchi connective tissue" EXACT [OBOL:automatic] synonym: "bronchi portion of connective tissue" EXACT [OBOL:automatic] synonym: "bronchi textus connectivus" EXACT [OBOL:automatic] synonym: "bronchial trunk connective tissue" EXACT [OBOL:automatic] synonym: "bronchial trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "bronchial trunk textus connectivus" EXACT [OBOL:automatic] synonym: "bronchus portion of connective tissue" EXACT [OBOL:automatic] synonym: "bronchus textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of bronchi" EXACT [OBOL:automatic] synonym: "connective tissue of bronchial trunk" EXACT [OBOL:automatic] synonym: "connective tissue of bronchus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of bronchi" EXACT [OBOL:automatic] synonym: "portion of connective tissue of bronchial trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of bronchus" EXACT [OBOL:automatic] synonym: "textus connectivus of bronchi" EXACT [OBOL:automatic] synonym: "textus connectivus of bronchial trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of bronchus" EXACT [OBOL:automatic] xref: MA:0001831 xref: UMLS:C1707052 xref: ncithesaurus:Bronchus_Connective_Tissue is_a: UBERON:0003580 ! lower respiratory tract connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0003593 name: thoracic cavity connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest textus connectivus" EXACT [OBOL:automatic] synonym: "cavity of thorax connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax textus connectivus" EXACT [OBOL:automatic] synonym: "chest cavity connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "pectoral cavity connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of chest" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of chest cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of pectoral cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of thoracic cavity" EXACT [OBOL:automatic] synonym: "thoracic cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "thoracic cavity textus connectivus" EXACT [OBOL:automatic] xref: MA:0000555 intersection_of: UBERON:0002384 ! connective tissue intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003594 name: pelvis connective tissue namespace: uberon def: "A portion of connective tissue that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of pelvis" EXACT [OBOL:automatic] synonym: "pelvis portion of connective tissue" EXACT [OBOL:automatic] synonym: "pelvis textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of pelvis" EXACT [OBOL:automatic] synonym: "textus connectivus of pelvis" EXACT [OBOL:automatic] xref: MA:0000533 is_a: UBERON:0003838 ! abdominal segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002355 ! pelvis [Term] id: UBERON:0003595 name: pes connective tissue namespace: uberon def: "A portion of connective tissue that is part of a foot [Automatically generated definition]." [OBOL:automatic] synonym: "autopod of hind limb connective tissue" EXACT [OBOL:automatic] synonym: "autopod of hind limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of hind limb textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of hindlimb connective tissue" EXACT [OBOL:automatic] synonym: "autopod of hindlimb portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of hindlimb textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of inferior member connective tissue" EXACT [OBOL:automatic] synonym: "autopod of inferior member portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of inferior member textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of lower extremity connective tissue" EXACT [OBOL:automatic] synonym: "autopod of lower extremity portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of lower extremity textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of hind limb" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of hindlimb" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of inferior member" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of lower extremity" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of hind limb" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of hindlimb" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of inferior member" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of lower extremity" EXACT [OBOL:automatic] synonym: "connective tissue of foot" EXACT [OBOL:automatic] synonym: "connective tissue of hind limb autopod" EXACT [OBOL:automatic] synonym: "connective tissue of hind limb distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of hindlimb autopod" EXACT [OBOL:automatic] synonym: "connective tissue of hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of inferior member autopod" EXACT [OBOL:automatic] synonym: "connective tissue of inferior member distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of lower extremity autopod" EXACT [OBOL:automatic] synonym: "connective tissue of lower extremity distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "distal free limb segment of hind limb connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of hind limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of hind limb textus connectivus" EXACT [OBOL:automatic] synonym: "distal free limb segment of hindlimb connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of hindlimb portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of hindlimb textus connectivus" EXACT [OBOL:automatic] synonym: "distal free limb segment of inferior member connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of inferior member portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of inferior member textus connectivus" EXACT [OBOL:automatic] synonym: "distal free limb segment of lower extremity connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of lower extremity portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of lower extremity textus connectivus" EXACT [OBOL:automatic] synonym: "foot connective tissue" EXACT [MA:0000644] synonym: "foot portion of connective tissue" EXACT [OBOL:automatic] synonym: "foot textus connectivus" EXACT [OBOL:automatic] synonym: "hind limb autopod connective tissue" EXACT [OBOL:automatic] synonym: "hind limb autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "hind limb autopod textus connectivus" EXACT [OBOL:automatic] synonym: "hind limb distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "hind limb distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "hind limb distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "hindlimb autopod connective tissue" EXACT [OBOL:automatic] synonym: "hindlimb autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "hindlimb autopod textus connectivus" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "hindlimb distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "inferior member autopod connective tissue" EXACT [OBOL:automatic] synonym: "inferior member autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "inferior member autopod textus connectivus" EXACT [OBOL:automatic] synonym: "inferior member distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "inferior member distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "inferior member distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "lower extremity autopod connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity autopod textus connectivus" EXACT [OBOL:automatic] synonym: "lower extremity distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower extremity distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of hind limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of hindlimb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of inferior member" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of lower extremity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of hind limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of hindlimb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of inferior member" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of lower extremity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of foot" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hind limb autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hind limb distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hindlimb autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of inferior member autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of inferior member distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower extremity autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower extremity distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of hind limb" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of hindlimb" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of inferior member" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of lower extremity" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of hind limb" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of hindlimb" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of inferior member" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of lower extremity" EXACT [OBOL:automatic] synonym: "textus connectivus of foot" EXACT [OBOL:automatic] synonym: "textus connectivus of hind limb autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of hind limb distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of hindlimb autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of hindlimb distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of inferior member autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of inferior member distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of lower extremity autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of lower extremity distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of terminal segment of free lower limb" EXACT [OBOL:automatic] xref: MA:0000644 is_a: UBERON:0003589 ! hindlimb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003596 name: ankle connective tissue namespace: uberon def: "A portion of connective tissue that is part of an ankle [Automatically generated definition]." [OBOL:automatic] synonym: "ankle portion of connective tissue" EXACT [OBOL:automatic] synonym: "ankle textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of ankle" EXACT [OBOL:automatic] synonym: "portion of connective tissue of ankle" EXACT [OBOL:automatic] synonym: "tarsal region connective tissue" EXACT [UBERON:cjm] synonym: "textus connectivus of ankle" EXACT [OBOL:automatic] xref: MA:0000639 is_a: UBERON:0003595 ! pes connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0004454 ! tarsal region [Term] id: UBERON:0003597 name: manual digit connective tissue namespace: uberon def: "A portion of connective tissue that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of digit of hand" EXACT [OBOL:automatic] synonym: "connective tissue of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "connective tissue of digitus manus" EXACT [OBOL:automatic] synonym: "connective tissue of finger" EXACT [OBOL:automatic] synonym: "connective tissue of hand digit" EXACT [OBOL:automatic] synonym: "connective tissue of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "digit of hand connective tissue" EXACT [OBOL:automatic] synonym: "digit of hand portion of connective tissue" EXACT [OBOL:automatic] synonym: "digit of hand textus connectivus" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb connective tissue" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb textus connectivus" EXACT [OBOL:automatic] synonym: "digitus manus connective tissue" EXACT [OBOL:automatic] synonym: "digitus manus portion of connective tissue" EXACT [OBOL:automatic] synonym: "digitus manus textus connectivus" EXACT [OBOL:automatic] synonym: "finger connective tissue" EXACT [OBOL:automatic] synonym: "finger portion of connective tissue" EXACT [OBOL:automatic] synonym: "finger textus connectivus" EXACT [OBOL:automatic] synonym: "fore limb digit connective tissue" EXACT [OBOL:accepted] synonym: "hand digit connective tissue" EXACT SENSU [MA:0000623, NCBITaxon:9606, OBOL:accepted] synonym: "hand digit portion of connective tissue" EXACT [OBOL:automatic] synonym: "hand digit textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of digit of hand" EXACT [OBOL:automatic] synonym: "portion of connective tissue of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of digitus manus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of finger" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hand digit" EXACT [OBOL:automatic] synonym: "portion of connective tissue of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit portion of connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of digit of hand" EXACT [OBOL:automatic] synonym: "textus connectivus of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "textus connectivus of digitus manus" EXACT [OBOL:automatic] synonym: "textus connectivus of finger" EXACT [OBOL:automatic] synonym: "textus connectivus of hand digit" EXACT [OBOL:automatic] synonym: "textus connectivus of terminal segment of free upper limb digit" EXACT [OBOL:automatic] xref: MA:0000623 is_a: UBERON:0003598 ! manus connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003598 name: manus connective tissue namespace: uberon def: "A portion of connective tissue that is part of a hand [Automatically generated definition]." [OBOL:automatic] synonym: "arm autopod connective tissue" EXACT [OBOL:automatic] synonym: "arm autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "arm autopod textus connectivus" EXACT [OBOL:automatic] synonym: "arm distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "arm distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "arm distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of arm connective tissue" EXACT [OBOL:automatic] synonym: "autopod of arm portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of arm textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of brachial region connective tissue" EXACT [OBOL:automatic] synonym: "autopod of brachial region portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of brachial region textus connectivus" EXACT [OBOL:automatic] synonym: "autopod of proximal segment of free upper limb connective tissue" EXACT [OBOL:automatic] synonym: "autopod of proximal segment of free upper limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "autopod of proximal segment of free upper limb textus connectivus" EXACT [OBOL:automatic] synonym: "brachial region autopod connective tissue" EXACT [OBOL:automatic] synonym: "brachial region autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "brachial region autopod textus connectivus" EXACT [OBOL:automatic] synonym: "brachial region distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "brachial region distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "brachial region distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of arm autopod" EXACT [OBOL:automatic] synonym: "connective tissue of arm distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of arm" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of brachial region" EXACT [OBOL:automatic] synonym: "connective tissue of autopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "connective tissue of brachial region autopod" EXACT [OBOL:automatic] synonym: "connective tissue of brachial region distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of arm" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of brachial region" EXACT [OBOL:automatic] synonym: "connective tissue of distal free limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "connective tissue of hand" EXACT [OBOL:automatic] synonym: "connective tissue of proximal segment of free upper limb autopod" EXACT [OBOL:automatic] synonym: "connective tissue of proximal segment of free upper limb distal free limb segment" EXACT [OBOL:automatic] synonym: "connective tissue of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "distal free limb segment of arm connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of arm portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of arm textus connectivus" EXACT [OBOL:automatic] synonym: "distal free limb segment of brachial region connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of brachial region portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of brachial region textus connectivus" EXACT [OBOL:automatic] synonym: "distal free limb segment of proximal segment of free upper limb connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of proximal segment of free upper limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "distal free limb segment of proximal segment of free upper limb textus connectivus" EXACT [OBOL:automatic] synonym: "hand connective tissue" EXACT [MA:0000620] synonym: "hand portion of connective tissue" EXACT [OBOL:automatic] synonym: "hand textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of arm autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of arm distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of arm" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of brachial region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of autopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of brachial region autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of brachial region distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of arm" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of brachial region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of distal free limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "portion of connective tissue of hand" EXACT [OBOL:automatic] synonym: "portion of connective tissue of proximal segment of free upper limb autopod" EXACT [OBOL:automatic] synonym: "portion of connective tissue of proximal segment of free upper limb distal free limb segment" EXACT [OBOL:automatic] synonym: "portion of connective tissue of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb autopod connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb autopod portion of connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb autopod textus connectivus" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb distal free limb segment connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb distal free limb segment portion of connective tissue" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb distal free limb segment textus connectivus" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb portion of connective tissue" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of arm autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of arm distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of arm" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of brachial region" EXACT [OBOL:automatic] synonym: "textus connectivus of autopod of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "textus connectivus of brachial region autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of brachial region distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of arm" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of brachial region" EXACT [OBOL:automatic] synonym: "textus connectivus of distal free limb segment of proximal segment of free upper limb" EXACT [OBOL:automatic] synonym: "textus connectivus of hand" EXACT [OBOL:automatic] synonym: "textus connectivus of proximal segment of free upper limb autopod" EXACT [OBOL:automatic] synonym: "textus connectivus of proximal segment of free upper limb distal free limb segment" EXACT [OBOL:automatic] synonym: "textus connectivus of terminal segment of free upper limb" EXACT [OBOL:automatic] xref: MA:0000620 is_a: UBERON:0003588 ! forelimb connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0003599 name: tail connective tissue namespace: uberon def: "A portion of connective tissue that is part of a tail [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of post-vent region" EXACT [OBOL:automatic] synonym: "connective tissue of tail" EXACT [OBOL:automatic] synonym: "portion of connective tissue of post-vent region" EXACT [OBOL:automatic] synonym: "portion of connective tissue of tail" EXACT [OBOL:automatic] synonym: "post-vent region connective tissue" EXACT [OBOL:automatic] synonym: "post-vent region portion of connective tissue" EXACT [OBOL:automatic] synonym: "post-vent region textus connectivus" EXACT [OBOL:automatic] synonym: "tail portion of connective tissue" EXACT [OBOL:automatic] synonym: "tail textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of post-vent region" EXACT [OBOL:automatic] synonym: "textus connectivus of tail" EXACT [OBOL:automatic] xref: MA:0000697 intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0003601 name: neck cartilage namespace: uberon def: "A cartilage that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "cartilage of neck" EXACT [OBOL:automatic] synonym: "cartilage of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) cartilage" EXACT [OBOL:automatic] xref: MA:0000586 is_a: UBERON:0003568 ! neck connective tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003603 name: lower respiratory tract cartilage namespace: uberon def: "A cartilage that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "cartilage of lower respiratory tract" EXACT [OBOL:automatic] xref: MA:0001819 xref: UMLS:C1708759 xref: ncithesaurus:Lower_Respiratory_Tract_Cartilage is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003580 ! lower respiratory tract connective tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0003604 name: trachea cartilage namespace: uberon def: "The cartilages of the trachea (or tracheal rings) vary from sixteen to twenty in number: each forms an imperfect ring, which occupies the anterior two-thirds or so of the circumference of the trachea, being deficient behind, where the tube is completed by fibrous tissue and unstriped muscular fibers." [Wikipedia:Tracheal_rings] comment: Editor notes: check whether to classify as part of splanchoncranium synonym: "cartilage of the trachea" RELATED [Wikipedia:Tracheal_rings] synonym: "cartilage of trachea" EXACT [OBOL:automatic] synonym: "cartilage of windpipe" EXACT [OBOL:automatic] synonym: "cartilagines tracheales" RELATED LATIN [Wikipedia:Tracheal_rings] synonym: "cartilaginous ring of trachea" EXACT [EMAPA:18699] synonym: "cartilaginous trachea cartilage" EXACT [OBOL:automatic] synonym: "cartilago trachealis" EXACT [FMA:7434] synonym: "ring of the trachea" RELATED [Wikipedia:Tracheal_rings] synonym: "trachea ring" RELATED [] synonym: "tracheal cartilage" EXACT [FMA:7434] synonym: "tracheal ring" RELATED [Wikipedia:Tracheal_rings] synonym: "windpipe cartilage" EXACT [OBOL:automatic] xref: EMAPA:18699 xref: FMA:7434 xref: MA:0001857 xref: SCTID:278979006 xref: UMLS:C1710456 xref: http://upload.wikimedia.org/wikipedia/commons/5/56/Gray952.png xref: ncithesaurus:Trachea_Cartilage is_a: UBERON:0003571 ! trachea connective tissue is_a: UBERON:0003603 ! lower respiratory tract cartilage is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0007267 ! trachea pre-cartilage rings intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003605 name: eye skin gland namespace: uberon def: "A skin gland that is part of a camera-type eye [Automatically generated definition]." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "camera-type eye skin gland" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands set" EXACT [OBOL:automatic] synonym: "skin gland of camera-type eye" EXACT [OBOL:automatic] synonym: "skin gland of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands set of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands set of vertebrate eye" EXACT [OBOL:automatic] synonym: "vertebrate eye skin gland" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands set" EXACT [OBOL:automatic] xref: MA:0002451 is_a: UBERON:0004859 ! eye gland intersection_of: UBERON:0002419 ! skin gland intersection_of: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003606 name: limb long bone namespace: uberon def: "A long bone that is part of a limb [Automatically generated definition]." [OBOL:automatic] synonym: "long bone of limb" EXACT [OBOL:automatic] xref: MA:0000298 is_a: UBERON:0002428 ! limb bone intersection_of: UBERON:0002495 ! long bone intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003607 name: forelimb long bone namespace: uberon def: "A long bone that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb long bone" EXACT [OBOL:automatic] synonym: "fore limb long bone" EXACT [OBOL:automatic] synonym: "long bone of anteriormost limb" EXACT [OBOL:automatic] synonym: "long bone of fore limb" EXACT [OBOL:automatic] synonym: "long bone of forelimb" EXACT [OBOL:automatic] synonym: "long bone of superior member" EXACT [OBOL:automatic] synonym: "long bone of upper extremity" EXACT [OBOL:automatic] synonym: "superior member long bone" EXACT [OBOL:automatic] synonym: "upper extremity long bone" EXACT [OBOL:automatic] synonym: "wing long bone" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0000299 is_a: UBERON:0003606 ! limb long bone is_a: UBERON:0008962 ! forelimb bone intersection_of: UBERON:0002495 ! long bone intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003608 name: hindlimb long bone namespace: uberon def: "A long bone that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "hind limb long bone" EXACT [OBOL:automatic] synonym: "inferior member long bone" EXACT [OBOL:automatic] synonym: "long bone of hind limb" EXACT [OBOL:automatic] synonym: "long bone of hindlimb" EXACT [OBOL:automatic] synonym: "long bone of inferior member" EXACT [OBOL:automatic] synonym: "long bone of lower extremity" EXACT [OBOL:automatic] synonym: "lower extremity long bone" EXACT [OBOL:automatic] xref: MA:0000300 is_a: UBERON:0003464 ! hindlimb bone is_a: UBERON:0003606 ! limb long bone intersection_of: UBERON:0002495 ! long bone intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003609 name: aorta elastic tissue namespace: uberon def: "the dense connective tissue which contains predominantly elastic fibers and is found in the tunica media of the aorta wall." [MP:0009862] synonym: "adult aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "adult aorta elastic tissue" EXACT [OBOL:automatic] synonym: "adult aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "dorsal aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "dorsal aorta elastic tissue" EXACT [OBOL:automatic] synonym: "dorsal aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of adult aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of dorsal aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "elastic tissue of adult aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of dorsal aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of adult aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of dorsal aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "trunk of aortic tree elastic connective tissue" EXACT [OBOL:automatic] synonym: "trunk of aortic tree elastic tissue" EXACT [OBOL:automatic] synonym: "trunk of aortic tree textus connectivus elasticus" EXACT [OBOL:automatic] xref: MA:0002859 is_a: UBERON:0003614 ! blood vessel elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0003610 name: heart elastic tissue namespace: uberon def: "the type of heart connective tissue found in the endocardial layer that consists mainly of elastic fibers." [MP:0009863] synonym: "elastic connective tissue of heart" EXACT [OBOL:automatic] synonym: "elastic tissue of heart" EXACT [OBOL:automatic] synonym: "heart elastic connective tissue" EXACT [OBOL:automatic] synonym: "heart textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of heart" EXACT [OBOL:automatic] xref: MA:0002858 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0003611 name: respiratory system elastic tissue namespace: uberon def: "An elastic tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius elastic connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius elastic tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "elastic tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of respiratory system" EXACT [OBOL:automatic] xref: MA:0001820 is_a: UBERON:0003570 ! respiratory system connective tissue relationship: part_of UBERON:0004777 ! respiratory system submucosa intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003613 name: cardiovascular system elastic tissue namespace: uberon def: "An elastic tissue that is part of a circulatory system [Automatically generated definition]." [OBOL:automatic] synonym: "cardiovascular system elastic connective tissue" EXACT [OBOL:automatic] synonym: "cardiovascular system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "circulatory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "circulatory system elastic tissue" EXACT [OBOL:automatic] synonym: "circulatory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic connective tissue of circulatory system" EXACT [OBOL:automatic] synonym: "elastic tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic tissue of circulatory system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of cardiovascular system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of circulatory system" EXACT [OBOL:automatic] xref: MA:0002857 relationship: part_of UBERON:0004535 ! cardiovascular system intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001009 ! circulatory system [Term] id: UBERON:0003614 name: blood vessel elastic tissue namespace: uberon def: "An elastic tissue that is part of a blood vessel [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel elastic connective tissue" EXACT [OBOL:automatic] synonym: "blood vessel textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of blood vessel" EXACT [OBOL:automatic] synonym: "elastic tissue of blood vessel" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of blood vessel" EXACT [OBOL:automatic] xref: MA:0002856 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0003615 name: lung elastic tissue namespace: uberon def: "An elastic tissue that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "elastic connective tissue of lung" EXACT [OBOL:automatic] synonym: "elastic tissue of lung" EXACT [OBOL:automatic] synonym: "lung elastic connective tissue" EXACT [OBOL:automatic] synonym: "lung textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of lung" EXACT [OBOL:automatic] xref: MA:0002860 is_a: UBERON:0000114 ! lung connective tissue is_a: UBERON:0003611 ! respiratory system elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003616 name: bronchus elastic tissue namespace: uberon def: "An elastic tissue that is part of a bronchus [Automatically generated definition]." [OBOL:automatic] synonym: "bronchi elastic connective tissue" EXACT [OBOL:automatic] synonym: "bronchi elastic tissue" EXACT [OBOL:automatic] synonym: "bronchi textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "bronchial trunk elastic connective tissue" EXACT [OBOL:automatic] synonym: "bronchial trunk elastic tissue" EXACT [OBOL:automatic] synonym: "bronchial trunk textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "bronchus elastic connective tissue" EXACT [OBOL:automatic] synonym: "bronchus textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of bronchi" EXACT [OBOL:automatic] synonym: "elastic connective tissue of bronchial trunk" EXACT [OBOL:automatic] synonym: "elastic connective tissue of bronchus" EXACT [OBOL:automatic] synonym: "elastic tissue of bronchi" EXACT [OBOL:automatic] synonym: "elastic tissue of bronchial trunk" EXACT [OBOL:automatic] synonym: "elastic tissue of bronchus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of bronchi" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of bronchial trunk" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of bronchus" EXACT [OBOL:automatic] xref: MA:0001838 xref: UMLS:C1707053 xref: ncithesaurus:Bronchus_Elastic_Tissue is_a: UBERON:0003592 ! bronchus connective tissue is_a: UBERON:0003611 ! respiratory system elastic tissue relationship: part_of UBERON:0001957 ! submucosa of bronchus intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0003617 name: trachea elastic tissue namespace: uberon def: "An elastic tissue that is part of a trachea [Automatically generated definition]." [OBOL:automatic] synonym: "cartilaginous trachea elastic connective tissue" EXACT [OBOL:automatic] synonym: "cartilaginous trachea elastic tissue" EXACT [OBOL:automatic] synonym: "cartilaginous trachea textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "elastic connective tissue of vertebrate trachea" EXACT [OBOL:automatic] synonym: "elastic connective tissue of windpipe" EXACT [OBOL:automatic] synonym: "elastic tissue of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "elastic tissue of vertebrate trachea" EXACT [OBOL:automatic] synonym: "elastic tissue of windpipe" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of cartilaginous trachea" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of vertebrate trachea" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of windpipe" EXACT [OBOL:automatic] synonym: "vertebrate trachea elastic connective tissue" EXACT [OBOL:automatic] synonym: "vertebrate trachea elastic tissue" EXACT [OBOL:automatic] synonym: "vertebrate trachea textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "windpipe elastic connective tissue" EXACT [OBOL:automatic] synonym: "windpipe elastic tissue" EXACT [OBOL:automatic] synonym: "windpipe textus connectivus elasticus" EXACT [OBOL:automatic] xref: MA:0001861 is_a: UBERON:0003571 ! trachea connective tissue is_a: UBERON:0003611 ! respiratory system elastic tissue relationship: part_of UBERON:0002202 ! submucosa of trachea intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0003618 name: aorta tunica media namespace: uberon def: "the middle layer of the aorta wall, containing the smooth muscle layer and elastic fibers." [MP:0009873] synonym: "adult aorta tunica media" EXACT [OBOL:automatic] synonym: "dorsal aorta tunica media" EXACT [OBOL:automatic] synonym: "trunk of aortic tree tunica media" EXACT [OBOL:automatic] synonym: "tunica media of adult aorta" EXACT [OBOL:automatic] synonym: "tunica media of aorta" EXACT [OBOL:automatic] synonym: "tunica media of dorsal aorta" EXACT [OBOL:automatic] synonym: "tunica media of trunk of aortic tree" EXACT [OBOL:automatic] xref: FMA:74433 xref: MA:0002903 xref: SCTID:48467007 is_a: UBERON:0004178 ! aorta smooth muscle tissue is_a: UBERON:0007239 ! tunica media of artery relationship: part_of UBERON:0004663 ! aorta wall intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0003619 name: aorta tunica intima namespace: uberon def: "the innermost layer of the aorta, containing the endothelium and an inner elastic membrane." [MP:0009872] synonym: "adult aorta tunica intima" EXACT [OBOL:automatic] synonym: "dorsal aorta tunica intima" EXACT [OBOL:automatic] synonym: "trunk of aortic tree tunica intima" EXACT [OBOL:automatic] synonym: "tunica intima of adult aorta" EXACT [OBOL:automatic] synonym: "tunica intima of aorta" EXACT [OBOL:automatic] synonym: "tunica intima of dorsal aorta" EXACT [OBOL:automatic] synonym: "tunica intima of trunk of aortic tree" EXACT [OBOL:automatic] xref: FMA:74419 xref: MA:0002904 xref: SCTID:362031007 is_a: UBERON:0005740 ! tunica intima of artery relationship: part_of UBERON:0004663 ! aorta wall intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0003620 name: manual digit 1 phalanx namespace: uberon def: "A phalanx that is part of a hand digit 1 [Automatically generated definition]." [OBOL:automatic] synonym: "Pollex ; Digitus primus [ I ] digit long bone" EXACT [OBOL:automatic] synonym: "Pollex ; Digitus primus [ I ] long bone of digit" EXACT [OBOL:automatic] synonym: "Pollex ; Digitus primus [ I ] phalanx" EXACT [OBOL:automatic] synonym: "digit long bone of Pollex ; Digitus primus [ I ]" EXACT [OBOL:automatic] synonym: "digit long bone of first digit of hand" EXACT [OBOL:automatic] synonym: "digit long bone of hand digit 1" EXACT [OBOL:automatic] synonym: "digit long bone of thumb" EXACT [OBOL:automatic] synonym: "first digit of hand digit long bone" EXACT [OBOL:automatic] synonym: "first digit of hand long bone of digit" EXACT [OBOL:automatic] synonym: "first digit of hand phalanx" EXACT [OBOL:automatic] synonym: "fore limb digit 1 phalanx" EXACT [OBOL:accepted] synonym: "hand digit 1 digit long bone" EXACT [OBOL:automatic] synonym: "hand digit 1 long bone of digit" EXACT [OBOL:automatic] synonym: "hand digit 1 phalanx" EXACT SENSU [MA:0001389, NCBITaxon:9606, OBOL:accepted] synonym: "long bone of digit of Pollex ; Digitus primus [ I ]" EXACT [OBOL:automatic] synonym: "long bone of digit of first digit of hand" EXACT [OBOL:automatic] synonym: "long bone of digit of hand digit 1" EXACT [OBOL:automatic] synonym: "long bone of digit of thumb" EXACT [OBOL:automatic] synonym: "phalanx of Pollex ; Digitus primus [ I ]" EXACT [OBOL:automatic] synonym: "phalanx of first digit of hand" EXACT [OBOL:automatic] synonym: "phalanx of hand digit 1" EXACT [OBOL:automatic] synonym: "phalanx of thumb" EXACT [OBOL:automatic] synonym: "thumb digit long bone" EXACT [OBOL:automatic] synonym: "thumb long bone of digit" EXACT [OBOL:automatic] synonym: "thumb phalanx" EXACT [OBOL:automatic] xref: EMAPA:19113 xref: FMA:35477 xref: MA:0001389 xref: SCTID:181975002 xref: UMLS:C1711344 xref: ncithesaurus:Hand_Digit_1_Phalanx is_a: UBERON:0001436 ! phalanx of manus relationship: develops_from UBERON:0010675 ! manual digit 1 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0001463 ! manual digit 1 [Term] id: UBERON:0003622 name: manual digit 2 namespace: uberon def: "2nd digit of the manus." [Wikipedia:Index_finger] comment: Anurans lack manual digit 1, so manual digit 2 is the digit after the prepollex (Phenotype RCN Oct 2012) synonym: "2nd digit of hand" EXACT [] synonym: "2nd finger" EXACT [] synonym: "digit 2 of fore-paw" EXACT [EMAPA:17432] synonym: "finger 2" EXACT [EHDAA2:0000517] synonym: "fore digit II" EXACT [AAO:0010640] synonym: "fore limb digit 2" EXACT [OBOL:accepted] synonym: "hand digit 2" EXACT SENSU [MA:0000455, NCBITaxon:9606, OBOL:accepted] synonym: "index finger" NARROW [] synonym: "second digit of hand" EXACT [FMA:24946] synonym: "second finger" EXACT [] xref: AAO:0010640 xref: EHDAA2:0000517 xref: EMAPA:17432 xref: FMA:24946 xref: MA:0000455 xref: SCTID:362758006 xref: UMLS:C0230388 xref: http://upload.wikimedia.org/wikipedia/commons/d/d5/Index_finger.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/d5/Index_finger.JPG/200px-Index_finger.JPG xref: ncithesaurus:Hand_Digit_2 is_a: UBERON:0002389 ! manual digit relationship: part_of UBERON:0012141 ! manual digitopodium region intersection_of: UBERON:0006049 ! digit 2 intersection_of: part_of UBERON:0002398 ! manus property_value: taxon_notes "This class represents the standard tetrapod configuration. Wagner proposes that avian digits I,II,III develop from C2,C3,C4. To support this scheme we have separate classes representing the avian digits (here called alula, manual digit, major digit)." xsd:string [Term] id: UBERON:0003623 name: manual digit 3 namespace: uberon def: "3rd digit of the manus." [Wikipedia:Middle_finger] synonym: "3rd digit of hand" EXACT [] synonym: "3rd finger" EXACT [] synonym: "digit 3 of fore-paw" EXACT [EMAPA:17435] synonym: "digitus medius" RELATED LATIN [Wikipedia:Middle_finger] synonym: "finger 3" EXACT [EHDAA2:0000523] synonym: "fore digit III" EXACT [AAO:0010641] synonym: "fore limb digit 3" EXACT [OBOL:accepted] synonym: "hand digit 3" EXACT SENSU [MA:0000456, NCBITaxon:9606, OBOL:accepted] synonym: "middle finger" NARROW [] synonym: "third digit of hand" EXACT [FMA:24947] synonym: "third finger" EXACT [] xref: AAO:0010641 xref: EHDAA2:0000523 xref: EMAPA:17435 xref: FMA:24947 xref: MA:0000456 xref: SCTID:362763005 xref: UMLS:C0230393 xref: http://upload.wikimedia.org/wikipedia/commons/f/fd/Middle_finger.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/fd/Middle_finger.jpg/200px-Middle_finger.jpg xref: ncithesaurus:Hand_Digit_3 is_a: UBERON:0002389 ! manual digit relationship: part_of UBERON:0012141 ! manual digitopodium region intersection_of: UBERON:0006050 ! digit 3 intersection_of: part_of UBERON:0002398 ! manus property_value: taxon_notes "This class represents the standard tetrapod configuration. Wagner proposes that avian digits I,II,III develop from C2,C3,C4. To support this scheme we have separate classes representing the avian digits (here called alula, manual digit, major digit)." xsd:string [Term] id: UBERON:0003624 name: manual digit 4 namespace: uberon def: "4th digit of the manus." [Wikipedia:Ring_finger] synonym: "4th digit of hand" EXACT [] synonym: "4th finger" EXACT [] synonym: "digit 4 of fore-paw" EXACT [EMAPA:17438] synonym: "digitus annularis" RELATED LATIN [Wikipedia:Ring_finger] synonym: "finger 4" EXACT [EHDAA2:0000529] synonym: "fore digit IV" EXACT [AAO:0010642] synonym: "fore limb digit 4" EXACT [OBOL:accepted] synonym: "fourth digit of hand" EXACT [FMA:24948] synonym: "fourth finger" EXACT [] synonym: "hand digit 4" EXACT SENSU [MA:0000457, NCBITaxon:9606, OBOL:accepted] synonym: "ring finger" NARROW [] xref: AAO:0010642 xref: EHDAA2:0000529 xref: EMAPA:17438 xref: FMA:24948 xref: MA:0000457 xref: SCTID:362768001 xref: UMLS:C0230398 xref: http://upload.wikimedia.org/wikipedia/commons/1/14/Ring_finger.JPG xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/14/Ring_finger.JPG/200px-Ring_finger.JPG xref: ncithesaurus:Hand_Digit_4 is_a: UBERON:0002389 ! manual digit relationship: part_of UBERON:0012141 ! manual digitopodium region intersection_of: UBERON:0006051 ! digit 4 intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0003625 name: manual digit 5 namespace: uberon def: "5th digit of the manus." [Wikipedia:Little_finger] synonym: "5th digit of hand" EXACT [] synonym: "5th finger" EXACT [] synonym: "digit 5 of fore-paw" EXACT [EMAPA:17441] synonym: "fifth digit of hand" EXACT [FMA:24949] synonym: "fifth finger" EXACT [] synonym: "finger 5" EXACT [EHDAA2:0000535] synonym: "fore digit V" EXACT [AAO:0010643] synonym: "fore limb digit 5" EXACT [OBOL:accepted] synonym: "hand digit 5" EXACT SENSU [MA:0000458, NCBITaxon:9606, OBOL:accepted] synonym: "little finger" NARROW [] synonym: "manual digitus minimus" RELATED LATIN [Wikipedia:Little_finger] synonym: "quintus, digitus V" RELATED LATIN [Wikipedia:Little_finger] xref: AAO:0010643 xref: EHDAA2:0000535 xref: EMAPA:17441 xref: FMA:24949 xref: MA:0000458 xref: SCTID:362773007 xref: UMLS:C0230403 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Pink.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ed/Pink.jpg/200px-Pink.jpg xref: ncithesaurus:Hand_Digit_5 is_a: UBERON:0002389 ! manual digit relationship: part_of UBERON:0012141 ! manual digitopodium region intersection_of: UBERON:0006052 ! digit 5 intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0003631 name: pedal digit 1 namespace: uberon def: "1st digit of the hind autopod." [Wikipedia:Hallux] synonym: "big toe" NARROW [] synonym: "digit 1 of hind-paw" EXACT [EMAPA:17460] synonym: "digit 1 of pes" EXACT [] synonym: "digitus primus (I) pedis" RELATED [BTO:0002349] synonym: "foot digit 1" EXACT SENSU [MA:0000465, NCBITaxon:9606, OBOL:accepted] synonym: "great toe" EXACT [FMA:25047] synonym: "hallex" EXACT [] synonym: "hallux" EXACT LATIN [FMA:TA] synonym: "hallux; digitus primus [I]" EXACT [FMA:25047] synonym: "hind digit I" EXACT [AAO:0010644] synonym: "hind limb digit 1" EXACT [OBOL:accepted] synonym: "pedal digit 1" EXACT [] synonym: "pes digit I" EXACT [] synonym: "preaxial digit of hindlimb" EXACT [] synonym: "toe 1" EXACT [EHDAA2:0002037] xref: AAO:0010644 xref: BTO:0002349 xref: EHDAA2:0002037 xref: EMAPA:17460 xref: FMA:25047 xref: GAID:45 xref: MA:0000465 xref: MESH:A01.378.610.250.300.792.380 xref: SCTID:302546000 xref: UMLS:C1708079 xref: VSAO:0000201 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/RightFootToes.jpg xref: ncithesaurus:Foot_Digit_1 is_a: UBERON:0001466 ! pedal digit relationship: part_of UBERON:0012142 ! pedal digitopodium region relationship: preaxial_part_of UBERON:0002387 ! pes intersection_of: UBERON:0006048 ! digit 1 intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003632 name: pedal digit 2 namespace: uberon def: "2nd digit of the hind autopod." [UBERON:cjm] synonym: "2nd toe" EXACT [] synonym: "digit 2 of hind-paw" EXACT [EMAPA:17463] synonym: "digitus secundus (II) pedis" RELATED [BTO:0002350] synonym: "digitus secundus [ii]" EXACT [FMA:25048] synonym: "digitus secundus pedis" EXACT [BTO:0002350] synonym: "foot digit 2" EXACT SENSU [MA:0000466, NCBITaxon:9606, OBOL:accepted] synonym: "hind digit II" EXACT [AAO:0010645] synonym: "hind limb digit 2" EXACT [OBOL:accepted] synonym: "pes digit II" EXACT [] synonym: "second digit of foot" EXACT [FMA:25048] synonym: "second toe" EXACT [FMA:25048] synonym: "toe 2" EXACT [EHDAA2:0002042] xref: AAO:0010645 xref: BTO:0002350 xref: EHDAA2:0002042 xref: EMAPA:17463 xref: FMA:25048 xref: MA:0000466 xref: SCTID:362817008 xref: UMLS:C1708081 xref: ncithesaurus:Foot_Digit_2 is_a: UBERON:0001466 ! pedal digit relationship: part_of UBERON:0012142 ! pedal digitopodium region intersection_of: UBERON:0006049 ! digit 2 intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003633 name: pedal digit 3 namespace: uberon def: "3rd digit of the hind autopod." [UBERON:cjm] synonym: "3rd toe" EXACT [] synonym: "digit 3 of hind-paw" EXACT [EMAPA:17466] synonym: "digitus tertius (III) pedis" RELATED [BTO:0002351] synonym: "digitus tertius [iii]" EXACT [FMA:25051] synonym: "digitus tertius pedis" EXACT [BTO:0002351] synonym: "foot digit 3" EXACT SENSU [MA:0000467, NCBITaxon:9606, OBOL:accepted] synonym: "hind digit III" EXACT [AAO:0010646] synonym: "hind limb digit 3" EXACT [OBOL:accepted] synonym: "pes digit III" EXACT [] synonym: "third digit of foot" EXACT [FMA:25051] synonym: "third toe" EXACT [FMA:25051] synonym: "toe 3" EXACT [EHDAA2:0002047] xref: AAO:0010646 xref: BTO:0002351 xref: EHDAA2:0002047 xref: EMAPA:17466 xref: FMA:25051 xref: MA:0000467 xref: SCTID:362821001 xref: UMLS:C1708083 xref: ncithesaurus:Foot_Digit_3 is_a: UBERON:0001466 ! pedal digit relationship: part_of UBERON:0012142 ! pedal digitopodium region intersection_of: UBERON:0006050 ! digit 3 intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003634 name: pedal digit 4 namespace: uberon def: "4th digit of the hind autopod." [UBERON:cjm] synonym: "4th toe" EXACT [] synonym: "digit 4 of hind-paw" EXACT [EMAPA:17469] synonym: "digitus quartis pedis" EXACT [BTO:0002352] synonym: "digitus quartus (IV) pedis" RELATED [BTO:0002352] synonym: "digitus quartus [iv]" EXACT [FMA:25052] synonym: "foot digit 4" EXACT SENSU [MA:0000468, NCBITaxon:9606, OBOL:accepted] synonym: "fourth digit of foot" EXACT [FMA:25052] synonym: "fourth toe" EXACT [FMA:25052] synonym: "hind digit IV" EXACT [AAO:0010656] synonym: "hind limb digit 4" EXACT [OBOL:accepted] synonym: "pes digit IV" EXACT [] synonym: "toe 4" EXACT [EHDAA2:0002052] xref: AAO:0010656 xref: BTO:0002352 xref: EHDAA2:0002052 xref: EMAPA:17469 xref: FMA:25052 xref: MA:0000468 xref: SCTID:362826006 xref: UMLS:C1708085 xref: ncithesaurus:Foot_Digit_4 is_a: UBERON:0001466 ! pedal digit is_a: UBERON:0006051 ! digit 4 relationship: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003635 name: pedal digit 5 namespace: uberon def: "5th digit of the hind autopod." [UBERON:cjm, Wikipedia:Fifth_toe] synonym: "5th toe" EXACT [] synonym: "digit 5 of hind-paw" EXACT [EMAPA:17472] synonym: "digitus V of pes" EXACT [] synonym: "digitus minimus pedis" RELATED LATIN [Wikipedia:Fifth_toe] synonym: "digitus quintus [V] pedis" EXACT LATIN [FMA:25053, FMA:TA] synonym: "digitus quintus of pes" EXACT [] synonym: "digitus quintus pedis" RELATED LATIN [Wikipedia:Fifth_toe] synonym: "fifth digit of foot" EXACT [FMA:25053] synonym: "fifth toe" EXACT [FMA:25053] synonym: "foot digit 5" EXACT SENSU [MA:0000469, NCBITaxon:9606, OBOL:accepted] synonym: "hind digit V" EXACT [AAO:0010658] synonym: "hind limb digit 5" EXACT [OBOL:accepted] synonym: "little toe" NARROW [] synonym: "pedal digitus minimus" EXACT [] synonym: "pes digit V" EXACT [] synonym: "toe 5" EXACT [EHDAA2:0002057] xref: AAO:0010658 xref: BTO:0002353 xref: EHDAA2:0002057 xref: EMAPA:17472 xref: FMA:25053 xref: MA:0000469 xref: SCTID:362830009 xref: UMLS:C1708087 xref: http://upload.wikimedia.org/wikipedia/commons/5/52/Gray291.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Gray291.png/200px-Gray291.png xref: ncithesaurus:Foot_Digit_5 is_a: UBERON:0001466 ! pedal digit relationship: part_of UBERON:0012142 ! pedal digitopodium region intersection_of: UBERON:0006052 ! digit 5 intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0003636 name: manual digit 2 phalanx namespace: uberon def: "A phalanx that is part of a hand digit 2 [Automatically generated definition]." [OBOL:automatic] synonym: "2 nd digit of hand digit long bone" EXACT [OBOL:automatic] synonym: "2 nd digit of hand long bone of digit" EXACT [OBOL:automatic] synonym: "2 nd digit of hand phalanx" EXACT [OBOL:automatic] synonym: "2 nd finger digit long bone" EXACT [OBOL:automatic] synonym: "2 nd finger long bone of digit" EXACT [OBOL:automatic] synonym: "2 nd finger phalanx" EXACT [OBOL:automatic] synonym: "digit long bone of 2 nd digit of hand" EXACT [OBOL:automatic] synonym: "digit long bone of 2 nd finger" EXACT [OBOL:automatic] synonym: "digit long bone of hand digit 2" EXACT [OBOL:automatic] synonym: "digit long bone of second finger" EXACT [OBOL:automatic] synonym: "fore limb digit 2 phalanx" EXACT [OBOL:accepted] synonym: "hand digit 2 digit long bone" EXACT [OBOL:automatic] synonym: "hand digit 2 long bone of digit" EXACT [OBOL:automatic] synonym: "hand digit 2 phalanx" EXACT SENSU [MA:0001390, NCBITaxon:9606, OBOL:accepted] synonym: "index finger phalanx" EXACT [FMA:35480] synonym: "long bone of digit of 2 nd digit of hand" EXACT [OBOL:automatic] synonym: "long bone of digit of 2 nd finger" EXACT [OBOL:automatic] synonym: "long bone of digit of hand digit 2" EXACT [OBOL:automatic] synonym: "long bone of digit of second finger" EXACT [OBOL:automatic] synonym: "phalanx of 2 nd digit of hand" EXACT [OBOL:automatic] synonym: "phalanx of 2 nd finger" EXACT [OBOL:automatic] synonym: "phalanx of hand digit 2" EXACT [OBOL:automatic] synonym: "phalanx of index finger" EXACT [FMA:35480] synonym: "phalanx of second finger" EXACT [OBOL:automatic] synonym: "second finger digit long bone" EXACT [OBOL:automatic] synonym: "second finger long bone of digit" EXACT [OBOL:automatic] synonym: "second finger phalanx" EXACT [OBOL:automatic] xref: EMAPA:19115 xref: FMA:35480 xref: MA:0001390 xref: SCTID:361783009 xref: UMLS:C1708312 xref: ncithesaurus:Hand_Digit_2_Phalanx is_a: UBERON:0001436 ! phalanx of manus relationship: develops_from UBERON:0010676 ! manual digit 2 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003622 ! manual digit 2 [Term] id: UBERON:0003637 name: manual digit 3 phalanx namespace: uberon def: "A phalanx that is part of a hand digit 3 [Automatically generated definition]." [OBOL:automatic] synonym: "3 rd digit of hand digit long bone" EXACT [OBOL:automatic] synonym: "3 rd digit of hand long bone of digit" EXACT [OBOL:automatic] synonym: "3 rd digit of hand phalanx" EXACT [OBOL:automatic] synonym: "3 rd finger digit long bone" EXACT [OBOL:automatic] synonym: "3 rd finger long bone of digit" EXACT [OBOL:automatic] synonym: "3 rd finger phalanx" EXACT [OBOL:automatic] synonym: "digit long bone of 3 rd digit of hand" EXACT [OBOL:automatic] synonym: "digit long bone of 3 rd finger" EXACT [OBOL:automatic] synonym: "digit long bone of hand digit 3" EXACT [OBOL:automatic] synonym: "digit long bone of third finger" EXACT [OBOL:automatic] synonym: "fore limb digit 3 phalanx" EXACT [OBOL:accepted] synonym: "hand digit 3 digit long bone" EXACT [OBOL:automatic] synonym: "hand digit 3 long bone of digit" EXACT [OBOL:automatic] synonym: "hand digit 3 phalanx" EXACT SENSU [MA:0001391, NCBITaxon:9606, OBOL:accepted] synonym: "long bone of digit of 3 rd digit of hand" EXACT [OBOL:automatic] synonym: "long bone of digit of 3 rd finger" EXACT [OBOL:automatic] synonym: "long bone of digit of hand digit 3" EXACT [OBOL:automatic] synonym: "long bone of digit of third finger" EXACT [OBOL:automatic] synonym: "middle finger phalanx" EXACT [FMA:35483] synonym: "phalanx of 3 rd digit of hand" EXACT [OBOL:automatic] synonym: "phalanx of 3 rd finger" EXACT [OBOL:automatic] synonym: "phalanx of hand digit 3" EXACT [OBOL:automatic] synonym: "phalanx of middle finger" EXACT [FMA:35483] synonym: "phalanx of third finger" EXACT [OBOL:automatic] synonym: "third finger digit long bone" EXACT [OBOL:automatic] synonym: "third finger long bone of digit" EXACT [OBOL:automatic] synonym: "third finger phalanx" EXACT [OBOL:automatic] xref: EMAPA:19117 xref: FMA:35483 xref: MA:0001391 xref: SCTID:361785002 xref: UMLS:C1708314 xref: ncithesaurus:Hand_Digit_3_Phalanx is_a: UBERON:0001436 ! phalanx of manus relationship: develops_from UBERON:0010677 ! manual digit 3 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003623 ! manual digit 3 [Term] id: UBERON:0003638 name: manual digit 4 phalanx namespace: uberon def: "A phalanx that is part of a hand digit 4 [Automatically generated definition]." [OBOL:automatic] synonym: "4 th digit of hand digit long bone" EXACT [OBOL:automatic] synonym: "4 th digit of hand long bone of digit" EXACT [OBOL:automatic] synonym: "4 th digit of hand phalanx" EXACT [OBOL:automatic] synonym: "4 th finger digit long bone" EXACT [OBOL:automatic] synonym: "4 th finger long bone of digit" EXACT [OBOL:automatic] synonym: "4 th finger phalanx" EXACT [OBOL:automatic] synonym: "digit long bone of 4 th digit of hand" EXACT [OBOL:automatic] synonym: "digit long bone of 4 th finger" EXACT [OBOL:automatic] synonym: "digit long bone of fourth finger" EXACT [OBOL:automatic] synonym: "digit long bone of hand digit 4" EXACT [OBOL:automatic] synonym: "fore limb digit 4 phalanx" EXACT [OBOL:accepted] synonym: "fourth finger digit long bone" EXACT [OBOL:automatic] synonym: "fourth finger long bone of digit" EXACT [OBOL:automatic] synonym: "fourth finger phalanx" EXACT [OBOL:automatic] synonym: "hand digit 4 digit long bone" EXACT [OBOL:automatic] synonym: "hand digit 4 long bone of digit" EXACT [OBOL:automatic] synonym: "hand digit 4 phalanx" EXACT SENSU [MA:0001392, NCBITaxon:9606, OBOL:accepted] synonym: "long bone of digit of 4 th digit of hand" EXACT [OBOL:automatic] synonym: "long bone of digit of 4 th finger" EXACT [OBOL:automatic] synonym: "long bone of digit of fourth finger" EXACT [OBOL:automatic] synonym: "long bone of digit of hand digit 4" EXACT [OBOL:automatic] synonym: "phalanx of 4 th digit of hand" EXACT [OBOL:automatic] synonym: "phalanx of 4 th finger" EXACT [OBOL:automatic] synonym: "phalanx of fourth finger" EXACT [OBOL:automatic] synonym: "phalanx of hand digit 4" EXACT [OBOL:automatic] synonym: "phalanx of ring finger" EXACT [FMA:35486] synonym: "ring finger phalanx" EXACT [FMA:35486] xref: EMAPA:19119 xref: FMA:35486 xref: MA:0001392 xref: SCTID:361787005 xref: UMLS:C1708316 xref: ncithesaurus:Hand_Digit_4_Phalanx is_a: UBERON:0001436 ! phalanx of manus relationship: develops_from UBERON:0010678 ! manual digit 4 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003624 ! manual digit 4 [Term] id: UBERON:0003639 name: manual digit 5 phalanx namespace: uberon def: "A phalanx that is part of a hand digit 5 [Automatically generated definition]." [OBOL:automatic] synonym: "5 th digit of hand digit long bone" EXACT [OBOL:automatic] synonym: "5 th digit of hand long bone of digit" EXACT [OBOL:automatic] synonym: "5 th digit of hand phalanx" EXACT [OBOL:automatic] synonym: "5 th finger digit long bone" EXACT [OBOL:automatic] synonym: "5 th finger long bone of digit" EXACT [OBOL:automatic] synonym: "5 th finger phalanx" EXACT [OBOL:automatic] synonym: "digit long bone of 5 th digit of hand" EXACT [OBOL:automatic] synonym: "digit long bone of 5 th finger" EXACT [OBOL:automatic] synonym: "digit long bone of fifth finger" EXACT [OBOL:automatic] synonym: "digit long bone of hand digit 5" EXACT [OBOL:automatic] synonym: "fifth finger digit long bone" EXACT [OBOL:automatic] synonym: "fifth finger long bone of digit" EXACT [OBOL:automatic] synonym: "fifth finger phalanx" EXACT [OBOL:automatic] synonym: "fore limb digit 5 phalanx" EXACT [OBOL:accepted] synonym: "hand digit 5 digit long bone" EXACT [OBOL:automatic] synonym: "hand digit 5 long bone of digit" EXACT [OBOL:automatic] synonym: "hand digit 5 phalanx" EXACT SENSU [MA:0001393, NCBITaxon:9606, OBOL:accepted] synonym: "little finger phalanx" EXACT [FMA:35489] synonym: "long bone of digit of 5 th digit of hand" EXACT [OBOL:automatic] synonym: "long bone of digit of 5 th finger" EXACT [OBOL:automatic] synonym: "long bone of digit of fifth finger" EXACT [OBOL:automatic] synonym: "long bone of digit of hand digit 5" EXACT [OBOL:automatic] synonym: "phalanx of 5 th digit of hand" EXACT [OBOL:automatic] synonym: "phalanx of 5 th finger" EXACT [OBOL:automatic] synonym: "phalanx of fifth digit of hand" EXACT [FMA:35489] synonym: "phalanx of fifth finger" EXACT [OBOL:automatic] synonym: "phalanx of hand digit 5" EXACT [OBOL:automatic] synonym: "phalanx of little finger" EXACT [FMA:35489] synonym: "phalanx of manual digitus minimus" EXACT [OBOL:automatic] xref: EMAPA:19121 xref: FMA:35489 xref: MA:0001393 xref: SCTID:361789008 xref: UMLS:C1708317 xref: ncithesaurus:Hand_Digit_5_Phalanx is_a: UBERON:0001436 ! phalanx of manus relationship: develops_from UBERON:0010679 ! manual digit 5 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003625 ! manual digit 5 [Term] id: UBERON:0003640 name: pedal digit 1 phalanx namespace: uberon def: "A phalanx that is part of a foot digit 1 [Automatically generated definition]." [OBOL:automatic] synonym: "big toe phalanx" EXACT [FMA:32884] synonym: "digit long bone of foot digit 1" EXACT [OBOL:automatic] synonym: "digit long bone of hallux" EXACT [OBOL:automatic] synonym: "foot digit 1 digit long bone" EXACT [OBOL:automatic] synonym: "foot digit 1 long bone of digit" EXACT [OBOL:automatic] synonym: "foot digit 1 phalanx" EXACT SENSU [MA:0001381, NCBITaxon:9606, OBOL:accepted] synonym: "hallux digit long bone" EXACT [OBOL:automatic] synonym: "hallux long bone of digit" EXACT [OBOL:automatic] synonym: "hallux phalanx" EXACT [OBOL:automatic] synonym: "hind limb digit 1 phalanx" EXACT [OBOL:accepted] synonym: "long bone of digit of foot digit 1" EXACT [OBOL:automatic] synonym: "long bone of digit of hallux" EXACT [OBOL:automatic] synonym: "phalanx of big toe" EXACT [FMA:32884] synonym: "phalanx of first digit of foot" EXACT [FMA:32884] synonym: "phalanx of foot digit 1" EXACT [OBOL:automatic] synonym: "phalanx of great toe" EXACT [FMA:32884] synonym: "phalanx of hallux" EXACT [OBOL:automatic] xref: EMAPA:19124 xref: FMA:32884 xref: MA:0001381 xref: SCTID:361798006 xref: UMLS:C1708080 xref: ncithesaurus:Foot_Digit_1_Phalanx is_a: UBERON:0001449 ! phalanx of pes relationship: develops_from UBERON:0010680 ! pedal digit 1 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003631 ! pedal digit 1 [Term] id: UBERON:0003641 name: pedal digit 2 phalanx namespace: uberon def: "A phalanx that is part of a foot digit 2 [Automatically generated definition]." [OBOL:automatic] synonym: "digit long bone of foot digit 2" EXACT [OBOL:automatic] synonym: "foot digit 2 digit long bone" EXACT [OBOL:automatic] synonym: "foot digit 2 long bone of digit" EXACT [OBOL:automatic] synonym: "foot digit 2 phalanx" EXACT SENSU [MA:0001382, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit 2 phalanx" EXACT [OBOL:accepted] synonym: "long bone of digit of foot digit 2" EXACT [OBOL:automatic] synonym: "phalanx of foot digit 2" EXACT [OBOL:automatic] synonym: "phalanx of second toe" EXACT [FMA:32899] synonym: "second toe phalanx" EXACT [FMA:32899] xref: EMAPA:19126 xref: FMA:32899 xref: MA:0001382 xref: SCTID:361800004 xref: UMLS:C1708082 xref: ncithesaurus:Foot_Digit_2_Phalanx is_a: UBERON:0001449 ! phalanx of pes relationship: develops_from UBERON:0010681 ! pedal digit 2 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003632 ! pedal digit 2 [Term] id: UBERON:0003642 name: pedal digit 3 phalanx namespace: uberon def: "A phalanx that is part of a foot digit 3 [Automatically generated definition]." [OBOL:automatic] synonym: "digit long bone of foot digit 3" EXACT [OBOL:automatic] synonym: "foot digit 3 digit long bone" EXACT [OBOL:automatic] synonym: "foot digit 3 long bone of digit" EXACT [OBOL:automatic] synonym: "foot digit 3 phalanx" EXACT SENSU [MA:0001383, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit 3 phalanx" EXACT [OBOL:accepted] synonym: "long bone of digit of foot digit 3" EXACT [OBOL:automatic] synonym: "phalanx of foot digit 3" EXACT [OBOL:automatic] synonym: "phalanx of third toe" EXACT [FMA:32900] synonym: "third toe phalanx" EXACT [FMA:32900] xref: EMAPA:19128 xref: FMA:32900 xref: MA:0001383 xref: SCTID:361802007 xref: UMLS:C1708084 xref: ncithesaurus:Foot_Digit_3_Phalanx is_a: UBERON:0001449 ! phalanx of pes relationship: develops_from UBERON:0010682 ! pedal digit 3 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003633 ! pedal digit 3 [Term] id: UBERON:0003643 name: respiratory system arterial blood vessel namespace: uberon def: "An arterial blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: MA:0001800 is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0003509 ! arterial blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003644 name: kidney arterial blood vessel namespace: uberon def: "An arterial blood vessel that is part of a kidney [Automatically generated definition]." [OBOL:automatic] xref: MA:0002578 is_a: UBERON:0003517 ! kidney blood vessel intersection_of: UBERON:0003509 ! arterial blood vessel intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0003645 name: metacarpal bone of digit 1 namespace: uberon def: "A metacarpal bone that distally_connected_to a proximal phalanx of manual digit 1." [OBOL:automatic] synonym: "finger 1 metacarpus" EXACT [] synonym: "first digit of hand metacarpal" EXACT [OBOL:automatic] synonym: "first digit of hand metacarpal bone" EXACT [OBOL:automatic] synonym: "first metacarpal bone" EXACT [FMA:23899] synonym: "hand digit 1 metacarpal" EXACT [OBOL:automatic] synonym: "hand digit 1 metacarpal bone" EXACT [OBOL:automatic] synonym: "manual digit 1 metacarpus" EXACT [] synonym: "metacarpal 1" EXACT [] synonym: "metacarpal I" EXACT [FMA:23899] synonym: "metacarpal bone digit 1" EXACT [MA:0001364] synonym: "metacarpal bone of Pollex ; Digitus primus [ I ]" EXACT [OBOL:automatic] synonym: "metacarpal bone of first digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal bone of hand digit 1" EXACT [OBOL:automatic] synonym: "metacarpal bone of thumb" EXACT [OBOL:automatic] synonym: "metacarpal of Pollex ; Digitus primus [ I ]" EXACT [OBOL:automatic] synonym: "metacarpal of first digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal of hand digit 1" EXACT [OBOL:automatic] synonym: "metacarpal of thumb" EXACT [OBOL:automatic] synonym: "pollex ; digitus primus [ I ] metacarpal" EXACT [OBOL:automatic] synonym: "pollex ; digitus primus [ I ] metacarpal bone" EXACT [OBOL:automatic] synonym: "thumb metacarpal" EXACT [OBOL:automatic] synonym: "thumb metacarpal bone" EXACT [OBOL:automatic] xref: AAO:0010616 xref: EMAPA:19112 xref: FMA:23899 xref: MA:0001364 xref: SCTID:181973009 xref: UMLS:C1708987 xref: ncithesaurus:Metacarpal_Bone_Digit_1 is_a: UBERON:0013581 ! metapodium bone 1 relationship: develops_from UBERON:0010570 ! manual digit 1 metacarpus cartilage condensation intersection_of: UBERON:0002374 ! metacarpal bone intersection_of: distally_connected_to UBERON:0004338 ! proximal phalanx of manual digit 1 property_value: external_definition "The first metacarpal bone or the metacarpal bone of the thumb is the first bone of the thumb. It is connected to the trapezium of the carpus at the first carpometacarpal joint and to the proximal thumb phalanx at the first metacarpophalangeal joint[Wikipedia:First_metacarpal_bone]." xsd:string property_value: ray_number "1" xsd:nonNegativeInteger [Term] id: UBERON:0003646 name: metacarpal bone of digit 2 namespace: uberon def: "A metacarpal bone that distally_connected_to a proximal phalanx of manual digit 2." [OBOL:automatic] synonym: "2 nd digit of hand metacarpal" EXACT [OBOL:automatic] synonym: "2 nd digit of hand metacarpal bone" EXACT [OBOL:automatic] synonym: "2 nd finger metacarpal" EXACT [OBOL:automatic] synonym: "2 nd finger metacarpal bone" EXACT [OBOL:automatic] synonym: "finger 2 metacarpus" EXACT [] synonym: "hand digit 2 metacarpal" EXACT [OBOL:automatic] synonym: "hand digit 2 metacarpal bone" EXACT [OBOL:automatic] synonym: "manual digit 2 metacarpus" EXACT [] synonym: "metacarpal 2" EXACT [] synonym: "metacarpal II" EXACT [FMA:23900] synonym: "metacarpal bone digit 2" EXACT [MA:0001365] synonym: "metacarpal bone of 2 nd digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal bone of 2 nd finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of hand digit 2" EXACT [OBOL:automatic] synonym: "metacarpal bone of second finger" EXACT [OBOL:automatic] synonym: "metacarpal of 2 nd digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal of 2 nd finger" EXACT [OBOL:automatic] synonym: "metacarpal of hand digit 2" EXACT [OBOL:automatic] synonym: "metacarpal of second finger" EXACT [OBOL:automatic] synonym: "second finger metacarpal" EXACT [OBOL:automatic] synonym: "second finger metacarpal bone" EXACT [OBOL:automatic] synonym: "second metacarpal bone" EXACT [FMA:23900] xref: AAO:0000853 xref: EMAPA:19114 xref: FMA:23900 xref: MA:0001365 xref: SCTID:263399007 xref: UMLS:C1708988 xref: ncithesaurus:Metacarpal_Bone_Digit_2 is_a: UBERON:0013582 ! metapodium bone 2 relationship: develops_from UBERON:0010571 ! manual digit 2 metacarpus cartilage condensation intersection_of: UBERON:0002374 ! metacarpal bone intersection_of: distally_connected_to UBERON:0004328 ! proximal phalanx of manual digit 2 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with the prepollex and carpal 2(1) or carpal 2+3(1+2) proximally and with the proximal phalanx of digit II(I) distally.[AAO]" xsd:string property_value: ray_number "2" xsd:nonNegativeInteger [Term] id: UBERON:0003647 name: metacarpal bone of digit 3 namespace: uberon def: "A metacarpal bone that distally_connected_to a proximal phalanx of manual digit 3[Automatically generated definition]." [OBOL:automatic, Wikipedia:Third_metacarpal_bone] synonym: "3 rd digit of hand metacarpal" EXACT [OBOL:automatic] synonym: "3 rd digit of hand metacarpal bone" EXACT [OBOL:automatic] synonym: "3 rd finger metacarpal" EXACT [OBOL:automatic] synonym: "3 rd finger metacarpal bone" EXACT [OBOL:automatic] synonym: "cannon bone" NARROW SENSU [UBERON:cjm] synonym: "finger 3 metacarpus" EXACT [] synonym: "hand digit 3 metacarpal" EXACT [OBOL:automatic] synonym: "hand digit 3 metacarpal bone" EXACT [OBOL:automatic] synonym: "manual digit 3 metacarpus" EXACT [] synonym: "metacarpal 3" EXACT [] synonym: "metacarpal III" EXACT [FMA:23901] synonym: "metacarpal bone digit 3" EXACT [MA:0001366] synonym: "metacarpal bone of 3 rd digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal bone of 3 rd finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of hand digit 3" EXACT [OBOL:automatic] synonym: "metacarpal bone of third finger" EXACT [OBOL:automatic] synonym: "metacarpal of 3 rd digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal of 3 rd finger" EXACT [OBOL:automatic] synonym: "metacarpal of hand digit 3" EXACT [OBOL:automatic] synonym: "metacarpal of third finger" EXACT [OBOL:automatic] synonym: "third finger metacarpal" EXACT [OBOL:automatic] synonym: "third finger metacarpal bone" EXACT [OBOL:automatic] synonym: "third metacarpal bone" EXACT [FMA:23901] xref: AAO:0000854 xref: EMAPA:19116 xref: FMA:23901 xref: MA:0001366 xref: SCTID:263400000 xref: UMLS:C1708989 xref: ncithesaurus:Metacarpal_Bone_Digit_3 is_a: UBERON:0013583 ! metapodium bone 3 relationship: develops_from UBERON:0010572 ! manual digit 3 metacarpus cartilage condensation intersection_of: UBERON:0002374 ! metacarpal bone intersection_of: distally_connected_to UBERON:0004329 ! proximal phalanx of manual digit 3 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with carpal 3(2) proximally and with the proximal phalanx of digit III(II) distally.[AAO]" xsd:string property_value: external_definition "The third metacarpal bone (metacarpal bone of the middle finger) is a little smaller than the second. The dorsal aspect of its base presents on its radial side a pyramidal eminence, the styloid process, which extends upward behind the capitate; immediately distal to this is a rough surface for the attachment of the extensor carpi radialis brevis muscle. The carpal articular facet is concave behind, flat in front, and articulates with the capitate. On the radial side is a smooth, concave facet for articulation with the second metacarpal, and on the ulnar side two small oval facets for the fourth metacarpal[Wikipedia:Third_metacarpal_bone]." xsd:string property_value: ray_number "3" xsd:nonNegativeInteger [Term] id: UBERON:0003648 name: metacarpal bone of digit 4 namespace: uberon def: "A metacarpal bone that distally_connected_to a proximal phalanx of manual digit 4." [OBOL:automatic] synonym: "4 th digit of hand metacarpal" EXACT [OBOL:automatic] synonym: "4 th digit of hand metacarpal bone" EXACT [OBOL:automatic] synonym: "4 th finger metacarpal" EXACT [OBOL:automatic] synonym: "4 th finger metacarpal bone" EXACT [OBOL:automatic] synonym: "finger 4 metacarpus" EXACT [] synonym: "fourth finger metacarpal" EXACT [OBOL:automatic] synonym: "fourth finger metacarpal bone" EXACT [OBOL:automatic] synonym: "fourth metacarpal bone" EXACT [FMA:23902] synonym: "hand digit 4 metacarpal" EXACT [OBOL:automatic] synonym: "hand digit 4 metacarpal bone" EXACT [OBOL:automatic] synonym: "manual digit 4 metacarpus" EXACT [] synonym: "metacarpal 4" EXACT [] synonym: "metacarpal IV" EXACT [FMA:23902] synonym: "metacarpal bone digit 4" EXACT [MA:0001367] synonym: "metacarpal bone of 4 th digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal bone of 4 th finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of fourth finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of hand digit 4" EXACT [OBOL:automatic] synonym: "metacarpal of 4 th digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal of 4 th finger" EXACT [OBOL:automatic] synonym: "metacarpal of fourth finger" EXACT [OBOL:automatic] synonym: "metacarpal of hand digit 4" EXACT [OBOL:automatic] xref: AAO:0010615 xref: EMAPA:19118 xref: FMA:23902 xref: MA:0001367 xref: SCTID:263401001 xref: UMLS:C1708990 xref: ncithesaurus:Metacarpal_Bone_Digit_4 is_a: UBERON:0013584 ! metapodium bone 4 relationship: develops_from UBERON:0010573 ! manual digit 4 metacarpus cartilage condensation intersection_of: UBERON:0002374 ! metacarpal bone intersection_of: distally_connected_to UBERON:0004330 ! proximal phalanx of manual digit 4 property_value: external_definition "The fourth metacarpal bone (metacarpal bone of the ring finger) is shorter and smaller than the third. The base is small and quadrilateral; its superior surface presents two facets, a large one medially for articulation with the hamate, and a small one laterally for the capitate. On the radial side are two oval facets, for articulation with the third metacarpal; and on the ulnar side a single concave facet, for the fifth metacarpal[Wikipedia:Fourth_metacarpal_bone]." xsd:string property_value: ray_number "4" xsd:nonNegativeInteger [Term] id: UBERON:0003649 name: metacarpal bone of digit 5 namespace: uberon def: "A metacarpal bone that distally_connected_to a proximal phalanx of manual digit 5." [OBOL:automatic] comment: note FMA also has FMA:36782 synonym: "5 th digit of hand metacarpal" EXACT [OBOL:automatic] synonym: "5 th digit of hand metacarpal bone" EXACT [OBOL:automatic] synonym: "5 th finger metacarpal" EXACT [OBOL:automatic] synonym: "5 th finger metacarpal bone" EXACT [OBOL:automatic] synonym: "fifth finger metacarpal" EXACT [OBOL:automatic] synonym: "fifth finger metacarpal bone" EXACT [OBOL:automatic] synonym: "fifth metacarpal bone" EXACT [FMA:23903] synonym: "finger 5 metacarpus" EXACT [] synonym: "hand digit 5 metacarpal" EXACT [OBOL:automatic] synonym: "hand digit 5 metacarpal bone" EXACT [OBOL:automatic] synonym: "manual digit 5 metacarpus" EXACT [] synonym: "metacarpal 5" EXACT [] synonym: "metacarpal V" EXACT [] synonym: "metacarpal bone digit 5" EXACT [MA:0001368] synonym: "metacarpal bone of 5 th digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal bone of 5 th finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of fifth finger" EXACT [OBOL:automatic] synonym: "metacarpal bone of hand digit 5" EXACT [OBOL:automatic] synonym: "metacarpal of 5 th digit of hand" EXACT [OBOL:automatic] synonym: "metacarpal of 5 th finger" EXACT [OBOL:automatic] synonym: "metacarpal of fifth finger" EXACT [OBOL:automatic] synonym: "metacarpal of hand digit 5" EXACT [OBOL:automatic] xref: AAO:0000855 xref: EMAPA:19120 xref: FMA:23903 xref: MA:0001368 xref: SCTID:263402008 xref: UMLS:C1711224 xref: ncithesaurus:Metacarpal_Bone_Digit_5 is_a: UBERON:0013585 ! metapodium bone 5 relationship: develops_from UBERON:0010574 ! manual digit 5 metacarpus cartilage condensation intersection_of: UBERON:0002374 ! metacarpal bone intersection_of: distally_connected_to UBERON:0004331 ! proximal phalanx of manual digit 5 property_value: external_definition "Dumb-bell shaped bones of endochondral origin with cartilaginous epiphyses that articulates with carpal 5(4) proximally and with the proximal phalanx of digit V(IV) distally.[AAO]" xsd:string property_value: external_definition "The fifth metacarpal bone (metacarpal bone of the little finger or pinky finger) is the most lateral metacarpal[Wikipedia:Fifth_metacarpal_bone]." xsd:string property_value: ray_number "5" xsd:nonNegativeInteger [Term] id: UBERON:0003650 name: metatarsal bone of digit 1 namespace: uberon def: "A metatarsal bone that distally_connected_to a proximal phalanx of pedal digit 1." [OBOL:automatic] synonym: "first metatarsal bone" EXACT [FMA:24502] synonym: "foot digit 1 metatarsal bone" EXACT [OBOL:automatic] synonym: "hallux metatarsal bone" EXACT [OBOL:automatic] synonym: "metatarsal 1" EXACT [] synonym: "metatarsal I" EXACT [AAO:0000925] synonym: "metatarsal bone digit 1" EXACT [MA:0001369] synonym: "metatarsal bone of foot digit 1" EXACT [OBOL:automatic] synonym: "metatarsal bone of hallux" EXACT [OBOL:automatic] synonym: "toe 1 metatarsal" EXACT [] synonym: "toe 1 metatarsus" EXACT [] xref: AAO:0000925 xref: EMAPA:19123 xref: FMA:24502 xref: MA:0001369 xref: SCTID:182121005 xref: UMLS:C1708999 xref: ncithesaurus:Metatarsal_Bone_Digit_1 is_a: UBERON:0013581 ! metapodium bone 1 relationship: develops_from UBERON:0010557 ! pedal digit 1 metatarsal cartilage condensation intersection_of: UBERON:0001448 ! metatarsal bone intersection_of: distally_connected_to UBERON:0004332 ! proximal phalanx of pedal digit 1 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with the prepollex and tarsal 1 proximally and with the proximal phalanx of digit I distally.[AAO]" xsd:string property_value: external_definition "The first metatarsal bone is the bone in the body of the foot just behind the big toe. It is remarkable for its great thickness, and is the shortest of the metatarsal bones. The body is strong, and of well-marked prismoid form. The base presents, as a rule, no articular facets on its sides, but occasionally on the lateral side there is an oval facet, by which it articulates with the second metatarsal. Its proximal articular surface is of large size and kidney-shaped; its circumference is grooved, for the tarsometatarsal ligaments, and medially gives insertion to part of the tendon of the Tibialis anterior; its plantar angle presents a rough oval prominence for the insertion of the tendon of the PeronC&us longus. The head is large; on its plantar surface are two grooved facets, on which glide sesamoid bones; the facets are separated by a smooth elevation[Wikipedia:First_metatarsal_bone]." xsd:string property_value: ray_number "1" xsd:nonNegativeInteger [Term] id: UBERON:0003651 name: metatarsal bone of digit 2 namespace: uberon def: "A metatarsal bone that distally_connected_to a proximal phalanx of pedal digit 2." [OBOL:automatic] synonym: "foot digit 2 metatarsal bone" EXACT [OBOL:automatic] synonym: "metatarsal 2" EXACT [] synonym: "metatarsal II" EXACT [AAO:0000926] synonym: "metatarsal bone digit 2" EXACT [MA:0001370] synonym: "metatarsal bone of foot digit 2" EXACT [OBOL:automatic] synonym: "second metatarsal bone" EXACT [FMA:24503] synonym: "toe 2 metatarsal" EXACT [] synonym: "toe 2 metatarsus" EXACT [] xref: AAO:0000926 xref: EMAPA:19125 xref: FMA:24503 xref: MA:0001370 xref: SCTID:182128004 xref: UMLS:C1709000 xref: ncithesaurus:Metatarsal_Bone_Digit_2 is_a: UBERON:0013582 ! metapodium bone 2 relationship: develops_from UBERON:0010558 ! pedal digit 2 metatarsal cartilage condensation intersection_of: UBERON:0001448 ! metatarsal bone intersection_of: distally_connected_to UBERON:0004333 ! proximal phalanx of pedal digit 2 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with tarsal 2 proximally and with the proximal phalanx of digit II distally.[AAO]" xsd:string property_value: ray_number "2" xsd:nonNegativeInteger [Term] id: UBERON:0003652 name: metatarsal bone of digit 3 namespace: uberon def: "A metatarsal bone that distally_connected_to a proximal phalanx of pedal digit 3[Automatically generated definition]." [OBOL:automatic, Wikipedia:Third_metatarsal_bone] synonym: "cannon bone" NARROW SENSU [UBERON:cjm] synonym: "foot digit 3 metatarsal bone" EXACT [OBOL:automatic] synonym: "metatarsal 3" EXACT [] synonym: "metatarsal III" EXACT [AAO:0000927] synonym: "metatarsal bone digit 3" EXACT [MA:0001371] synonym: "metatarsal bone of foot digit 3" EXACT [OBOL:automatic] synonym: "third metatarsal bone" EXACT [FMA:24504] synonym: "toe 3 metatarsal" EXACT [] synonym: "toe 3 metatarsus" EXACT [] xref: AAO:0000927 xref: EMAPA:19127 xref: FMA:24504 xref: MA:0001371 xref: SCTID:182134006 xref: UMLS:C1709001 xref: ncithesaurus:Metatarsal_Bone_Digit_3 is_a: UBERON:0013583 ! metapodium bone 3 relationship: develops_from UBERON:0010559 ! pedal digit 3 metatarsal cartilage condensation intersection_of: UBERON:0001448 ! metatarsal bone intersection_of: distally_connected_to UBERON:0004334 ! proximal phalanx of pedal digit 3 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with tarsal 3 proximally and with the proximal phalanx of digit III distally.[AAO]" xsd:string property_value: external_definition "The third metatarsal bone articulates proximally, by means of a triangular smooth surface, with the third cuneiform; medially, by two facets, with the second metatarsal; and laterally, by a single facet, with the fourth metatarsal. This last facet is situated at the dorsal angle of the base[Wikipedia:Third_metatarsal_bone]." xsd:string property_value: ray_number "3" xsd:nonNegativeInteger [Term] id: UBERON:0003653 name: metatarsal bone of digit 4 namespace: uberon def: "A metatarsal bone that distally_connected_to a proximal phalanx of pedal digit 4." [OBOL:automatic] synonym: "foot digit 4 metatarsal bone" EXACT [OBOL:automatic] synonym: "fourth metatarsal bone" EXACT [FMA:24505] synonym: "metatarsal 4" EXACT [] synonym: "metatarsal IV" EXACT [AAO:0000928] synonym: "metatarsal bone digit 4" EXACT [MA:0001372] synonym: "metatarsal bone of foot digit 4" EXACT [OBOL:automatic] synonym: "toe 4 metatarsal" EXACT [] synonym: "toe 4 metatarsus" EXACT [] xref: AAO:0000928 xref: EMAPA:19129 xref: FMA:24505 xref: MA:0001372 xref: SCTID:182139001 xref: UMLS:C1709002 xref: ncithesaurus:Metatarsal_Bone_Digit_4 is_a: UBERON:0013584 ! metapodium bone 4 relationship: develops_from UBERON:0010560 ! pedal digit 4 metatarsal cartilage condensation intersection_of: UBERON:0001448 ! metatarsal bone intersection_of: distally_connected_to UBERON:0004335 ! proximal phalanx of pedal digit 4 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with tarsal 4 or the distal head of the tibiale-fibulare proximally and with the proximal phalanx of digit IV distally.[AAO]" xsd:string property_value: external_definition "The fourth metatarsal bone is smaller in size than the third; its base presents an oblique quadrilateral surface for articulation with the cuboid; a smooth facet on the medial side, divided by a ridge into an anterior portion for articulation with the third metatarsal, and a posterior portion for articulation with the third cuneiform; on the lateral side a single facet, for articulation with the fifth metatarsal[Wikipedia:Fourth_metatarsal_bone]." xsd:string property_value: ray_number "4" xsd:nonNegativeInteger [Term] id: UBERON:0003654 name: metatarsal bone of digit 5 namespace: uberon def: "A metatarsal bone that distally_connected_to a proximal phalanx of pedal digit 5." [OBOL:automatic] synonym: "fifth metatarsal bone" EXACT [FMA:24506] synonym: "foot digit 5 metatarsal bone" EXACT [OBOL:automatic] synonym: "metatarsal 5" EXACT [] synonym: "metatarsal V" EXACT [AAO:0000929] synonym: "metatarsal bone digit 5" EXACT [MA:0001373] synonym: "metatarsal bone of foot digit 5" EXACT [OBOL:automatic] synonym: "toe 5 metatarsal" EXACT [] synonym: "toe 5 metatarsus" EXACT [] xref: AAO:0000929 xref: EMAPA:19131 xref: FMA:24506 xref: MA:0001373 xref: SCTID:182144008 xref: UMLS:C1709003 xref: ncithesaurus:Metatarsal_Bone_Digit_5 is_a: UBERON:0013585 ! metapodium bone 5 relationship: develops_from UBERON:0010561 ! pedal digit 5 metatarsal cartilage condensation intersection_of: UBERON:0001448 ! metatarsal bone intersection_of: distally_connected_to UBERON:0004336 ! proximal phalanx of pedal digit 5 property_value: external_definition "Dumb-bell-shaped bone of endochondral origin with cartilaginous epiphyses that articulates with tarsal 5 or the distal head of the tibiale-fibulare proximally and with the proximal phalanx of digit V distally.[AAO]" xsd:string property_value: external_definition "The fifth metatarsal bone is recognized by a rough eminence, the tuberosity, on the lateral side of its base. The base articulates behind, by a triangular surface cut obliquely in a transverse direction, with the cuboid; and medially, with the fourth metatarsal. On the medial part of its dorsal surface is inserted the tendon of the PeronC&us tertius and on the dorsal surface of the tuberosity that of the PeronC&us brevis. A strong band of the plantar aponeurosis connects the projecting part of the tuberosity with the lateral process of the tuberosity of the calcaneus. The plantar surface of the base is grooved for the tendon of the Abductor digiti quinti, and gives origin to the Flexor digiti quinti brevis. The base of the metatarsal is often injured and a particularly notorious fracture is the Jones fracture. When the tuberosity is broken, it is called a pseudo-Jones fracture or a dancer's fracture. This is a common fracture of the fifth metatarsal. Stress fractures are common in the fifth metatarsal among athletes[Wikipedia:Fifth_metatarsal_bone]." xsd:string property_value: ray_number "5" xsd:nonNegativeInteger [Term] id: UBERON:0003655 name: molar tooth namespace: uberon def: "Molars are the rearmost and most complicated kind of tooth in most mammals." [Wikipedia:Molar_(tooth)] comment: Adult humans have twelve molars, in four groups of three at the back of the mouth. The third, rearmost molar in each group is called a wisdom tooth. It is the last tooth to appear, breaking through the surface of the gum at about the age of twenty, although this varies from individual to individual. Ethnicity can also have an impact on the age at which this occurs, with statistical variations between groups. The human mouth contains upper (maxillary) and lower (mandibular) molars. They are: maxillary first molar, maxillary second molar, maxillary third molar, mandibular first molar, mandibular second molar, and mandibular third molar. synonym: "dens molaris" EXACT [Wikipedia:Molar_%28tooth%29] synonym: "molar" RELATED [MA:0000350] synonym: "molaris" EXACT [BTO:0001759] xref: BTO:0001759 xref: FMA:55638 xref: MA:0000350 xref: MESH:A14.254.860.525 xref: SCTID:362115002 xref: UMLS:C0026367 xref: ncithesaurus:Molar_Tooth is_a: UBERON:0013164 ! molariform tooth disjoint_from: UBERON:0003674 ! cuspid disjoint_from: UBERON:0007120 ! premolar tooth [Term] id: UBERON:0003656 name: mesopodium bone namespace: uberon def: "A bone that is part of a mesopodial skeleton[cjm]. The carpus (wrist) and tarsus (ankle) of land vertebrates primitively had three rows of carpal or tarsal bones. Often some of these have become lost or fused in evolution. Three proximals. In the hand humans has all three. In the foot the middle proximal appears in 5-15% of people as an os trigonum. Centrale or os centrale, on the medial side. In humans and our closest relatives the African apes (chimpanzees and gorillas) it fuses to the scaphoid where it forms the articulation with the trapezoid bone; occasionally it stays separate. In Man's foot it is the navicular. Some early land vertebrates had more than one (up to three) os centrale per hand or foot. Distals, one per finger / toe at the base of each metacarpal or metatarsal. In mammals the 4th and 5th fuse. In the horse the 1st is lost[WP]." [UBERON:cjm, Wikipedia:Carpus_and_tarsus_of_land_vertebrates] synonym: "basipodium bone" EXACT [MA:th] synonym: "carpal/tarsal bone" EXACT [MA:0000295] synonym: "mesopod bone" EXACT [] synonym: "mesopodial bone" EXACT [] xref: MA:0000295 is_a: UBERON:0011250 ! autopod bone relationship: part_of UBERON:0009878 ! mesopodial skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0006716 ! mesopodium region [Term] id: UBERON:0003657 name: limb joint namespace: uberon def: "Any joint that is part of a (free) limb." [UBERON:cjm] comment: Most limb joints are synovial, but a few such as the tibiofibular joints are syndesmoses subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "joint of limb" EXACT [] synonym: "joint of limb skeletal system" EXACT [OBOL:automatic] synonym: "skeletal limb joint" EXACT [GO:0036023] xref: MA:0000691 xref: SCTID:312683002 xref: galen:LimbJoint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003658 name: hip muscle namespace: uberon def: "A muscle organ that is part of a hip [Automatically generated definition]." [OBOL:automatic] synonym: "hip muscle organ" EXACT [OBOL:automatic] synonym: "hip region muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of hip" EXACT [OBOL:automatic] synonym: "muscle organ of hip region" EXACT [OBOL:automatic] synonym: "muscle organ of regio coxae" EXACT [OBOL:automatic] synonym: "regio coxae muscle organ" EXACT [OBOL:automatic] xref: MA:0000657 is_a: UBERON:0010890 ! pelvic complex muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001464 ! hip [Term] id: UBERON:0003659 name: pedal digit muscle namespace: uberon def: "A muscle organ that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "digit of foot muscle organ" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free lower limb muscle organ" EXACT [OBOL:automatic] synonym: "digitus pedis muscle organ" EXACT [OBOL:automatic] synonym: "foot digit muscle" EXACT SENSU [MA:0000648, NCBITaxon:9606, OBOL:accepted] synonym: "foot digit muscle organ" EXACT [OBOL:automatic] synonym: "hind limb digit muscle" EXACT [OBOL:accepted] synonym: "muscle organ of digit of foot" EXACT [OBOL:automatic] synonym: "muscle organ of digit of terminal segment of free lower limb" EXACT [OBOL:automatic] synonym: "muscle organ of digitus pedis" EXACT [OBOL:automatic] synonym: "muscle organ of foot digit" EXACT [OBOL:automatic] synonym: "muscle organ of terminal segment of free lower limb digit" EXACT [OBOL:automatic] synonym: "muscle organ of toe" EXACT [OBOL:automatic] synonym: "terminal segment of free lower limb digit muscle organ" EXACT [OBOL:automatic] synonym: "toe muscle organ" EXACT [OBOL:automatic] xref: MA:0000648 is_a: UBERON:0001498 ! muscle of pes intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003660 name: eyelid muscle namespace: uberon synonym: "blepharon muscle organ" EXACT [OBOL:automatic] synonym: "eyelid muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of blepharon" EXACT [OBOL:automatic] synonym: "muscle organ of eyelid" EXACT [OBOL:automatic] xref: MA:0000269 xref: UMLS:C1707990 xref: ncithesaurus:Eyelid_Muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: attaches_to UBERON:0001711 ! eyelid [Term] id: UBERON:0003661 name: limb muscle namespace: uberon def: "A muscle organ that is part of a limb [Automatically generated definition]." [OBOL:automatic] synonym: "limb muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of limb" EXACT [OBOL:automatic] xref: MA:0000692 intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0003662 name: forelimb muscle namespace: uberon alt_id: UBERON:0005634 def: "A muscle organ that is part of a forelimb." [OBOL:automatic] comment: AO notes: FMA and MA class actually refer to muscles of entire pectoral complex synonym: "arm muscle system" EXACT [EHDAA2:0000141] synonym: "fore limb muscle organ" EXACT [OBOL:automatic] synonym: "forelimb muscle organ" EXACT [OBOL:automatic] synonym: "free upper limb muscle" EXACT [FMA:37348] synonym: "muscle of free upper limb" EXACT [FMA:37348] synonym: "muscle of upper limb" EXACT [FMA:9621] synonym: "musculature of arm" RELATED PLURAL [] synonym: "musculature of the arm" RELATED PLURAL [] synonym: "wing muscle" NARROW SENSU [Geisha:syn, NCBITaxon:8782, OBOL:automatic] xref: AAO:0000204 xref: BTO:0000479 xref: FMA:37348 is_a: UBERON:0003661 ! limb muscle is_a: UBERON:0010891 ! pectoral complex muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003663 name: hindlimb muscle namespace: uberon def: "A muscle organ that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "free lower limb muscle" EXACT [FMA:37368] synonym: "hind limb muscle organ" EXACT [OBOL:automatic] synonym: "hindlimb muscle organ" EXACT [OBOL:automatic] synonym: "inferior member muscle organ" EXACT [OBOL:automatic] synonym: "lower extremity muscle organ" EXACT [OBOL:automatic] synonym: "muscle of free lower limb" EXACT [FMA:37368] synonym: "muscle of posterior limb" EXACT [UBERON:cjm] synonym: "muscle organ of hind limb" EXACT [OBOL:automatic] synonym: "muscle organ of hindlimb" EXACT [OBOL:automatic] synonym: "muscle organ of inferior member" EXACT [OBOL:automatic] synonym: "muscle organ of lower extremity" EXACT [OBOL:automatic] xref: AAO:0000222 xref: EFO:0001928 xref: FMA:37368 is_a: UBERON:0003661 ! limb muscle is_a: UBERON:0010890 ! pelvic complex muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003664 name: manual digit muscle namespace: uberon def: "A muscle organ that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "digit of hand muscle organ" EXACT [OBOL:automatic] synonym: "digit of terminal segment of free upper limb muscle organ" EXACT [OBOL:automatic] synonym: "digitus manus muscle organ" EXACT [OBOL:automatic] synonym: "finger muscle organ" EXACT [OBOL:automatic] synonym: "fore limb digit muscle" EXACT [OBOL:accepted] synonym: "hand digit muscle" EXACT SENSU [MA:0000624, NCBITaxon:9606, OBOL:accepted] synonym: "hand digit muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of digit of hand" EXACT [OBOL:automatic] synonym: "muscle organ of digit of terminal segment of free upper limb" EXACT [OBOL:automatic] synonym: "muscle organ of digitus manus" EXACT [OBOL:automatic] synonym: "muscle organ of finger" EXACT [OBOL:automatic] synonym: "muscle organ of hand digit" EXACT [OBOL:automatic] synonym: "muscle organ of terminal segment of free upper limb digit" EXACT [OBOL:automatic] synonym: "terminal segment of free upper limb digit muscle organ" EXACT [OBOL:automatic] xref: MA:0000624 is_a: UBERON:0001500 ! muscle of manus intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003665 name: tail muscle namespace: uberon def: "A muscle organ that attaches to a tail vertebra [Automatically generated definition]." [OBOL:automatic] synonym: "caudal muscle" EXACT [] synonym: "muscle organ of post-vent region" EXACT [OBOL:automatic] synonym: "muscle organ of tail" EXACT [OBOL:automatic] synonym: "post-vent region muscle organ" EXACT [OBOL:automatic] synonym: "tail muscle organ" EXACT [OBOL:automatic] xref: AAO:0000081 xref: BTO:0001905 xref: MA:0000699 xref: SCTID:113230005 is_a: UBERON:0004518 ! muscle of vertebral column relationship: overlaps UBERON:0007812 ! post-anal tail intersection_of: UBERON:0001630 ! muscle organ intersection_of: attaches_to UBERON:0001095 ! caudal vertebra [Term] id: UBERON:0003666 name: upper jaw molar namespace: uberon def: "A molar tooth that is part of a upper jaw [Automatically generated definition]." [OBOL:automatic] synonym: "maxillary secondary molar tooth" RELATED [FMA:55720] synonym: "molar tooth of upper jaw" EXACT [OBOL:automatic] synonym: "upper jaw molar tooth" EXACT [OBOL:automatic] synonym: "upper molar" RELATED [UBERON:cjm] synonym: "upper molar tooth" EXACT [UBERON:cjm] synonym: "upper permanent molar tooth" RELATED [FMA:55720] synonym: "upper primary molar tooth" NARROW [FMA:84210] synonym: "upper secondary molar tooth" RELATED [FMA:55720] xref: EHDAA2:0002125 xref: EHDAA:8053 xref: EMAPA:17942 xref: FMA:55720 xref: MA:0001603 xref: UMLS:C1710580 xref: ncithesaurus:Upper_Jaw_Molar is_a: UBERON:0011593 ! maxillary tooth relationship: attaches_to UBERON:0002397 ! maxilla intersection_of: UBERON:0003655 ! molar tooth intersection_of: part_of UBERON:0001709 ! upper jaw region [Term] id: UBERON:0003667 name: lower jaw molar namespace: uberon def: "A molar tooth that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "lower jaw molar tooth" EXACT [OBOL:automatic] synonym: "lower molar" RELATED [UBERON:cjm] synonym: "lower molar tooth" EXACT [UBERON:cjm] synonym: "lower permanent molar tooth" RELATED [FMA:55721] synonym: "lower primary molar tooth" NARROW [FMA:84213] synonym: "lower secondary molar tooth" RELATED [FMA:55721] synonym: "mandibular secondary molar tooth" RELATED [FMA:55721] synonym: "molar tooth of lower jaw" EXACT [OBOL:automatic] xref: EHDAA2:0001025 xref: EHDAA:8017 xref: EMAPA:17921 xref: FMA:55721 xref: MA:0001602 xref: UMLS:C1708756 xref: ncithesaurus:Lower_Jaw_Molar is_a: UBERON:0011594 ! dentary tooth relationship: attaches_to UBERON:0004742 ! dentary intersection_of: UBERON:0003655 ! molar tooth intersection_of: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003668 name: synovial bursa namespace: uberon def: "a small fluid-filled sac lined by synovial membrane with an inner capillary layer of slimy fluid. It provides a cushion between bones and tendons and/or muscles around a joint. This helps to reduce friction between the bones and allows free movement. Bursae are filled with synovial fluid and are found around most major joints of the body." [Wikipedia:Synovial_bursa] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "bursa" BROAD [FMA:9692] synonym: "bursa synovialis" RELATED LATIN [Wikipedia:Synovial_bursa] xref: FMA:9692 xref: GAID:252 xref: MESH:A02.835.583.156 xref: SCTID:182483003 xref: UMLS:C0006441 xref: galen:Bursa xref: http://upload.wikimedia.org/wikipedia/commons/b/b3/Gray350.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b3/Gray350.png/200px-Gray350.png xref: ncithesaurus:Synovial_Bursa is_a: UBERON:0000062 ! organ relationship: located_in UBERON:0002018 ! synovial membrane of synovial joint [Term] id: UBERON:0003669 name: fascia lata namespace: uberon def: "The fascia lata is the deep fascia of the thigh. [WP,unvetted]." [Wikipedia:Fascia_lata] xref: FMA:13902 xref: GAID:117 xref: MESH:A02.340.424 xref: SCTID:361911008 xref: UMLS:C0015642 xref: http://upload.wikimedia.org/wikipedia/commons/e/e7/Gray431.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/e7/Gray431.png/200px-Gray431.png xref: ncithesaurus:Fascia_Lata is_a: UBERON:0004266 ! upper leg connective tissue is_a: UBERON:0011236 ! deep fascia relationship: part_of UBERON:0000376 ! hindlimb stylopod [Term] id: UBERON:0003670 name: smegma namespace: uberon def: "a combination of exfoliated (shed) epithelial cells, transudated skin oils, and moisture. It occurs in both female and male mammalian genitalia[WP]." [Wikipedia:Smegma] xref: FMA:19656 xref: GAID:1170 xref: MESH:A12.200.769 xref: UMLS:C0037359 xref: ncithesaurus:Smegma is_a: UBERON:0000456 ! bodily secretion [Term] id: UBERON:0003671 name: anterior cruciate ligament of knee joint namespace: uberon synonym: "anterior cruciate ligament" EXACT [FMA:44614] xref: FMA:44614 xref: GAID:122 xref: MESH:A02.513.514.100 xref: OpenCyc:Mx4r77KC8RuaEd2f4ADggVfexA xref: SCTID:182443006 xref: UMLS:C0078960 xref: galen:AnteriorCruciateLigament xref: ncithesaurus:Anterior_Cruciate_Ligament is_a: UBERON:0006659 ! cruciate ligament of knee [Term] id: UBERON:0003672 name: dentition namespace: uberon comment: In FMA this is an anatomical set synonym: "dentes" EXACT LATIN [FMA:75150, FMA:TA] synonym: "set of teeth" EXACT [FMA:75150] synonym: "teeth" EXACT [FMA:75150] synonym: "teeth set" EXACT [FMA:75150] xref: AAO:0000126 xref: FMA:75150 xref: GAID:1249 xref: MESH:A14.254 xref: OpenCyc:Mx4rvVi65JwpEbGdrcN5Y29ycA xref: SCTID:245543004 xref: UMLS:C0011443 xref: ncithesaurus:Dentition is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0001091 ! calcareous tooth relationship: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0010323 ! cranial skeletal system property_value: external_definition "Dentition refers to set of teeth, especially with regard to their number, kind, and arrangement, in the mouth.[AAO]" xsd:string [Term] id: UBERON:0003673 name: ligamentum flavum namespace: uberon synonym: "flaval ligament" RELATED [GAID:126] xref: FMA:13423 xref: GAID:126 xref: MESH:A02.513.514.287 xref: SCTID:244598002 xref: UMLS:C0206327 xref: ncithesaurus:Ligamentum_Flavum is_a: UBERON:0000211 ! ligament [Term] id: UBERON:0003674 name: cuspid namespace: uberon def: "In mammalian oral anatomy, the canine teeth, also called cuspids, dogteeth, fangs, or (in the case of those of the upper jaw) eye teeth, are relatively long, pointed teeth. However, they can appear more flattened, causing them to resemble incisors and leading them to be called incisiform. They evolved and are used primarily for firmly holding food in order to tear it apart, and occasionally as weapons. They are often the largest teeth in a mammal's mouth. Most species that develop them normally have four per individual, two in the upper jaw and two in the lower, separated within each jaw by its incisors; humans and dogs are examples. In most animals, canines are the anterior-most teeth in the maxillary bone. The four canines in humans are the two maxillary canines and the two mandibular canines." [Wikipedia:Canine_tooth] synonym: "canine" BROAD [] synonym: "canine %28tooth%29" RELATED [Wikipedia:Canine_tooth] synonym: "canine eminence" RELATED [Wikipedia:Canine_tooth] synonym: "canine teeth" RELATED PLURAL [GAID:1262, Wikipedia:Canine_tooth] synonym: "canine tooth" EXACT [FMA:55636] synonym: "cuspis dentis" EXACT LATIN [FMA:55636, FMA:TA] synonym: "dens caninus" RELATED [Wikipedia:Canine_tooth] synonym: "dentes canini" RELATED LATIN [Wikipedia:Canine_tooth] synonym: "dogtooth %28anatomy%29" RELATED [Wikipedia:Canine_tooth] synonym: "eye teeth" RELATED PLURAL [Wikipedia:Canine_tooth] synonym: "eye tooth" RELATED [Wikipedia:Canine_tooth] synonym: "eyeteeth" RELATED PLURAL [Wikipedia:Canine_tooth] synonym: "eyetooth" RELATED [Wikipedia:Canine_tooth] synonym: "fang" RELATED [Wikipedia:Canine_tooth] xref: FMA:55636 xref: GAID:1262 xref: MESH:A14.254.860.200 xref: SCTID:88719004 xref: UMLS:C0010482 xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Azawakh_K9.jpg xref: ncithesaurus:Canine_Tooth is_a: UBERON:0001091 ! calcareous tooth relationship: has_part UBERON:0006844 ! cusp of tooth disjoint_from: UBERON:0007120 ! premolar tooth [Term] id: UBERON:0003675 name: tooth crown namespace: uberon synonym: "anatomical crown" EXACT [FMA:55623] synonym: "corona dentis" EXACT [ncithesaurus:Corona_Dentis] synonym: "crown" RELATED [] synonym: "crown of tooth" EXACT [FMA:55623] synonym: "tooth crown" EXACT [FMA:55623] xref: FMA:55623 xref: GAID:1275 xref: MESH:A14.254.900.710 xref: SCTID:362106009 xref: UMLS:C0226993 xref: ncithesaurus:Corona_Dentis is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001091 ! calcareous tooth [Term] id: UBERON:0003676 name: patellar ligament namespace: uberon def: "The central portion of the common tendon of the quadriceps femoris. It is attached to the apex of the PATELLA and to the lower part of the tubercle of the TIBIA." [MESH:A02.513.514.475, Wikipedia:Patellar_ligament] synonym: "central band of tendon of quadriceps femoris" EXACT [FMA:44581] synonym: "ligamentum patella" EXACT [FMA:44581] synonym: "patellar tendon" RELATED [] xref: EMAPA:18509 xref: EMAPA:19139 xref: FMA:44581 xref: GAID:128 xref: MESH:A02.513.514.475 xref: SCTID:244639004 xref: UMLS:C0206332 xref: galen:LigamentumPatellae xref: ncithesaurus:Patellar_Ligament is_a: UBERON:0000211 ! ligament is_a: UBERON:0011088 ! ligament of knee joint relationship: connects UBERON:0000979 ! tibia relationship: connects UBERON:0002446 ! patella relationship: part_of UBERON:0001485 ! knee joint [Term] id: UBERON:0003677 name: tooth root namespace: uberon synonym: "radix corona" EXACT [FMA:55624] synonym: "root of tooth" EXACT [FMA:55624] synonym: "tooth root" EXACT [FMA:55624] xref: FMA:55624 xref: GAID:1280 xref: MESH:A14.254.900.750 xref: SCTID:245728004 is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: attaches_to UBERON:0001091 ! calcareous tooth relationship: part_of UBERON:0001091 ! calcareous tooth [Term] id: UBERON:0003678 name: tooth apex namespace: uberon synonym: "apex of tooth" EXACT [FMA:63000] synonym: "apical foramen" RELATED [GAID:1281] synonym: "tooth apex" EXACT [FMA:63000] synonym: "tooth apice" RELATED [GAID:1281] xref: FMA:63000 xref: GAID:1281 xref: MESH:A14.254.900.750.700 is_a: UBERON:0000015 ! anatomical boundary relationship: part_of UBERON:0001091 ! calcareous tooth [Term] id: UBERON:0003679 name: mouth floor namespace: uberon synonym: "floor of mouth" EXACT [FMA:86592] synonym: "sublingual region" RELATED [GAID:1283] xref: EFO:0001923 xref: FMA:86592 xref: GAID:1283 xref: MESH:A14.549.441 xref: SCTID:245786002 xref: UMLS:C0026638 xref: ncithesaurus:Floor_of_the_Mouth is_a: UBERON:0001444 ! subdivision of head is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0003680 name: posterior cruciate ligament of knee joint namespace: uberon synonym: "posterior cruciate ligament" EXACT [FMA:44617] xref: FMA:44617 xref: GAID:129 xref: MESH:A02.513.514.600 xref: SCTID:182445004 xref: UMLS:C0080039 xref: galen:PosteriorCruciateLigament xref: ncithesaurus:Posterior_Cruciate_Ligament is_a: UBERON:0006659 ! cruciate ligament of knee [Term] id: UBERON:0003681 name: masticatory muscle namespace: uberon def: "In humans: Muscles arising in the zygomatic arch that close the jaw. Their nerve supply is masseteric from the mandibular division of the trigeminal nerve. (From Stedman, 25th ed)" [MESH:A02.633.567.600, Wikipedia:Muscles_of_mastication] comment: Usage notes: we use this specifically for a jaw muscle that is innervates by the mandibular nerve. Development notes: Masticatory muscles (MM) originate from the somitomeres. These muscles develop late and are not complete even at birth. Tongue muscles develop before masticatory muscles and complete by birth [http://php.med.unsw.edu.au/embryology] synonym: "jaw muscle" RELATED [] synonym: "muscle of mastication" EXACT [] synonym: "musculi masticatorii" RELATED LATIN [Wikipedia:Muscles_of_mastication] xref: FMA:74060 xref: GAID:145 xref: MESH:A02.633.567.600 xref: SCTID:244769003 xref: UMLS:C0024890 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray781.png xref: ncithesaurus:Muscle_of_the_Mastication is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011648 ! jaw muscle relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: has_part UBERON:0001134 ! skeletal muscle tissue relationship: innervated_by UBERON:0000375 ! mandibular nerve [Term] id: UBERON:0003682 name: palatal muscle namespace: uberon def: "The muscles of the palate are the glossopalatine, palatoglossus, levator palati(ni), musculus uvulae, palatopharyngeus, and tensor palati(ni)." [MESH:A02.633.567.750, Wikipedia:Muscles_of_soft_palate_and_fauces] comment: Editor notes: consider extra class for fauces. AO notes: see also FMA:71438 synonym: "muscle of palate" EXACT [FMA:46726] synonym: "musculi palati mollis et faucium" EXACT LATIN [Wikipedia:Muscles_of_soft_palate_and_fauces] synonym: "palatal muscle" EXACT [FMA:46726] synonym: "palate muscle" EXACT [FMA:46726] synonym: "palatine muscle" EXACT [FMA:46726] xref: FMA:46726 xref: GAID:151 xref: MESH:A02.633.567.750 xref: SCTID:244794002 xref: SCTID:73711005 xref: UMLS:C0030213 xref: http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray1028.png xref: ncithesaurus:Palatal_Muscle is_a: UBERON:0002376 ! muscle of head relationship: innervated_by UBERON:0001759 ! vagus nerve [Term] id: UBERON:0003683 name: rotator cuff namespace: uberon def: "a group of muscles and their tendons that act to stabilize the shoulder. The four muscles of the rotator cuff are over half of the seven scapulohumeral muscles" [Wikipedia:Rotator_cuff] synonym: "musculotendinous cuff" EXACT [FMA:37018] synonym: "rotator cuff" EXACT [FMA:37018] synonym: "tendinous cuff" EXACT [FMA:37018] xref: FMA:37018 xref: GAID:160 xref: MESH:A02.633.567.912 xref: UMLS:C0085515 xref: ncithesaurus:Rotator_Cuff is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001467 ! shoulder [Term] id: UBERON:0003684 name: abdominal cavity namespace: uberon def: "body cavity of the human body (and animal bodies) that holds the bulk of the viscera. It is located below (or inferior to) the thoracic cavity, and above the pelvic cavity. It is a part of the abdominopelvic cavity. Organs of the abdominal cavity include the stomach, liver, gallbladder, spleen, pancreas, small intestine, kidneys, and large intestine. The abdominal cavity is lined with a protective membrane termed the peritoneum. The kidneys are located in the abdominal cavity behind the peritoneum, in the retroperitoneum. The viscera are also covered, in the front, with a layer of peritoneum called the greater omentum (or omental apron)." [Wikipedia:Abdominal_cavity] synonym: "cavitas abdominis" RELATED LATIN [GAID:17, Wikipedia:Abdominal_cavity] synonym: "cavity of abdominal compartment" EXACT [FMA:12266] synonym: "cavity of compartment of abdomen" EXACT [FMA:12266] synonym: "space of abdominal compartment" EXACT [FMA:12266] xref: EFO:0000213 xref: FMA:12266 xref: GAID:17 xref: MESH:A01.047.025 xref: OpenCyc:Mx4rvZR1TJwpEbGdrcN5Y29ycA xref: SCTID:361294009 xref: UMLS:C0230168 xref: galen:AbdominalCavity xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ee/Scheme_body_cavities-en.svg/200px-Scheme_body_cavities-en.svg.png xref: ncithesaurus:Abdominal_Cavity is_a: UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003685 name: cranial suture namespace: uberon def: "Fibrous joint in which the articulating bones or cartilages of the skull are connected by sutural ligaments (scant amount of collagenous dense connective tissue). Examples: sagittal suture, frontal suture." [FMA:71385, ISBN:3110148986, Wikipedia:Suture_(joint)] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cranium suture" EXACT [OBOL:automatic] synonym: "sutura" EXACT [] synonym: "suture" EXACT [FMA:71385] synonym: "suture joint of skull" EXACT [SCTID:244509003] synonym: "suture of cranium" EXACT [OBOL:automatic] xref: FMA:7493 xref: GAID:211 xref: MA:0001475 xref: MESH:A02.835.232.781.200 xref: SCTID:244509003 is_a: UBERON:0009198 ! craniofacial suture relationship: induced_by UBERON:0002363 ! dura mater intersection_of: UBERON:0002209 ! fibrous joint intersection_of: part_of UBERON:0003128 ! cranium [Term] id: UBERON:0003686 name: tooth socket namespace: uberon def: "Dental alveolus (plural, alveoli) are sockets in the jaws in which the roots of teeth are held in the alveolar process of maxilla with the periodontal ligament. The lay term for dental alveoli is tooth sockets. A joint that connect the roots of the teeth and the alveolus are called gomphosis (plural gomphoses). In mammals, tooth sockets are found in the maxilla and the mandible. [WP,unvetted]." [Wikipedia:Dental_alveolus] synonym: "alveolus dentali" RELATED [GAID:217] synonym: "alveolus dentalis" RELATED LATIN [GAID:217, Wikipedia:Dental_alveolus] synonym: "dental alveolus" EXACT [FMA:57490, GAID:217] xref: FMA:57490 xref: GAID:217 xref: MESH:A02.835.232.781.324.502.125.800 xref: SCTID:288323008 xref: UMLS:C0227130 xref: http://upload.wikimedia.org/wikipedia/commons/2/2e/Alveole_zahn.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2e/Alveole_zahn.jpg/200px-Alveole_zahn.jpg xref: ncithesaurus:Tooth_Socket is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0004103 ! alveolar ridge [Term] id: UBERON:0003687 name: foramen magnum namespace: uberon def: "In anatomy, in the occipital bone, the foramen magnum is one of the several oval or circular apertures in the base of the skull, through which the medulla oblongata (an extension of the spinal cord) enters and exits the skull vault. Apart from the transmission of the medulla oblongata and its membranes, the foramen magnum transmits the Spinal Accessory nerve, vertebral arteries, the anterior and posterior spinal arteries, the membrana tectoria and alar ligaments. [WP,unvetted]." [Wikipedia:Foramen_magnum] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0010826 xref: FMA:75306 xref: GAID:228 xref: MESH:A02.835.232.781.572.434 xref: OpenCyc:Mx4rwOm-FpwpEbGdrcN5Y29ycA xref: SCTID:244679008 xref: TAO:0002045 xref: UMLS:C0016519 xref: ZFA:0005387 xref: http://upload.wikimedia.org/wikipedia/commons/3/39/Gray130.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/39/Gray130.png/200px-Gray130.png xref: ncithesaurus:Foramen_Magnum is_a: UBERON:0005744 ! cranial conduit relationship: located_in UBERON:0001676 ! occipital bone property_value: external_definition "Foramen in the occipital region of neurocranium to allow passage of spinal cord.[TAO]" xsd:string [Term] id: UBERON:0003688 name: omentum namespace: uberon xref: EV:0100084 xref: FMA:14650 xref: GAID:23 xref: MESH:A01.047.025.600.573 xref: SCTID:362710002 xref: UMLS:C0028977 xref: galen:Omentum xref: ncithesaurus:Omentum is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001178 ! visceral peritoneum property_value: has_relational_adjective "omental" xsd:string [Term] id: UBERON:0003689 name: sella turcica namespace: uberon def: "The sella turcica is a saddle-shaped depression in the sphenoid bone at the base of the human skull. [WP,unvetted]." [Wikipedia:Sella_turcica] comment: Editor notes: for consistency with FMA we have a separate class for the cavity of the sella turcica synonym: "Turkey Chair" RELATED LATIN [Wikipedia:Sella_turcica] synonym: "suprasellar" RELATED [Wikipedia:Sella_turcica] synonym: "turkish saddle" RELATED [Wikipedia:Sella_turcica] xref: FMA:54709 xref: GAID:231 xref: MESH:A02.835.232.781.802.662 xref: SCTID:368554001 xref: UMLS:C0036609 xref: http://upload.wikimedia.org/wikipedia/commons/3/35/Gray145.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/35/Gray145.png/200px-Gray145.png xref: ncithesaurus:Sella_Turcica is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0009639 ! body of sphenoid [Term] id: UBERON:0003690 name: sacrum namespace: uberon def: "The sacrum is a large, triangular bone at the base of the spine and at the upper and back part of the pelvic cavity, where it is inserted like a wedge between the two hip bones. Its upper part connects with the last lumbar vertebra, and bottom part with the coccyx (tailbone). In children, it consists of usually five unfused vertebrae which begin to fuse between ages 16-18 and are usually completely fused into a single bone by age 26. It is curved upon itself and placed obliquely (that is, tilted forward). It is kyphotic b that is, concave facing forwards. The base projects forward as the sacral promontory internally, and articulates with the last lumbar vertebra to form the prominent sacrovertebral angle. The central part is curved outward towards the posterior, allowing greater room for the pelvic cavity. [WP,unvetted]." [Wikipedia:Sacrum] synonym: "os sacrum" RELATED LATIN [Wikipedia:Sacrum] synonym: "os sacrum [vertebrae sacrales i - v]" EXACT LATIN [FMA:16202, FMA:TA] synonym: "sacral bone" RELATED [FMA:16202] synonym: "sacrum [sacral vertebrae I-V]" EXACT [FMA:16202] synonym: "sacrum [sacral vertebrae i - v]" EXACT [FMA:16202] xref: AAO:0000552 xref: EFO:0003071 xref: FMA:16202 xref: GAID:241 xref: MESH:A02.835.232.834.717 xref: OpenCyc:Mx4rvmBKnJwpEbGdrcN5Y29ycA xref: SCTID:264186006 xref: galen:Sacrum xref: http://upload.wikimedia.org/wikipedia/commons/e/ec/Gray95.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/e/ec/Gray95.png/200px-Gray95.png xref: ncithesaurus:Sacrum is_a: UBERON:0003828 ! abdominal segment bone is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005179 ! pelvis organ is_a: UBERON:0008001 ! irregular bone relationship: has_fused_element UBERON:0001094 ! sacral vertebra relationship: part_of UBERON:0001130 ! vertebral column relationship: part_of UBERON:0001270 ! bony pelvis relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0005473 ! sacral region property_value: external_definition "Enlarged vertebra with transverse processes (diapophyses), and ocassionally ribs, that are modified and elaborated for support of the pelvic girdle.[AAO]" xsd:string property_value: has_relational_adjective "sacral" xsd:string [Term] id: UBERON:0003691 name: epidural space namespace: uberon synonym: "extradural space" EXACT [FMA:71228] synonym: "spatium extradurale" EXACT LATIN [FMA:71228, FMA:TA] xref: FMA:71228 xref: GAID:243 xref: MESH:A02.835.232.834.803.350 xref: SCTID:281866004 is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0003692 name: acromioclavicular joint namespace: uberon def: "The gliding joint formed by the outer extremity of the clavicle and the inner margin of the acromion process of the scapula." [MESH:A02.835.583.032, Wikipedia:Acromioclavicular_joint] synonym: "acromioclavicular articulation" RELATED [Wikipedia:Acromioclavicular_joint] synonym: "articulatio acromioclavicularis" RELATED LATIN [Wikipedia:Acromioclavicular_joint] synonym: "scapuloclavicular articulation" RELATED [Wikipedia:Acromioclavicular_joint] xref: FMA:25898 xref: GAID:249 xref: MESH:A02.835.583.032 xref: OpenCyc:Mx4rwHhmSJwpEbGdrcN5Y29ycA xref: SCTID:182166001 xref: UMLS:C0001208 xref: http://upload.wikimedia.org/wikipedia/commons/3/3b/Gray326.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Gray326.png/200px-Gray326.png xref: ncithesaurus:Acromioclavicular_Joint is_a: UBERON:0011108 ! synovial joint of pectoral girdle relationship: part_of UBERON:0001467 ! shoulder intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0001105 ! clavicle intersection_of: connects UBERON:0006849 ! scapula [Term] id: UBERON:0003693 name: retroperitoneal space namespace: uberon def: "anatomical space in the abdominal cavity behind (retro) the peritoneum. It has no specific delineating anatomical structures. Organs are retroperitoneal if they only have peritoneum on their anterior side." [Wikipedia:Retroperitoneum] synonym: "retroperitoneum" EXACT [FMA:15080] xref: EFO:0002806 xref: FMA:15080 xref: GAID:25 xref: MESH:A01.047.025.750 xref: SCTID:243983004 xref: UMLS:C0035359 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/f/f2/Gray1126.png/200px-Gray1126.png xref: ncithesaurus:Retroperitoneum is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0003684 ! abdominal cavity property_value: has_relational_adjective "retroperitoneal" xsd:string [Term] id: UBERON:0003694 name: atlanto-axial joint namespace: uberon def: "The Atlanto-axial joint is of a complicated nature, comprising no fewer than four distinct joints. There is a pivot articulation between the odontoid process of the axis and the ring formed by the anterior arch and the transverse ligament of the atlas." [Wikipedia:Atlanto-axial_joint] synonym: "articulatio atlantoaxialis" RELATED [Wikipedia:Atlanto-axial_joint] synonym: "articulatio atlantoepistrophica" RELATED [Wikipedia:Atlanto-axial_joint] synonym: "atlanto axial joint" EXACT [GAID:250] synonym: "atlantoaxial" RELATED [Wikipedia:Atlanto-axial_joint] synonym: "atlantoaxial joint" EXACT [GAID:250] synonym: "lateral atlanto-axial joint" RELATED [Wikipedia:Atlanto-axial_joint] synonym: "median atlanto-axial joint" RELATED [Wikipedia:Atlanto-axial_joint] xref: FMA:25524 xref: GAID:250 xref: MESH:A02.835.583.097 xref: OpenCyc:Mx4rwUUIHpwpEbGdrcN5Y29ycA xref: SCTID:361832004 xref: UMLS:C0004168 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Gray304.png xref: ncithesaurus:Atlanto-axial_Joint is_a: UBERON:0000982 ! skeletal joint is_a: UBERON:0004120 ! mesoderm-derived structure relationship: connects UBERON:0001092 ! cervical vertebra 1 relationship: connects UBERON:0001093 ! cervical vertebra 2 relationship: part_of UBERON:0011138 ! post-cranial axial skeletal system [Term] id: UBERON:0003695 name: metacarpophalangeal joint namespace: uberon def: "The metacarpophalangeal joints (MCP) are of the condyloid kind, formed by the reception of the rounded heads of the metacarpal bones into shallow cavities on the proximal ends of the first phalanges, with the exception of that of the thumb, which presents more of the characters of a ginglymoid joint. Arthritis of the MCP is a distinguishing feature of Rheumatoid Arthritis, as opposed to the distal interphalangeal joint in osteoarthritis. [WP,unvetted]." [Wikipedia:Metacarpophalangeal_joint] comment: Editor notes: we follow FMA in making these joints part of digits. We include carpometacarpophalangeal joint as a synonym - these joints connect to the carpometacarpus - this is not necessarily inconsistent with the relationship for this class to metacarpal bone, as the carpometacarpus could be considered to have a metacarpal as part synonym: "MP joint" EXACT [FMA:35246] synonym: "articulationes metacarpophalangeae" RELATED LATIN [Wikipedia:Metacarpophalangeal_joint] synonym: "carpometacarpophalangeal joint" NARROW SENSU [NCBITaxon:8782] synonym: "metacarpal joint" BROAD [FMA:35246] synonym: "metacarpal phalangeal joint" RELATED [HP:0004294] synonym: "metacarpo-phalangeal joint" EXACT [MA:0000453] xref: EMAPA:19302 xref: FMA:35246 xref: GAID:255 xref: MA:0000453 xref: MESH:A02.835.583.345.512 xref: OpenCyc:Mx4rwNt8wJwpEbGdrcN5Y29ycA xref: SCTID:280995004 xref: UMLS:C0025525 xref: galen:MetacarpoPhalangealJoint xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray337.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/53/Gray337.png/200px-Gray337.png xref: ncithesaurus:Metacarpophalangeal_Joint is_a: UBERON:0001489 ! manus joint relationship: part_of UBERON:0002389 ! manual digit intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0002234 ! proximal phalanx of manus intersection_of: connects UBERON:0002374 ! metacarpal bone [Term] id: UBERON:0003696 name: metatarsophalangeal joint namespace: uberon def: "The metatarsophalangeal articulations are the joints between the metatarsal bones of the foot and the proximal bones of the toes . They are condyloid joints meaning an elliptical or rounded surface (of the metatarsal bones) come close to the shallow cavities (of the proximal phalanges). The ligaments are the plantar and two collateral." [Wikipedia:Metatarsophalangeal_articulations] comment: Editor notes: we follow FMA in making these joints part of digits synonym: "articulationes metatarsophalangeae" RELATED LATIN [Wikipedia:Metatarsophalangeal_articulations] synonym: "metatarsal joint" RELATED [FMA:35222] synonym: "metatarsalphalangeal joint" RELATED [Wikipedia:Metatarsophalangeal_articulations] synonym: "metatarsophalangeal" RELATED [Wikipedia:Metatarsophalangeal_articulations] synonym: "metatarsophalangeal articulation" RELATED [Wikipedia:Metatarsophalangeal_articulations] xref: FMA:35222 xref: GAID:258 xref: MESH:A02.835.583.378.531 xref: OpenCyc:Mx4rwCtS0pwpEbGdrcN5Y29ycA xref: SCTID:239747005 xref: SCTID:302535003 xref: UMLS:C0025589 xref: galen:MetatarsoPhalangealJoint xref: http://upload.wikimedia.org/wikipedia/commons/9/9e/Gray268.png xref: ncithesaurus:Metatarsophalangeal_Joint is_a: UBERON:0001487 ! joint of pes relationship: part_of UBERON:0001466 ! pedal digit intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0001448 ! metatarsal bone intersection_of: connects UBERON:0003867 ! distal phalanx of pes [Term] id: UBERON:0003697 name: abdominal wall namespace: uberon def: "The abdominal wall represents the boundaries of the abdominal cavity. The abdominal wall is split into the posterior (back), lateral (sides) and anterior (front) walls. There is a common set of layers covering and forming all the walls: the deepest being the extraperitoneal fat, the parietal peritoneum, and a layer of fascia which has different names over where it covers (eg transversalis, psoas fascia). Superficial to these, but not present in the posterior wall are the three layers of muscle, the transversus abdominis (transverse abdominal muscle), the internal (obliquus internus) and the external oblique (obliquus externus)." [Wikipedia:Abdominal_wall] synonym: "layers of the abdominal wall" RELATED [Wikipedia:Abdominal_wall] synonym: "paries abdominalis" EXACT LATIN [Wikipedia:Abdominal_wall] synonym: "wall of abdomen" EXACT [FMA:259054] synonym: "wall of abdomen proper" EXACT [FMA:10429] xref: FMA:10429 xref: FMA:259054 xref: GAID:26 xref: MESH:A01.047.050 xref: SCTID:181613000 xref: UMLS:C0836916 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xref: ncithesaurus:Abdominal_Wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003698 name: subtalar joint namespace: uberon def: "A joint of the pes that connects the talus and the calcaneus." [UBERON:cjm, Wikipedia:Subtalar_joint] synonym: "articulatio subtalaris" EXACT LATIN [FMA:35198, FMA:TA] synonym: "articulatio talocalcanea" EXACT LATIN [FMA:35198, FMA:TA] synonym: "subtalar joint" EXACT [FMA:35198] synonym: "talocalcaneal articulation" RELATED [Wikipedia:Subtalar_joint] synonym: "talocalcaneal joint" RELATED [GAID:260] xref: FMA:35198 xref: GAID:260 xref: MESH:A02.835.583.378.831.780 xref: SCTID:182213007 xref: UMLS:C0038593 xref: http://upload.wikimedia.org/wikipedia/commons/a/a9/Subtalar_Joint.PNG xref: ncithesaurus:Subtalar_Joint is_a: UBERON:0008447 ! intertarsal joint relationship: part_of UBERON:0002387 ! pes intersection_of: UBERON:0002217 ! synovial joint intersection_of: connects UBERON:0001450 ! calcaneus intersection_of: connects UBERON:0002395 ! talus [Term] id: UBERON:0003699 name: pubic symphysis namespace: uberon def: "the firm fibrocartilaginous joint in the median plane between the two opposing surfaces of the pubic bones, which are united by an interpubic disc of fibrocartilage as well as the superior and arcuate pubic ligaments." [MP:0009575, Wikipedia:Pubic_symphysis] comment: In birds, the pubic symphysis is present only in the ostrich, and the two hip bones are usually widely separated, making it easier to lay large eggs - Romer, Alfred Sherwood; Parsons, Thomas S. (1977). The Vertebrate Body. Philadelphia, PA: Holt-Saunders International. pp. 188b192. ISBN 0-03-910284-X. subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "interpubic articulation" RELATED [Wikipedia:Pubic_symphysis] synonym: "symphisis pubis" RELATED [Wikipedia:Pubic_symphysis] synonym: "symphysis pubica, symphysis pubis" RELATED LATIN [Wikipedia:Pubic_symphysis] synonym: "symphysis pubis" EXACT [FMA:16950, Wikipedia:Pubic_symphysis] xref: AAO:0000769 xref: FMA:16950 xref: GAID:267 xref: MESH:A02.835.583.656 xref: OpenCyc:Mx4rwGw9npwpEbGdrcN5Y29ycA xref: SCTID:182200001 xref: UMLS:C0034015 xref: http://upload.wikimedia.org/wikipedia/commons/5/51/Gray321.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/51/Gray321.png/200px-Gray321.png xref: ncithesaurus:Pubic_Symphisis is_a: UBERON:0002216 ! symphysis relationship: connects UBERON:0011090 ! skeleton of right pelvic girdle relationship: connects UBERON:0011091 ! skeleton of left pelvic girdle relationship: part_of UBERON:0002355 ! pelvis property_value: external_definition "Medial attachment of the two halves of the pelvic girdle.[AAO]" xsd:string [Term] id: UBERON:0003700 name: temporomandibular joint namespace: uberon def: "A joint of the jaw that connects the mandible to a temporal bone. There are two TMJs, one on either side, working in unison. The unique feature of the TMJs is the articular disc. The disc is composed of fibrocartilagenous tissue (like the firm and flexible elastic cartilage of the ear) which is positioned between the two bones that form the joint. The TMJs are one of the only synovial joints in the human body with an articular disc, another being the sternoclavicular joint. The disc divides each joint into two. The lower joint compartment formed by the mandible and the articular disc is involved in rotational movement -- this is the initial movement of the jaw when the mouth opens. The upper joint compartment formed by the articular disk and the temporal bone is involved in translational movement -- this is the secondary gliding motion of the jaw as it is opened widely. The part of the mandible which mates to the under-surface of the disc is the condyle and the part of the temporal bone which mates to the upper surface of the disk is the glenoid (or mandibular) fossa[WP]." [Wikipedia:Temporomandibular_joint] synonym: "TMJ" EXACT [BTO:0003674, Wikipedia:Temporomandibular_joint] synonym: "articulatio temporomandibularis" RELATED LATIN [Wikipedia:Temporomandibular_joint] synonym: "dentary-squamosal joint" RELATED [http://palaeos.com/vertebrates/glossary/glossaryT.html] synonym: "squamosal-dentary joint" RELATED [http://palaeos.com/vertebrates/glossary/glossaryT.html] synonym: "tempero-mandibular joint" RELATED [Wikipedia:Temporomandibular_joint] synonym: "temperomandibular joint" EXACT [HP:0010754] synonym: "temporalmandibular joint" RELATED [Wikipedia:Temporomandibular_joint] synonym: "temporomandibular" RELATED [Wikipedia:Temporomandibular_joint] synonym: "temporomandibular articulation" RELATED [Wikipedia:Temporomandibular_joint] synonym: "temporomandibular joint" RELATED [Wikipedia:Temporomandibular_joint] xref: BTO:0003674 xref: EMAPA:19196 xref: FMA:54832 xref: GAID:272 xref: MA:0002899 xref: MESH:A02.835.583.861 xref: SCTID:181814009 xref: UMLS:C0039493 xref: http://upload.wikimedia.org/wikipedia/commons/a/a5/Gray309.png xref: ncithesaurus:Jaw_Joint is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011171 ! jaw joint relationship: develops_from UBERON:0011130 ! temporomandibular joint primordium relationship: in_lateral_side_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0001695 ! squamous part of temporal bone intersection_of: connects UBERON:0004742 ! dentary [Term] id: UBERON:0003701 name: calcaneal tendon namespace: uberon def: "The Achilles tendon is a tendon of the posterior leg. It serves to attach the plantaris, gastrocnemius (calf) and soleus muscles to the calcaneus (heel) bone." [Wikipedia:Achilles_tendon] comment: AO notes: in FMA this is a ligament, and part of the muscle synonym: "Achille's tendon" EXACT [] synonym: "Achilles tendon" EXACT [MA:0002993] synonym: "Achilles' tendon" EXACT [] synonym: "calcaneal tendon" EXACT [FMA:51061] synonym: "tendo Achillis" EXACT LATIN [Wikipedia:Achilles_tendon] synonym: "tendo calcaneus" EXACT LATIN [MA:0002993] xref: FMA:51061 xref: GAID:277 xref: MA:0002993 xref: MESH:A02.880.176 xref: OpenCyc:Mx4rvVjNX5wpEbGdrcN5Y29ycA xref: SCTID:181705009 xref: UMLS:C0001074 xref: http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg xref: ncithesaurus:Achilles_Tendon is_a: UBERON:0000043 ! tendon is_a: UBERON:0004270 ! lower leg connective tissue relationship: connects UBERON:0001383 ! muscle of leg relationship: part_of UBERON:0001665 ! triceps surae intersection_of: UBERON:0008846 ! skeletal ligament intersection_of: connects UBERON:0001450 ! calcaneus [Term] id: UBERON:0003702 name: inguinal canal namespace: uberon def: "The inguinal canal is a passage in the anterior (toward the front of the body) abdominal wall which in men conveys the spermatic cord + the ilioinguinal nerve and in women the round ligament + the ilioinguinal nerve. The inguinal canal is larger and more prominent in men. [WP,unvetted]." [Wikipedia:Inguinal_canal] synonym: "canalis inguinalis" RELATED LATIN [Wikipedia:Inguinal_canal] xref: EMAPA:19171 xref: EMAPA:26913 xref: FMA:19928 xref: GAID:28 xref: MESH:A01.047.412 xref: SCTID:243966008 xref: UMLS:C0021445 xref: http://upload.wikimedia.org/wikipedia/commons/b/b4/Gray1227.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b4/Gray1227.png/200px-Gray1227.png xref: ncithesaurus:Inguinal_Canal is_a: UBERON:0004111 ! anatomical conduit relationship: located_in UBERON:0003697 ! abdominal wall [Term] id: UBERON:0003703 name: extrahepatic bile duct namespace: uberon def: "Passages external to the liver for the conveyance of bile. These include the common bile duct and the common hepatic duct." [MESH:A03.159.183.079] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bile duct extrahepatic part" RELATED [MA:0002659] synonym: "extrahepatic biliary system" RELATED [GAID:281] xref: FMA:14678 xref: GAID:281 xref: MA:0002659 xref: MESH:A03.159.183.079 xref: SCTID:276158002 xref: UMLS:C0206187 xref: ncithesaurus:Extrahepatic_Bile_Duct is_a: UBERON:0002394 ! bile duct property_value: spatially_disjoint_from UBERON:0002107 [Term] id: UBERON:0003704 name: intrahepatic bile duct namespace: uberon def: "Passages within the liver for the conveyance of bile. Includes right and left hepatic ducts even though these may join outside the liver to form the common hepatic duct." [MESH:A03.159.183.158] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "bile duct intrahepatic part" EXACT [MA:0001630] synonym: "intrahepatic biliary system" RELATED [] xref: FMA:15766 xref: GAID:287 xref: MA:0001630 xref: MESH:A03.159.183.158 xref: SCTID:362193005 xref: TAO:0005169 xref: UMLS:C0005401 xref: ZFA:0005169 xref: ncithesaurus:Intrahepatic_Bile_Duct is_a: UBERON:0002394 ! bile duct relationship: part_of UBERON:0002107 ! liver intersection_of: UBERON:0002394 ! bile duct intersection_of: part_of UBERON:0002107 ! liver property_value: external_definition "Duct that collects bile from the bile ductules and connects to the extrahepatic bile duct.[TAO]" xsd:string [Term] id: UBERON:0003705 name: meckel's diverticulum namespace: uberon def: "a small bulge in the small intestine present at birth. It is a vestigial remnant of the omphalomesenteric duct" [Wikipedia:Meckel's_diverticulum] comment: AO notes: finding in ncit; GALT in chickens synonym: "diverticulum of meckel" EXACT [FMA:14967] synonym: "ileal diverticulum" EXACT [FMA:14967] synonym: "meckel diverticulum" RELATED [GAID:317] synonym: "meckel's diverticulum" EXACT [FMA:14967] synonym: "meckels diverticulum" RELATED [GAID:317] xref: FMA:14967 xref: GAID:317 xref: MESH:A03.492.411.620.484.612 xref: galen:MeckelsDiverticulum xref: ncithesaurus:Meckel_Diverticulum is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0006590 ! vestigial embryonic structure relationship: develops_from UBERON:0007105 ! vitelline duct relationship: part_of UBERON:0002116 ! ileum [Term] id: UBERON:0003706 name: vocal cord namespace: uberon def: "Either of two pairs of folds of mucous membrane projecting into the larynx." [Medical_Dictionary:http://medical-dictionary.thefreedictionary.com/] synonym: "Stimmband" RELATED [BTO:0005084] synonym: "Stimmlippe" RELATED [BTO:0005084] synonym: "plica vocalis" RELATED [BTO:0005084] synonym: "true vocal cord" EXACT [FMA:55457] synonym: "vocal band" RELATED [BTO:0005084] synonym: "vocal chord" RELATED [BTO:0005084] synonym: "vocal cord" EXACT [FMA:55457] synonym: "vocal fold" RELATED [GAID:344] xref: BTO:0005084 xref: EMAPA:19181 xref: FMA:55457 xref: GAID:344 xref: MESH:A04.329.364.737 xref: OpenCyc:Mx4rvVieepwpEbGdrcN5Y29ycA xref: SCTID:245504003 xref: UMLS:C0042930 xref: ncithesaurus:Vocal_Cord is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_function_in GO:0071625 ! vocalization behavior relationship: in_lateral_side_of UBERON:0002486 ! glottis relationship: part_of UBERON:0001737 ! larynx relationship: part_of UBERON:0002486 ! glottis [Term] id: UBERON:0003707 name: sinus of Valsalva namespace: uberon def: "one of the anatomic dilations of the ascending aorta, which occurs just above the aortic valve." [Wikipedia:Aortic_sinus] synonym: "Petit's sinus" RELATED [Wikipedia:Aortic_sinus] synonym: "Valsalva sinus" RELATED [GAID:472] synonym: "aortic sinus" RELATED [GAID:472] synonym: "sinus aorta" RELATED [Wikipedia:Aortic_sinus] synonym: "sinus aortae" RELATED LATIN [Wikipedia:Aortic_sinus] synonym: "sinus of Morgagni" RELATED [Wikipedia:Aortic_sinus] synonym: "sinus of Otto" RELATED [Wikipedia:Aortic_sinus] xref: EMAPA:18625 xref: FMA:3745 xref: GAID:472 xref: MESH:A07.231.114.056.847 xref: SCTID:277732004 xref: UMLS:C0503361 xref: http://upload.wikimedia.org/wikipedia/commons/5/54/Gray497.png xref: ncithesaurus:Sinus_of_Valsava is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0010172 ! bulb of aorta [Term] id: UBERON:0003708 name: carotid sinus namespace: uberon def: "In human anatomy, the carotid sinus is a localized dilation of the internal carotid artery at its origin, the common carotid artery bifurcation. A synonym for the carotid sinus is the carotid bulb. [WP,unvetted]." [Wikipedia:Carotid_sinus] synonym: "sinus caroticus" RELATED LATIN [Wikipedia:Carotid_sinus] xref: EMAPA:19320 xref: FMA:50094 xref: GAID:482 xref: MESH:A07.231.114.186.456 xref: SCTID:281137000 xref: http://upload.wikimedia.org/wikipedia/commons/9/9c/Gray513.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9c/Gray513.png/200px-Gray513.png is_a: UBERON:0001530 ! common carotid artery plus branches [Term] id: UBERON:0003709 name: circle of Willis namespace: uberon def: "a circle of arteries that supply blood to the brain. The Circle of Willis comprises the following arteries: Anterior cerebral artery (left and right); Anterior communicating artery; Internal carotid artery (left and right); Posterior cerebral artery (left and right); Posterior communicating artery (left and right).The basilar artery and middle cerebral arteries, supplying the brain, are also considered part of the circle" [Wikipedia:Circle_of_Willis] comment: In zebrafish, the circle of vessels comprised of the basal communicating artery (BCA) and posterior communicating segments (PCS) superficially resemble but are not homologous to the human circle of Willis[http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html]. Editor note: synonym: "Willis circle" RELATED [GAID:486] synonym: "arterial circle" BROAD [Wikipedia:Circle_of_Willis] synonym: "arterial circle of Willis" EXACT [] synonym: "cerebral arterial circle" RELATED [GAID:486] synonym: "circulus arteriosus cerebri" RELATED LATIN [Wikipedia:Circle_of_Willis] xref: EHDAA2:0000252 xref: EHDAA:9758 xref: FMA:50454 xref: GAID:486 xref: MESH:A07.231.114.228.351 xref: OpenCyc:Mx4rwSrCwJwpEbGdrcN5Y29ycA xref: SCTID:362047009 xref: http://upload.wikimedia.org/wikipedia/commons/2/2e/Circle_of_Willis_en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/2e/Circle_of_Willis_en.svg/200px-Circle_of_Willis_en.svg.png is_a: UBERON:0004573 ! systemic artery relationship: overlaps UBERON:0007142 ! left internal carotid artery relationship: overlaps UBERON:0007143 ! right internal carotid artery [Term] id: UBERON:0003710 name: vasa vasorum namespace: uberon def: "Nutrient blood vessels which supply the walls of large arteries or veins." [MESH:A07.231.836, http://en.wikipedia.org/wiki/Vasa_vasorum] comment: Taxon notes: The aorta of swine contains a vaso vasorum like humans - http://www.nal.usda.gov/awic/pubs/swine/swine.htm#art xref: FMA:77433 xref: GAID:526 xref: MESH:A07.231.836 xref: SCTID:7524009 xref: UMLS:C0042367 xref: ncithesaurus:Vasa_Vasorum is_a: UBERON:0001981 ! blood vessel [Term] id: UBERON:0003711 name: brachiocephalic vein namespace: uberon def: "The left and right brachiocephalic veins in the upper chest are formed by the union of each corresponding internal jugular vein and subclavian vein. This is at the level of the sternoclavicular joint. These great vessels merge to form the superior vena cava. The brachiocephalic veins are the major veins returning blood to the superior vena cava." [Wikipedia:Brachiocephalic_vein] synonym: "brachiocephalic venous tree" EXACT [FMA:4723] synonym: "innomiate vein" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "innominate trunk" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "innominate vein" EXACT [FMA:4723, GAID:529, Wikipedia:Brachiocephalic_vein] synonym: "innominate veins" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "vena brachiocephalica" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "vena brachiocephalica, venae anonymCB&" RELATED LATIN [Wikipedia:Brachiocephalic_vein] xref: EHDAA2:0000182 xref: EHDAA:9868 xref: FMA:4723 xref: GAID:529 xref: MESH:A07.231.908.130 xref: OpenCyc:Mx4rvz3aUJwpEbGdrcN5Y29ycA xref: SCTID:181371003 xref: UMLS:C0006095 xref: galen:BrachiocephalicVein xref: http://upload.wikimedia.org/wikipedia/commons/9/9e/Gray1174.png xref: ncithesaurus:Innominate_Vein is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0007204 ! brachiocephalic vasculature [Term] id: UBERON:0003712 name: cavernous sinus namespace: uberon def: "The cavernous sinus (or lateral sellar compartment), within the human head, is a large collection of thin-walled veins creating a cavity bordered by the temporal bone of the skull and the sphenoid bone, lateral to the sella turcica." [Wikipedia:Cavernous_sinus] synonym: "cavernous" RELATED [Wikipedia:Cavernous_sinus] synonym: "cavernous sinus syndrome" RELATED [Wikipedia:Cavernous_sinus] synonym: "cavernous sinuses" RELATED [Wikipedia:Cavernous_sinus] synonym: "cavernus sinus vein" RELATED [Wikipedia:Cavernous_sinus] synonym: "parasellar syndrome" RELATED [Wikipedia:Cavernous_sinus] synonym: "sinus cavernosus" RELATED [Wikipedia:Cavernous_sinus] xref: EMAPA:19059 xref: FMA:50772 xref: GAID:532 xref: MESH:A07.231.908.224.334 xref: OpenCyc:Mx4rwKAVGJwpEbGdrcN5Y29ycA xref: SCTID:244402005 xref: UMLS:C0007473 xref: ncithesaurus:Cavernous_Sinus is_a: UBERON:0005486 ! venous dural sinus property_value: external_definition "An irregularly shaped venous space in the dura mater at either side of the sphenoid bone[MESH:A07.231.908.224.334]." xsd:string [Term] id: UBERON:0003713 name: splenic vein namespace: uberon def: "In anatomy, the splenic vein (in the past called the lienal vein) is the blood vessel that drains blood from the spleen. It joins with the superior mesenteric vein, to form the hepatic portal vein and follows a course superior to the pancreas, alongside of the similarly named artery, the splenic artery. It collects branches from the stomach and pancreas and most notably from the large intestine, which is drained by the inferior mesenteric vein and joins with splenic vein shortly before it forms the portal vein. [WP,unvetted]." [Wikipedia:Splenic_vein] synonym: "lienal vein" RELATED [MA:0002164, Wikipedia:Splenic_vein] synonym: "vena lienalis" RELATED LATIN [Wikipedia:Splenic_vein] xref: FMA:14331 xref: GAID:541 xref: MA:0002164 xref: MESH:A07.231.908.670.730 xref: OpenCyc:Mx4rwCt0eZwpEbGdrcN5Y29ycA xref: SCTID:278029005 xref: UMLS:C0038001 xref: galen:SplenicVein xref: http://upload.wikimedia.org/wikipedia/commons/e/e4/Bilebladder.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/5b/Gray1189.png/200px-Gray1189.png xref: ncithesaurus:Splenic_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0003714 name: neural tissue namespace: uberon def: "Portion of tissue which consists of neurons, neuroglia and vasculature. Examples: Neural tissue of brain, neural tissue of peripheral ganglion, neural tissue of nerve[FMA]." [FMA:9642] comment: FMA definition includes vasculature synonym: "nerve tissue" EXACT [FMA:9642] synonym: "nervous tissue" EXACT [FMA:9642] synonym: "portion of neural tissue" EXACT [FMA:9642] xref: AAO:0000325 xref: AEO:0000123 xref: EHDAA2:0003123 xref: FMA:9642 xref: GAID:609 xref: MESH:A08.561 xref: OpenCyc:Mx4rVmfYCsQ_QdeM_bFAeS8NRQ xref: SCTID:91728009 xref: UMLS:C0027757 xref: ncithesaurus:Nervous_Tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system intersection_of: UBERON:0000479 ! tissue intersection_of: has_part CL:0000125 ! glial cell intersection_of: has_part CL:0000540 ! neuron disjoint_from: UBERON:0004755 ! skeletal tissue property_value: external_definition "One of the four types of tissue in traditional classifications. Cells forming the brain, spinal cord and peripheral nervous system.[AAO]" xsd:string [Term] id: UBERON:0003715 name: splanchnic nerve namespace: uberon def: "the major nerves supplying sympathetic innervation to the abdomen, including the greater, lesser, and lowest (or smallest) splanchnic nerves that are formed by preganglionic fibers from the spinal cord which pass through the paravertebral ganglia and then to the celiac ganglia and plexuses and the lumbar splanchnic nerves carry fibers which pass through the lumbar paravertebral ganglia to the mesenteric and hypogastric ganglia." [MP:0008318] xref: FMA:5883 xref: GAID:800 xref: MESH:A08.800.050.050.800 xref: SCTID:264198001 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: UBERON:0003716 name: recurrent laryngeal nerve namespace: uberon def: "A branch of the vagus nerve that supplies motor function and sensation to the larynx (voice box). It travels within the endoneurium. It is the nerve of the 6th Branchial Arch." [Wikipedia:Recurrent_laryngeal_nerve] synonym: "inferior laryngeal nerve" RELATED [GAID:804] synonym: "nervus laryngeus recurrens" EXACT LATIN [Wikipedia:Recurrent_laryngeal_nerve] synonym: "recurrent laryngeal nerve from vagus nerve" EXACT [] synonym: "recurrent nerve" BROAD [Wikipedia:Recurrent_laryngeal_nerve] synonym: "vagus X nerve recurrent laryngeal branch" EXACT [VHOG:0001347] xref: FMA:6246 xref: GAID:804 xref: MESH:A08.800.050.050.925.450.700 xref: SCTID:24227007 xref: VHOG:0001347 xref: http://en.wikipedia.org/wiki/File:Gray793.png is_a: UBERON:0002003 ! peripheral nerve relationship: branch_of UBERON:0001759 ! vagus nerve [Term] id: UBERON:0003718 name: muscle spindle namespace: uberon def: "the sensory organs in muscle that are involved in the stretch reflex." [MP:0004069] synonym: "muscle stretch receptor" RELATED [GAID:819] synonym: "neuromuscular spindle" EXACT [FMA:83607, GAID:819] xref: FMA:83607 xref: GAID:819 xref: MESH:A08.800.550.700.500.500 xref: SCTID:12945004 xref: UMLS:C0027871 xref: ncithesaurus:Muscle_Spindle is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0003719 name: Pacinian corpuscle namespace: uberon alt_id: UBERON:0003717 def: "any of the rapidly adapting mechanoreceptors found in subcutaneous tissue beneath both hairy and glabrous skin, and which normally contain an afferent nerve fiber surrounded by a capsule with multiple concentric layers." [MP:0000988, Wikipedia:Lamellar_corpuscle] comment: AO notes: FMA treats pacinia and G-M as distinct synonym: "Pacinian corpuscle" EXACT [Wikipedia:Lamellar_corpuscle] synonym: "corpuscle of golgi-mazzoni" EXACT [FMA:83609] synonym: "corpusculum lamellosum" EXACT LATIN [Wikipedia:Lamellar_corpuscle] synonym: "golgi mazzoni corpuscle" RELATED [GAID:817] synonym: "golgi-mazzoni" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "golgi-mazzoni corpuscle" EXACT [FMA:83609] synonym: "golgi-mazzoni corpuscles" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "lamellar corpuscle" EXACT [Wikipedia:Lamellar_corpuscle] synonym: "lamellated corpuscle" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "pacinian body" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "pacinian corpuscle" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "pacinian corpuscle end-organs" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "pacinian corpuscles" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "vater-pacini corpuscle" RELATED [Wikipedia:Pacinian_corpuscle] synonym: "vater-pacini corpuscles" RELATED [Wikipedia:Pacinian_corpuscle] xref: FMA:83604 xref: FMA:83609 xref: GAID:817 xref: GAID:820 xref: MESH:A08.800.550.700.500.300 xref: MESH:A08.800.550.700.500.700 xref: NIF_Subcellular:FMA_83604 xref: SCTID:37419002 xref: http://en.wikipedia.org/wiki/File:Gray935.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/52/Gray935.png/200px-Gray935.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0012449 ! mechanoreceptor relationship: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003720 name: anterior cranial fossa namespace: uberon def: "The floor of the anterior fossa is formed by the orbital plates of the frontal, the cribriform plate of the ethmoid, and the small wings and front part of the body of the sphenoid; it is limited behind by the posterior borders of the small wings of the sphenoid and by the anterior margin of the chiasmatic groove. The lesser wings of the sphenoid separate the anterior and middle fossae." [Wikipedia:Anterior_cranial_fossa] synonym: "anterior fossa" BROAD [] synonym: "fossa cranii anterior" RELATED LATIN [Wikipedia:Anterior_cranial_fossa] xref: FMA:9682 xref: GAID:83 xref: MESH:A01.456.830.150 xref: UMLS:C0230044 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray193.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/8/81/Gray193.png/200px-Gray193.png xref: ncithesaurus:Anterior_Fossa is_a: UBERON:0004704 ! bone fossa is_a: UBERON:0008789 ! cranial fossa relationship: part_of UBERON:0003128 ! cranium [Term] id: UBERON:0003721 name: lingual nerve namespace: uberon xref: FMA:53218 xref: GAID:835 xref: MESH:A08.800.800.120.760.500.450 xref: SCTID:280260006 is_a: UBERON:0001021 ! nerve relationship: branch_of UBERON:0000375 ! mandibular nerve [Term] id: UBERON:0003722 name: middle cranial fossa namespace: uberon def: "The compartment containing the anterior extremities and half the inferior surface of the temporal lobes (TEMPORAL LOBE) of the cerebral hemispheres. Lying posterior and inferior to the anterior cranial fossa (CRANIAL FOSSA, ANTERIOR), it is formed by part of the TEMPORAL BONE and SPHENOID BONE. It is separated from the posterior cranial fossa (CRANIAL FOSSA, POSTERIOR) by crests formed by the superior borders of the petrous parts of the temporal bones[MESH]. The middle fossa, deeper than the anterior cranial fossa, is narrow medially and widens laterally to the sides of the skull. It is separated from the posterior fossa by the clivus and the petrous crest. It is bounded in front by the posterior margins of the lesser wings of the sphenoid bone, the anterior clinoid processes, and the ridge forming the anterior margin of the chiasmatic groove; behind, by the superior angles of the petrous portions of the temporal bones and the dorsum sellC&; laterally by the temporal squamC&, sphenoidal angles of the parietals, and greater wings of the sphenoid. It is traversed by the squamosal, sphenoparietal, sphenosquamosal, and sphenopetrosal sutures[WP]." [MESH:A01.456.830.165, Wikipedia:Middle_cranial_fossa] synonym: "fossa cranii media" RELATED LATIN [Wikipedia:Middle_cranial_fossa] synonym: "middle fossa" BROAD [Wikipedia:Middle_cranial_fossa] xref: FMA:54369 xref: GAID:84 xref: MESH:A01.456.830.165 xref: UMLS:C0230045 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray193.png xref: ncithesaurus:Middle_Fossa is_a: UBERON:0004704 ! bone fossa is_a: UBERON:0008789 ! cranial fossa relationship: part_of UBERON:0003128 ! cranium [Term] id: UBERON:0003723 name: vestibular nerve namespace: uberon def: "The vestibular nerve is one of the two branches of the Vestibulocochlear nerve (the cochlear nerve being the other). It goes to the semicircular canals via the vestibular ganglion. It receives positional information. Axons of the vestibular nerve synapse in the vestibular nucleus on the lateral floor and wall of the fourth ventricle in the pons and medulla. It arises from bipolar cells in the vestibular ganglion, ganglion of Scarpa, which is situated in the upper part of the outer end of the internal auditory meatus. [WP,unvetted]." [Wikipedia:Vestibular_nerve] synonym: "nervus vestibularis" RELATED LATIN [Wikipedia:Vestibular_nerve] synonym: "scarpa ganglion" RELATED [GAID:840] synonym: "scarpa's ganglion" RELATED [GAID:840] synonym: "scarpas ganglion" RELATED [GAID:840] synonym: "vestibular root of acoustic nerve" EXACT [FMA:53401] synonym: "vestibular root of eighth cranial nerve" EXACT [FMA:53401] synonym: "vestibulocochlear VIII nerve vestibular component" EXACT [MA:0001111] xref: EHDAA2:0002200 xref: EHDAA:3749 xref: EMAPA:17803 xref: FMA:53401 xref: GAID:840 xref: MA:0001111 xref: MESH:A08.800.800.120.910.900 xref: OpenCyc:Mx4rvxAWX5wpEbGdrcN5Y29ycA xref: SCTID:362464003 xref: UMLS:C0042598 xref: VHOG:0001181 xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Vestibular_system%27s_semicircular_canal-_a_cross-section.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/65/Vestibular_system%27s_semicircular_canal-_a_cross-section.jpg/200px-Vestibular_system%27s_semicircular_canal-_a_cross-section.jpg xref: ncithesaurus:Vestibular_Nerve is_a: UBERON:0001785 ! cranial nerve relationship: branch_of UBERON:0001648 ! vestibulocochlear nerve [Term] id: UBERON:0003724 name: musculocutaneous nerve namespace: uberon def: "The musculocutaneous nerve arises from the lateral cord of the brachial plexus, opposite the lower border of the Pectoralis minor, its fibers being derived from C5, C6, C7. [WP,unvetted]." [Wikipedia:Musculocutaneous_nerve] synonym: "casserio's nerve" EXACT [FMA:37064] synonym: "nervus musculocutaneus" RELATED LATIN [Wikipedia:Musculocutaneous_nerve] xref: FMA:37064 xref: GAID:844 xref: MESH:A08.800.800.720.050.540 xref: OpenCyc:Mx4rvzp0l5wpEbGdrcN5Y29ycA xref: SCTID:181019000 xref: http://upload.wikimedia.org/wikipedia/commons/a/a7/Nerves_of_the_left_upper_extremity.gif xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/a7/Nerves_of_the_left_upper_extremity.gif/200px-Nerves_of_the_left_upper_extremity.gif is_a: UBERON:0002003 ! peripheral nerve [Term] id: UBERON:0003725 name: cervical plexus namespace: uberon def: "The cervical plexus is a plexus of the ventral rami of the first four cervical spinal nerves which are located from C1 to C5 cervical segment in the neck. They are located laterally to the transverse processes between prevertebral muscles from the medial side and vertebral from lateral side. Here there is anastomosis with accessory nerve, hypoglossal nerve and sympathetic trunk. It is located in the neck, deep to sternocleidomastoid. Nerves formed from the cervical plexus innervate the back of the head, as well as some neck muscles. The branches of the cervical plexus emerge from the posterior triangle at the nerve point, a point which lies midway on the posterior border of the Sternocleidomastoid[WP]." [Wikipedia:Cervical_plexus] synonym: "cervical nerve plexus" EXACT [FMA:5904] synonym: "cervical plexus" EXACT [FMA:5904] synonym: "plexus cervicalis" EXACT LATIN [FMA:5904, FMA:TA, Wikipedia:Cervical_plexus] xref: FMA:5904 xref: GAID:847 xref: MESH:A08.800.800.720.150 xref: OpenCyc:Mx4rvkEE3JwpEbGdrcN5Y29ycA xref: SCTID:181107005 xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Gray784.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/20/Gray784.png/200px-Gray784.png is_a: UBERON:0001813 ! somatic nerve plexus [Term] id: UBERON:0003726 name: thoracic nerve namespace: uberon def: "The twelve spinal nerves on each side of the thorax. They include eleven INTERCOSTAL NERVES and one subcostal nerve. Both sensory and motor, they supply the muscles and skin of the thoracic and abdominal walls." [MESH:A08.800.800.720.800] synonym: "pectoral nerve" RELATED [GAID:857] synonym: "thoracic spinal nerve" EXACT [FMA:5860] xref: FMA:5860 xref: GAID:857 xref: MESH:A08.800.800.720.800 xref: OpenCyc:Mx4rwSJp_ZwpEbGdrcN5Y29ycA xref: SCTID:360498003 is_a: UBERON:0001780 ! spinal nerve [Term] id: UBERON:0003727 name: intercostal nerve namespace: uberon def: "The intercostal nerves are the anterior divisions (rami anteriores; ventral divisions) of the thoracic spinal nerves from T1 to T11. Each nerve is connected with the adjoining ganglion of the sympathetic trunk by a gray and a white ramus communicans. The intercostal nerves are distributed chiefly to the thoracic pleura and abdominal peritoneum and differ from the anterior divisions of the other spinal nerves in that each pursues an independent course without plexus formation. The first two nerves supply fibers to the upper limb in addition to their thoracic branches; the next four are limited in their distribution to the parietes of the thorax; the lower five supply the parietes of the thorax and abdomen. The 7th intercostal nerve terminates at the xyphoid process, at the lower end of the sternum. The 10th intercostal nerve terminates at the umbilicus. The twelfth thoracic is distributed to the abdominal wall and groin. [WP,unvetted]." [Wikipedia:Intercostal_nerves] synonym: "anterior ramus of thoracic nerve" EXACT [FMA:6028] synonym: "anterior ramus of thoracic spinal nerve" EXACT [FMA:6028] synonym: "nervi intercostales" RELATED LATIN [Wikipedia:Intercostal_nerves] synonym: "ramus anterior, nervus thoracicus" EXACT [FMA:6028] synonym: "thoracic anterior ramus" EXACT [FMA:6028] synonym: "ventral ramus of thoracic spinal nerve" EXACT [FMA:6028] xref: EMAPA:18227 xref: FMA:6028 xref: GAID:858 xref: MESH:A08.800.800.720.800.350 xref: SCTID:279568001 xref: UMLS:C1285089 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Gray819.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b1/Gray819.png/200px-Gray819.png xref: ncithesaurus:Intercostal_Nerve is_a: UBERON:0001780 ! spinal nerve [Term] id: UBERON:0003728 name: mediastinum namespace: uberon def: "The mediastinum is a non-delineated group of structures in the thorax, surrounded by loose connective tissue. It is the central compartment of the thoracic cavity. It contains the heart, the great vessels of the heart, esophagus, trachea, phrenic nerve, cardiac nerve, thoracic duct, thymus, and lymph nodes of the central chest. The mediastinum lies between the right and left pleura in and near the median sagittal plane of the chest. It extends from the sternum in front to the vertebral column behind, and contains all the thoracic viscera except the lungs. It may be divided for purposes of description into two parts:an upper portion, above the upper level of the pericardium, which is named the superior mediastinum with its superior limit at the superior thoracic opening and its inferior limit at the plane from the sternal angle to the disc of T4-T5 (Plane of Ludwig at Angle of Louis); and a lower portion, below the upper level of the pericardium. This lower portion is again subdivided into three parts, viz. that in front of the pericardium, the anterior mediastinum; that containing the pericardium and its contents, the middle mediastinum; and that behind the pericardium, the posterior mediastinum. It is surrounded by the chest wall anteriorly, the lungs laterally and the spine posteriorly. It is continuous with the loose connective tissue of the neck, and extends inferiorly onto the diaphragm." [Wikipedia:Mediastinum] synonym: "mediastinal part of chest" EXACT [FMA:9826] xref: EFO:0003057 xref: FMA:9826 xref: GAID:94 xref: MESH:A01.911.800.500 xref: OpenCyc:Mx4rv2OKJ5wpEbGdrcN5Y29ycA xref: SCTID:181217005 xref: UMLS:C0025066 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Mediastinum.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/a/ab/Mediastinum.png/200px-Mediastinum.png xref: ncithesaurus:Mediastinum is_a: UBERON:0002224 ! thoracic cavity property_value: has_relational_adjective "mediastinal" xsd:string [Term] id: UBERON:0003729 name: mouth mucosa namespace: uberon def: "the mucous membrane epithelium of the mouth. It can be divided into three categories: masticatory, lining, and specialized." [Wikipedia:Oral_mucosa] comment: Usage notes: this is defined as any mucous membrane of the mouth - including palate, lips, uvula, etc. ncit split mouth/oral mucosa into lip and buccal. In future we may split into masticatory/keratinized (gingiva + hard palate) vs lining/non-keratinized (lips, cheeks, floor of mouth, soft palate). FMA distinguishes between mucosa of mouth and region of mouth (the latter including the buccal mucosa) synonym: "buccal mucosa" RELATED [GAID:951] synonym: "mouth mucosa" EXACT [FMA:59660] synonym: "mouth mucous membrane" EXACT [OBOL:accepted] synonym: "mouth organ mucosa" EXACT [OBOL:accepted] synonym: "mucosa of mouth" EXACT [OBOL:accepted] synonym: "mucosal lining of mouth" RELATED [MA:0002794] synonym: "mucous membrane of mouth" EXACT [FMA:59660] synonym: "oral mucosa" RELATED [GAID:951] synonym: "oral mucous membrane" EXACT [] synonym: "oral part of viscerocranial mucosa" EXACT [FMA:59660] synonym: "tunica mucosa oris" EXACT LATIN [FMA:59660, FMA:TA, Wikipedia:Oral_mucosa] xref: BTO:0002860 xref: FMA:59660 xref: GAID:951 xref: MA:0002794 xref: MESH:A10.615.550.599 xref: UMLS:C0026639 xref: ncithesaurus:Oral_Mucosa is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: continuous_with UBERON:0000355 ! pharyngeal mucosa relationship: continuous_with UBERON:0001458 ! skin of lip intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0003820 name: prostate bud namespace: uberon def: "A region of the fetal urogenital sinus epithelium destined to become the prostate[GO]." [GO:0060513] comment: AR activation releases instructive signals from UGM that acts on UGS epithelium (UGE) to stimulate cell proliferation, form prostate ductal progenitors (prostatic buds), and regulate cell adhesion dynamics to permit prostatic bud outgrowth. There are three phases of prostatic budding: (1) the specification phase, when instructive developmental cues define where buds will form in the UGS, (2) the initiation phase, when prostatic buds begin to form, and (3) the elongation phase, when proliferation, cell adhesion, and cell migration coordinate outgrowth of prostatic buds into UGM. Timing of prostatic bud formation and the quantity and pattern of buds that are formed in the UGS are strictly regulated [3, 4]. The position of prostatic buds as they emerge from the UGS in utero determines the arrangement of prostate ducts in adulthood.[PMID:18977204] synonym: "prostate ductal progenitor" EXACT [PMID:18977204] synonym: "prostatic bud" EXACT [] is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005153 ! epithelial bud is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0009847 ! prostate field relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0003821 name: metapodium bone namespace: uberon def: "A bone of the metapodial skeleton" [UBERON:cjm] synonym: "metacarpal or metatarsal bone" EXACT [] synonym: "metacarpal/metatarsal" EXACT [] synonym: "metacarpal/metatarsal bone" EXACT [MA:0000301] synonym: "metapodi bone" EXACT [UBERON:cjm] synonym: "metapodial bone" EXACT [UBERON:cjm] synonym: "metapodium bone" EXACT [UBERON:cjm, http://en.wiktionary.org/wiki/metapodial] xref: MA:0000301 is_a: UBERON:0002495 ! long bone is_a: UBERON:0003606 ! limb long bone is_a: UBERON:0012357 ! digitopodium bone relationship: part_of UBERON:0010546 ! metapodial skeleton intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0009877 ! metapodium region [Term] id: UBERON:0003822 name: forelimb stylopod namespace: uberon def: "A stylopod that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] comment: WP states: anatomical usage, the term arm refers specifically to the segment between the shoulder and the elbow, while the segment between the elbow and wrist is the forearm. However, in common, literary, and historical usage, arm refers to the entire upper limb from shoulder to wrist. FMA uses the term Arm for this class, so we place it here. // comment: todo - check fore propodium in AAO // Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here synonym: "arm" RELATED INCONSISTENT [FMA:24890] synonym: "brachial region" EXACT [] synonym: "brachium" EXACT [VSAO:0005057] synonym: "fore propodium" EXACT [AAO:0000199] synonym: "forelimb propodium" EXACT [] synonym: "forelimb stylopodial element" EXACT [MA:th] synonym: "forelimb stylopodium" EXACT [OBOL:automatic] synonym: "proximal segment of free upper limb" EXACT [] synonym: "regio brachialis" EXACT LATIN [FMA:24890, FMA:TA] synonym: "stylopod of arm" EXACT [] synonym: "stylopod of forelimb" EXACT [] synonym: "upper arm" EXACT [MA:0000035] synonym: "wing stylopod" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: AAO:0000199 xref: EHDAA2:0002112 xref: EHDAA:4186 xref: EHDAA:6234 xref: EMAPA:17424 xref: FMA:24890 xref: MA:0000035 xref: MESH:A01.378.800.075 xref: OpenCyc:Mx4rvVj0Z5wpEbGdrcN5Y29ycA xref: SCTID:302538001 xref: UMLS:C0446516 xref: VHOG:0000343 xref: VSAO:0005057 xref: galen:Arm xref: ncithesaurus:Arm is_a: UBERON:0008785 ! upper limb segment relationship: part_of UBERON:0001460 ! arm intersection_of: UBERON:0002472 ! stylopod intersection_of: part_of UBERON:0002102 ! forelimb property_value: external_definition "Segment of the hindleg corresponding to the humerus.[AAO]" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0003823 name: hindlimb zeugopod namespace: uberon def: "The middle limb segment of the pelvic free limb, between the autopod and stylopod segments. Includes as parts the hindlimb zeugopodial skeleton, which includes as parts the tibia and fibula, or their cartilage precursors, or evolutionary variants." [PHENOSCAPE:curators, Wikipedia:Forearm] comment: note that FMA:24979 denotes the middle segment (zeugopod), its placement here is correct. See obo-anatomy archives for discussion // Naming conventions for pod terms under discussion within phenoscape group. TODO - add distinct term for skeleton and place AAO class here synonym: "calf" NARROW [] synonym: "calf of leg" EXACT [FMA:24984] synonym: "crus" EXACT [VSAO:0005060] synonym: "crus of hindlimb" EXACT [] synonym: "hind epipodium" RELATED INCONSISTENT [] synonym: "hind limb middle limb segment" EXACT [OBOL:automatic] synonym: "hind limb zeudopodium" EXACT [VHOG:0000348] synonym: "hind limb zeugopod" EXACT [OBOL:automatic] synonym: "hindlimb epipodium" EXACT [] synonym: "hindlimb middle limb segment" EXACT [OBOL:automatic] synonym: "hindlimb zeudopodium" EXACT [VHOG:0000348] synonym: "hindlimb zeugopod" EXACT [OBOL:automatic] synonym: "hindlimb zeugopodium" EXACT [OBOL:automatic] synonym: "hindlimb zygopod" EXACT [] synonym: "intermediate segment of free lower limb" EXACT [FMA:24979] synonym: "leg" RELATED INCONSISTENT [FMA:24979, MESH:A01.378.610.500] synonym: "lower extremity middle limb segment" EXACT [OBOL:automatic] synonym: "lower extremity zeugopod" EXACT [OBOL:automatic] synonym: "lower leg" EXACT [] synonym: "middle limb segment of hind limb" EXACT [OBOL:automatic] synonym: "middle limb segment of hindlimb" EXACT [UBERON:cjm] synonym: "posterior curral region" EXACT [FMA:24984] synonym: "posterior leg region" EXACT [FMA:24984] synonym: "posterior part of leg" EXACT [FMA:24984] synonym: "posterior region of leg" EXACT [FMA:24984] synonym: "regio cruris posterior" EXACT LATIN [FMA:24984, FMA:TA] synonym: "regio surae" EXACT LATIN [FMA:24984, FMA:TA] synonym: "shank" EXACT [VSAO:0005060] synonym: "sura" EXACT LATIN [FMA:24984, FMA:TA] synonym: "sural region" EXACT [FMA:24984] synonym: "zeugopod of hind limb" EXACT [OBOL:automatic] synonym: "zeugopod of hindlimb" EXACT [OBOL:automatic] xref: EFO:0003051 xref: EHDAA2:0001030 xref: EHDAA:5165 xref: EHDAA:6190 xref: EMAPA:17496 xref: FMA:24979 xref: FMA:24984 xref: MA:0000051 xref: MESH:A01.378.610.500 xref: OpenCyc:Mx4rvczZBpwpEbGdrcN5Y29ycA xref: SCTID:244015008 xref: UMLS:C1140621 xref: VHOG:0000348 xref: VSAO:0005060 xref: galen:Leg xref: ncithesaurus:Leg is_a: UBERON:0008784 ! lower limb segment relationship: part_of UBERON:0000978 ! leg intersection_of: UBERON:0002471 ! zeugopod intersection_of: part_of UBERON:0002103 ! hindlimb property_value: has_relational_adjective "sural" xsd:string property_value: homology_notes "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string [Term] id: UBERON:0003824 name: nerve of thoracic segment namespace: uberon def: "A nerve that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of thorax" EXACT [OBOL:automatic] synonym: "thoracic segment nerve" EXACT [MA:0000562] synonym: "thorax nerve" EXACT [OBOL:automatic] synonym: "upper body nerve" RELATED [MA:0000562] xref: MA:0000562 xref: MESH:A08.800.800.720.800 xref: SCTID:359876006 is_a: UBERON:0003439 ! nerve of trunk region intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003825 name: nerve of abdominal segment namespace: uberon def: "A nerve that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment nerve" EXACT [MA:0000528] xref: MA:0000528 is_a: UBERON:0003439 ! nerve of trunk region intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003826 name: upper leg bone namespace: uberon def: "A bone that is part of a hindlimb stylopod [Automatically generated definition]." [OBOL:automatic] xref: MA:0000682 is_a: UBERON:0005893 ! leg bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000376 ! hindlimb stylopod [Term] id: UBERON:0003827 name: thoracic segment bone namespace: uberon def: "A bone that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "bone of thorax" EXACT [OBOL:automatic] synonym: "bone organ of thorax" EXACT [OBOL:automatic] synonym: "thorax bone" EXACT [OBOL:automatic] synonym: "thorax bone organ" EXACT [OBOL:automatic] synonym: "upper body bone" RELATED [MA:0000559] xref: MA:0000559 xref: SCTID:426649006 is_a: UBERON:0003463 ! trunk bone is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003828 name: abdominal segment bone namespace: uberon def: "A bone that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk bone" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk bone organ" EXACT [OBOL:automatic] synonym: "bone of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "bone organ of abdominal segment of trunk" EXACT [OBOL:automatic] xref: MA:0000525 is_a: UBERON:0003463 ! trunk bone is_a: UBERON:0005173 ! abdominal segment organ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003829 name: urethra muscle namespace: uberon def: "A muscle organ that is part of a urethra [Automatically generated definition]." [OBOL:automatic] comment: AO notes: FMA class may not be equivalent synonym: "muscle layer of urethra" RELATED [FMA:76909] synonym: "muscle organ of urethra" EXACT [OBOL:automatic] synonym: "muscular coat of urethra" EXACT [FMA:76909] synonym: "muscular layer of urethra" EXACT [FMA:76909] synonym: "urethra muscle organ" EXACT [OBOL:automatic] synonym: "urethral muscle layer" RELATED [MA:0002649] xref: FMA:76909 xref: MA:0002649 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000057 ! urethra [Term] id: UBERON:0003830 name: thoracic segment muscle namespace: uberon def: "A muscle organ that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "muscle organ of thorax" EXACT [OBOL:automatic] synonym: "thorax muscle organ" EXACT [OBOL:automatic] synonym: "upper body muscle" RELATED [MA:0000561] xref: MA:0000561 is_a: UBERON:0001774 ! muscle of trunk is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003831 name: respiratory system muscle namespace: uberon def: "A muscle organ that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "muscle organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system muscle organ" EXACT [OBOL:automatic] xref: MA:0001828 intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003832 name: esophagus muscle namespace: uberon def: "A muscle organ that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] comment: Editor notes: merge muscle and muscle layer? synonym: "esophageal muscle" EXACT [] synonym: "esophagus muscle organ" EXACT [OBOL:automatic] synonym: "gullet muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of esophagus" EXACT [OBOL:automatic] synonym: "muscle organ of gullet" EXACT [OBOL:automatic] synonym: "muscle organ of oesophagus" EXACT [OBOL:automatic] synonym: "oesophagus muscle organ" EXACT [OBOL:automatic] xref: MA:0002682 xref: SCTID:360961009 is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001096 ! wall of esophagus intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0003833 name: abdominal segment muscle namespace: uberon def: "A muscle organ that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of abdominal segment of trunk" EXACT [OBOL:automatic] xref: MA:0000527 is_a: UBERON:0001774 ! muscle of trunk is_a: UBERON:0005173 ! abdominal segment organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003834 name: thoracic segment blood vessel namespace: uberon def: "A blood vessel that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of thorax" EXACT [OBOL:automatic] synonym: "thorax blood vessel" EXACT [OBOL:automatic] synonym: "upper body blood vessel" RELATED [MA:0000558] xref: MA:0000558 is_a: UBERON:0003513 ! trunk blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003835 name: abdominal segment blood vessel namespace: uberon def: "A blood vessel that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of abdominal segment of trunk" EXACT [OBOL:automatic] xref: MA:0000524 is_a: UBERON:0003513 ! trunk blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003836 name: abdominal segment skin namespace: uberon def: "A skin of body that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk skin" EXACT [OBOL:automatic] synonym: "skin of abdominal segment of trunk" EXACT [OBOL:automatic] xref: MA:0000530 is_a: UBERON:0001085 ! skin of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003837 name: thoracic segment connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of thorax" EXACT [OBOL:automatic] synonym: "thorax connective tissue" EXACT [OBOL:automatic] synonym: "thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "thorax textus connectivus" EXACT [OBOL:automatic] synonym: "upper body connective tissue" RELATED [MA:0000560] xref: MA:0000560 is_a: UBERON:0003586 ! trunk connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003838 name: abdominal segment connective tissue namespace: uberon def: "A portion of connective tissue that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk connective tissue" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of abdominal segment of trunk" EXACT [OBOL:automatic] xref: MA:0000526 is_a: UBERON:0003586 ! trunk connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003839 name: forelimb joint namespace: uberon def: "A limb joint that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb joint of limb" EXACT [OBOL:automatic] synonym: "anteriormost limb limb joint" EXACT [OBOL:automatic] synonym: "fore limb joint of limb" EXACT [OBOL:automatic] synonym: "fore limb limb joint" EXACT [OBOL:automatic] synonym: "forelimb joint of limb" EXACT [OBOL:automatic] synonym: "forelimb limb joint" EXACT [OBOL:automatic] synonym: "joint of limb of anteriormost limb" EXACT [OBOL:automatic] synonym: "joint of limb of fore limb" EXACT [OBOL:automatic] synonym: "joint of limb of forelimb" EXACT [OBOL:automatic] synonym: "joint of limb of superior member" EXACT [OBOL:automatic] synonym: "joint of limb of upper extremity" EXACT [OBOL:automatic] synonym: "limb joint of anteriormost limb" EXACT [OBOL:automatic] synonym: "limb joint of fore limb" EXACT [OBOL:automatic] synonym: "limb joint of forelimb" EXACT [OBOL:automatic] synonym: "limb joint of superior member" EXACT [OBOL:automatic] synonym: "limb joint of upper extremity" EXACT [OBOL:automatic] synonym: "superior member joint of limb" EXACT [OBOL:automatic] synonym: "superior member limb joint" EXACT [OBOL:automatic] synonym: "upper extremity joint of limb" EXACT [OBOL:automatic] synonym: "upper extremity limb joint" EXACT [OBOL:automatic] synonym: "wing joint" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: EMAPA:19204 xref: MA:0000614 is_a: UBERON:0003657 ! limb joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003840 name: hindlimb joint namespace: uberon def: "A limb joint that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "hind limb joint of limb" EXACT [OBOL:automatic] synonym: "hind limb limb joint" EXACT [OBOL:automatic] synonym: "hindlimb joint of limb" EXACT [OBOL:automatic] synonym: "hindlimb limb joint" EXACT [OBOL:automatic] synonym: "inferior member joint of limb" EXACT [OBOL:automatic] synonym: "inferior member limb joint" EXACT [OBOL:automatic] synonym: "joint of limb of hind limb" EXACT [OBOL:automatic] synonym: "joint of limb of hindlimb" EXACT [OBOL:automatic] synonym: "joint of limb of inferior member" EXACT [OBOL:automatic] synonym: "joint of limb of lower extremity" EXACT [OBOL:automatic] synonym: "joint of lower limb" EXACT [UBERON:cjm] synonym: "limb joint of hind limb" EXACT [OBOL:automatic] synonym: "limb joint of hindlimb" EXACT [OBOL:automatic] synonym: "limb joint of inferior member" EXACT [OBOL:automatic] synonym: "limb joint of lower extremity" EXACT [OBOL:automatic] synonym: "lower extremity joint of limb" EXACT [OBOL:automatic] synonym: "lower extremity limb joint" EXACT [OBOL:automatic] xref: MA:0000662 xref: SCTID:304573000 is_a: UBERON:0003657 ! limb joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003841 name: autopod joint namespace: uberon def: "A limb joint that is part of an autopod [Automatically generated definition]." [OBOL:automatic] synonym: "autopod joint of limb" EXACT [OBOL:automatic] synonym: "autopod limb joint" EXACT [OBOL:automatic] synonym: "distal free limb segment joint of limb" EXACT [OBOL:automatic] synonym: "distal free limb segment limb joint" EXACT [OBOL:automatic] synonym: "joint of limb of autopod" EXACT [OBOL:automatic] synonym: "joint of limb of distal free limb segment" EXACT [OBOL:automatic] synonym: "limb joint of autopod" EXACT [OBOL:automatic] synonym: "limb joint of distal free limb segment" EXACT [OBOL:automatic] synonym: "paw joint" RELATED [MA:0002715] xref: MA:0002715 is_a: UBERON:0003657 ! limb joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0002470 ! autopod region [Term] id: UBERON:0003842 name: neural tube lumen namespace: uberon alt_id: UBERON:0005713 def: "An anatomical space that surrounded_by a neural tube." [OBOL:automatic] comment: TODO - check synonym: "cavity of neural tube" EXACT [UBERON:cjm] synonym: "lumen of neural tube" EXACT [UBERON:cjm] synonym: "neural lumen" RELATED [EHDAA:2889] synonym: "neural tube neural lumen" EXACT [EHDAA2:0001269] synonym: "neurocoel" RELATED [VHOG:0001119] xref: AAO:0011073 xref: EHDAA2:0001269 xref: EHDAA:2889 xref: EHDAA:914 xref: EMAPA:16167 xref: EMAPA:16533 xref: VHOG:0001119 xref: XAO:0000252 is_a: UBERON:0005082 ! tube lumen intersection_of: UBERON:0000464 ! anatomical space intersection_of: surrounded_by UBERON:0001049 ! neural tube property_value: homology_notes "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003843 name: dental epithelium namespace: uberon def: "Epithelium that is part of a developing tooth or dental organ." [ZFA:0005134, https://sourceforge.net/tracker/?func=detail&aid=3556489&group_id=76834&atid=994726] comment: Editor notes: see comments for dentail organ. Development notes: In the developing molar dentition of the mouse, tooth inductive po- tential resides in the dental epithelium until embryonic day (E)12.5 (3). Thereafter, tooth inductive potential shifts to neural crest-derived dental mesenchyme, which acquires the ability to direct tooth formation in nonodontogenic tissues (3, 4)[PMID:10954731]. Editor notes: todo - full developmental relationships subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dental epithelia" EXACT PLURAL [ZFA:0005134] synonym: "dental epithelium" EXACT [ZFA:0005134] synonym: "odontogenic epithelium" EXACT [] synonym: "tooth epithelium" EXACT [] xref: AAO:0011027 xref: BTO:0001723 xref: TAO:0005134 xref: UMLS:C1709309 xref: VHOG:0001443 xref: XAO:0003203 xref: ZFA:0005134 xref: ncithesaurus:Odontogenic_Epithelial_Remnants is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0005176 ! tooth enamel organ intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0005176 ! tooth enamel organ [Term] id: UBERON:0003844 name: upper eyelid epithelium namespace: uberon def: "An epithelium that is part of a upper eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of superior eyelid" EXACT [OBOL:automatic] synonym: "epithelial tissue of upper eyelid" EXACT [OBOL:automatic] synonym: "epithelium of superior eyelid" EXACT [OBOL:automatic] synonym: "epithelium of upper eyelid" EXACT [OBOL:automatic] synonym: "superior eyelid epithelial tissue" EXACT [OBOL:automatic] synonym: "superior eyelid epithelium" EXACT [OBOL:automatic] synonym: "upper eyelid epithelial tissue" EXACT [OBOL:automatic] xref: EHDAA2:0002116 xref: EMAPA:17835 xref: VHOG:0000638 is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001712 ! upper eyelid [Term] id: UBERON:0003845 name: lower eyelid epithelium namespace: uberon def: "An epithelium that is part of a lower eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of inferior eyelid" EXACT [OBOL:automatic] synonym: "epithelial tissue of lower eyelid" EXACT [OBOL:automatic] synonym: "epithelium of inferior eyelid" EXACT [OBOL:automatic] synonym: "epithelium of lower eyelid" EXACT [OBOL:automatic] synonym: "inferior eyelid epithelial tissue" EXACT [OBOL:automatic] synonym: "inferior eyelid epithelium" EXACT [OBOL:automatic] synonym: "lower eyelid epithelial tissue" EXACT [OBOL:automatic] xref: EHDAA2:0001016 xref: EMAPA:17832 xref: VHOG:0000637 is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001713 ! lower eyelid [Term] id: UBERON:0003846 name: thymus epithelium namespace: uberon def: "the supporting framework of the thymus." [MP:0009544] synonym: "epithelial tissue of thymus" EXACT [OBOL:automatic] synonym: "epithelial tissue of thymus gland" EXACT [OBOL:automatic] synonym: "epithelium of thymus" EXACT [OBOL:automatic] synonym: "epithelium of thymus gland" EXACT [OBOL:automatic] synonym: "thymic epithelial tissue" EXACT [] synonym: "thymic epithelium" EXACT [BTO:0001836] synonym: "thymus epithelial tissue" EXACT [OBOL:automatic] synonym: "thymus gland epithelial tissue" EXACT [OBOL:automatic] synonym: "thymus gland epithelium" EXACT [OBOL:automatic] xref: BTO:0001836 xref: EHDAA2:0002019 xref: MA:0000768 xref: UMLS:C1711423 xref: VHOG:0001426 xref: ncithesaurus:Thymic_Epithelial_Tissue is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002370 ! thymus [Term] id: UBERON:0003847 name: thyroid artery namespace: uberon xref: AAO:0010490 xref: EHDAA2:0002029 xref: EHDAA:7372 xref: EMAPA:18622 xref: MA:0002066 xref: UMLS:C1711424 xref: VHOG:0001366 xref: ncithesaurus:Thyroid_Artery is_a: UBERON:0001637 ! artery property_value: axiom_lost_from_external_ontology "relationship loss: part_of external carotid (AAO:0010218)[AAO]" xsd:string property_value: external_definition "Part of the external carotid which supplies blood to the thyroid gland.[AAO]" xsd:string [Term] id: UBERON:0003848 name: gonadal vein namespace: uberon def: "In medicine, gonadal vein refers to the blood vessel that carrying blood away from the gonad (testis, ovary) toward the heart. Females : ovarian vein Males : testicular vein [WP,unvetted]." [Wikipedia:Gonadal_vein] synonym: "gonad vein" EXACT [OBOL:automatic] synonym: "gonada vein" EXACT [OBOL:automatic] synonym: "vein of gonad" EXACT [OBOL:automatic] synonym: "vein of gonada" EXACT [OBOL:automatic] xref: EHDAA2:0000719 xref: EHDAA:8703 xref: OpenCyc:Mx4rvlWYh5wpEbGdrcN5Y29ycA xref: SCTID:278192008 xref: VHOG:0001340 xref: http://upload.wikimedia.org/wikipedia/commons/d/da/Gray1120.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/d/da/Gray1120.png/200px-Gray1120.png intersection_of: UBERON:0001638 ! vein intersection_of: attaches_to UBERON:0000991 ! gonad [Term] id: UBERON:0003849 name: mesencephalic neural crest namespace: uberon def: "A neural crest that developmentally_contributes_to a midbrain." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "mesencephalic neural crest" EXACT [ZFA:0000935] synonym: "neural crest midbrain" EXACT [ZFA:0000935] xref: EFO:0003591 xref: EHDAA2:0001101 xref: EHDAA:360 xref: TAO:0000935 xref: VHOG:0000796 xref: ZFA:0000935 is_a: UBERON:0003099 ! cranial neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: developmentally_contributes_to UBERON:0001891 ! midbrain property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003850 name: telencephalon neural crest namespace: uberon def: "A neural crest that developmentally_contributes_to a telencephalon." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "neural crest telencephalon" EXACT [ZFA:0000812] xref: EFO:0003574 xref: RETIRED_EHDAA2:0001991 xref: TAO:0000812 xref: VHOG:0000799 xref: ZFA:0000812 intersection_of: UBERON:0002342 ! neural crest intersection_of: developmentally_contributes_to UBERON:0001893 ! telencephalon property_value: external_definition "Cranial neural crest that is part of the telencephalon.[TAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003851 name: diencephalon neural crest namespace: uberon def: "A neural crest that developmentally_contributes_to a diencephalon." [OBOL:automatic] synonym: "diencephalic neural crest" EXACT [ZFA:0000811] synonym: "future diencephalon neural crest" EXACT [EHDAA2:0000603] synonym: "neural crest diencephalon" EXACT [ZFA:0000811] synonym: "neural crest of future diencephalon" EXACT [EMAPA:16518] xref: EFO:0003573 xref: EHDAA2:0000603 xref: EMAPA:16518 xref: TAO:0000811 xref: VHOG:0000798 xref: ZFA:0000811 intersection_of: UBERON:0002342 ! neural crest intersection_of: developmentally_contributes_to UBERON:0001894 ! diencephalon property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003852 name: rhombencephalon neural crest namespace: uberon def: "A neural crest that developmentally_contributes_to a hindbrain." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "neural crest hindbrain" EXACT [ZFA:0007063] synonym: "rhombencephalic neural crest" EXACT [ZFA:0007063] xref: EHDAA2:0001628 xref: EHDAA:362 xref: TAO:0007063 xref: VHOG:0001210 xref: ZFA:0007063 intersection_of: UBERON:0002342 ! neural crest intersection_of: developmentally_contributes_to UBERON:0002028 ! hindbrain property_value: external_definition "Cranial neural crest that is part of the hindbrain.[TAO]" xsd:string property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0003853 name: spinal cord neural crest namespace: uberon def: "A neural crest that developmentally_contributes_to a spinal cord." [OBOL:automatic] synonym: "neural crest spinal cord" EXACT [VHOG:0001006] synonym: "spinal neural crest" RELATED [VHOG:0001006] xref: EHDAA:696 xref: EMAPA:16094 xref: EMAPA:16163 xref: EMAPA:16529 xref: EMAPA:16881 xref: VHOG:0001006 intersection_of: UBERON:0002342 ! neural crest intersection_of: developmentally_contributes_to UBERON:0002240 ! spinal cord property_value: homology_notes "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...)[well established][VHOG]" xsd:string [Term] id: UBERON:0003854 name: spinal cord neural plate namespace: uberon def: "A neural plate that develops_from a future spinal cord." [OBOL:automatic] synonym: "neural plate of spinal cord" EXACT [OBOL:automatic] xref: TAO:0007021 xref: VHOG:0000439 xref: ZFA:0007021 relationship: immediate_transformation_of UBERON:0006241 ! future spinal cord intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0006241 ! future spinal cord property_value: external_definition "Neural plate that is part of the spinal cord. [Bgee_curator][VHOG]" xsd:string property_value: homology_notes " (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG]" xsd:string [Term] id: UBERON:0003855 name: gonad mesenchyme namespace: uberon def: "Mesenchyme that is part of a gonad [Automatically generated definition]." [OBOL:automatic] synonym: "gonada mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of gonad" EXACT [OBOL:automatic] synonym: "mesenchyme of gonada" EXACT [OBOL:automatic] xref: EHDAA:5012 xref: EMAPA:16858 xref: EMAPA:17385 xref: VHOG:0001090 is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000991 ! gonad [Term] id: UBERON:0003856 name: odontogenic mesenchyme namespace: uberon def: "Mesenchyme that gives rise to an odontogenic papilla." [UBERON:cjm] comment: Editor notes: we follow ZFA in introducing an additional distinction between the dental papilla and the (uncondensed) mesenchyme. Note that in some species such as zebrafish teeth are not part of the mouth, and sharks have dermal denticles which share similar developmental origins with teeth. For now we assume a NC origin for all and add a taxon restriction to 1st arch mesenchyme subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dental mesenchyme" EXACT [ZFA:0005139] synonym: "dental organ mesenchyme" EXACT [OBOL:automatic] synonym: "enamel organ mesenchyme" EXACT [OBOL:automatic] synonym: "tooth enamel organ mesenchyme" EXACT [OBOL:automatic] synonym: "tooth mesenchyme" EXACT [OBOL:automatic] xref: TAO:0005139 xref: VHOG_RETIRED:0001444 xref: ZFA:0005139 is_a: UBERON:0005253 ! head mesenchyme is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest relationship: part_of UBERON:0005176 ! tooth enamel organ intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005176 ! tooth enamel organ property_value: external_definition "Mesenchyme enclosed by dental organ.[TAO]" xsd:string [Term] id: UBERON:0003857 name: upper eyelid mesenchyme namespace: uberon def: "Mesenchyme that is part of a upper eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyme of superior eyelid" EXACT [OBOL:automatic] synonym: "mesenchyme of upper eyelid" EXACT [OBOL:automatic] synonym: "superior eyelid mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0002117 xref: EHDAA:9051 xref: VHOG:0001093 is_a: UBERON:0010330 ! eyelid mesenchyme relationship: develops_from UBERON:0003314 ! eye mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001712 ! upper eyelid [Term] id: UBERON:0003858 name: lower eyelid mesenchyme namespace: uberon def: "Mesenchyme that is part of a lower eyelid [Automatically generated definition]." [OBOL:automatic] synonym: "inferior eyelid mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of inferior eyelid" EXACT [OBOL:automatic] synonym: "mesenchyme of lower eyelid" EXACT [OBOL:automatic] xref: EHDAA2:0001017 xref: EHDAA:9045 xref: VHOG:0001036 is_a: UBERON:0010330 ! eyelid mesenchyme relationship: develops_from UBERON:0000076 ! external ectoderm intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001713 ! lower eyelid [Term] id: UBERON:0003859 name: forelimb mesenchyme namespace: uberon def: "Mesenchyme that is part of a forelimb [Automatically generated definition]." [OBOL:automatic] synonym: "anteriormost limb mesenchyme" EXACT [OBOL:automatic] synonym: "fore limb mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of anteriormost limb" EXACT [OBOL:automatic] synonym: "mesenchyme of fore limb" EXACT [OBOL:automatic] synonym: "mesenchyme of forelimb" EXACT [OBOL:automatic] synonym: "mesenchyme of superior member" EXACT [OBOL:automatic] synonym: "mesenchyme of upper extremity" EXACT [OBOL:automatic] synonym: "superior member mesenchyme" EXACT [OBOL:automatic] synonym: "upper extremity mesenchyme" EXACT [OBOL:automatic] synonym: "wing mesenchyme" NARROW SENSU [Geisha:syn, NCBITaxon:8782, OBOL:automatic] xref: VHOG:0001109 is_a: UBERON:0009749 ! limb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0003860 name: hindlimb mesenchyme namespace: uberon def: "Mesenchyme that is part of a hindlimb [Automatically generated definition]." [OBOL:automatic] synonym: "hind limb mesenchyme" EXACT [OBOL:automatic] synonym: "inferior member mesenchyme" EXACT [OBOL:automatic] synonym: "lower extremity mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of hind limb" EXACT [OBOL:automatic] synonym: "mesenchyme of hindlimb" EXACT [OBOL:automatic] synonym: "mesenchyme of inferior member" EXACT [OBOL:automatic] synonym: "mesenchyme of lower extremity" EXACT [OBOL:automatic] xref: VHOG:0001074 is_a: UBERON:0009749 ! limb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0003861 name: neural arch namespace: uberon def: "posterior part of a vertebra that consists of a pair of pedicles and a pair of laminae, and supports seven processes: four articular processes, two transverse processes one spinous process[WP]. ZFA: A neural arch encloses the neural canal and typically meets its partner to form a neural spine. The neural arch can be a replacement ossification of the basidorsal cartilage or can form directly in membrane bone." [Wikipedia:Vertebral_arch] comment: Taxon notes: tiny neural arches present in Hagfish (which lack a true vertebraal column). subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "arcus vertebra" EXACT [Wikipedia:Vertebral_arch] synonym: "arcus vertebrae" EXACT PLURAL [Wikipedia:Vertebral_arch] synonym: "arcus vertebrae (vertebralis)" EXACT [FMA:11946] synonym: "dorsal arcocentrum" EXACT [ZFA:0001066] synonym: "vertebra dorsal arch" RELATED [MA:0001453] synonym: "vertebra neural arch" BROAD SENSU [MA:0001453] xref: AAO:0000725 xref: EFO:0003618 xref: FMA:11946 xref: MA:0001453 xref: OpenCyc:Mx4rwKYHvZwpEbGdrcN5Y29ycA xref: SCTID:317373001 xref: TAO:0001066 xref: UMLS:C0223076 xref: VHOG:0001670 xref: ZFA:0001066 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray82.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray82.png/200px-Gray82.png xref: ncithesaurus:Arch_of_the_Vertebra is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0010358 ! arch of centrum of vertebra relationship: develops_from UBERON:0006063 ! cartilaginous neural arch property_value: axiom_lost_from_external_ontology "relationship loss: develops_from basidorsal (TAO:0001060)[TAO]" xsd:string property_value: external_definition "A neural arch encloses the neural canal and typically meets its partner to form a neural spine. The neural arch can be a replacement ossification of the basidorsal cartilage or can form directly in membrane bone.[TAO]" xsd:string property_value: external_definition "Bony arch perched on the vertebral centrum; successive arches enclose the neural canal that surrounds and protects the spinal cord dorsally.[AAO]" xsd:string property_value: homology_notes " (...) certain common components [of vertebral structure] are found in nearly all vertebrate. A representative vertebra has a vertebral arch or neural arch, which extends dorsally around the spinal cord.[well established][VHOG]" xsd:string [Term] id: UBERON:0003862 name: pedal digit 4 phalanx namespace: uberon def: "A phalanx that is part of a foot digit 4 [Automatically generated definition]." [OBOL:automatic] synonym: "digit long bone of foot digit 4" EXACT [OBOL:automatic] synonym: "foot digit 4 digit long bone" EXACT [OBOL:automatic] synonym: "foot digit 4 long bone of digit" EXACT [OBOL:automatic] synonym: "foot digit 4 phalanx" EXACT SENSU [MA:0001384, NCBITaxon:9606, OBOL:accepted] synonym: "fourth toe phalanx" EXACT [FMA:32901] synonym: "hind limb digit 4 phalanx" EXACT [OBOL:accepted] synonym: "long bone of digit of foot digit 4" EXACT [OBOL:automatic] synonym: "phalanx of foot digit 4" EXACT [OBOL:automatic] synonym: "phalanx of fourth toe" EXACT [FMA:32901] xref: EMAPA:19130 xref: FMA:32901 xref: MA:0001384 xref: SCTID:361804008 xref: UMLS:C1708086 xref: ncithesaurus:Foot_Digit_4_Phalanx is_a: UBERON:0001449 ! phalanx of pes relationship: develops_from UBERON:0010683 ! pedal digit 4 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003634 ! pedal digit 4 [Term] id: UBERON:0003863 name: pedal digit 5 phalanx namespace: uberon def: "A phalanx that is part of a foot digit 5 [Automatically generated definition]." [OBOL:automatic] synonym: "digit long bone of foot digit 5" EXACT [OBOL:automatic] synonym: "foot digit 5 digit long bone" EXACT [OBOL:automatic] synonym: "foot digit 5 long bone of digit" EXACT [OBOL:automatic] synonym: "foot digit 5 phalanx" EXACT SENSU [MA:0001385, NCBITaxon:9606, OBOL:accepted] synonym: "hind limb digit 5 phalanx" EXACT [OBOL:accepted] synonym: "little toe phalanx" EXACT [FMA:32902] synonym: "long bone of digit of foot digit 5" EXACT [OBOL:automatic] synonym: "phalanx of fifth digit of foot" EXACT [FMA:32902] synonym: "phalanx of fifth toe" EXACT [FMA:32902] synonym: "phalanx of foot digit 5" EXACT [OBOL:automatic] synonym: "phalanx of little toe" EXACT [FMA:32902] xref: EMAPA:19132 xref: FMA:32902 xref: MA:0001385 xref: SCTID:361806005 xref: UMLS:C1708088 xref: ncithesaurus:Foot_Digit_5_Phalanx is_a: UBERON:0001449 ! phalanx of pes relationship: develops_from UBERON:0010684 ! pedal digit 5 phalanx cartilage condensation intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0003635 ! pedal digit 5 [Term] id: UBERON:0003864 name: middle phalanx of manus namespace: uberon def: "A middle phalanx that is part of a finger [Automatically generated definition]." [OBOL:automatic] synonym: "hand middle phalanx" EXACT [MA:0001394] synonym: "middle manual phalanx" EXACT [] synonym: "middle phalanx of finger" EXACT [FMA:75817] synonym: "middle phalanx of hand" EXACT [MA:0001394] synonym: "middle phalanx of manual digit" EXACT [] xref: FMA:75817 xref: MA:0001394 xref: SCTID:113223004 xref: SCTID:371230003 xref: UMLS:C0223828 xref: ncithesaurus:Middle_Phalanx_of_the_Hand is_a: UBERON:0001436 ! phalanx of manus relationship: distally_connected_to UBERON:0001436 ! phalanx of manus relationship: proximally_connected_to UBERON:0001436 ! phalanx of manus intersection_of: UBERON:0004301 ! middle phalanx intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003865 name: distal phalanx of manus namespace: uberon def: "A distal phalanx that is part of a finger [Automatically generated definition]." [OBOL:automatic] comment: This is typically proximally connected to the middle phalanx of manus, except in some cases such as the human thumb, where it connects to the proximal phalanx. It always connects to some phalanx, by definition synonym: "distal manual phalanx" EXACT [] synonym: "distal phalanx of finger" EXACT [FMA:75818] synonym: "distal phalanx of hand" EXACT [] synonym: "distal phalanx of manual digit" EXACT [] synonym: "hand distal phalanx" EXACT [MA:0001388] synonym: "terminal phalanx of hand" EXACT [UBERON:cjm] synonym: "ungual phalanx of hand" EXACT [http://www.medilexicon.com/medicaldictionary.php?t=67679] xref: FMA:75818 xref: MA:0001388 xref: SCTID:182001007 xref: SCTID:361782004 xref: UMLS:C1269782 xref: ncithesaurus:Distal_Phalanx_of_Hand is_a: UBERON:0001436 ! phalanx of manus relationship: part_of UBERON:0009552 ! distal segment of manual digit relationship: proximally_connected_to UBERON:0001436 ! phalanx of manus intersection_of: UBERON:0004300 ! distal phalanx intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0003866 name: middle phalanx of pes namespace: uberon def: "A middle phalanx that is part of a toe [Automatically generated definition]." [OBOL:automatic] synonym: "foot middle phalanx" EXACT [MA:0001386] synonym: "middle pedal phalanx" EXACT [] synonym: "middle phalanx of foot" EXACT [] synonym: "middle phalanx of toe" EXACT [FMA:75829] xref: FMA:75829 xref: MA:0001386 xref: SCTID:83207005 is_a: UBERON:0001449 ! phalanx of pes relationship: distally_connected_to UBERON:0001449 ! phalanx of pes relationship: proximally_connected_to UBERON:0001449 ! phalanx of pes intersection_of: UBERON:0004301 ! middle phalanx intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003867 name: distal phalanx of pes namespace: uberon def: "A distal phalanx that is part of a pedal digit [Automatically generated definition]." [OBOL:automatic] comment: This is typically proximally connected to the middle phalanx of pes, except in some cases such as the human big toe, where it connects to the proximal phalanx. It always connects to some phalanx, by definition synonym: "distal pedal phalanx" EXACT [] synonym: "distal phalanx of foot" EXACT [] synonym: "distal phalanx of toe" EXACT [FMA:75830] synonym: "foot distal phalanx" EXACT [MA:0001380] synonym: "terminal phalanx of foot" EXACT [UBERON:cjm] synonym: "terminal phalanx of hindlimb" EXACT [UBERON:cjm] synonym: "ungual phalanx of foot" EXACT [http://www.medilexicon.com/medicaldictionary.php?t=67679] synonym: "ungual phalanx of hindlimb" EXACT [http://www.medilexicon.com/medicaldictionary.php?t=67679] xref: FMA:75830 xref: MA:0001380 xref: SCTID:361797001 xref: UMLS:C0224026 xref: ncithesaurus:Distal_Phalanx_of_Foot is_a: UBERON:0001449 ! phalanx of pes relationship: part_of UBERON:0009553 ! distal segment of pedal digit relationship: proximally_connected_to UBERON:0001449 ! phalanx of pes intersection_of: UBERON:0004300 ! distal phalanx intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003868 name: proximal phalanx of pes namespace: uberon def: "A proximal phalanx that is part of a pedal digit [Automatically generated definition]." [OBOL:automatic] synonym: "foot proximal phalanx" EXACT [MA:0001387] synonym: "proximal pedal phalanx" EXACT [] synonym: "proximal phalanx of foot" EXACT [] synonym: "proximal phalanx of foot digit" EXACT [] synonym: "proximal phalanx of hind digit" EXACT [] synonym: "proximal phalanx of pes" EXACT [] synonym: "proximal phalanx of toe" EXACT [FMA:75828] xref: FMA:75828 xref: MA:0001387 xref: SCTID:85533000 xref: UMLS:C0224020 xref: ncithesaurus:Proximal_Phalanx_of_Foot is_a: UBERON:0001449 ! phalanx of pes relationship: proximally_connected_to UBERON:0001448 ! metatarsal bone intersection_of: UBERON:0004302 ! proximal phalanx intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0003869 name: presumptive ganglion namespace: uberon def: "A presumptive structure that develops_into a ganglion." [OBOL:automatic] intersection_of: UBERON:0006598 ! presumptive structure intersection_of: develops_into UBERON:0000045 ! ganglion [Term] id: UBERON:0003874 name: obsolete presumptive ventricle namespace: uberon is_obsolete: true [Term] id: UBERON:0003876 name: subdivision of hippocampus namespace: uberon comment: do not include ABA:HIP subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "hippocampus region" RELATED [MA:0002428] synonym: "hippocampus subdivision" EXACT [FMA:74041] synonym: "subdivision of hippocampus" EXACT [] xref: FMA:74041 xref: MA:0002428 xref: SCTID:361561007 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0001954 ! Ammon's horn [Term] id: UBERON:0003881 name: CA1 field of hippocampus namespace: uberon synonym: "CA1" EXACT [] synonym: "CA1 field" EXACT [] synonym: "CA1 field of Ammon's horn" EXACT [] synonym: "CA1 field of cornu ammonis" EXACT [] synonym: "CA1 field of hippocampus" EXACT [] synonym: "cornu ammonis 1" EXACT [NIF_GrossAnatomy:birnlex_1197] synonym: "hippocampus CA1" EXACT [] synonym: "prosubiculum = distal ca1" EXACT [NIF_GrossAnatomy:birnlex_1197] synonym: "regio i cornus ammonis" EXACT LATIN [FMA:74042, FMA:TA] synonym: "regio i hippocampi proprii" EXACT LATIN [FMA:74042, FMA:TA] synonym: "regio superior" EXACT [NIF_GrossAnatomy:birnlex_1197] synonym: "regio superior of the hippocampus" EXACT [FMA:74042] synonym: "region 1 of Ammon's horn" EXACT [] synonym: "region i of ammon's horn" EXACT [FMA:74042] synonym: "region i of hippocampus proper" EXACT [FMA:74042] xref: ABA:CA1 xref: EFO:0002454 xref: FMA:74042 xref: MA:0000950 xref: NIF_GrossAnatomy:birnlex_1197 xref: UMLS:C0694598 xref: ncithesaurus:CA1_Field_of_the_Cornu_Ammonis is_a: UBERON:0003876 ! subdivision of hippocampus property_value: spatially_disjoint_from UBERON:0003882 property_value: spatially_disjoint_from UBERON:0003883 [Term] id: UBERON:0003882 name: CA2 field of hippocampus namespace: uberon synonym: "CA2" EXACT [] synonym: "CA2 field" EXACT [] synonym: "CA2 field of Ammon's horn" EXACT [] synonym: "CA2 field of cornu ammonis" EXACT [] synonym: "CA2 field of hippocampus" EXACT [] synonym: "hippocampus CA2" EXACT [] synonym: "regio ii cornus ammonis" EXACT LATIN [FMA:74044, FMA:TA] synonym: "regio ii hippocampi proprii" EXACT LATIN [FMA:74044, FMA:TA] synonym: "region 2 of Ammon's horn" EXACT [] synonym: "region ii of ammon's horn" EXACT [FMA:74044] synonym: "region ii of hippocampus proper" EXACT [FMA:74044] xref: ABA:CA2 xref: EFO:0002455 xref: FMA:74044 xref: MA:0000951 xref: NIF_GrossAnatomy:birnlex_1362 xref: UMLS:C0694599 xref: ncithesaurus:CA2_Field_of_the_Cornu_Ammonis is_a: UBERON:0003876 ! subdivision of hippocampus property_value: spatially_disjoint_from UBERON:0003881 property_value: spatially_disjoint_from UBERON:0003883 [Term] id: UBERON:0003883 name: CA3 field of hippocampus namespace: uberon def: "Region III of hippocampus proper is a portion of the hippocampal formation. Region CA3 receives input along the mossy fibers from granule cells in the dentate gyrus (DG) and from projection cells in entorhinal cortex along the perforant path. The mossy fiber pathway terminates in stratum lucidum while the perforant path passes through stratum lacunosum and terminates in stratum moleculare. The inputs from the medial septum and diagonal band of Broca terminate in stratum radiatum, along with commisural connections from the contralateral hippocampus. The pyramidal cells in CA3 (of which there are approximately 200,000 in each hemisphere in the rat) send some axons back to the hilus, but the majority project to regions CA2 and CA1 (a pathway called the Schaffer collaterals), in addition to a significant number of connections that terminate within CA3 (called recurrent connections). Both the recurrent connections and the Schaffer collaterals terminate preferentially in the septal or dorsal direction from the originating cells. CA3 also sends a small set of output fibers to the lateral septum. The region is conventionally divided into 3 divisions. CA3a is the part of the cell band which is most distal from the dentate (and closest to CA1). CA3b is the middle part of the band nearest to the fimbria/fornix connection. CA3c is the most proximal to the dentate, inserting into the hilus. The region overall has been considered to be the 'pacemaker' of the hippocampus. In CA3 much of the synchronous bursing activity associated with interictal epileptiform activity appears to be generated. The excitatory collateral interconnectivity appears to be the property of CA3 most responsible for this. CA3, unlike other regions, has pyramidal cell axon collaterals ramifying extensively with local region and making excitatory contacts with neighbors. CA3 has been implicated in a number of working theories on memory and learning hippocampal processes. Oscillatory rhythms (10-30Hz) are cholinergically driven patterns that depend on coupling of interneurons and pyramidal cell axons via gap junctions as well as glutaminergic (excitatory) and GABAergic (inhibitory) synapses. Sharp EEG waves seen here are also implicated in memory consolidation." [Wikipedia:Region_III_of_hippocampus_proper] synonym: "CA3" EXACT [] synonym: "CA3 field" EXACT [] synonym: "CA3 field of Ammon's horn" EXACT [] synonym: "CA3 field of cornu ammonis" EXACT [] synonym: "CA3 field of hippocampus" EXACT [] synonym: "hippocampus CA3" EXACT [] synonym: "regio hippocampi proprii III; regio III cornus ammonis; CA3" RELATED LATIN [Wikipedia:Region_III_of_hippocampus_proper] synonym: "regio iii cornus ammonis" EXACT LATIN [FMA:74045, FMA:TA] synonym: "regio iii hippocampi proprii" EXACT LATIN [FMA:74045, FMA:TA] synonym: "regio inferior" EXACT [NIF_GrossAnatomy:birnlex_1204] synonym: "region 3 of Ammon's horn" EXACT [] synonym: "region iii of ammon's horn" EXACT [FMA:74045] synonym: "region iii of hippocampus proper" EXACT [FMA:74045] xref: ABA:CA3 xref: EFO:0002456 xref: FMA:74045 xref: MA:0000952 xref: NIF_GrossAnatomy:birnlex_1204 xref: UMLS:C0694600 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/HippocampalRegions.jpg xref: ncithesaurus:CA3_Field_of_the_Cornu_Ammonis is_a: UBERON:0003876 ! subdivision of hippocampus property_value: spatially_disjoint_from UBERON:0003881 property_value: spatially_disjoint_from UBERON:0003882 [Term] id: UBERON:0003884 name: CA4 field of hippocampus namespace: uberon comment: consider obsoleting. consider - CA3c, hilus synonym: "CA4" EXACT [] synonym: "CA4 field" EXACT [] synonym: "CA4 field of Ammon's horn" EXACT [] synonym: "CA4 field of cornu ammonis" EXACT [] synonym: "hippocampus CA4" EXACT [] synonym: "regio iv cornus ammonis" EXACT LATIN [FMA:75741, FMA:TA] synonym: "regio iv hippocampi proprii" EXACT LATIN [FMA:75741, FMA:TA] synonym: "region 4 of Ammon's horn" EXACT [] synonym: "region iv of ammon's horn" EXACT [FMA:75741] synonym: "region iv of hippocampus proper" EXACT [FMA:75741] xref: EFO:0002457 xref: FMA:75741 xref: MA:0000953 xref: UMLS:C2328406 xref: ncithesaurus:CA4_Field_of_the_Cornu_Ammonis is_a: UBERON:0003876 ! subdivision of hippocampus [Term] id: UBERON:0003885 name: mesometrium namespace: uberon def: "A mesentery that is part of a uterus [Automatically generated definition]." [OBOL:automatic] synonym: "mesentery of uterus" RELATED [FMA:19816, MA:0002931, http://www.vivo.colostate.edu/hbooks/pathphys/misc_topics/peritoneum.html] xref: FMA:19816 xref: MA:0002931 xref: SCTID:250172001 is_a: UBERON:0001297 ! serosa of uterus relationship: part_of UBERON:0000459 ! uterine wall relationship: part_of UBERON:0000995 ! uterus relationship: part_of UBERON:0012332 ! broad ligament of uterus intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0003886 name: body cavity precursor namespace: uberon def: "An anatomical cavity that develops_into a coelemic cavity lumen." [OBOL:automatic] subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: non_informative ! abstract class brought in to group ontology classes but not informative relationship: located_in UBERON:0000926 ! mesoderm intersection_of: UBERON:0000464 ! anatomical space intersection_of: develops_into UBERON:0002323 ! coelemic cavity lumen [Term] id: UBERON:0003887 name: intraembryonic coelom namespace: uberon def: "In the development of the human embryo the intraembryonic coelom (or somatic coelom) is a portion of the conceptus forming in the mesoderm. During the second week of development, the lateral mesoderm splits into a dorsal somatic mesoderm (somatopleure) and a ventral splanchnic mesoderm (splanchnopleure). The resulting cavity between the somatopleure and splanchnopleure is called the intraembryonic coelom. This space will give rise to the thoracic and abdominal cavities. It briefly has a connection with the extraembryonic coelom[WP]." [Wikipedia:Intraembryonic_coelom] comment: Editor notes: consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. Todo: check ZFA, which appears to be a structure present in adults synonym: "somatic coelom" EXACT [Wikipedia:Intraembryonic_coelom] xref: EHDAA:251 xref: EMAPA:16088 xref: UMLS:C1512940 xref: VHOG:0000316 xref: ncithesaurus:Intraembryonic_Coelom is_a: UBERON:0003886 ! body cavity precursor relationship: develops_from UBERON:0003081 ! lateral plate mesoderm property_value: homology_notes " (...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG]" xsd:string [Term] id: UBERON:0003888 name: extraembryonic coelom namespace: uberon def: "cavity between Heuser's membrane and the Trophoblast[WP]." [Wikipedia:Extraembryonic_coelom] synonym: "chorion cavity" EXACT [EHDAA2:0000246] synonym: "chorionic cavity" EXACT [EHDAA2:0000246] synonym: "exocoelomic cavity" EXACT [VHOG:0001671] synonym: "exocoelomic cavity " RELATED [VHOG:0001671] synonym: "extraembryonic celom" EXACT [FMA:63943] synonym: "extraembryonic coelomic cavity" RELATED [VHOG:0001671] xref: EHDAA2:0000246 xref: EHDAA:146 xref: EMAPA:16081 xref: FMA:63943 xref: SCTID:362843009 xref: UMLS:C1517055 xref: VHOG:0001671 xref: ncithesaurus:Extraembryonic_Coelom is_a: UBERON:0003886 ! body cavity precursor relationship: located_in UBERON:0012466 ! extraembryonic cavities [Term] id: UBERON:0003889 name: fallopian tube namespace: uberon def: "Two very fine tubes lined with ciliated epithelia, leading from the ovaries of female mammals into the uterus, via the utero-tubal junction[WP]. Embryos have two pairs of ducts to let gametes out of the body; one pair (the Mullerian ducts) develops in females into the Fallopian tubes, uterus and vagina, while the other pair (the Wolffian ducts) develops in males into the epididymis and vas deferens." [Wikipedia:Fallopian_tube] comment: http://en.wikipedia.org/wiki/Talk:Fallopian_tube#Homology subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "fallopian tubes" RELATED [] synonym: "female paramesonephric duct" RELATED [EHDAA2:0000504] synonym: "mammalian oviduct" EXACT [http://sourceforge.net/tracker/?func=detail&aid=3293337&group_id=36855&atid=440764] synonym: "salpinges" BROAD PLURAL [] synonym: "salpinx" BROAD [] synonym: "tuba uterina" RELATED LATIN [Wikipedia:Fallopian_tube] synonym: "uterine tube (sensu Mammalia)" EXACT [] xref: EFO:0000974 xref: EHDAA2:0000504 xref: EV:0100112 xref: FMA:18245 xref: GAID:365 xref: MA:0000385 xref: MESH:A05.360.319.114.373 xref: OpenCyc:Mx4rvViVeZwpEbGdrcN5Y29ycA xref: SCTID:181463001 xref: UMLS:C0015560 xref: galen:FallopianTube xref: http://upload.wikimedia.org/wikipedia/commons/6/68/Scheme_female_reproductive_system-en.svg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/6/68/Scheme_female_reproductive_system-en.svg/200px-Scheme_female_reproductive_system-en.svg.png xref: ncithesaurus:Fallopian_Tube is_a: UBERON:0005156 ! reproductive structure relationship: connects UBERON:0000992 ! female gonad relationship: connects UBERON:0000995 ! uterus relationship: in_lateral_side_of UBERON:0003975 ! internal female genitalia relationship: part_of UBERON:0002355 ! pelvis intersection_of: UBERON:0000025 ! tube intersection_of: develops_from UBERON:0003890 ! Mullerian duct intersection_of: part_of UBERON:0000993 ! oviduct [Term] id: UBERON:0003890 name: Mullerian duct namespace: uberon alt_id: UBERON:0005318 def: "paired ducts of the embryo that run down the lateral sides of the urogenital ridge and terminate at the mullerian eminence in the primitive urogenital sinus. In the female, they will develop to form the fallopian tubes, uterus, and the upper portion of the vagina; in the male, they are lost. These ducts are made of tissue of mesodermal origin[WP]. develops either by lengthwise splitting of the archinephric duct (in chondrichthyans and some amphibians) or by a elongated invagination of the coelomic epithelium (other vertebrates) In males, the oviducts regress. The cranial end of the oviduct maintains an opening into the coelom (which primitively may have been the anteriormost coelomic funnels connecting the nephrocoel with the coelom). This opening is the ostium tubae[USM]." [GO:0061205, Wikipedia:Paramesonephric_duct, http://www.usm.maine.edu/bio/courses/bio205/bio205_26_sex.html] comment: Development notes: Sertoli cells secrete anti-Mullerian hormone (AMH) inducing the demise of this duct synonym: "MC' shaped notch. The maxillary process forms the lateral wall and floor of the orbit, and in it are ossified the zygomatic bone and the greater part of the maxilla; it meets with the lateral nasal process, from which, however, it is separated for a time by a groove, the naso-optic furrow, that extends from the furrow encircling the eyeball to the olfactory pit. The maxillary processes ultimately fuse with the lateral nasal and globular processes, and form the lateral parts of the upper lip and the posterior boundaries of the nares. It is innervated by the maxillary nerve." [Wikipedia:Maxillary_prominence] synonym: "embryonic maxillary process" EXACT [] synonym: "maxillary process" EXACT [EHDAA2:0001070] synonym: "maxillary process of embryo" EXACT [] synonym: "prominentia maxilaris" RELATED LATIN [Wikipedia:Maxillary_prominence] xref: EHDAA2:0001070 xref: EHDAA:5877 xref: EMAPA:17359 xref: SCTID:346355001 xref: UMLS:C1513037 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray48.png xref: ncithesaurus:Maxillary_Prominence is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0007238 ! 1st arch maxillary component relationship: part_of UBERON:0000922 ! embryo disjoint_from: UBERON:0005869 ! maxillary process of inferior nasal concha [Term] id: UBERON:0005869 name: maxillary process of inferior nasal concha namespace: uberon def: "From the lower border of the inferior nasal concha, a thin lamina, the maxillary process, curves downward and lateralward; it articulates with the maxilla and forms a part of the medial wall of the maxillary sinus." [Wikipedia:Maxillary_process_of_inferior_nasal_concha] synonym: "maxillary process of inferior concha" EXACT [FMA:54741] synonym: "maxillary process of inferior nasal turbinate" EXACT [FMA:54741] synonym: "maxillary process of inferior turbinate" EXACT [FMA:54741] synonym: "maxilloturbinal" RELATED [palaeos.com/vertebrates/bones/braincase/ethmoid.html] synonym: "p. maxillaris conchae nasalis inferioris" RELATED LATIN [Wikipedia:Maxillary_process_of_inferior_nasal_concha] synonym: "processus maxillaris (concha nasalis inferior)" EXACT [FMA:54741] synonym: "processus maxillaris conchae nasalis inferioris" EXACT LATIN [FMA:54741, FMA:TA] xref: FMA:54741 xref: http://upload.wikimedia.org/wikipedia/commons/7/7c/Gray172.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004530 ! bony projection is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0005922 ! inferior nasal concha [Term] id: UBERON:0005870 name: olfactory pit namespace: uberon def: "An indentation of the olfactory placode which ends when the pits hollows out to form the nasopharynx[GO]." [GO:0060166, Wikipedia:Nasal_pit] comment: we represent the relationship as develops from, though in fact the pit is formed as an indentation in the placode synonym: "nasal pit" EXACT [XAO:0000275] xref: AAO:0011068 xref: EFO:0003496 xref: EHDAA2:0001295 xref: EHDAA:4772 xref: EMAPA:16800 xref: SCTID:361485001 xref: XAO:0000275 xref: XAO:0004073 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003050 ! olfactory placode relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "By the upgrowth of the surrounding parts the olfactory areas are converted into pits, the nasal pits or olfactory pits, which indent the fronto-nasal process and divide it into a medial and two lateral nasal processes[Wikipedia:Nasal_pit]." xsd:string [Term] id: UBERON:0005871 name: palatine process of maxilla namespace: uberon def: "The palatine process of the maxilla (palatal process), thick and strong, is horizontal and projects medialward from the nasal surface of the bone. It forms a considerable part of the floor of the nose and the roof of the mouth and is much thicker in front than behind. Its inferior surface is concave, rough and uneven, and forms, with the palatine process of the opposite bone, the anterior three-fourths of the hard palate. It is perforated by numerous foramina for the passage of the nutrient vessels; is channelled at the back part of its lateral border by a groove, sometimes a canal, for the transmission of the descending palatine vessels and the anterior palatine nerve from the spheno-palatine ganglion; and presents little depressions for the lodgement of the palatine glands. When the two maxillae are articulated, a funnel-shaped opening, the incisive foramen, is seen in the middle line, immediately behind the incisor teeth. In this opening the orifices of two lateral canals are visible; they are named the incisive canals or foramina of Stenson; through each of them passes the terminal branch of the descending palatine artery and the nasopalatine nerve. Occasionally two additional canals are present in the middle line; they are termed the foramina of Scarpa, and when present transmit the nasopalatine nerves, the left passing through the anterior, and the right through the posterior canal. On the under surface of the palatine process, a delicate linear suture, well seen in young skulls, may sometimes be noticed extending lateralward and forward on either side from the incisive foramen to the interval between the lateral incisor and the canine tooth. The small part in front of this suture constitutes the premaxilla (os incisivum), which in most vertebrates forms an independent bone; it includes the whole thickness of the alveolus, the corresponding part of the floor of the nose and the anterior nasal spine, and contains the sockets of the incisor teeth. The upper surface of the palatine process is concave from side to side, smooth, and forms the greater part of the floor of the nasal cavity. It presents, close to its medial margin, the upper orifice of the incisive canal. The lateral border of the process is incorporated with the rest of the bone. The medial border is thicker in front than behind, and is raised above into a ridge, the nasal crest, which, with the corresponding ridge of the opposite bone, forms a groove for the reception of the vomer. The front part of this ridge rises to a considerable height, and is named the incisor crest; it is prolonged forward into a sharp process, which forms, together with a similar process of the opposite bone, the anterior nasal spine. The posterior border is serrated for articulation with the horizontal part of the palatine bone." [Wikipedia:Palatine_process_of_maxilla] synonym: "palatal process" RELATED [Wikipedia:Palatine_process_of_maxilla] synonym: "palatine process" RELATED [Wikipedia:Palatine_process_of_maxilla] synonym: "processus palatinus (maxilla)" EXACT [FMA:52896] synonym: "processus palatinus maxillae" RELATED LATIN [Wikipedia:Palatine_process_of_maxilla] synonym: "processus palatinus ossis maxillae" RELATED LATIN [Wikipedia:Palatine_process_of_maxilla] xref: FMA:52896 xref: SCTID:368870009 xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Gray160.png is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004529 ! anatomical projection is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002397 ! maxilla relationship: part_of UBERON:0012074 ! bony part of hard palate [Term] id: UBERON:0005872 name: 1st arch pharyngeal cleft namespace: uberon def: "A groove that is situated between the 1st and 2nd pharyngeal arch." [VHOG:OG] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "1st arch branchial groove" EXACT [EHDAA2:0000008] synonym: "1st arch groove ectoderm" EXACT [EHDAA2:0000009] synonym: "1st pharyngeal cleft" RELATED [VHOG:0000969] synonym: "1st pharyngeal groove" EXACT [VHOG:0000969] synonym: "1st pharyngeal groove ectoderm" EXACT [VHOG:0000554] synonym: "branchial groove of 1st arch" EXACT [EMAPA:16119] xref: EHDAA2:0000009 xref: EHDAA:575 xref: EMAPA:16119 xref: VHOG:0000554 xref: VHOG:0000969 intersection_of: UBERON:0005879 ! pharyngeal cleft intersection_of: overlaps UBERON:0003066 ! pharyngeal arch 2 intersection_of: overlaps UBERON:0004362 ! pharyngeal arch 1 property_value: external_definition "A groove that is situated between the 1st and 2nd pharyngeal arch. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.70, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string property_value: homology_notes "In all jawed vertebrates the first arch forms the jaw, while the second arch forms the hyoid apparatus. These two arches are separated by the first pharyngeal pouch and cleft.[well established][VHOG]" xsd:string [Term] id: UBERON:0005873 name: 2nd arch pharyngeal cleft namespace: uberon def: "A groove that is situated between the 2nd and 3rd pharyngeal arch." [VHOG:OG] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "2nd arch branchial groove" EXACT [EHDAA2:0000054] synonym: "2nd arch groove ectoderm" EXACT [EHDAA2:0000057] synonym: "2nd pharyngeal cleft" RELATED [VHOG:0000972] synonym: "2nd pharyngeal groove" EXACT [VHOG:0000972] synonym: "2nd pharyngeal groove ectoderm" EXACT [VHOG:0000568] synonym: "branchial groove of 2nd arch" EXACT [EMAPA:16396] xref: EHDAA2:0000057 xref: EHDAA:613 xref: EMAPA:16396 xref: VHOG:0000568 xref: VHOG:0000972 intersection_of: UBERON:0005879 ! pharyngeal cleft intersection_of: overlaps UBERON:0003066 ! pharyngeal arch 2 intersection_of: overlaps UBERON:0003114 ! pharyngeal arch 3 property_value: external_definition "A groove that is situated between the 2nd and 3rd pharyngeal arch. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.70, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string [Term] id: UBERON:0005874 name: 3rd arch pharyngeal cleft namespace: uberon def: "A groove that is situated between the 3rd and 4th pharyngeal arch." [VHOG:OG] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "3rd arch branchial groove" EXACT [EHDAA2:0000071] synonym: "3rd arch groove ectoderm" EXACT [EHDAA2:0000074] synonym: "3rd pharyngeal cleft" RELATED [VHOG:0000973] synonym: "3rd pharyngeal groove" EXACT [VHOG:0000973] synonym: "3rd pharyngeal groove ectoderm" EXACT [VHOG:0000572] synonym: "branchial groove of 3rd arch" EXACT [EMAPA:16581] xref: EHDAA2:0000074 xref: EHDAA:1082 xref: EMAPA:16581 xref: VHOG:0000572 xref: VHOG:0000973 intersection_of: UBERON:0005879 ! pharyngeal cleft intersection_of: overlaps UBERON:0003114 ! pharyngeal arch 3 intersection_of: overlaps UBERON:0003115 ! pharyngeal arch 4 property_value: external_definition "A groove that is situated between the 3rd and 4th pharyngeal arch. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.70, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string [Term] id: UBERON:0005875 name: 4th arch pharyngeal cleft namespace: uberon def: "A groove that is situated between the 4th and 5th pharyngeal arch." [VHOG:OG] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "4th arch branchial groove" EXACT [RETIRED_EHDAA2:0000088] synonym: "4th arch pharyngeal groove ectoderm" EXACT [EHDAA2:0000089] synonym: "4th pharyngeal cleft" RELATED [VHOG:0000968] synonym: "4th pharyngeal groove" EXACT [VHOG:0000968] synonym: "4th pharyngeal groove ectoderm" EXACT [VHOG:0000577] synonym: "branchial groove of 4th arch" EXACT [EMAPA:16761] xref: EHDAA2:0000089 xref: EHDAA:1665 xref: EMAPA:16761 xref: EMAPA:16762 xref: RETIRED_EHDAA2:0000088 xref: VHOG:0000577 xref: VHOG:0000968 intersection_of: UBERON:0005879 ! pharyngeal cleft intersection_of: overlaps UBERON:0003115 ! pharyngeal arch 4 intersection_of: overlaps UBERON:0003116 ! pharyngeal arch 5 property_value: external_definition "A groove that is situated between the 4th and 5th pharyngeal arch. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.70, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string [Term] id: UBERON:0005876 name: undifferentiated genital tubercle namespace: uberon def: "A genital tubercle is a body of tissue present in the development of the urinary and reproductive organs. It forms in the ventral, caudal region of mammalian embryos of both sexes, and eventually develops into a phallus. In the human fetus the genital tubercle develops around week 4 of gestation, and by week 9 becomes recognizably either a clitoris or penis. This should not be confused with the sinus tubercle which is a proliferation of endoderm induced by paramesonephic ducts. Even after the phallus is developed, the term genital tubercle remains, but only as the terminal end of it[2], which develops into either the glans penis or the glans clitoridis. The genital tubercle is sensitive to dihydrotestosterone and rich in 5-alpha-reductase, so that the amount of fetal testosterone present after the second month is a major determinant of phallus size at birth.[WP]." [Wikipedia:Genital_tubercle] comment: Taxon notes: todo - add taxon constraints. AO notes: we assume the EMAPA class is the undifferentiated form based on TS timings synonym: "genital tubercle" RELATED [EMAPA:17382] synonym: "phallic tubercle" RELATED [] synonym: "tuberculum genitale" RELATED LATIN [Wikipedia:Genital_tubercle] synonym: "tuberculum phallicum" RELATED LATIN [Wikipedia:Genital_tubercle] synonym: "undifferentiated genital tubercle" EXACT [VHOG:0000583] xref: EHDAA2:0000705 xref: EHDAA:5925 xref: EMAPA:17382 xref: SCTID:308798005 xref: VHOG:0000583 xref: http://upload.wikimedia.org/wikipedia/commons/d/d6/Gray1119.png is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0009196 ! indifferent external genitalia property_value: external_definition "The eminence in the embryo which develops into the clitoris or penis. [TFD][VHOG]" xsd:string property_value: external_definition "embryonic anlage of the external genitalia, which emerges as paired swellings ventral to the cloacal membrane, is proposed to be derived from all three germ layers, and gives rise to the penis, clitoris, scrotum, labia, and foreskin; GT development is indistinguishable in male and female mouse embryos until ~E16, when the urethral plate begins to be masculinized to form the penile urethra, marking the beginning of an androgen-dependent phase of sexual differentiation[MP]" xsd:string property_value: homology_notes "In mammalian embryos, male and female external genitalia develop from the genital tubercle.[well established][VHOG]" xsd:string [Term] id: UBERON:0005879 name: pharyngeal cleft namespace: uberon def: "the counterpart of a branchial pouch on the ectodermal side. The first pharyngeal groove produces the external auditory meatus.[2] The rest (2, 3, and 4) are overlapped by the growing 2nd pharyngeal arch, and form the floor of the depression termed the cervical sinus, which opens ventrally, and finally obliterated[WP]." [Wikipedia:Pharyngeal_groove] comment: AO notes: some ontologies distringuish between cleft and cleft ectoderm, we merge these here. Editor notes: consider adding location (precursor) - i.e. external (ectodermal). Note we use overlaps as the relationship to the arches synonym: "Kiemenspalten" RELATED [] synonym: "branchial cleft" RELATED [Wikipedia:Pharyngeal_groove] synonym: "branchial groove" RELATED [AAO:0010623, Wikipedia:Pharyngeal_groove] synonym: "gill cleft" NARROW [] synonym: "pharyngeal groove" EXACT [Wikipedia:Pharyngeal_groove] synonym: "pharyngeal groove ectoderm" EXACT [UBERON:cjm] synonym: "sulcus pharyngei" RELATED LATIN [Wikipedia:Pharyngeal_groove] xref: AAO:0010623 xref: UMLS:C1280559 xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Kiemenbogen.jpg xref: ncithesaurus:Pharyngeal_Groove is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0006846 ! groove is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: overlaps UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0005880 name: prepollex namespace: uberon def: "A rudimentary additional digit-like structure on the preaxial side of the thumb of certain amphibians and mammals[dictionary.com]." [http://dictionary.com] comment: not homologous to digit 1 of tetrapods. Note we treat the prepollex as distinct from the digits, which are not part of the carpus synonym: "pseudothumb" RELATED [doi:10.1098/rsbl.2009.1038] is_a: UBERON:0005881 ! limb outgrowth is_a: UBERON:0008785 ! upper limb segment relationship: part_of UBERON:0004452 ! carpal region relationship: preaxial_part_of UBERON:0004452 ! carpal region property_value: external_definition "Two or more elements located ventral and medial to the metacarpal of digit II(I). The proximal prepollex is small and round whereas distal prepollex 1 is usually large and wedge-shaped. When more elements are present, they are smaller than previous elements.[AAO]" xsd:string [Term] id: UBERON:0005881 name: limb outgrowth namespace: uberon comment: encompasses digits and prepollex. requires review is_a: UBERON:0002529 ! limb segment [Term] id: UBERON:0005882 name: alar plate namespace: uberon def: "the mantle layer of the neural tube that lies dorsal to the sulcus limitans and contains primarily sensory neurons and interneurons involved in communication of sensory impulses." [MP:0009692, Wikipedia:Alar_plate] synonym: "alar lamina" RELATED [Wikipedia:Alar_lamina] synonym: "alar plate of neural tube" EXACT [] synonym: "dorsal part of neural tube" RELATED [] synonym: "lamina alaris" RELATED LATIN [Wikipedia:Alar_plate] synonym: "lamina dorsolateralis" RELATED LATIN [Wikipedia:Alar_plate] xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Gray646.png is_a: UBERON:0005423 ! developing anatomical structure relationship: dorsal_to UBERON:0005478 ! sulcus limitans of neural tube relationship: part_of UBERON:0004061 ! neural tube mantle layer [Term] id: UBERON:0005883 name: neural tube lateral wall mantle layer namespace: uberon comment: TODO - expand subtypes post EHDAA2-revision, check lateral wall xref: EHDAA2:0001261 is_a: UBERON:0004061 ! neural tube mantle layer relationship: part_of UBERON:0005496 ! neural tube lateral wall [Term] id: UBERON:0005884 name: hyoid arch skeleton namespace: uberon def: "A subdivision of skeleton that subdivision_of a pharyngeal arch 2." [OBOL:automatic] comment: AO notes: it's not clear where AAO:'hyobranchial skeleton' belongs synonym: "hyal@fr" RELATED [TAO:0001276] synonym: "hyocC/de@fr" RELATED [TAO:0001276] synonym: "hyoid arch" RELATED INCONSISTENT [TAO:0001276] synonym: "hyoid arch skeleton" EXACT [ZFA:0001276] synonym: "hyoid bars" NARROW [TAO:0001276] synonym: "pharyngeal arch 2 skeleton" EXACT [ZFA:0001276] synonym: "visceral arch 2" RELATED INCONSISTENT [TAO:0001276] xref: AAO:0000665 xref: AAO:0010370 xref: TAO:0001276 xref: XAO:0003177 xref: ZFA:0001276 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0003066 ! pharyngeal arch 2 relationship: part_of UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0011156 ! facial skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0003066 ! pharyngeal arch 2 [Term] id: UBERON:0005886 name: post-hyoid pharyngeal arch skeleton namespace: uberon def: "A subdivision of skeleton that subdivision_of a post-hyoid pharyngeal arch." [OBOL:automatic] comment: AO notes: XAO class belongs here, as it clearly refers to arches 3-7 synonym: "branchial arch skeleton" RELATED SENSU [XAO:0003180] synonym: "gill arch 1-5 skeleton" EXACT [TAO:0000095] synonym: "gill arch skeleton" RELATED [XAO:0003180] synonym: "pharyngeal arch 3-7 skeleton" EXACT [ZFA:0000095] synonym: "visceral arch skeleton" RELATED [XAO:0003180] xref: SCTID:346439007 xref: TAO:0000095 xref: XAO:0003180 xref: ZFA:0000095 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0008896 ! post-hyoid pharyngeal arch intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0008896 ! post-hyoid pharyngeal arch property_value: axiom_lost_from_external_ontology "relationship type change: subclass anatomical cluster (CARO:0000041) CHANGED TO: part_of anatomical cluster (UBERON:0000477)[TAO]" xsd:string property_value: external_definition "Skeletal and cartilage elements of the gill arches; the last five of the set of seven pharyngeal arches; the numbering system can be confusing; generally branchial arch #1 is the first gill arch, or the third pharyngeal arch, but some authors do not follow this convention. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0005889 name: zygote cortex namespace: uberon comment: Usage notes: candidate for obsoletion synonym: "cortex" BROAD [AAO:0010327, XAO:0000216] xref: AAO:0010327 xref: XAO:0000216 is_a: UBERON:0000470 ! cell part relationship: part_of CL:0000365 ! zygote [Term] id: UBERON:0005890 name: gonad germinal epithelium namespace: uberon synonym: "coelomic epithelium" RELATED [EMAPA:17384] synonym: "germinal epithelium" EXACT [RETIRED_EHDAA2:0000706] xref: BTO:0004524 xref: EMAPA:17384 xref: EV:0200046 xref: RETIRED_EHDAA2:0000706 xref: VHOG:0000629 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004909 ! epithelium of gonad is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0000991 ! gonad relationship: part_of UBERON:0005891 ! coelomic epithelium [Term] id: UBERON:0005891 name: coelomic epithelium namespace: uberon def: "The epithelial lining of the surface of the coelom." [Wikipedia:Coelomic_epithelium, XAO:0000329] comment: AO notes: EHDAA2:0004049 used to be called \"coelomic epithelium\" but is now \"gonadal ridge mesothelium\" synonym: "celomic epithelium" EXACT [] synonym: "germinal epithelium of Waldeyer" EXACT [Wikipedia:Coelomic_epithelium] xref: XAO:0000329 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0005291 ! embryonic tissue relationship: has_developmental_contribution_from UBERON:0004871 ! somatic layer of lateral plate mesoderm relationship: has_developmental_contribution_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: located_in UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0011997 ! coelom [Term] id: UBERON:0005892 name: mesonephric early distal tubule namespace: uberon def: "The mesonephric equivalent of the ascending limb, or straight distal segment, of metanephric nephrons." [XB:curator] synonym: "mesonephric ascending limb" RELATED [XAO:0000333] synonym: "mesonephric straight distal segment" RELATED [XAO:0000333] xref: AAO:0010391 xref: XAO:0000333 is_a: UBERON:0000083 ! mesonephric tubule relationship: develops_from UBERON:0005322 ! mesonephric nephron [Term] id: UBERON:0005893 name: leg bone namespace: uberon def: "A bone that is part of the region of the hindlimb that includes the zeugopod and stylopod. Examples: patella, femur, tibia. Counter-examples: any pes phalanx" [UBERON:cjm] subset: grouping_class ! Subset consisting of classes creating for grouping purposes xref: MA:0000670 xref: MESH:A02.835.232.500 is_a: UBERON:0003464 ! hindlimb bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000978 ! leg [Term] id: UBERON:0005894 name: locomotive weight-bearing appendage namespace: uberon def: "A leg is a limb on which an animal walks and stands (GO:0035110)." [GO:0035110, Wikipedia:Leg] comment: Functional grouping, currently encompasses vertebrate and insect legs. This class was originally introduced to support GO:0035110, but this has been obsoleted. subset: functional_classification ! functional_classification synonym: "leg" RELATED [] is_a: UBERON:0000026 ! appendage [Term] id: UBERON:0005895 name: insect leg namespace: uberon def: "The walking appendages of each segment of the ventral adult external thorax[FBbt]. A leg derived from an imaginal disc[GO]." [FBbt:00004640, GO:0007480] synonym: "imaginal disc-derived leg" EXACT [GO:0007480] xref: FBbt:00004640 xref: MAT:0000095 xref: MIAA:0000095 xref: TGMA:0000164 is_a: UBERON:0005894 ! locomotive weight-bearing appendage [Term] id: UBERON:0005896 name: jointed/prehensile appendage namespace: uberon def: "A jointed or prehensible appendage used for locomotion or manipulation. Examples: human arm, human leg, octopus tentacle, insect limb[Wikipedia]. A limb is an appendage of an animal used for locomotion or grasping. For example a leg, arm or some types of fin[GO]." [GO:0035108, Wikipedia:Limb_(anatomy)] is_obsolete: true consider: AEO:0000172 ! limb consider: ncithesaurus:Extremities comment: Usage notes: this class was originally introduced to account for the previously vague use of the term 'limb' in GO. synonym: "extremitaet" RELATED [BTO:0001492] synonym: "extremities" RELATED PLURAL [] synonym: "extremity" RELATED [] synonym: "limb" RELATED [AEO:0000172, BTO:0001492, GO:0035108] [Term] id: UBERON:0005897 name: manus bone namespace: uberon def: "A bone that is part of the manus skeleton. Note that this includes the carpal bones." [UBERON:cjm] synonym: "bone of hand" EXACT [] synonym: "bone of hand proper or wrist" EXACT [] synonym: "bone of hand skeleton" EXACT [] synonym: "bone of manus" EXACT [] synonym: "bone of pectoral limb autopod" EXACT [] synonym: "bone of pectoral limb autopodium" EXACT [] synonym: "forelimb autopod bone" EXACT [] synonym: "forelimb autopodium bone" EXACT [] synonym: "hand bone" EXACT [MA:0000619] xref: MA:0000619 xref: SCTID:426741001 is_a: UBERON:0008962 ! forelimb bone is_a: UBERON:0011250 ! autopod bone relationship: part_of UBERON:0001442 ! skeleton of manus intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002398 ! manus property_value: implements_design_pattern http://purl.obolibrary.org/obo/uberon/references/reference_0000015 [Term] id: UBERON:0005899 name: pes bone namespace: uberon def: "A bone that is part of the pes skeleton" [UBERON:cjm] synonym: "bone of foor proper or tarsal skeleton" EXACT [] synonym: "bone of foot" EXACT [] synonym: "bone of pedal skeleton" EXACT [] synonym: "bone of pes" EXACT [] synonym: "foot bone" EXACT [MA:0000643] xref: GAID:192 xref: MA:0000643 xref: MESH:A02.835.232.300 xref: OpenCyc:Mx4rv5ridZwpEbGdrcN5Y29ycA xref: SCTID:361371005 xref: UMLS:C0016505 xref: ncithesaurus:Foot_Bone is_a: UBERON:0003464 ! hindlimb bone is_a: UBERON:0011250 ! autopod bone relationship: part_of UBERON:0001445 ! skeleton of pes intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002387 ! pes property_value: implements_design_pattern http://purl.obolibrary.org/obo/uberon/references/reference_0000015 [Term] id: UBERON:0005902 name: occipital region namespace: uberon def: "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occipital condyles." [TAO:0001414, UBERONREF:0000007] comment: TODO - check synonym: "back of head" RELATED [FMA:49187] synonym: "basicranial region" EXACT [ZFA:0001414] synonym: "occipital part of head" EXACT [FMA:49187] synonym: "occipital region of head" EXACT [FMA:49187] xref: AAO:0010199 xref: FMA:49187 xref: SCTID:362618001 xref: TAO:0001414 xref: XAO:0003173 xref: ZFA:0001414 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0003128 ! cranium property_value: external_definition "An anatomical cluster that is located in the posterior region of the neurocranium and forms the margin of the foramen margin and occipital condyles.[AAO]" xsd:string property_value: external_definition "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occiptal condyle.[TAO]" xsd:string [Term] id: UBERON:0005903 name: duct of seminal vesicle namespace: uberon def: "Each seminal vesicle consists of a single tube, coiled upon itself, and giving off several irregular cecal diverticula; the separate coils, as well as the diverticula, are connected together by fibrous tissue. When uncoiled, the tube is about the diameter of a quill, and varies in length from 10 to 15 cm.; it ends posteriorly in a cul-de-sac; its anterior extremity becomes constricted into a narrow straight duct called the excretory duct of seminal gland (or duct of the seminal vesicle), which joins with the corresponding ductus deferens to form the ejaculatory duct[WP]." [Wikipedia:Excretory_duct_of_seminal_gland] synonym: "ductus excretorius (vesicula seminalis)" EXACT [FMA:19473] synonym: "ductus excretorius glandulae vesiculosae" EXACT LATIN [FMA:19473, FMA:TA, Wikipedia:Excretory_duct_of_seminal_gland] synonym: "excretory duct of seminal gland" EXACT [FMA:19473] synonym: "seminal vesicle duct" EXACT [FMA:19473] xref: EMAPA:29282 xref: FMA:19473 xref: SCTID:279675008 xref: http://upload.wikimedia.org/wikipedia/commons/9/97/Gray1160.png is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005904 ! duct of male reproductive system relationship: channel_for UBERON:0010143 ! seminal vesicle fluid relationship: channels_into UBERON:0000999 ! ejaculatory duct intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0000998 ! seminal vesicle [Term] id: UBERON:0005904 name: duct of male reproductive system namespace: uberon def: "A duct that is part of a male reproductive system." [OBOL:automatic] comment: groups the individual ducts in a variety of species subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0000079 ! male reproductive system [Term] id: UBERON:0005905 name: insect labrum namespace: uberon def: "A mouthpart of insects." [Wikipedia:Insect_mouthparts#Labrum] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology synonym: "insect labium" EXACT [BTO:0004104] synonym: "labium" RELATED [BTO:0004104] synonym: "labrum" RELATED [BTO:0004104] xref: BTO:0004104 xref: FBbt:00004522 xref: HAO:0000456 xref: TADS:0000039 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0005906 name: serous sac namespace: uberon def: "Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]" [FMA:9689] comment: See notes for serous membrane xref: FMA:9689 xref: SCTID:362890006 is_a: UBERON:0000062 ! organ relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity [Term] id: UBERON:0005908 name: conjunctival sac namespace: uberon def: "Serous sac, which has as parts the conjunctiva and the cavity of conjunctiva. Examples: There are only two conjunctival sacs, the right and the left.[FMA]" [FMA:20291] xref: EMAPA:18233 xref: FMA:20291 xref: SCTID:362531001 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005906 ! serous sac relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0001801 ! anterior segment of eyeball [Term] id: UBERON:0005910 name: transitional epithelium namespace: uberon def: "Multilaminar epithelium, which of consists of more than one layer of epithelial cells, in contact with a basement membrane, that can undergo distention and contraction without losing its integrity and consistency. Examples: urothelium.[FMA]" [FMA:63914, FMA:FMA, Wikipedia:Transitional_epithelium] comment: see comments for urothelium synonym: "epithelium transitionale" EXACT [FMA:63914] synonym: "urothelium" NARROW [EMAPA:28089, Wikipedia:Transitional_epithelium] xref: BTO:0003906 xref: FMA:63914 xref: MESH:A10.272.850 xref: SCTID:30117005 xref: UMLS:C0225339 xref: http://upload.wikimedia.org/wikipedia/commons/9/91/Harnblase_Urothel.png xref: ncithesaurus:Transitional_Epithelium is_a: UBERON:0000486 ! multilaminar epithelium is_a: UBERON:0005911 ! endo-epithelium [Term] id: UBERON:0005911 name: endo-epithelium namespace: uberon def: "Epithelium that derives from the endoderm. Examples: urothelium, transitional epithelium of ureter, epithelium of prostatic gland.[FMA]" [FMA:69065] xref: FMA:69065 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000925 ! endoderm [Term] id: UBERON:0005912 name: transitional epithelium of major calyx namespace: uberon def: "An urothelium of ureter that is part of a mucosa of major calyx." [OBOL:automatic] synonym: "urothelium of major calyx" EXACT [OBOL:automatic] xref: FMA:263266 is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0004788 ! kidney pelvis urothelium intersection_of: UBERON:0001254 ! urothelium of ureter intersection_of: part_of UBERON:0005007 ! mucosa of major calyx [Term] id: UBERON:0005913 name: zone of bone organ namespace: uberon synonym: "bone organ zone" EXACT [FMA:10483] xref: FMA:10483 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004765 ! skeletal element relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0005919 name: supreme nasal concha namespace: uberon def: "a thin bony plate occasionally found projecting from the inner wall of the ethmoid labyrinth, above the bony superior nasal concha, and the mucous membrane covering the plate." [http://medical-dictionary.thefreedictionary.com/supreme+nasal+concha] synonym: "concha nasi suprema" EXACT LATIN [FMA:57457, FMA:TA] synonym: "highest nasal concha" EXACT [FMA:57457] synonym: "supreme nasal turbinate" EXACT [FMA:57457] synonym: "supreme turbinate" EXACT [FMA:57457] xref: FMA:57457 xref: SCTID:361935003 is_a: UBERON:0003973 ! nasal concha of ethmoid bone [Term] id: UBERON:0005920 name: superior nasal concha namespace: uberon def: "The back part of the medial surface of the labyrinth of ethmoid is subdivided by a narrow oblique fissure, the superior meatus of the nose, bounded above by a thin, curved plate, the superior nasal concha. The bone found in superior nasal concha is part of the ethmoid bone." [Wikipedia:Superior_nasal_concha] synonym: "superior concha" RELATED [Wikipedia:Superior_nasal_concha] synonym: "superior nasal turbinate" EXACT [FMA:57458] synonym: "superior turbinate" EXACT [FMA:57458] xref: FMA:57458 xref: SCTID:361934004 xref: http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray151.png is_a: UBERON:0003973 ! nasal concha of ethmoid bone [Term] id: UBERON:0005921 name: middle nasal concha namespace: uberon def: "The medial surface of the labyrinth of ethmoid consists of a thin lamella, which descends from the under surface of the cribriform plate, and ends below in a free, convoluted margin, the middle nasal concha. It is rough, and marked above by numerous grooves, directed nearly vertically downward from the cribriform plate; they lodge branches of the olfactory nerves, which are distributed to the mucous membrane covering the superior nasal concha." [Wikipedia:Middle_nasal_concha] synonym: "middle concha" RELATED [Wikipedia:Middle_nasal_concha] synonym: "middle nasal turbinate" EXACT [FMA:57459] synonym: "middle turbinate" EXACT [FMA:57459] xref: FMA:57459 xref: SCTID:361933005 xref: http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray151.png is_a: UBERON:0003973 ! nasal concha of ethmoid bone [Term] id: UBERON:0005922 name: inferior nasal concha namespace: uberon def: "The inferior nasal concha (Inferior Turbinated Bone) is one of the turbinates in the nose. It extends horizontally along the lateral wall of the nasal cavity [Fig. 1] and consists of a of spongy bone, curled upon itself like a scroll. Each inferior nasal concha is considered a facial pair of bones since they arise from the maxillae bones and projects horizontally into the nasal cavity. They are also termed 'inferior nasal turbinates' because they function similar to that of a turbine. As the air passes through the turbinates, the air is churned against these mucosa-lined bones in order to receive warmth, moisture and cleansing. Superior to inferior nasal concha are the middle nasal concha and superior nasal concha which arise from the cranial portion of the skull. Hence, these two are considered as a part of the cranial bones. It has two surfaces, two borders, and two extremities." [Wikipedia:Inferior_nasal_concha] comment: note that in FMA this is not classified with the other turbinates. In Uberon we subdivide the turbinates into the ethmoturbinates and the inferior turbinate. TODO: check ethmoidal process of inferior nasal concha synonym: "concha nasi inferior, concha nasalis inferior" RELATED LATIN [Wikipedia:Inferior_nasal_concha] synonym: "inferior concha" RELATED [Wikipedia:Inferior_nasal_concha] synonym: "inferior nasal turbinate" EXACT [FMA:54736] synonym: "inferior nasal turbinate bone" EXACT [] synonym: "inferior turbinate" EXACT [FMA:54736] synonym: "inferior turbinated" RELATED [Wikipedia:Inferior_nasal_concha] xref: FMA:54736 xref: SCTID:361932000 xref: SCTID:362882006 xref: UMLS:C0225434 xref: http://upload.wikimedia.org/wikipedia/commons/6/62/Gray192.png xref: ncithesaurus:Inferior_Turbinate is_a: UBERON:0001762 ! nasal concha is_a: UBERON:0003462 ! facial bone is_a: UBERON:0008001 ! irregular bone is_a: UBERON:0011164 ! neurocranium bone relationship: connected_to UBERON:0001682 ! palatine bone relationship: connected_to UBERON:0002397 ! maxilla relationship: develops_from UBERON:0006332 ! nasal capsule relationship: in_lateral_side_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0005925 name: ethmoidal process of inferior nasal concha namespace: uberon def: "Behind the lacrimal process of the inferior nasal conchae lies a broad, thin plate, the ethmoidal process, which ascends to join the uncinate process of the ethmoid; from its lower border a thin lamina, the maxillary process, curves downward and lateralward; it articulates with the maxilla and forms a part of the medial wall of the maxillary sinus." [Wikipedia:Ethmoid_boneal_process_of_inferior_nasal_concha] synonym: "ethmoidal process of inferior concha" EXACT [FMA:54742] synonym: "ethmoidal process of inferior nasal turbinate" EXACT [FMA:54742] synonym: "ethmoidal process of inferior turbinate" EXACT [FMA:54742] synonym: "processus ethmoidalis (concha nasalis inferior)" EXACT [FMA:54742] synonym: "processus ethmoidalis conchae nasalis inferioris" EXACT LATIN [FMA:54742, FMA:TA, Wikipedia:Ethmoidal_process_of_inferior_nasal_concha] xref: FMA:54742 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004530 ! bony projection is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0005922 ! inferior nasal concha [Term] id: UBERON:0005928 name: external naris namespace: uberon def: "Surface structure that provides one of the small external openings of the head that give passage to air for breathing." [OMD:nostril, Wikipedia:Nostril] comment: Fish have two pairs of external nostrils. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "anterior nares" RELATED PLURAL [VHOG:0000544] synonym: "anterior naris" RELATED [ZFA:0001427] synonym: "blowhole" NARROW [Wikipedia:Blowhole_(anatomy)] synonym: "external nares" EXACT PLURAL [] synonym: "naris" BROAD [ZFA:0000550] synonym: "nostril" EXACT [FMA:59645, XAO:0003033] xref: AAO:0000024 xref: AAO:0000983 xref: AAO:0010358 xref: EHDAA2:0001275 xref: EHDAA:9085 xref: EMAPA:17848 xref: FMA:59645 xref: MA:0001320 xref: OpenCyc:Mx4rvViCLpwpEbGdrcN5Y29ycA xref: SCTID:276165005 xref: TAO:0000550 xref: UMLS:C0595944 xref: VHOG:0000544 xref: XAO:0003033 xref: ZFA:0000550 xref: ncithesaurus:Nostril is_a: UBERON:0000003 ! naris is_a: UBERON:0003102 ! surface structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_function_in GO:0007585 ! respiratory gaseous exchange relationship: part_of UBERON:0000004 ! olfactory apparatus property_value: axiom_lost_from_external_ontology "relationship loss: subclass nasal opening (AAO:0000316)[AAO]" xsd:string property_value: external_definition "Hole on the nasal capsule that connects the nasal cavity with the exterior.[AAO]" xsd:string property_value: homology_notes "In a tetrapod, the nasal sac has an external naris (homologous with the anterior naris of the fish) (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0005931 name: primary choana namespace: uberon def: "initial opening of the nasal pits and olfactory sac of the embryo into the rostral part of the primordial oronasal cavity, before the formation of the secondary palate." [http://www.drugs.com/dict/primary-choana.html] comment: TODO - check. MA says part_of external naris. xref: EHDAA:9087 xref: EMAPA:17851 xref: MA:0001322 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0005928 ! external naris [Term] id: UBERON:0005932 name: bulb of hair follicle namespace: uberon comment: see https://sourceforge.net/tracker/?func=detail&aid=3213510&group_id=76834&atid=1205376 synonym: "coat hair bulb" NARROW SENSU [MA:0000161] synonym: "hair bulb" EXACT [FMA:70666] synonym: "hair follicle bulb" EXACT [FMA:70666] xref: EMAPA:18770 xref: FMA:70666 xref: MA:0000161 xref: SCTID:361360009 xref: UMLS:C0221962 xref: ncithesaurus:Hair_Bulb is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002073 ! hair follicle [Term] id: UBERON:0005933 name: hair root sheath namespace: uberon comment: AO notes: see https://sourceforge.net/tracker/?func=detail&aid=3213510&group_id=76834&atid=1205376 xref: EMAPA:18772 xref: MA:0000162 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0005932 ! bulb of hair follicle [Term] id: UBERON:0005941 name: hair inner root sheath namespace: uberon def: "A multilayered tube composed of terminally differentiated hair follicle keratinocytes that is surrounded by the outer root sheath; the layers of the inner root sheath include the companion layer, Henle's layer, Huxley's layer and the inner root sheath cuticle[MP]." [MP:0010685, https://sourceforge.net/tracker/?func=detail&aid=3213510&group_id=76834&atid=1205376] synonym: "hair follicle inner root sheath" EXACT [MP:0010685] synonym: "inner root sheath" RELATED [BTO:0003971] synonym: "inner root sheath of hair follicle" EXACT [FMA:70935] synonym: "inner sheath of hair follicle" EXACT [FMA:70935] synonym: "internal root sheath of hair follicle" EXACT [FMA:70935] xref: BTO:0003971 xref: FMA:70935 xref: MA:0000779 is_a: UBERON:0005933 ! hair root sheath [Term] id: UBERON:0005942 name: hair outer root sheath namespace: uberon def: "It surrounds the hair follicle like a sleeve all the way to the bulb. The outer root sheath is essentially a stratified epithelium that is contiguous with the epidermis." [Keratin.com:http://www.keratin.com/, https://sourceforge.net/tracker/?func=detail&aid=3213510&group_id=76834&atid=1205376] synonym: "ORS" RELATED [BTO:0003969] synonym: "external root sheath of hair follicle" EXACT [FMA:70943] synonym: "hair follicle outer root sheath" EXACT [BTO:0003969] synonym: "outer root sheath" RELATED [BTO:0003969] synonym: "outer root sheath of hair follicle" EXACT [FMA:70943] xref: BTO:0003969 xref: FMA:70943 xref: MA:0000780 xref: SCTID:319224003 is_a: UBERON:0005933 ! hair root sheath [Term] id: UBERON:0005943 name: hair root sheath matrix namespace: uberon xref: MA:0000781 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0005933 ! hair root sheath [Term] id: UBERON:0005944 name: axial skeleton plus cranial skeleton namespace: uberon def: "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]." [FMA:71221, UBERONREF:0000008, VSAO:0000056, Wikipedia:Axial_skeleton] comment: See [UBERONREF:0000008] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "skeleton axiale" RELATED LATIN [Wikipedia:Axial_skeleton] xref: AAO:0000963 xref: EMAPA:17214 xref: EMAPA:18043 xref: MA:0000308 xref: SCTID:361725000 xref: UMLS:C0222645 xref: VSAO:0000056 xref: XAO:0004011 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Axial_skeleton_diagram.svg xref: ncithesaurus:Axial_Skeleton is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010912 ! subdivision of skeleton relationship: connected_to UBERON:0002091 ! appendicular skeleton relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0004288 ! skeleton relationship: part_of UBERON:0011137 ! axial skeletal system property_value: external_definition "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string [Term] id: UBERON:0005945 name: neurocranial trabecula namespace: uberon synonym: "neurocranial trabeculae" EXACT PLURAL [ZFA:0001321] synonym: "trabecula" BROAD SENSU [ZFA:0001321] synonym: "trabecular cartilage" BROAD [ZFA:0001321] xref: EFO:0003677 xref: TAO:0001321 xref: ZFA:0001321 is_a: UBERON:0000440 ! trabecula is_a: UBERON:0003932 ! cartilage element of chondrocranium is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0003112 ! olfactory region [Term] id: UBERON:0005946 name: outflow tract of atrium namespace: uberon def: "An outflow tract that is part of a cardiac atrium." [OBOL:automatic] synonym: "outflow part of atrium" EXACT [FMA:14141] xref: FMA:14141 relationship: continuous_with UBERON:0002082 ! cardiac ventricle intersection_of: UBERON:0004145 ! outflow tract intersection_of: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0005953 name: outflow part of right ventricle namespace: uberon def: "Outflow part of ventricle which is continuous with the pulmonary trunk[FNA]. The right ventricular outflow tract (RVOT) is an infundibular extension of the ventricular cavity which connects to the pulmonary artery[WP]." [FMA:7216] synonym: "RVOT" EXACT [] synonym: "conus arteriosus (infundibulum)" EXACT [FMA:7216] synonym: "infundibulum" BROAD [Wikipedia:Conus_arteriosus] synonym: "infundibulum of right ventricle" EXACT [FMA:7216] synonym: "outflow tract of right ventricle" EXACT [FMA:7216] synonym: "pulmonary conus" EXACT [FMA:7216] synonym: "right ventricular outflow tract" EXACT [] xref: FMA:7216 xref: SCTID:244379003 xref: UMLS:C1881209 xref: ncithesaurus:Infundibulum relationship: continuous_with UBERON:0002333 ! pulmonary trunk relationship: develops_from UBERON:0009889 ! secondary heart field intersection_of: UBERON:0005337 ! outflow tract of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0005956 name: outflow part of left ventricle namespace: uberon def: "Outflow part of ventricle which is continuous with the aorta[FMA]. The left ventricular outflow tract (LVOT), which connects to the aorta, is nearly indistinguishable from the rest of the ventricle[WP]." [FMA:9473] synonym: "LVOT" EXACT [] synonym: "aortic vestibule" EXACT [FMA:9473] synonym: "left ventricular outflow" EXACT [FMA:9473] synonym: "left ventricular outflow tract" EXACT [HP:0011103] synonym: "outflow tract of left ventricle" EXACT [FMA:9473] synonym: "vestibulum aortae" EXACT LATIN [FMA:9473, FMA:TA] xref: FMA:9473 xref: SCTID:264070001 intersection_of: UBERON:0005337 ! outflow tract of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0005965 name: outflow part of right atrium namespace: uberon def: "Outflow part of atrium which consists of wall and cavity of the outflow part of right atrium and the tricuspid valve.[FMA]" [FMA:9550, FMA:FMA] synonym: "main part of right atrium" EXACT [FMA:9550] synonym: "outflow tract of right atrium" EXACT [FMA:9550] xref: FMA:9550 intersection_of: UBERON:0005946 ! outflow tract of atrium intersection_of: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0005966 name: outflow part of left atrium namespace: uberon def: "An outflow tract of atrium that is part of a left atrium." [OBOL:automatic] synonym: "main part of left atrium" EXACT [FMA:9551] synonym: "outflow tract of left atrium" EXACT [FMA:9551] xref: FMA:9551 intersection_of: UBERON:0005946 ! outflow tract of atrium intersection_of: part_of UBERON:0002079 ! left atrium [Term] id: UBERON:0005967 name: conotruncal ridge namespace: uberon def: "One of the pair of spiral mesenchymal swellings in the primordial ventricular outflow tract, that eventually fuse to form the conotruncal septum, dividing the subvalvular outflow tract and contributing to the membranous interventricular septum[MP]" [MP:0010585, PMID:8823298] synonym: "aortico-pulmonary spiral ridges" EXACT [MP:0010585] synonym: "bulbar ridge" EXACT [MP:0010585] synonym: "conotruncal cushion" EXACT [MP:0010585] synonym: "endocardial ridge" EXACT [MP:0010585] synonym: "outflow tract cushion" EXACT [MP:0010585] synonym: "outflow tract endocardial cushion" EXACT [MP:0010585] synonym: "spiral ridge" RELATED [VHOG:0001385] xref: EHDAA:1914 xref: EMAPA:17332 xref: EMAPA:17867 xref: RETIRED_EHDAA2:0000194 xref: VHOG:0001385 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0009751 ! cardiac mesenchyme relationship: part_of UBERON:0004706 ! bulbus cordis relationship: part_of UBERON:0005337 ! outflow tract of ventricle [Term] id: UBERON:0005968 name: infundibulum of hair follicle namespace: uberon def: "the portion of the hair follicle from the entrance of the sebaceous gland duct to the surface opening." [UBERON:ps, https://sourceforge.net/tracker/?func=detail&aid=3565357&group_id=76834&atid=1205376] synonym: "dermal piliary canal" EXACT [FMA:70722] synonym: "hair follicle infundibulum" EXACT [FMA:70722] xref: FMA:70722 xref: MA:0003016 xref: SCTID:319522000 xref: UMLS:C0221973 xref: ncithesaurus:Hair_Follicle_Infundibulum is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002073 ! hair follicle [Term] id: UBERON:0005969 name: reticulum trabeculare namespace: uberon alt_id: UBERON:0004028 def: "a fenestrated endothelial-like tissue situated at the intersection of the cornea and the iris[GO]. The trabecular meshwork is an area of tissue in the eye located around the base of the cornea, near the ciliary body, and is responsible for draining the aqueous humor from the eye via the anterior chamber (the chamber on the front of the eye covered by the cornea). The tissue is spongy and lined by trabeculocytes; it allows fluid to drain into a set of tubes called Schlemm's canal flowing into the blood system[WP]. A porelike structure surrounding the entire circumference of the anterior chamber through which aqueous humor circulates to the canal of Schlemm.[GAID] the pore-like structure surrounding the entire circumference of the anterior chamber through which aqueous humor circulates[MP]." [GO:0002930, MP:0005203, Wikipedia:Trabecular_meshwork] comment: TODO check syns - ligaments synonym: "Hueck's ligament" RELATED [BTO:0001605] synonym: "cribiform ligament" RELATED [Wikipedia:Trabecular_meshwork] synonym: "iridis" RELATED [Wikipedia:Trabecular_meshwork] synonym: "ligamentum peactin-tum iridis" RELATED [Wikipedia:Trabecular_meshwork] synonym: "ligamentum pectinatum" RELATED [Wikipedia:Trabecular_meshwork] synonym: "ligamentum pectinatum anguli iridocornealis" RELATED [BTO:0001605] synonym: "ligamentum pectinatum iridis" RELATED [Wikipedia:Trabecular_meshwork] synonym: "pectinate ligament" RELATED [BTO:0001605] synonym: "pectinate ligament of iris" RELATED [BTO:0001605] synonym: "reticulum trabeculare sclerae" RELATED LATIN [Wikipedia:Trabecular_meshwork] synonym: "scleral trabeculae" RELATED [Wikipedia:Trabecular_meshwork] synonym: "scleral trabecular" RELATED [Wikipedia:Trabecular_meshwork] synonym: "scleral trabecule" RELATED [Wikipedia:Trabecular_meshwork] synonym: "scribiform ligament" RELATED [Wikipedia:Trabecular_meshwork] synonym: "trabecular mesh" RELATED [Wikipedia:Trabecular_meshwork] synonym: "trabecular meshwork" RELATED [BTO:0001605, GO:0002930] synonym: "trabecular meshwork of the eye" EXACT [Wikipedia:Trabecular_meshwork] xref: BTO:0001605 xref: EFO:0003077 xref: EV:0100352 xref: GAID:897 xref: MESH:A09.371.060.932 xref: SCTID:280694002 xref: UMLS:C0040573 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Gray870.png xref: ncithesaurus:Trabecular_Meshwork is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_part CL:0002367 ! trabecular meshwork cell relationship: overlaps UBERON:0006206 ! iridocorneal angle relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0003956 ! aqueous drainage system relationship: surrounds UBERON:0001766 ! anterior chamber of eyeball disjoint_from: UBERON:0006205 ! pectineal ligament [Term] id: UBERON:0005970 name: brain commissure namespace: uberon def: "A commissure that is part of a brain." [OBOL:automatic] is_a: UBERON:0007702 ! tract of brain relationship: in_median_plane_of UBERON:0000955 ! brain intersection_of: UBERON:0001020 ! commissure intersection_of: part_of UBERON:0000955 ! brain property_value: external_definition "any of the nerve fiber tracts that span the longitudinal fissure between the cerebral and/or cerebellar hemispheres of the brain[MP]" xsd:string [Term] id: UBERON:0005971 name: amniotic fold namespace: uberon def: "A sheet of somatopleure that grows upward over the embryo and eventually meets in the midline enclosing the embryo, eventually giving rise to the amnion and chorion[Kardong]." [ISBN10:0073040584] xref: EMAPA:16076 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0004874 ! somatopleure [Term] id: UBERON:0005972 name: tunnel of Corti namespace: uberon def: "A triangular, fluid-filled space normally found between the inner and outer rows of supporting pillar cells in the organ of Corti." [MP:0003151] is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002227 ! spiral organ of cochlea [Term] id: UBERON:0005973 name: blood-inner ear barrier namespace: uberon def: "the function of the group of barriers and transport systems which regulate the transport of various substances from blood to inner ear tissue and maintain the microhomeostasis and functional integrity of the inner ear; the endothelial cells of the inner ear blood capillaries, linked to each other by tight junctions, represent the main component of the blood-inner ear barrier" [MP:0004999] is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0006937 ! inner ear epithelium relationship: part_of UBERON:0001846 ! internal ear [Term] id: UBERON:0005974 name: posterior cerebellomedullary cistern namespace: uberon def: "A space between the cerebellum and the dorsal surface of the medulla[MP]. The cisterna magna (or cerebellomedullary cistern) is one of three principal openings in the subarachnoid space between the arachnoid and pia mater layers of the meninges surrounding the brain. The openings are collectively referred to as cisterns. The cisterna magna is located between the cerebellum and the dorsal surface of the medulla oblongata. Cerebrospinal fluid produced in the fourth ventricle drains into the cisterna magna via the lateral apertures and median aperture. The two other principal cisterns are the pontine cistern located between the pons and the medulla, and the interpeduncular cistern located between the cerebral peduncles. Cerebral spinal fluid can also be obtained by puncture of the cisterna magna (cistern puncture)." [MP:0009036, Wikipedia:Cisterna_magna] synonym: "cisterna cerebellomedullaris" RELATED LATIN [Wikipedia:Cisterna_magna] synonym: "cisterna cerebellomedullaris posterior" EXACT [MP:0009033] synonym: "cisterna magna" EXACT [MP:0009033] xref: FMA:83721 xref: GAID:690 xref: MESH:A08.186.566.166.686.351 xref: SCTID:280391002 xref: UMLS:C0008841 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Gray768.png xref: ncithesaurus:Cisterna_Magna is_a: UBERON:0004049 ! cerebellomedullary cistern [Term] id: UBERON:0005975 name: hair follicle bulge namespace: uberon def: "the area located in the bottom of the permanent portion of a resting (telogen) hair follicle where the cells of the external root sheath of the hair follicle are contiguous with the basal layer of the epidermis; this portion of the follicle is involved in the generation of a new hair at the onset of the hair growth cycle (anagen) and contains the hair follicle stem cells" [MP:0009759] synonym: "bulge of hair follicle" EXACT [FMA:70735] xref: BTO:0004904 xref: FMA:70735 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002073 ! hair follicle [Term] id: UBERON:0005976 name: ansiform lobule crus I namespace: uberon def: "." [MP:0010002] comment: TODO - check synonym: "crus II of the ansiform lobule (HVII)" EXACT [NIF_GrossAnatomy:nlx_anat_20081209] synonym: "crus primum lobuli ansiformis cerebelli [h vii a]" EXACT LATIN [FMA:72524, FMA:TA] synonym: "first crus of ansiform lobule of cerebellum [h vii a]" EXACT [FMA:72524] synonym: "hemispheric lobule viibi" EXACT [NIF_GrossAnatomy:nlx_anat_20081209] synonym: "lobulus ansiform crus II" EXACT [NIF_GrossAnatomy:nlx_anat_20081209] synonym: "lobulus semilunaris inferior" EXACT [NIF_GrossAnatomy:nlx_anat_20081209] synonym: "lobulus semilunaris superior cerebelli" EXACT LATIN [FMA:72524, FMA:TA] synonym: "posterior superior lobule" EXACT [FMA:72524] synonym: "semilunar lobule-2 (superior)" EXACT [FMA:72524] synonym: "superior semilunar lobule" EXACT [FMA:72524] synonym: "superior semilunar lobule " EXACT [FMA:72524] synonym: "superior semilunar lobule of cerebellum" EXACT [FMA:72524] xref: ABA:ANcr1 xref: FMA:72524 xref: NIF_GrossAnatomy:nlx_anat_20081209 is_a: UBERON:0005348 ! ansiform lobule [Term] id: UBERON:0005977 name: ansiform lobule crus II namespace: uberon def: "." [MP:0010003] comment: TODO - check synonym: "crus I of the ansiform lobule (HVII)" EXACT [NIF_GrossAnatomy:nlx_anat_20081208] synonym: "crus secundum lobuli ansiformis cerebelli [h vii a" EXACT LATIN [FMA:72525, FMA:TA] synonym: "hemispheric lobule viia" EXACT [NIF_GrossAnatomy:nlx_anat_20081208] synonym: "inferior semilunar lobule" EXACT [FMA:72525] synonym: "inferior semilunar lobule of cerebellum" EXACT [FMA:72525] synonym: "lobulus ansiform crus I" EXACT [NIF_GrossAnatomy:nlx_anat_20081208] synonym: "lobulus semilunaris inferior cerebelli" EXACT LATIN [FMA:72525, FMA:TA] synonym: "lobulus semilunaris superior" EXACT [NIF_GrossAnatomy:nlx_anat_20081208] synonym: "posterior inferior lobule" EXACT [FMA:72525] synonym: "second crus of ansiform lobule of cerebellum [h vii a]" EXACT [FMA:72525] synonym: "semilunar lobule-2 (inferior)" EXACT [FMA:72525] xref: ABA:ANcr2 xref: FMA:72525 xref: NIF_GrossAnatomy:nlx_anat_20081208 is_a: UBERON:0005348 ! ansiform lobule [Term] id: UBERON:0005978 name: olfactory bulb outer nerve layer namespace: uberon def: "the outermost layer of the olfactory bulb; consists primarily of olfactory afferent axons and ensheathing glia" [MP:0010057] is_a: UBERON:0004001 ! olfactory bulb layer relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: UBERON:0005979 name: crista terminalis namespace: uberon def: "the vertical crest of the interior wall of the right atrium that lies to the right of the sinus of the vena cava and separates this from the remainder of the right atrium" [MP:0010495] synonym: "crista terminalis atrii dextri" EXACT LATIN [FMA:9236, FMA:TA] synonym: "crista terminalis cordis" EXACT [FMA:9236] synonym: "crista terminalis of right atrium" EXACT [FMA:9236] xref: FMA:9236 xref: SCTID:277693004 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0005980 name: pectinate muscle namespace: uberon def: "the prominent ridges of atrial myocardium located on the inner surface of most of the right atrium and both the right and left auricular regions[MP]." [MP:0010496, Wikipedia:Musculi_pectinati] synonym: "musculi pectinati" EXACT PLURAL [Wikipedia:Musculi_pectinati] synonym: "musculi pectinati atrii dextri, musculi pectinati atrii sinistri" RELATED LATIN [Wikipedia:Musculi_pectinati] synonym: "musculus pectinatus" EXACT [FMA:12226] xref: FMA:12226 xref: SCTID:277718001 xref: http://upload.wikimedia.org/wikipedia/commons/9/96/Gray498.png is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002302 ! myocardium of atrium [Term] id: UBERON:0005981 name: vena cava sinus namespace: uberon def: "the portion of the cavity of the right atrium of the heart that receives the blood from the vena cavae and is separated from the rest of the atrium by the crista terminalis" [MP:0010497] synonym: "cavity of inflow part of right atrium" EXACT [FMA:13246] synonym: "posterior right atrial cavity" EXACT [FMA:13246] synonym: "sinus venarum cavarum" EXACT [FMA:13246] xref: FMA:13246 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0005982 name: Bachmann's bundle namespace: uberon def: "the impulse conduction tract that originates in the sinoatrial node and transmits signal to the left atrium" [MP:0010517, Wikipedia:Bachmann's_bundle] synonym: "anterior interatrial band" EXACT [UBERON:gg] xref: http://upload.wikimedia.org/wikipedia/commons/thumb/0/05/ConductionsystemoftheheartwithouttheHeart.png/350px-ConductionsystemoftheheartwithouttheHeart.png is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0005983 name: heart layer namespace: uberon def: "the laminar structure of the heart" [MP:0010545] is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0005984 name: subendocardium layer namespace: uberon def: "the layer of loose fibrous tissue located between the endocardium and myocardium which contains the nerves and the impulse-conducting system (Purkinje fibers) of the heart" [MP:0010546] is_a: UBERON:0005983 ! heart layer [Term] id: UBERON:0005985 name: coronary vessel namespace: uberon def: "any of the arteries or veins that supply blood to the heart or return blood from the heart muscles to the circulation" [MP:0010551] comment: TODO - change relation from part_of xref: MESH:A07.231.114.269 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000055 ! vessel intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0005986 name: left branch of atrioventricular bundle namespace: uberon def: "Subdivision of conducting system of heart which enters the septal myocardium of left ventricle and is continuous with the anterior, septal and posterior divisions of the left branch of the atrioventricular bundle[FMA]. the left branch of the atrioventricular bundle that separates at the bundle of His, descends the septal wall of the left ventricle and connects to the terminal Purkinje fiber[MP]." [FMA:9487, MP:0010566] synonym: "crus sinistrum (fasciculi atrioventricularis)" EXACT [FMA:9487] synonym: "left bundle branch" EXACT [MP:0010566] synonym: "left bundle branch of bundle of His" EXACT [HP:0005172] synonym: "left bundle of atrioventricular bundle" EXACT [MP:0010566] synonym: "left crus of atrioventricular bundle" EXACT [MP:0010566] synonym: "left posterior branch" EXACT [MP:0010566] synonym: "left posterior bundle" EXACT [MP:0010566] xref: FMA:9487 xref: SCTID:277690001 xref: galen:LeftBundleBranch is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: in_left_side_of UBERON:0002353 ! atrioventricular bundle relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0005987 name: right branch of atrioventricular bundle namespace: uberon def: "Subdivision of conducting system of heart which enters the septal myocardium of right ventricle to reach the anterior papillary muscle and then subendocardially to the apex of the heart[FMA]. the right branch of the atrioventricular bundle that separates just below the bundle of His, descends the septal wall of the right ventricle and connects to the terminal Purkinje fibers[MP]." [FMA:9486, MP:0010567] synonym: "crus dextrum (fasciculi atrioventricularis)" EXACT [FMA:9486] synonym: "right bundle" EXACT [FMA:9486, MP:0010567] synonym: "right bundle branch" EXACT [FMA:9486] synonym: "right bundle branch of bundle of His" EXACT [] synonym: "right right crus of atrioventricular bundle" EXACT [MP:0010567] synonym: "right ventricular bundle" EXACT [MP:0010567] xref: FMA:9486 xref: SCTID:277689005 xref: galen:RightBundleBranch is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: in_right_side_of UBERON:0002353 ! atrioventricular bundle relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0005988 name: atrium myocardial trabecula namespace: uberon def: "the supporting bundles of muscular fibers lining the walls of the atria" [MP:0010581] synonym: "atrial trabecula" EXACT [] synonym: "atrium myocardial trabeculae" EXACT PLURAL [MP:0010581] synonym: "trabecula of atrium" EXACT [] is_a: UBERON:0000440 ! trabecula is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002302 ! myocardium of atrium [Term] id: UBERON:0005989 name: atrioventricular septum namespace: uberon def: "the wall of the heart that separates the right atrium and left ventricle; and is located just above the septal cusp of the tricuspid valve" [MP:0010592] synonym: "membranous atrioventricular septum" EXACT [FMA:7136] xref: FMA:7136 xref: SCTID:280151006 is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002062 ! endocardial cushion intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002078 ! right atrium intersection_of: adjacent_to UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0005990 name: aortic valve cusp namespace: uberon def: "the three fibrous triangular components and associated flap of the aortic valve" [MP:0010595] synonym: "aortic semilunar valvule" EXACT [FMA:7251] synonym: "aortic valvular cusp" EXACT [FMA:7251] synonym: "cusp of aortic valve" EXACT [FMA:7251] synonym: "semilunar valvule of aortic valve" EXACT [FMA:7251] xref: FMA:7251 xref: SCTID:362026005 is_a: UBERON:0006009 ! cusp of cardiac valve relationship: part_of UBERON:0002137 ! aortic valve [Term] id: UBERON:0005991 name: aortic valve anulus namespace: uberon def: "the fibrous ring of the aortic valve that attaches the cusps of aortic valve to the wall of left ventricle, and which consists of portions of the fibrous scallops of the posterior, right anterior and left anterior cusps" [MP:0010598] synonym: "anulus of aortic valve" EXACT [FMA:9502] synonym: "aortic anulus" EXACT [FMA:9502] synonym: "aortic valvar anulus" EXACT [FMA:9502] synonym: "fibrous ring of aortic valve" EXACT [FMA:9502] xref: FMA:9502 is_a: UBERON:0006008 ! fibrous ring of heart is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002137 ! aortic valve [Term] id: UBERON:0005992 name: pulmonary valve cusp namespace: uberon def: "the three fibrous triangular components and associated flap of the pulmonary valve" [MP:0010602] synonym: "cusp of pulmonary valve" EXACT [FMA:7248] synonym: "pulmonary semilunar valvule" EXACT [FMA:7248] synonym: "pulmonary valvular cusp" EXACT [FMA:7248] synonym: "semilunar cusp of pulmonary valve" EXACT [FMA:7248] synonym: "semilunar valvule of pulmonary valve" EXACT [FMA:7248] xref: FMA:7248 is_a: UBERON:0006009 ! cusp of cardiac valve relationship: part_of UBERON:0002146 ! pulmonary valve [Term] id: UBERON:0005993 name: pulmonary valve anulus namespace: uberon def: "the fibrous ring of the pulmonary valve that attaches the cusps of pulmonary valve to the wall of right ventricle, and which consists of portions of the fibrous scallops of the anterior, right posterior and left posterior cusps" [MP:0010606] synonym: "anulus of pulmonary valve" EXACT [FMA:9503] synonym: "fibrous ring of pulmonary valve" EXACT [FMA:9503] synonym: "pulmonary anulus" EXACT [FMA:9503] synonym: "pulmonary valvar anulus" EXACT [FMA:9503] xref: FMA:9503 is_a: UBERON:0006008 ! fibrous ring of heart is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002146 ! pulmonary valve [Term] id: UBERON:0005994 name: chordae tendineae namespace: uberon def: "the tendinous strands that connect the papillary muscles on the wall of the ventricles to the leaflets of the atrioventricular valves; the chordae tendineae serve to prevent the AV valves from prolapsing back into the atria" [MP:0010608, Wikipedia:Chordae_tendineae] synonym: "chorda tendinea" EXACT [FMA:12225] synonym: "chordae tendineae cordis" RELATED LATIN [Wikipedia:Chordae_tendineae] xref: FMA:12225 xref: GAID:564 xref: MESH:A07.541.510.240 xref: SCTID:279330004 xref: UMLS:C0008484 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png xref: ncithesaurus:Chordae_Tendineae is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002133 ! atrioventricular valve [Term] id: UBERON:0005995 name: mitral valve anulus namespace: uberon def: "the fibrous ring of the mitral valve that attaches the cusps of mitral valve to the heart, and which consists of portions of the fibrous scallops of the anterior and posterior cusps" [MP:0010613] synonym: "anulus of mitral valve" EXACT [FMA:9498] synonym: "fibrous ring of mitral valve" EXACT [FMA:9498] synonym: "mitral anulus" EXACT [FMA:9498] synonym: "mitral valvar anulus" EXACT [FMA:9498] xref: FMA:9498 is_a: UBERON:0006008 ! fibrous ring of heart is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002135 ! mitral valve [Term] id: UBERON:0005996 name: mitral valve cusp namespace: uberon def: "the two fibrous components and associated flaps of the mitral valve" [MP:0010614] comment: TODO - add generic parent is_a: UBERON:0006009 ! cusp of cardiac valve relationship: part_of UBERON:0002135 ! mitral valve [Term] id: UBERON:0005997 name: tricuspid valve anulus namespace: uberon def: "the fibrous ring of the tricuspid valve that attaches the cusps of tricuspid valve to the heart, and which consists of portions of the fibrous scallops of the anterior cusp (infundibular cusp), the posterior cusp (marginal cusp), and the septal cusp (medial cusp)" [MP:0010621] synonym: "anulus of tricuspid valve" EXACT [FMA:9500] synonym: "fibrous ring of tricuspid valve" EXACT [FMA:9500] synonym: "tricuspid anulus" EXACT [FMA:9500] synonym: "tricuspid valvar anulus" EXACT [FMA:9500] xref: FMA:9500 is_a: UBERON:0006008 ! fibrous ring of heart is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002134 ! tricuspid valve [Term] id: UBERON:0005998 name: tricuspid valve cusp namespace: uberon def: "the three fibrous triangular components and associated flaps of the tricuspid valve" [MP:0010622] comment: TODO - check synonym: "cuspis septalis valvae atrioventricularis dextrae" EXACT LATIN [FMA:7240, FMA:TA] synonym: "septal cusp of right atrioventricular valve" EXACT [FMA:7240] synonym: "septal cusp of tricuspid valve" EXACT [FMA:7240] synonym: "septal leaflet of tricuspid valve" EXACT [FMA:7240] synonym: "septal tricuspid leaflet" EXACT [FMA:7240] xref: FMA:7240 xref: SCTID:261417002 is_a: UBERON:0005484 ! tricuspid valve leaflet is_a: UBERON:0006009 ! cusp of cardiac valve relationship: part_of UBERON:0002134 ! tricuspid valve [Term] id: UBERON:0006001 name: intersomitic artery namespace: uberon def: "the small branching sprouts of the dorsal aorta that grow across the medial surface of the somite, turn right angles to grow over that surface and then fuse with other sprouts and form the vertebral arteries adjacent to the neural tube; the intersomitic arteries supply the body wall and persist in the adult as the posterior intercostal, subcostal and the lumbar arteries" [MP:0010662] xref: XAO:0004165 is_a: UBERON:0001637 ! artery is_a: UBERON:0003513 ! trunk blood vessel is_a: UBERON:0004573 ! systemic artery relationship: part_of UBERON:0005805 ! dorsal aorta [Term] id: UBERON:0006002 name: vitelline artery namespace: uberon def: "the paired arteries that carry blood to the yolk sac / gut tube from the dorsal aorta; the vitelline arteries give rise to the celiac artery, superior mesenteric artery, and inferior mesenteric artery in the adult" [MP:0010664, Wikipedia:Vitelline_arteries] xref: EHDAA2:0002208 xref: EMAPA:16207 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Gray31.png intersection_of: UBERON:0001637 ! artery intersection_of: continuous_with UBERON:0001040 ! yolk sac intersection_of: continuous_with UBERON:0005805 ! dorsal aorta [Term] id: UBERON:0006003 name: skin adnexa namespace: uberon def: "the tissue or structures associated with or embedded in the skin such as hair and hair follicles, sweat glands, sebaceous glands and claws or nails" [MP:0010678, Wikipedia:Skin_appendage, http://code.google.com/p/caro2/issues/detail?id=5] comment: editor note - add subclasses based on resolution of CARO tracker item. Also check: adnexal gland synonym: "adnexae cutis" RELATED LATIN [Wikipedia:Skin_appendage] is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0006004 name: hair follicle matrix region namespace: uberon def: "the bulb region adjacent to the dermal papilla that contains rapidly proliferating matrix cells that give rise to the various cell lineages of the hair shaft and inner root sheath" [MP:0010686] synonym: "germinal matrix of hair bulb" EXACT [FMA:70772] synonym: "lower part of bulb of hair follicle" EXACT [FMA:70772] synonym: "lower zone of bulb of hair follicle" EXACT [FMA:70772] xref: FMA:70772 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part CL:0000148 ! melanocyte relationship: has_part CL:0000453 ! Langerhans cell relationship: part_of UBERON:0005932 ! bulb of hair follicle [Term] id: UBERON:0006005 name: hair follicle isthmus namespace: uberon def: "the middle part of the hair follicle that extends from the sebaceous duct to the bulge" [MP:0010694] synonym: "isthmus of hair follicle" EXACT [FMA:70723] xref: FMA:70723 xref: UMLS:C1182701 xref: ncithesaurus:Hair_Follicle_Isthmus is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002073 ! hair follicle [Term] id: UBERON:0006006 name: metoptic pilar namespace: uberon def: "posterior border of the optic nerve foramen." [MP:0010705] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0005745 ! optic canal [Term] id: UBERON:0006007 name: pre-Botzinger complex namespace: uberon def: "the group of interneurons within the medulla oblongata's ventral respiratory group that are important for the generation of ventilatory (inspiratory) rhythmogenesis[MP]. The Pre-BC6tzinger Complex (preBC6tC) is a cluster of interneurons in the ventrolateral medulla of the brainstem, which is essential to the generation of respiratory rhythm in mammals[WP]." [MP:0010745, Wikipedia:Pre-botzinger_complex] comment: the MP class implies this is part of both the medulla oblongata and the PSNS, which violates the spatial disjointness constraint. We weaken this to continuous_with here. synonym: "Pre-BC6tzinger Complex" EXACT [Wikipedia:Pre-botzinger_complex] synonym: "pre-botzinger respiratory control center" RELATED [MA:0002577] synonym: "preBC6tC" EXACT [Wikipedia:Pre-botzinger_complex] xref: MA:0002577 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0000011 ! parasympathetic nervous system relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006008 name: fibrous ring of heart namespace: uberon def: "The right and left fibrous rings of heart (anulus fibrosus cordis) surround the atrioventricular and arterial orifices, and are stronger upon the left than on the right side of the heart. The right fibrous ring is known as the anulus fibrosus dexter cordis, and the left is known as the anulus fibrosus sinister cordis. The atrioventricular rings serve for the attachment of the muscular fibers of the atria and ventricles, and for the attachment of the bicuspid and tricuspid valves. The left atrioventricular ring is closely connected, by its right margin, with the aortic arterial ring; between these and the right atrioventricular ring is a triangular mass of fibrous tissue, the trigonum fibrosum, which represents the os cordis seen in the heart of some of the larger animals, as the ox and elephant. Lastly, there is the tendinous band, already referred to, the posterior surface of the conus arteriosus. The fibrous rings surrounding the arterial orifices serve for the attachment of the great vessels and semilunar valves, they are known as The aortic annulus. Each ring receives, by its ventricular margin, the attachment of some of the muscular fibers of the ventricles; its opposite margin presents three deep semicircular notches, to which the middle coat of the artery is firmly fixed. The attachment of the artery to its fibrous ring is strengthened by the external coat and serous membrane externally, and by the endocardium internally. From the margins of the semicircular notches the fibrous structure of the ring is continued into the segments of the valves. The middle coat of the artery in this situation is thin, and the vessel is dilated to form the sinuses of the aorta and pulmonary artery." [Wikipedia:Fibrous_rings_of_heart] comment: todo - compare with ZFA atrioventricular ring, part of the conduction system synonym: "Lower's ring" RELATED [BTO:0003628] synonym: "annulus fibrosus cordis" RELATED LATIN [Wikipedia:Fibrous_rings_of_heart] synonym: "anulus fibrosus cordis" RELATED [Wikipedia:Fibrous_rings_of_heart] synonym: "anulus fibrosus of heart" EXACT [FMA:9497] synonym: "aortic annulus" RELATED [Wikipedia:Fibrous_rings_of_heart] synonym: "atrioventricular ring" RELATED [BTO:0003628] synonym: "coronary tendon" RELATED [BTO:0003628] synonym: "fibrous ring of heart" RELATED [Wikipedia:Fibrous_rings_of_heart] xref: BTO:0003628 xref: FMA:9497 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0006444 ! annulus fibrosus intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0006009 name: cusp of cardiac valve namespace: uberon def: "Organ component which has as its parts the cusp proper, lunule and nodule of semilunar valvule[FMA]. The cusps of the heart valves serve to seal the heart valves when closed. There are three cusps for each valve except for the mitral valve, which has only two (hence its alternate name, \"bicuspid valve\"). \"Nodules\" are located at the tip of the valve, to form a tighter seal[WP]." [FMA:7232, Wikipedia:Cusps_of_heart_valves] synonym: "cardiac valve cusp" EXACT [FMA:7232] synonym: "cardiac valvular cusp" EXACT [FMA:7232] synonym: "cardiac valvule" EXACT [FMA:7232] synonym: "cardial valve cusp" EXACT [] synonym: "semilunar valvule" EXACT [FMA:7232] xref: FMA:7232 xref: SCTID:30822008 xref: UMLS:C0225923 xref: http://upload.wikimedia.org/wikipedia/commons/5/50/Gray495.png xref: ncithesaurus:Cardiac_Valve_Cusp is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0000946 ! cardial valve [Term] id: UBERON:0006010 name: hyaloid canal namespace: uberon def: "Hyaloid canal is a small transparent canal running through the vitreous body from the optical nerve disc to the lens; in foetus it contains a prolongation of the central artery of the retina, the hyaloid artery. Other names: Cloquet's canal, Stilling's canal. The function of the canal is to provide an adjustable reservoir of mobile liquid which may be easily and rapidly displaced backwards in positive accommodation, forwards in negative accommodation[WP]. a passage running from in front of the optic disk to the lens of the eye; in the fetus, it transmits the hyaloid artery[TFD]." [Wikipedia:Hyaloid_canal, http://medical-dictionary.thefreedictionary.com/Hyaloid+canal] comment: in FMA, this is_a FMA:67388 portion of vitreous humor synonym: "Cloquet's canal" EXACT [FMA:58837] synonym: "Stilling's canal" EXACT [FMA:58837] synonym: "canal of Cloquet" EXACT [FMA:58837] xref: FMA:58837 xref: SCTID:362506002 xref: http://upload.wikimedia.org/wikipedia/commons/e/eb/Gray869.png is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0002270 ! hyaloid artery relationship: part_of UBERON:0001798 ! vitreous body [Term] id: UBERON:0006011 name: hyaloid vein namespace: uberon synonym: "hyaloid veins" EXACT PLURAL [ZFA:0005047] xref: EHDAA2:0000791 xref: TAO:0005047 xref: XAO:0004156 xref: ZFA:0005047 is_a: UBERON:0001638 ! vein is_a: UBERON:0005492 ! hyaloid vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: develops_from UBERON:0011191 ! ophthalmic vein property_value: external_definition "Vein internal to the eye. Isogai et al. 2001.[TAO]" xsd:string [Term] id: UBERON:0006012 name: interdigital region namespace: uberon comment: AO notes: MA and EMAPA mapping from TH synonym: "interdigit" RELATED [BTO:0004670] synonym: "interdigit region" EXACT [] xref: BTO:0004670 xref: EMAPA:32618 xref: MA:0003012 is_a: UBERON:0010858 ! inter limb-segment region relationship: connected_to UBERON:0002544 {cardinality="2"} ! digit relationship: part_of UBERON:0002470 ! autopod region [Term] id: UBERON:0006013 name: interdigital region between manual digits namespace: uberon def: "An interdigital region that is part of a manus." [OBOL:automatic] synonym: "hand interdigit region" EXACT [MA:0000627] synonym: "hand interdigital region" EXACT [VHOG:0000991] synonym: "interdigital region of manus" EXACT [] synonym: "manual interdigital region" EXACT [] xref: MA:0000627 xref: VHOG:0000991 relationship: adjacent_to UBERON:0002389 {cardinality="2"} ! manual digit intersection_of: UBERON:0006012 ! interdigital region intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0006014 name: interdigital region between pedal digits namespace: uberon def: "An interdigital region that is part of a pes." [OBOL:automatic] synonym: "foot interdigit region" EXACT [MA:0000651] synonym: "foot interdigital region" EXACT [VHOG:0000992] synonym: "interdigit region of pes" EXACT [] synonym: "pedal interdigit region" EXACT [] xref: MA:0000651 xref: VHOG:0000992 relationship: adjacent_to UBERON:0001466 {cardinality="2"} ! pedal digit intersection_of: UBERON:0006012 ! interdigital region intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0006015 name: webbed interdigital region namespace: uberon def: "Interdigital webbing is the presence of membranes of skin between the digits. Normally in mammals, webbing is present in the embryo but resorbed later in development, but in various mammal species it occasionally persists in adulthood.[1] In humans, it can be found in those suffering from LEOPARD syndrome and from Aarskog-Scott syndrome. Webbing between the digits of the hindfoot is also present in several mammals that spend part of their time in the water.[3] Webbing accommodates movement in the water[WP]." [Wikipedia:Interdigital_webbing] synonym: "interdigital webbing" EXACT [] synonym: "syndactylous interdigital region" EXACT [] synonym: "web" BROAD [] is_a: UBERON:0006012 ! interdigital region relationship: part_of UBERON:0008440 ! webbed autopod [Term] id: UBERON:0006016 name: interdigital region between digits 1 and 2 namespace: uberon def: "An interdigital region that adjacent_to a digit 1 and adjacent_to a digit 2." [OBOL:automatic] is_a: UBERON:0006012 ! interdigital region relationship: part_of UBERON:0002470 ! autopod region intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0006048 ! digit 1 intersection_of: adjacent_to UBERON:0006049 ! digit 2 [Term] id: UBERON:0006019 name: interdigital region between digits 2 and 3 namespace: uberon def: "An interdigital region that adjacent_to a digit 2 and adjacent_to a digit 3." [OBOL:automatic] is_a: UBERON:0006012 ! interdigital region relationship: part_of UBERON:0002470 ! autopod region intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0006049 ! digit 2 intersection_of: adjacent_to UBERON:0006050 ! digit 3 [Term] id: UBERON:0006022 name: interdigital region between digits 3 and 4 namespace: uberon def: "An interdigital region that adjacent_to a digit 3 and adjacent_to a digit 4." [OBOL:automatic] is_a: UBERON:0006012 ! interdigital region relationship: part_of UBERON:0002470 ! autopod region intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0006050 ! digit 3 intersection_of: adjacent_to UBERON:0006051 ! digit 4 [Term] id: UBERON:0006025 name: interdigital region between digits 4 and 5 namespace: uberon def: "An interdigital region that adjacent_to a digit 4 and adjacent_to a digit 5." [OBOL:automatic] is_a: UBERON:0006012 ! interdigital region relationship: part_of UBERON:0002470 ! autopod region intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0006051 ! digit 4 intersection_of: adjacent_to UBERON:0006052 ! digit 5 [Term] id: UBERON:0006026 name: interdigital region between manual digits 1 and 2 namespace: uberon def: "An interdigital region that adjacent_to a manual digit 1 and adjacent_to a manual digit 2." [OBOL:automatic] xref: EHDAA2:0000844 xref: EHDAA:6298 xref: EMAPA:17445 is_a: UBERON:0006013 ! interdigital region between manual digits is_a: UBERON:0006016 ! interdigital region between digits 1 and 2 relationship: part_of UBERON:0002398 ! manus intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0001463 ! manual digit 1 intersection_of: adjacent_to UBERON:0003622 ! manual digit 2 [Term] id: UBERON:0006029 name: interdigital region between manual digits 2 and 3 namespace: uberon def: "An interdigital region that adjacent_to a manual digit 2 and adjacent_to a manual digit 3." [OBOL:automatic] xref: EHDAA2:0000847 xref: EHDAA:6304 xref: EMAPA:17448 is_a: UBERON:0006013 ! interdigital region between manual digits is_a: UBERON:0006019 ! interdigital region between digits 2 and 3 relationship: part_of UBERON:0002398 ! manus intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003622 ! manual digit 2 intersection_of: adjacent_to UBERON:0003623 ! manual digit 3 [Term] id: UBERON:0006032 name: interdigital region between manual digits 3 and 4 namespace: uberon def: "An interdigital region that adjacent_to a manual digit 3 and adjacent_to a manual digit 4." [OBOL:automatic] xref: EHDAA2:0000850 xref: EHDAA:6310 xref: EMAPA:17451 is_a: UBERON:0006013 ! interdigital region between manual digits is_a: UBERON:0006022 ! interdigital region between digits 3 and 4 relationship: part_of UBERON:0002398 ! manus intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003623 ! manual digit 3 intersection_of: adjacent_to UBERON:0003624 ! manual digit 4 [Term] id: UBERON:0006035 name: interdigital region between manual digits 4 and 5 namespace: uberon def: "An interdigital region that adjacent_to a manual digit 4 and adjacent_to a manual digit 5." [OBOL:automatic] xref: EHDAA2:0000853 xref: EHDAA:6316 xref: EMAPA:17454 is_a: UBERON:0006013 ! interdigital region between manual digits is_a: UBERON:0006025 ! interdigital region between digits 4 and 5 relationship: part_of UBERON:0002398 ! manus intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003624 ! manual digit 4 intersection_of: adjacent_to UBERON:0003625 ! manual digit 5 [Term] id: UBERON:0006038 name: interdigital region between pedal digits 1 and 2 namespace: uberon def: "An interdigital region that adjacent_to a pedal digit 1 and adjacent_to a pedal digit 2." [OBOL:automatic] xref: EHDAA2:0000856 xref: EHDAA:6148 xref: EMAPA:17476 is_a: UBERON:0006014 ! interdigital region between pedal digits is_a: UBERON:0006016 ! interdigital region between digits 1 and 2 relationship: part_of UBERON:0002387 ! pes intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003631 ! pedal digit 1 intersection_of: adjacent_to UBERON:0003632 ! pedal digit 2 [Term] id: UBERON:0006041 name: interdigital region between pedal digits 2 and 3 namespace: uberon def: "An interdigital region that adjacent_to a pedal digit 2 and adjacent_to a pedal digit 3." [OBOL:automatic] xref: EHDAA2:0000859 xref: EHDAA:6154 xref: EMAPA:17479 is_a: UBERON:0006014 ! interdigital region between pedal digits is_a: UBERON:0006019 ! interdigital region between digits 2 and 3 relationship: part_of UBERON:0002387 ! pes intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003632 ! pedal digit 2 intersection_of: adjacent_to UBERON:0003633 ! pedal digit 3 [Term] id: UBERON:0006044 name: interdigital region between pedal digits 3 and 4 namespace: uberon def: "An interdigital region that adjacent_to a pedal digit 3 and adjacent_to a pedal digit 4." [OBOL:automatic] xref: EHDAA2:0000862 xref: EHDAA:6160 xref: EMAPA:17482 is_a: UBERON:0006014 ! interdigital region between pedal digits is_a: UBERON:0006022 ! interdigital region between digits 3 and 4 relationship: part_of UBERON:0002387 ! pes intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003633 ! pedal digit 3 intersection_of: adjacent_to UBERON:0003634 ! pedal digit 4 [Term] id: UBERON:0006047 name: interdigital region between pedal digits 4 and 5 namespace: uberon def: "An interdigital region that adjacent_to a pedal digit 4 and adjacent_to a pedal digit 5." [OBOL:automatic] xref: EHDAA2:0000865 xref: EHDAA:6166 xref: EMAPA:17485 is_a: UBERON:0006014 ! interdigital region between pedal digits is_a: UBERON:0006025 ! interdigital region between digits 4 and 5 relationship: part_of UBERON:0002387 ! pes intersection_of: UBERON:0006012 ! interdigital region intersection_of: adjacent_to UBERON:0003634 ! pedal digit 4 intersection_of: adjacent_to UBERON:0003635 ! pedal digit 5 [Term] id: UBERON:0006048 name: digit 1 namespace: uberon synonym: "autopod digit 1" EXACT [] synonym: "dewclaw" NARROW SENSU [Wikipedia:Dewclaw] synonym: "limb digit 1" EXACT [MA:00003023] xref: MA:00003023 is_a: UBERON:0002544 ! digit relationship: preaxial_part_of UBERON:0002470 ! autopod region property_value: ray_number "1" xsd:nonNegativeInteger [Term] id: UBERON:0006049 name: digit 2 namespace: uberon is_a: UBERON:0002544 ! digit property_value: ray_number "2" xsd:nonNegativeInteger [Term] id: UBERON:0006050 name: digit 3 namespace: uberon is_a: UBERON:0002544 ! digit property_value: ray_number "3" xsd:nonNegativeInteger [Term] id: UBERON:0006051 name: digit 4 namespace: uberon is_a: UBERON:0002544 ! digit property_value: ray_number "4" xsd:nonNegativeInteger [Term] id: UBERON:0006052 name: digit 5 namespace: uberon is_a: UBERON:0002544 ! digit property_value: ray_number "5" xsd:nonNegativeInteger [Term] id: UBERON:0006054 name: surface of occiput namespace: uberon def: "The occiput is the anatomical term for the posterior (back) portion of the head." [Wikipedia:Occiput] synonym: "occiput" RELATED [FMA:46479] synonym: "occiput cranii" RELATED LATIN [Wikipedia:Occiput] synonym: "occiput surface" EXACT [FMA:46479] synonym: "regio occipitalis (capitis)" EXACT [FMA:46479] xref: FMA:46479 xref: galen:Occiput xref: http://upload.wikimedia.org/wikipedia/commons/e/eb/Double_cowlick.jpg is_a: UBERON:0006056 ! posterior surface of head [Term] id: UBERON:0006056 name: posterior surface of head namespace: uberon is_a: UBERON:0000015 ! anatomical boundary relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0006057 name: obsolete multi-segment region namespace: uberon is_obsolete: true [Term] id: UBERON:0006058 name: multi-limb segment region namespace: uberon def: "A collection of two or more connected limb segments. Examples: arm (comprising stylopod and zeugopod regions)." [UBERON:cjm] is_a: UBERON:0000477 ! anatomical cluster relationship: has_part UBERON:0002529 ! limb segment [Term] id: UBERON:0006059 name: falx cerebri namespace: uberon def: "The falx cerebri, also known as the cerebral falx, so named from its sickle-like form, is a strong, arched fold of dura mater which descends vertically in the longitudinal fissure between the cerebral hemispheres. It is narrow in front, where it is attached to the crista galli of the ethmoid; and broad behind, where it is connected with the upper surface of the tentorium cerebelli. Its upper margin is convex, and attached to the inner surface of the skull in the middle line, as far back as the internal occipital protuberance; it contains the superior sagittal sinus. Its lower margin is free and concave, and contains the inferior sagittal sinus. The falx cerebri is known to calcify with age." [Wikipedia:Falx_cerebri] synonym: "cerebral falx" EXACT [FMA:83967] xref: EMAPA:18551 xref: FMA:83967 xref: SCTID:279275004 xref: UMLS:C0228120 xref: http://upload.wikimedia.org/wikipedia/commons/f/ff/Falxcerebri.jpg xref: ncithesaurus:Falx_Cerebri is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: immediate_transformation_of UBERON:0010090 ! future falx cerebri relationship: part_of UBERON:0002363 ! dura mater [Term] id: UBERON:0006060 name: conotruncus namespace: uberon def: "The distal portion of Bulbus cordis that forms an outflow channel and gives rise to the proximal conus cordis." [UBERON:gg] synonym: "bulbus cordis rostral half" EXACT [VHOG:0000437] synonym: "rostral half of bulbus cordis" EXACT [EMAPA:16221] xref: EMAPA:16221 xref: EMAPA:16338 xref: VHOG:0000437 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0004706 ! bulbus cordis property_value: homology_notes "The conus arteriosus is considered a component part of the heart because it has a myocardial wall and lies within the pericardial cavity. It is a feature of the evolutionary primitive state. In amphibians it is called the bulbus cordis, a term that is also used for its equivalent in mammalian embryos. The more derived extant bony fish, like the zebrafish, do not have this cardiac compartment. They have a so-called bulbus arteriosus, which is not enclosed by cardiac muscle, but by elastic tissue and smooth muscle, and therefore is considered to be a specialization of the proximal part of the ventral aorta (256). However, similar to the mammalian condition (306, 326, 339), the bulbus arteriosus in zebrafish embryonic hearts is surrounded by myocardium that disappears with development (134, 135). The bony fish bulbus arteriosus might thus be homologous to the shark conus arteriosus and amphibian/mammalian bulbus cordis.[well established][VHOG]" xsd:string [Term] id: UBERON:0006061 name: process of vertebra namespace: uberon def: "A process projection from a part of the vertebra such as centrum or arches. Examples: transverse process, diapophyses, parapophyses, and zygapophyses (both the cranial zygapophyses and the caudal zygapophyses)." [Wikipedia:Vertebral_column#Structure_of_individual_vertebrae] synonym: "vertebra process" EXACT [] synonym: "vertebral process" EXACT [FMA:24530] xref: FMA:24530 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004529 ! anatomical projection relationship: part_of UBERON:0002412 ! vertebra [Term] id: UBERON:0006062 name: articular process of vertebra namespace: uberon def: "Paired processes at the cephalic and caudal ends of the neural arch. They function as interlocking structures between adjacent vertebrae, and limit dorsoventral flexion and lateral movement of the column in the trunk region[AAO]. The articular processes or zygapophyses of a vertebra, in human anatomy contain two superior and two inferior, spring from the junctions of the pedicles and laminae. These stick out of an end of a vertebra to lock with a zygapophysis on the next vertebra, to make the backbone more stable. The superior processes project upward from a lower vertebra, and their articular surfaces are directed more or less backward. The inferior processes project downward from a higher vertebra, and their articular surfaces are directed more or less forward and outward. The articular surfaces are coated with hyaline cartilage." [AAO:Pugener_and_Maglia_2008, Wikipedia:Articular_processes] comment: todo - class as endochondral bone, check species subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "articular process" BROAD [Wikipedia:Articular_processes] synonym: "intercalarium articulating process" RELATED [TAO:0001549] synonym: "p. articularis inferior vertebrae, p. articularis superior vertebrae," RELATED LATIN [Wikipedia:Articular_processes] synonym: "processus articularis (zygapophysis)" EXACT [FMA:11952] synonym: "zygapophysis" EXACT [Wikipedia:Articular_processes] xref: AAO:0000710 xref: FMA:11952 xref: SCTID:317570004 xref: TAO:0001549 xref: ZFA:0001603 xref: http://upload.wikimedia.org/wikipedia/commons/3/3e/Processusarticularissuperiorvertebrae.png is_a: UBERON:0006061 ! process of vertebra relationship: in_lateral_side_of UBERON:0002412 ! vertebra property_value: external_definition "Paired processes at the cephalic and caudal ends of the neural arch. They function as interlocking structures between adjacent vertebrae, and limit dorsoventral flexion and lateral movement of the column in the trunk region.[AAO]" xsd:string [Term] id: UBERON:0006063 name: cartilaginous neural arch namespace: uberon def: "One of the cartilaginous structures surrounding the embryonic spinal cord, formed by the dorsal growth of the dorsolateral arcualia; it is the primordium of the vertebral arch." [BTO:0001763] xref: BTO:0001763 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010358 ! arch of centrum of vertebra relationship: has_part UBERON:0002418 ! cartilage tissue relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006065 name: hemal arch namespace: uberon def: "Bony canal attached to the ventral surface or the vertebral centrum that encloses and protects the caudal artery and vein ventrally. The arch consists of right and left halves, which are fused ventrally to give a V- or Y-shape to the ventral aspect of the vertebra[AAO]. Hemal arches extend ventrally from the centra of caudal and transitional vertebrae to enclose the caudal artery and vein. In cyprinids, the hemal arch forms directly in membrane bone[ZFA]." [AAO:0000726, Wikipedia:Haemal_arch, ZFIN:curator] comment: Taxon notes: fish, most reptiles, some birds, and some mammals with long tails.[WP] synonym: "chevron" RELATED [PHENOSCAPE:ad] synonym: "haemal arch" EXACT [AAO:0000726, ZFA:0000519] synonym: "ventral arch" RELATED [AAO:0000726] synonym: "ventral arcocentrum" EXACT [ZFA:0000519] xref: AAO:0000726 xref: TAO:0000519 xref: ZFA:0000519 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0004247 ! back bone is_a: UBERON:0010358 ! arch of centrum of vertebra relationship: part_of UBERON:0001095 ! caudal vertebra property_value: axiom_lost_from_external_ontology "relationship loss: develops_from basiventral (TAO:0001361)[TAO]" xsd:string property_value: external_definition "Bony canal attached to the ventral surface or the vertebral centrum that encloses and protects the caudal artery and vein ventrally. The arch consists of right and left halves, which are fused ventrally to give a V- or Y-shape to the ventral aspect of the vertebra.[AAO]" xsd:string property_value: external_definition "Hemal arches extend ventrally from the centra of caudal and transitional vertebrae to enclose the caudal artery and vein. In cyprinids, the hemal arch forms directly in membrane bone.[TAO]" xsd:string [Term] id: UBERON:0006067 name: musculature of hindlimb zeugopod namespace: uberon def: "A musculature that is part of a hindlimb zeugopod." [OBOL:automatic] synonym: "leg musculature" EXACT [FMA:50211] synonym: "muscle group of leg" EXACT [FMA:50211] synonym: "set of muscles of leg" EXACT [FMA:50211] xref: FMA:50211 is_a: UBERON:0004466 ! musculature of leg intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0006068 name: bone of tail namespace: uberon def: "A bone that is part of a post-anal tail." [OBOL:automatic] synonym: "tail bone" EXACT [MA:0000696] xref: MA:0000696 intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0006070 name: coccygeal vertebra namespace: uberon def: "A caudal vertebra that is part of a coccyx." [UBERON:cjm] comment: AO notes: we assume the MA class represents a subtype of caudal vertebra in what corresponds to the coccyx in humans synonym: "caudal vertebra" BROAD SENSU [FMA:12527] synonym: "coccygea" RELATED [MA:0001420] synonym: "coccygeal segment" EXACT [] synonym: "fused tail vertebra" EXACT [UBERON:cjm] xref: FMA:12527 xref: MA:0001420 xref: OpenCyc:Mx4rv9IEzZwpEbGdrcN5Y29ycA xref: SCTID:361774004 xref: UMLS:C0223616 xref: galen:CoccygealVertebra xref: ncithesaurus:Coccygeal_Vertebra is_a: UBERON:0001095 ! caudal vertebra relationship: develops_from UBERON:0013517 ! coccygeal vertebra cartilaginous condensation intersection_of: UBERON:0001095 ! caudal vertebra intersection_of: part_of UBERON:0001350 ! coccyx [Term] id: UBERON:0006071 name: caudal region namespace: uberon comment: We follow XAO is distinguishing the tail region from the tail; the tail bud is part of the tail region; the tail starts after the tail bud synonym: "postsacral region" RELATED [AAO:0000082] synonym: "tail region" RELATED [AAO:0000082] xref: XAO:0000087 is_a: UBERON:0011676 ! axial subdivision of organism relationship: part_of UBERON:0000154 ! posterior region of body [Term] id: UBERON:0006072 name: cervical region of vertebral column namespace: uberon def: "That portion of the spine comprising the cervical vertebrae. The neck area of the spine." [Medical_Dictionary:http://medical-dictionary.thefreedictionary.com/] synonym: "cervical skeleton" EXACT [EHDAA2:0000238] synonym: "cervical spinal column" EXACT [FMA:24138] synonym: "cervical spine" EXACT [FMA:24138] synonym: "cervical vertebral column" EXACT [FMA:24138] xref: AAO:0000092 xref: BTO:0004148 xref: EHDAA2:0000238 xref: EHDAA:5051 xref: EMAPA:17215 xref: FMA:24138 xref: SCTID:260488005 xref: UMLS:C0728985 xref: ncithesaurus:Cervical_Spine relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0012477 ! dorsal part of neck intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0005434 ! cervical region property_value: external_definition "Anterior region of the vertebral column consisting of one to 19 or 20 vertebrae.[AAO]" xsd:string [Term] id: UBERON:0006073 name: thoracic region of vertebral column namespace: uberon def: "That part of the spine comprising the thoracic vertebrae." [Medical_Dictionary:http://medical-dictionary.thefreedictionary.com/] synonym: "columna vertebralis thoracicus" EXACT [FMA:9140] synonym: "thoracic skeleton" EXACT [EHDAA2:0002013] synonym: "thoracic spine" EXACT [FMA:9140] synonym: "thoracic vertebral column" EXACT [FMA:9140] xref: AAO:0000612 xref: BTO:0004150 xref: EHDAA2:0002013 xref: EHDAA:5063 xref: EMAPA:17396 xref: FMA:9140 xref: SCTID:243931006 xref: UMLS:C0581269 xref: ncithesaurus:Thoracic_Spine relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0000915 ! thoracic segment of trunk property_value: external_definition "Region of the vertebral column between the atlas and the sacrum consisting of seven to 285 vertebrae.[AAO]" xsd:string [Term] id: UBERON:0006074 name: lumbar region of vertebral column namespace: uberon def: "Subdivision of vertebral column that corresponds to the lumbar subdivision of the body, containing the lumbar vertebrae." [UBERONREF:0000006] synonym: "lumbar skeleton" EXACT [EHDAA2:0001037] synonym: "lumbar spine" EXACT [BTO:0004147] synonym: "lumbar vertebral column" EXACT [FMA:16203] xref: BTO:0004147 xref: EHDAA2:0001037 xref: EHDAA:5055 xref: EMAPA:17393 xref: FMA:16203 xref: GAID:31 xref: SCTID:243932004 xref: ncithesaurus:Lumbar_Spine relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0005462 ! lower back intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0005462 ! lower back [Term] id: UBERON:0006075 name: sacral region of vertebral column namespace: uberon def: "Subdivision of vertebral column that corresponds to the sacral subdivision of the body, containing the sacral vertebrae or sacrum." [UBERONREF:0000006] comment: In adult humans, the sacral skeleton is fused and called the sacrum synonym: "sacral skeleton" EXACT [EHDAA2:0001772] synonym: "sacrum" NARROW [] xref: AAO:0000724 xref: EHDAA2:0001772 xref: EHDAA:5059 xref: EMAPA:17676 xref: GAID:32 relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0005473 ! sacral region intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0005473 ! sacral region property_value: external_definition "Region of the vertebral column represented by one or two vertebrae.[AAO]" xsd:string [Term] id: UBERON:0006076 name: caudal region of vertebral column namespace: uberon def: "Subdivision of vertebral column that corresponds to the sacral subdivision of the body, containing the caudal vertebrae." [UBERONREF:0000006] comment: in AAO, this is posterior to the caudal-sacral region synonym: "caudal region" RELATED [AAO:0000082] synonym: "caudal skeleton" EXACT [UBERONREF:0000006] synonym: "postsacral region" RELATED [AAO:0000082] synonym: "tail region" RELATED [AAO:0000082] xref: AAO:0000082 relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0006071 ! caudal region intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: subdivision_of UBERON:0006071 ! caudal region property_value: external_definition "Region of the vertebral column posterior to the caudal-sacral region, that may consists of two or three to more than 100 vertebrae. These vertebrae exhibit a gradual reduction in the sizes of their transverse processes and zygapophyses, but these structures are never entirely absent. All caudal vertebrae bear haemal arches.[AAO]" xsd:string [Term] id: UBERON:0006077 name: subdivision of vertebral column namespace: uberon def: "A collection of all skeletal elements in some subdivision of the vertebral column." [UBERON:cjm] subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "subdivision of vertebral skeleton" EXACT [UBERON:cjm] synonym: "vertebral column subdivision" EXACT [FMA:16201] synonym: "vertebral region" RELATED [] synonym: "vertebral subdivision" RELATED [] xref: FMA:16201 is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001130 ! vertebral column relationship: part_of UBERON:0001137 ! dorsum intersection_of: UBERON:0000075 ! subdivision of skeletal system intersection_of: subdivision_of UBERON:0001130 ! vertebral column [Term] id: UBERON:0006078 name: subdivision of spinal cord lateral column namespace: uberon subset: non_informative ! abstract class brought in to group ontology classes but not informative is_a: UBERON:0006080 ! segment of white matter of spinal cord relationship: part_of UBERON:0005374 ! spinal cord lateral column [Term] id: UBERON:0006079 name: subdivision of spinal cord dorsal column namespace: uberon subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "segment of dorsal funiculus of spinal cord" RELATED [FMA:258190] xref: FMA:258190 is_a: UBERON:0006080 ! segment of white matter of spinal cord relationship: part_of UBERON:0005373 ! spinal cord dorsal column [Term] id: UBERON:0006080 name: segment of white matter of spinal cord namespace: uberon xref: FMA:258174 is_a: UBERON:0002318 ! white matter of spinal cord [Term] id: UBERON:0006081 name: fundus of gallbladder namespace: uberon def: "The fundus of gallbladder is the portion of the gallbladder which lies the farthest from the cystic duct. It is covered with peritoneum. A traditional cholecystectomy is most commonly performed from the infundibulum to the fundus. It's at the same level as the transpyloric plane." [Wikipedia:Fundus_of_gallbladder] synonym: "fundus of the gallbladder" RELATED [Wikipedia:Fundus_of_gallbladder] synonym: "fundus vesicae biliaris" RELATED LATIN [Wikipedia:Fundus_of_gallbladder] synonym: "gallbladder fundus" EXACT [FMA:14536, Wikipedia:Fundus_of_gallbladder] xref: FMA:14536 xref: SCTID:245391004 xref: UMLS:C0227544 xref: http://upload.wikimedia.org/wikipedia/commons/4/44/Gray1095_parts.png xref: ncithesaurus:Gallbladder_Fundus is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002110 ! gallbladder [Term] id: UBERON:0006082 name: fundus of urinary bladder namespace: uberon def: "The base or posterior surface of the urinary bladder contains the trigone of the bladder and the outlet where urine empties through the internal urethral orifice." [MP:0011785, Wikipedia:Fundus_of_the_urinary_bladder#Fundus] synonym: "base of urinary bladder" EXACT [FMA:15908] synonym: "fundus of bladder" BROAD [FMA:15908] synonym: "fundus vesicae" EXACT LATIN [FMA:15908, FMA:TA] synonym: "urinary bladder base" EXACT [MP:0011785] synonym: "urinary bladder fundus" EXACT [FMA:15908] synonym: "urinary bladder fundus region" EXACT [MA:0001694] xref: EHDAA2:0000582 xref: EHDAA:9330 xref: EMAPA:18322 xref: FMA:15908 xref: MA:0001694 xref: SCTID:362226002 xref: UMLS:C0447584 xref: VHOG:0001184 xref: ncithesaurus:Bladder_Fundus is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0005760 ! urorectal septum relationship: develops_from UBERON:0009845 ! urogenital sinus mesenchyme relationship: part_of UBERON:0001255 ! urinary bladder [Term] id: UBERON:0006083 name: Perirhinal cortex namespace: uberon synonym: "perirhinal area" EXACT [NIF_GrossAnatomy:nlx_anat_1005006] synonym: "perirhinal cortex" EXACT [NIF_GrossAnatomy:nlx_anat_1005006] xref: ABA:PERI xref: BM:Tel-Cx-PRh xref: BTO:0004355 xref: EFO:0001978 xref: MA:0000912 xref: NIF_GrossAnatomy:nlx_anat_1005006 is_a: UBERON:0002619 ! regional part of cerebral cortex is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0002022 ! insula [Term] id: UBERON:0006086 name: stria medullaris namespace: uberon def: "The major afferent track to the habenula from the telencephalon (particularly in the septal side) in all vertebrates[Butler and Hodos]." [ISBN10:0471888893] synonym: "stria habenularis" EXACT [NIF_GrossAnatomy:birnlex_1066] synonym: "stria medullaris (wenzel - wenzel)" EXACT [NIF_GrossAnatomy:birnlex_1066] synonym: "stria medullaris of thalamus" EXACT [FMA:62080, NIF_GrossAnatomy:birnlex_1066] synonym: "stria medullaris thalami" EXACT PLURAL [NIF_GrossAnatomy:birnlex_1066] synonym: "stria medullaris thalamica" EXACT [NIF_GrossAnatomy:birnlex_1066] xref: BM:Die-SM xref: FMA:62080 xref: NIF_GrossAnatomy:birnlex_1066 xref: SCTID:362368004 is_a: UBERON:0011299 ! white matter of telencephalon is_a: UBERON:0013199 ! stria of neuraxis relationship: overlaps UBERON:0001904 ! habenula relationship: part_of UBERON:0001893 ! telencephalon property_value: present_in_taxon NCBITaxon:7742 property_value: external_definition "Stria medullaris of thalamus is a slender fiber bundle on the dorsal surface of the diencephalon which terminates posteriorly in the habenular nuclei[FMA:62080]." xsd:string [Term] id: UBERON:0006087 name: internal arcuate fiber bundle namespace: uberon synonym: "arcuate fibers medial lemniscus" EXACT [NIF_GrossAnatomy:birnlex_1091] synonym: "fibrae arcuatae internae" EXACT LATIN [FMA:72629, FMA:TA] synonym: "internal arcuate fibers" EXACT [FMA:72629, NIF_GrossAnatomy:birnlex_1091] synonym: "internal arcuate fibres" EXACT [FMA:72629] synonym: "internal arcuate tract" EXACT [FMA:72629] xref: FMA:72629 xref: NIF_GrossAnatomy:birnlex_1091 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006088 name: inferior parietal cortex namespace: uberon def: "Component of the parietal lobe. The inferior parietal cortex label includes the inferior parietal gyrus and the angular gyrus and lies inferior to the superior parietal gyrus. The rostral and caudal boundaries were the supramarginal gyrus and the parieto-occipital incisure respectively. The medial and lateral boundaries were the superior parietal gyrus and the middle temporal gyrus respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1194] synonym: "inferior parietal cortex" EXACT [NIF_GrossAnatomy:birnlex_1194] synonym: "inferior parietal lobule" EXACT [FMA:77536, NIF_GrossAnatomy:birnlex_1194] xref: EFO:0001951 xref: FMA:77536 xref: NIF_GrossAnatomy:birnlex_1194 xref: SCTID:362336007 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex [Term] id: UBERON:0006089 name: dorsal external arcuate fiber bundle namespace: uberon synonym: "dorsal external arcuate fiber bundle" EXACT [NIF_GrossAnatomy:birnlex_1250] synonym: "dorsal external arcuate fibers" EXACT [FMA:72630, NIF_GrossAnatomy:birnlex_1250] synonym: "dorsal external arcuate tract" EXACT [FMA:72630] synonym: "dorsal superficial arcuate fibers" EXACT [FMA:72630, NIF_GrossAnatomy:birnlex_1250] synonym: "external arcuate fibers" EXACT [NIF_GrossAnatomy:birnlex_1250] xref: FMA:72630 xref: NIF_GrossAnatomy:birnlex_1250 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006090 name: glossopharyngeal nerve fiber bundle namespace: uberon synonym: "central part of glossopharyngeal nerve" EXACT [FMA:72627, NIF_GrossAnatomy:birnlex_1274] synonym: "glossopharyngeal nerve fiber bundle" EXACT [NIF_GrossAnatomy:birnlex_1274] synonym: "glossopharyngeal nerve fibers" EXACT [FMA:72627, NIF_GrossAnatomy:birnlex_1274] synonym: "glossopharyngeal nerve tract" EXACT [FMA:72627] synonym: "ninth cranial nerve fibers" EXACT [FMA:72627, NIF_GrossAnatomy:birnlex_1274] xref: FMA:72627 xref: NIF_GrossAnatomy:birnlex_1274 is_a: UBERON:0002678 ! regional part of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006091 name: inferior horn of the lateral ventricle namespace: uberon def: "The part of the lateral ventricle extending downward and anteriorly in the temporal lobe." [NIF_GrossAnatomy:birnlex_1292] synonym: "cornu inferius ventriculi lateralis" EXACT LATIN [FMA:83701, FMA:TA] synonym: "inferior horn of lateral ventricle" EXACT [FMA:83701] synonym: "inferior horn of the lateral ventricle" EXACT [NIF_GrossAnatomy:birnlex_1292] synonym: "temporal horn of lateral ventricle" EXACT [NIF_GrossAnatomy:birnlex_1292] xref: FMA:83701 xref: NIF_GrossAnatomy:birnlex_1292 xref: SCTID:362315005 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002285 ! telencephalic ventricle [Term] id: UBERON:0006092 name: cuneus cortex namespace: uberon def: "Component of the occipital lobe. The rostral boundary was the first coronal slice above the calcarine sulcus where the cuneus cortex becomes visible whereas the caudal boundary was the last slice where the calcarine sulcus was visualized. The medial boundary was the most medial portion of the occipital and parietal cortices. The superio-lateral boundary was the parieto-occipital fissure whereas the inferolateral boundary was the pericalcarine cortex (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1396] synonym: "cuneate lobule" EXACT [FMA:61903, NIF_GrossAnatomy:birnlex_1396] synonym: "cuneus" EXACT [NIF_GrossAnatomy:birnlex_1396] synonym: "cuneus cortex" EXACT [NIF_GrossAnatomy:birnlex_1396] synonym: "cuneus gyrus" EXACT [FMA:61903, NIF_GrossAnatomy:birnlex_1396] synonym: "cuneus of hemisphere" EXACT [FMA:61903, NIF_GrossAnatomy:birnlex_1396] xref: FMA:61903 xref: NIF_GrossAnatomy:birnlex_1396 xref: SCTID:279199007 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0001950 ! neocortex relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0006093 name: precuneus cortex namespace: uberon def: "Component of the pareital lobe. The rostral boundary was the posterior extent of the paracentral lobule whereas the caudal boundary was the lingual gyrus. The medial and lateral boundaries were the parieto-occipital fissure and the superior parietal gyrus respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1446] synonym: "precuneate lobule" EXACT [FMA:61900, NIF_GrossAnatomy:birnlex_1446] synonym: "precuneus" EXACT [NIF_GrossAnatomy:birnlex_1446] synonym: "precuneus cortex" EXACT [NIF_GrossAnatomy:birnlex_1446] synonym: "quadrate lobule" EXACT [FMA:61900, NIF_GrossAnatomy:birnlex_1446] xref: FMA:61900 xref: NIF_GrossAnatomy:birnlex_1446 xref: SCTID:279200005 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0001872 ! parietal lobe relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0006094 name: superior parietal cortex namespace: uberon def: "Copmonent of the parietal lobe. The rostral and caudal boundaries of the superior parietal cortex were the precentral gyrus and lateral occipital cortex respectively. The medial and lateral boundaries were the precuneus and/or cuneus cortex and the infererior parietal cortex respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1450] synonym: "superior parietal cortex" EXACT [NIF_GrossAnatomy:birnlex_1450] synonym: "superior parietal gyrus" EXACT [FMA:61899, NIF_GrossAnatomy:birnlex_1450] synonym: "superior parietal lobule" EXACT [NIF_GrossAnatomy:birnlex_1450] synonym: "superior portion of parietal gyrus" EXACT [FMA:61899, NIF_GrossAnatomy:birnlex_1450] xref: FMA:61899 xref: NIF_GrossAnatomy:birnlex_1450 xref: SCTID:279168006 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0001872 ! parietal lobe relationship: part_of UBERON:0001950 ! neocortex [Term] id: UBERON:0006095 name: anterior transverse termporal area 41 namespace: uberon alt_id: UBERON:0013574 synonym: "Area temporalis transversa anterior" EXACT [NIF_GrossAnatomy:birnlex_1774] synonym: "B09-41" EXACT [NIF_GrossAnatomy:birnlex_1774] synonym: "BA41" EXACT ABBREVIATION [] synonym: "Brodmann area 41" EXACT [FMA:68638] synonym: "Brodmann area 41, anterior transverse temporal" EXACT [NIF_GrossAnatomy:birnlex_1774] synonym: "Brodmann's area 41" EXACT [NIF_GrossAnatomy:birnlex_1582] synonym: "anterior transverse temporal area 41" EXACT [FMA:68638] synonym: "anterior transverse termporal area 41" EXACT [NIF_GrossAnatomy:birnlex_1582] synonym: "area 41 of Brodmann" EXACT [FMA:68638, NIF_GrossAnatomy:birnlex_1582] synonym: "area 41 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1774] synonym: "brodmann (1909) area 41" EXACT [NIF_GrossAnatomy:birnlex_1774] synonym: "principle auditory receptive areas" EXACT [NIF_GrossAnatomy:birnlex_1582] xref: FMA:68638 xref: NIF_GrossAnatomy:birnlex_1582 xref: NIF_GrossAnatomy:birnlex_1774 is_a: UBERON:0013529 ! Brodmann area [Term] id: UBERON:0006096 name: posterior transverse termporal area 42 namespace: uberon alt_id: UBERON:0013575 synonym: "Area temporalis transversa posterior" EXACT [NIF_GrossAnatomy:birnlex_1775] synonym: "B09-42" EXACT [NIF_GrossAnatomy:birnlex_1775] synonym: "BA42" EXACT ABBREVIATION [] synonym: "Brodmann area 42" EXACT [FMA:68639] synonym: "Brodmann area 42, posterior transverse temporal" EXACT [NIF_GrossAnatomy:birnlex_1775] synonym: "Brodmann's area 42" EXACT [NIF_GrossAnatomy:birnlex_1589] synonym: "area 42 of Brodmann" EXACT [FMA:68639, NIF_GrossAnatomy:birnlex_1589] synonym: "area 42 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1775] synonym: "auditory association area" EXACT [NIF_GrossAnatomy:birnlex_1589] synonym: "brodmann (1909) area 42" EXACT [NIF_GrossAnatomy:birnlex_1775] synonym: "posterior transverse temporal area 42" EXACT [FMA:68639] synonym: "posterior transverse termporal area 42" EXACT [NIF_GrossAnatomy:birnlex_1589] xref: FMA:68639 xref: NIF_GrossAnatomy:birnlex_1589 xref: NIF_GrossAnatomy:birnlex_1775 is_a: UBERON:0013529 ! Brodmann area [Term] id: UBERON:0006097 name: ventral external arcuate fiber bundle namespace: uberon synonym: "ventral external arcuate fiber bundle" EXACT [NIF_GrossAnatomy:birnlex_1628] synonym: "ventral external arcuate fibers" EXACT [FMA:72631, NIF_GrossAnatomy:birnlex_1628] synonym: "ventral external arcuate tract" EXACT [FMA:72631] xref: FMA:72631 xref: NIF_GrossAnatomy:birnlex_1628 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0002678 ! regional part of medulla oblongata is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006098 name: basal nuclear complex namespace: uberon def: "The deep nuclei found in the basal forebrain." [NIF_GrossAnatomy:birnlex_1629] synonym: "basal ganglia" RELATED INCONSISTENT [NIF_GrossAnatomy:birnlex_1629] synonym: "basal nuclei" EXACT [NIF_GrossAnatomy:birnlex_1629] synonym: "basal nuclei of the forebrain" EXACT [NIF_GrossAnatomy:birnlex_1629] xref: EV:0100182 xref: NIF_GrossAnatomy:birnlex_1629 is_a: UBERON:0002780 ! regional part of forebrain relationship: part_of UBERON:0002743 ! basal forebrain [Term] id: UBERON:0006099 name: Brodmann (1909) area 1 namespace: uberon def: "." [NIF_GrossAnatomy:birnlex_1732] synonym: "Area postcentralis intermedia" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "B09-1" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "BA1" EXACT ABBREVIATION [] synonym: "Brodmann (1909) area 1" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "Brodmann area 1" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "Brodmann's area 1" EXACT [FMA:68597] synonym: "area 1 of Brodmann" EXACT [FMA:68597] synonym: "area 1 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "intermediate postcentral" EXACT [NIF_GrossAnatomy:birnlex_1732] synonym: "intermediate postcentral area" EXACT [FMA:68597] xref: FMA:68597 xref: NIF_GrossAnatomy:birnlex_1732 is_a: UBERON:0013529 ! Brodmann area relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006100 name: Brodmann (1909) area 3 namespace: uberon def: "." [NIF_GrossAnatomy:birnlex_1734] synonym: "Area postcentralis oralis" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "B09-3" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "BA3" EXACT ABBREVIATION [] synonym: "Brodmann (1909) area 3" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "Brodmann area 3" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "Brodmann's area 3" EXACT [FMA:68599] synonym: "area 3 of Brodmann" EXACT [FMA:68599] synonym: "area 3 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "rostral postcentral" EXACT [NIF_GrossAnatomy:birnlex_1734] synonym: "rostral postcentral area" EXACT [FMA:68599] xref: FMA:68599 xref: NIF_GrossAnatomy:birnlex_1734 is_a: UBERON:0013529 ! Brodmann area relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006101 name: Brodmann (1909) area 24 namespace: uberon def: "." [NIF_GrossAnatomy:birnlex_1755] synonym: "B09-24" EXACT [NIF_GrossAnatomy:birnlex_1755] synonym: "BA24" EXACT ABBREVIATION [] synonym: "Brodmann (1909) area 24" EXACT [NIF_GrossAnatomy:birnlex_1755] synonym: "Brodmann area 24" EXACT [NIF_GrossAnatomy:birnlex_1755] synonym: "area 24 of Brodmann" EXACT [FMA:68621] synonym: "area 24 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1755] synonym: "area cingularis anterior ventralis" EXACT [NIF_GrossAnatomy:birnlex_1755] synonym: "ventral anterior cingulate" EXACT [NIF_GrossAnatomy:birnlex_1755] xref: FMA:68621 xref: NIF_GrossAnatomy:birnlex_1755 is_a: UBERON:0013529 ! Brodmann area relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006102 name: Brodmann (1909) area 35 namespace: uberon synonym: "Area perirhinalis" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "B09-35" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "BA35" EXACT ABBREVIATION [] synonym: "Brodmann (1909) area 35" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "Brodmann area 35" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "Brodmann area 35, perirhinal" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "Brodmann's area 35" EXACT [FMA:68632] synonym: "Brodmann.35" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "area 35 of Brodmann" EXACT [FMA:68632] synonym: "area 35 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1768] synonym: "perirhinal area 35" EXACT [FMA:68632] xref: BTO:0004356 xref: FMA:68632 xref: NIF_GrossAnatomy:birnlex_1768 xref: SCTID:384790006 is_a: UBERON:0013529 ! Brodmann area [Term] id: UBERON:0006104 name: Brodmann (1909) area 36 namespace: uberon synonym: "Area ectorhinalis" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "B09-36" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "BA36" EXACT ABBREVIATION [] synonym: "Brodmann (1909) area 36" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "Brodmann area 36" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "Brodmann.36" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "area 36 of Brodmann" EXACT [FMA:68633] synonym: "area 36 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "ectorhinal" EXACT [NIF_GrossAnatomy:birnlex_1769] synonym: "ectorhinal area 36" EXACT [FMA:68633] xref: BTO:0004357 xref: FMA:68633 xref: NIF_GrossAnatomy:birnlex_1769 is_a: UBERON:0013529 ! Brodmann area [Term] id: UBERON:0006105 name: obsolete basis modioli namespace: uberon is_obsolete: true consider: FMA:75640 consider: NIF_GrossAnatomy:birnlex_2522 synonym: "basis modioli cochleae" EXACT LATIN [FMA:75640, FMA:TA] [Term] id: UBERON:0006106 name: cochlear canal namespace: uberon synonym: "cochlear canal" EXACT [NIF_GrossAnatomy:birnlex_2553] synonym: "spiral canal of cochlea" EXACT [NIF_GrossAnatomy:birnlex_2553] synonym: "wall of cochlea" EXACT [FMA:75371] xref: FMA:75371 xref: NIF_GrossAnatomy:birnlex_2553 xref: SCTID:279779009 is_a: UBERON:0002558 ! organ cavity is_a: UBERON:0010527 ! cavity of bone organ relationship: part_of UBERON:0001844 ! cochlea [Term] id: UBERON:0006107 name: basolateral amygdaloid nuclear complex namespace: uberon synonym: "BL" EXACT [NIF_GrossAnatomy:birnlex_2679] synonym: "Basolateral nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_2679] synonym: "amygdalar basolateral nucleus" EXACT [NIF_GrossAnatomy:birnlex_2679] synonym: "amygdaloid basolateral complex" EXACT [FMA:84016, NIF_GrossAnatomy:birnlex_2679] synonym: "basolateral amygdaloid nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_2679] synonym: "basolateral nuclear group" EXACT [FMA:84016, NIF_GrossAnatomy:birnlex_2679] synonym: "basolateral nuclei of amygdala" EXACT [FMA:84016] synonym: "pars basolateralis (Corpus amygdaloideum)" EXACT [NIF_GrossAnatomy:birnlex_2679] synonym: "set of basolateral nuclei of amygdala" RELATED [FMA:84016] synonym: "vicarious cortex" EXACT [FMA:84016, NIF_GrossAnatomy:birnlex_2679] xref: FMA:84016 xref: NIF_GrossAnatomy:birnlex_2679 is_a: UBERON:0007245 ! nuclear complex of neuraxis property_value: spatially_disjoint_from UBERON:0002023 [Term] id: UBERON:0006108 name: corticomedial nuclear complex namespace: uberon synonym: "CMA" EXACT [NIF_GrossAnatomy:birnlex_2680] synonym: "amygdalar corticomedial nucleus" EXACT [NIF_GrossAnatomy:birnlex_2680] synonym: "corticomedial nuclear complex" EXACT [NIF_GrossAnatomy:birnlex_2680] synonym: "corticomedial nuclear group" EXACT [FMA:84015, NIF_GrossAnatomy:birnlex_2680] synonym: "corticomedial nuclei of amygdala" EXACT [FMA:84015] synonym: "pars corticomedialis (Corpus amygdaloideum)" EXACT [NIF_GrossAnatomy:birnlex_2680] synonym: "set of corticomedial nuclei of amygdala" EXACT [FMA:84015] xref: FMA:84015 xref: NIF_GrossAnatomy:birnlex_2680 is_a: UBERON:0007245 ! nuclear complex of neuraxis [Term] id: UBERON:0006114 name: lateral occipital cortex namespace: uberon def: "Component of the occipital lobe. The rostral and caudal boundaries of the lateral occipital cortex were the superior parietal gyrus and as the last visible portion of occipital cortex respectively. The medial and lateral boundaries were the cuneus/pericalcarine cortex and the inferior temporal/inferior parietal gyri respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_735] synonym: "gyrus occipitalis medius (mai)" EXACT [FMA:61902] synonym: "gyrus occipitalis secundus" EXACT [FMA:61902] synonym: "lateral occipital cortex" EXACT [NIF_GrossAnatomy:birnlex_735] synonym: "lateral occipital gyrus" EXACT [NIF_GrossAnatomy:birnlex_735] xref: FMA:61902 xref: NIF_GrossAnatomy:birnlex_735 xref: SCTID:369218006 is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0001950 ! neocortex relationship: part_of UBERON:0002021 ! occipital lobe [Term] id: UBERON:0006115 name: posterior column of fornix namespace: uberon synonym: "crus fornicis" EXACT LATIN [FMA:61969, FMA:TA] synonym: "crus of fornix" EXACT [FMA:61969, NIF_GrossAnatomy:birnlex_754] synonym: "posterior column of fornix" EXACT [NIF_GrossAnatomy:birnlex_754] synonym: "posterior column of fornix of forebrain" EXACT [FMA:61969] synonym: "posterior crus of fornix" EXACT [FMA:61969, NIF_GrossAnatomy:birnlex_754] synonym: "posterior pillar of fornix" EXACT [FMA:61969, NIF_GrossAnatomy:birnlex_754] xref: FMA:61969 xref: NIF_GrossAnatomy:birnlex_754 xref: SCTID:369116002 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0002780 ! regional part of forebrain is_a: UBERON:0011215 ! cell part cluster of neuraxis [Term] id: UBERON:0006116 name: vagal nerve fiber bundle namespace: uberon synonym: "central part of vagus nerve" EXACT [FMA:72628, NIF_GrossAnatomy:birnlex_765] synonym: "tenth cranial nerve fibers" EXACT [FMA:72628, NIF_GrossAnatomy:birnlex_765] synonym: "vagal nerve fiber bundle" EXACT [NIF_GrossAnatomy:birnlex_765] synonym: "vagal nerve fibers" EXACT [FMA:72628, NIF_GrossAnatomy:birnlex_765] synonym: "vagal nerve tract" EXACT [FMA:72628] xref: FMA:72628 xref: NIF_GrossAnatomy:birnlex_765 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006117 name: accessory nerve fiber bundle namespace: uberon synonym: "accessory nerve fiber bundle" EXACT [NIF_GrossAnatomy:birnlex_916] synonym: "accessory nerve fibers" EXACT [FMA:72626, NIF_GrossAnatomy:birnlex_916] synonym: "accessory nerve tract" EXACT [FMA:72626] synonym: "eleventh cranial nerve fibers" EXACT [FMA:72626] xref: FMA:72626 xref: NIF_GrossAnatomy:birnlex_916 is_a: UBERON:0000122 ! neuron projection bundle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011215 ! cell part cluster of neuraxis relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0006118 name: lamina I of gray matter of spinal cord namespace: uberon synonym: "lamina i of gray matter of spinal cord" EXACT [NIF_GrossAnatomy:nlx_anat_100203] synonym: "lamina marginalis" EXACT [FMA:68862, NIF_GrossAnatomy:nlx_anat_100203] synonym: "lamina spinalis i" EXACT LATIN [FMA:68862, FMA:TA] synonym: "layer of Waldeyer" EXACT [NIF_GrossAnatomy:nlx_anat_100203] synonym: "layer of waldeyer" EXACT [FMA:68862] synonym: "rexed lamina I" EXACT [NIF_GrossAnatomy:nlx_anat_100203] synonym: "rexed lamina i" EXACT [FMA:68862] synonym: "rexed layer 1" EXACT [NIF_GrossAnatomy:nlx_anat_100203] synonym: "spinal lamina I" EXACT [NIF_GrossAnatomy:nlx_anat_100203] synonym: "spinal lamina i" EXACT [FMA:68862] xref: FMA:68862 xref: NIF_GrossAnatomy:nlx_anat_100203 is_a: UBERON:0001948 ! regional part of spinal cord relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: UBERON:0006119 name: subbrachial nucleus namespace: uberon comment: Candidate definition (refers specifically to mouse): \"A group of cells ventral to the nucleus of brachium of inferior colliculus in the mouse (Paxinos-2001).\" [NIF_GrossAnatomy:nlx_anat_1005003] synonym: "subbrachial nucleus" EXACT [NIF_GrossAnatomy:nlx_anat_1005003] synonym: "tegmental area of tsai" EXACT [FMA:77494] xref: FMA:77494 xref: NIF_GrossAnatomy:nlx_anat_1005003 is_a: UBERON:0011214 ! nucleus of midbrain tectum [Term] id: UBERON:0006120 name: superior colliculus superficial gray layer namespace: uberon synonym: "lamina II of superior colliculus" EXACT [Wikipedia:Superior_colliculus#Neural_circuit] synonym: "lamina colliculi superioris ii" EXACT LATIN [FMA:72407, FMA:TA] synonym: "layer II of superior colliculus" EXACT [FMA:72407] synonym: "outer gray layer of superior colliculus" EXACT [FMA:72407] synonym: "stratum griseum superficiale colliculi superioris" EXACT LATIN [FMA:72407, FMA:TA] synonym: "stratum griseum superficiale of superior colliculus" EXACT [Wikipedia:Superior_colliculus#Neural_circuit] synonym: "superficial gray layer of superior colliculus" EXACT [FMA:72407] synonym: "superficial grey layer of superior colliculus" EXACT [FMA:72407] synonym: "superior colliculus superficial gray layer" EXACT [NIF_GrossAnatomy:nlx_anat_1005034] xref: ABA:SCsg xref: FMA:72407 xref: NIF_GrossAnatomy:nlx_anat_1005034 is_a: UBERON:0006785 ! gray matter of superior colliculus is_a: UBERON:0006791 ! superficial layer of superior colliculus property_value: spatially_disjoint_from UBERON:0006779 property_value: spatially_disjoint_from UBERON:0006780 [Term] id: UBERON:0006121 name: hemispheric lobule VIII namespace: uberon synonym: "Biventer 1 (HVIII)" EXACT [NIF_GrossAnatomy:nlx_anat_20081211] synonym: "Biventral Lobule" EXACT [NIF_GrossAnatomy:nlx_anat_20081211] synonym: "Lobulus Biventer" EXACT [NIF_GrossAnatomy:nlx_anat_20081211] synonym: "Paraflocculus Dorsalis" EXACT [NIF_GrossAnatomy:nlx_anat_20081211] synonym: "biventer lobule" EXACT [FMA:72526] synonym: "biventral lobule" EXACT [FMA:72526] synonym: "biventral lobule [h viii]" EXACT [FMA:72526] synonym: "cuneiform lobe" EXACT [FMA:72526] synonym: "dorsal parafloccularis [h viii b]" EXACT [FMA:72526] synonym: "dorsal paraflocculus" EXACT [FMA:72526] synonym: "hemispheric lobule viii" EXACT [NIF_GrossAnatomy:nlx_anat_20081211] synonym: "lobulus biventer [h viii]" EXACT LATIN [FMA:72526, FMA:TA] synonym: "lobulus parafloccularis dorsalis [h viii b]" EXACT LATIN [FMA:72526, FMA:TA] xref: FMA:72526 xref: NIF_GrossAnatomy:nlx_anat_20081211 is_a: UBERON:0004003 ! cerebellum hemisphere lobule [Term] id: UBERON:0006122 name: obsolete retrorubral area namespace: uberon is_obsolete: true consider: FMA:66581 consider: NIF_GrossAnatomy:nlx_anat_20090301 comment: Made obsolete as it grouped two unrelated classes synonym: "A8" RELATED [NIF_GrossAnatomy:nlx_anat_20090301] [Term] id: UBERON:0006123 name: horizontal limb of the diagonal band namespace: uberon synonym: "Diagonal band horizontal limb" EXACT [NIF_GrossAnatomy:nlx_anat_20090303] synonym: "Horizontal limb of the diagonal band of Broca" EXACT [NIF_GrossAnatomy:nlx_anat_20090303] synonym: "hDBB" EXACT [NIF_GrossAnatomy:nlx_anat_20090303] synonym: "horizontal limb of diagonal band" EXACT [FMA:77611] synonym: "horizontal limb of the diagonal band" EXACT [NIF_GrossAnatomy:nlx_anat_20090303] xref: FMA:77611 xref: NIF_GrossAnatomy:nlx_anat_20090303 is_a: UBERON:0006125 ! subdivision of diagonal band [Term] id: UBERON:0006124 name: vertical limb of the diagonal band namespace: uberon synonym: "Vertical limb of the diagonal band of Broca" EXACT [NIF_GrossAnatomy:nlx_anat_20090304] synonym: "vertical limb of diagonal band" EXACT [FMA:77612] synonym: "vertical limb of the diagonal band" EXACT [NIF_GrossAnatomy:nlx_anat_20090304] xref: FMA:77612 xref: NIF_GrossAnatomy:nlx_anat_20090304 is_a: UBERON:0006125 ! subdivision of diagonal band [Term] id: UBERON:0006125 name: subdivision of diagonal band namespace: uberon subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "diagonal band subdivision" EXACT [FMA:77610] synonym: "regional part of diagonal band" EXACT [NIF_GrossAnatomy:nlx_anat_20090302] xref: FMA:77610 xref: NIF_GrossAnatomy:nlx_anat_20090302 is_a: UBERON:0002791 ! regional part of telencephalon [Term] id: UBERON:0006127 name: funiculus of spinal cord namespace: uberon synonym: "spinal cord funiculus" EXACT [FMA:77460] synonym: "white column of spinal cord" EXACT [FMA:77460] xref: FMA:77460 is_a: UBERON:0006080 ! segment of white matter of spinal cord is_a: UBERON:0006133 ! funiculus of neuraxis relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0006133 name: funiculus of neuraxis namespace: uberon def: "The cerebrospinal nerves consist of numerous nerve fibers collected together and enclosed in membranous sheaths. A small bundle of fibers, enclosed in a tubular sheath, is called a funiculus; if the nerve is of small size, it may consist only of a single funiculus; but if large, the funiculi are collected together into larger bundles or fasciculi, which are bound together in a common membranous investment. Examples include: Anterior funiculus of the spinal cord Lateral funiculus of the spinal cord Posterior funiculus of the spinal cord Funiculus solitarius of the medulla Funiculus separans" [Wikipedia:Funiculus_%28neurology%29] xref: FMA:76738 is_a: UBERON:0000122 ! neuron projection bundle [Term] id: UBERON:0006134 name: nerve fiber namespace: uberon def: "A threadlike extension of a nerve cell and consists of an axon and myelin sheath (if existence) in the nervous system. There are nerve fibers in the central nervous system and peripheral nervous system. A nerve fiber may be myelinated and/or unmyelinated. In the central nervous system (CNS), myelin by oligodendroglia cells is formed. Schwann cells form myelin in the peripheral nervous system (PNS). Schwann cells also make a thin covering in an axon without myelin (in the PNS). A peripheral nerve fiber contains an axon, myelin sheath, schwann cells and its endoneurium. There are no endoneurium and schwann cells in the central nervous system" [Wikipedia:Nervous_system_fiber] synonym: "nerve fibre" EXACT [FMA:5914] synonym: "neurofibra" EXACT LATIN [FMA:5914, FMA:TA, Wikipedia:Nerve_fiber] synonym: "neurofibrum" EXACT [FMA:5914] xref: FMA:5914 xref: MESH:A08.663.542 xref: SCTID:88545005 is_a: UBERON:0000470 ! cell part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_part GO:0030424 ! axon relationship: part_of UBERON:0001019 ! fascicle [Term] id: UBERON:0006135 name: myelinated nerve fiber namespace: uberon comment: consider adding link to UBERON:0002316 xref: FMA:5915 xref: GAID:745 xref: MESH:A08.663.542.512 xref: SCTID:362296008 xref: UMLS:C0027750 xref: ncithesaurus:Myelinated_Nerve_Fiber is_a: UBERON:0006134 ! nerve fiber relationship: has_part UBERON:0000347 ! myelin sheath [Term] id: UBERON:0006136 name: unmyelinated nerve fiber namespace: uberon synonym: "non-myelinated nerve fiber" EXACT [FMA:5916] xref: FMA:5916 xref: GAID:767 xref: MESH:A08.663.542.756 xref: SCTID:46920005 xref: UMLS:C0501409 xref: ncithesaurus:Unmyelinated_Nerve_Fiber is_a: UBERON:0006134 ! nerve fiber [Term] id: UBERON:0006137 name: proper palmar digital artery namespace: uberon def: "The proper palmar digital arteries travel along the sides of the phalanges (along the contiguous sides of the index, middle, ring, and little fingers), each artery lying just below its corresponding digital nerve. Alternative names for these arteries are: proper volar digital arteries, collateral digital arteries, arteriae digitales palmares propriae, or aa. digitales volares propriae. They anastomose freely in the subcutaneous tissue of the finger tips and by smaller branches near the interphalangeal joints. Each also gives off a couple of dorsal branches which anastomose with the dorsal digital arteries, and supply the soft parts on the back of the second and third phalanges, including the matrix of the fingernail. The proper palmar digital artery for the medial side of the little finger arises directly from the ulnar artery deep to the palmaris brevis muscle, but the rest arise from the common palmar digital arteries." [Wikipedia:Proper_palmar_digital_arteries] comment: the MA term, even though plural, represents the singular, as it is an isa child of artery synonym: "arteriae digitales palmares propriae" EXACT LATIN [FMA:70804, FMA:TA, Wikipedia:Proper_palmar_digital_arteries] synonym: "proper palmal digital arteries" EXACT [MA:0001959] synonym: "proper palmar digital arteries" EXACT [MA:0001959] synonym: "proper palmar digital arteries set" EXACT [FMA:70804] synonym: "proper volar digital arteries" RELATED [Wikipedia:Proper_palmar_digital_arteries] synonym: "proper volar digital artery" RELATED [Wikipedia:Proper_palmar_digital_arteries] synonym: "set of proper palmar digital arteries" RELATED [FMA:70804] xref: FMA:70804 xref: MA:0001959 xref: SCTID:91778006 xref: http://upload.wikimedia.org/wikipedia/commons/a/a9/Gray1237.svg is_a: UBERON:0006141 ! palmar digital artery [Term] id: UBERON:0006138 name: plantar digital artery namespace: uberon xref: FMA:43971 xref: SCTID:230727008 is_a: UBERON:0004554 ! hindlimb digital artery [Term] id: UBERON:0006139 name: plantar digital vein namespace: uberon def: "The plantar digital veins arise from plexuses on the plantar surfaces of the digits, and, after sending intercapitular veins to join the dorsal digital veins, unite to form four metatarsal veins." [Wikipedia:Plantar_digital_veins] synonym: "venae digitales plantares" RELATED LATIN [Wikipedia:Plantar_digital_veins] xref: FMA:44517 is_a: UBERON:0004564 ! hindlimb digital vein [Term] id: UBERON:0006140 name: palmar digital vein namespace: uberon def: "The palmar digital veins (or volar digital veins) on each finger are connected to the dorsal digital veins by oblique intercapitular veins. Some sources distinguish between the \"proper palmar digital veins\", which are more distal, and the \"common palmar digital veins\", which are more proximal." [Wikipedia:Palmar_digital_veins] synonym: "palmar digital veins" EXACT PLURAL [FMA:70895] synonym: "palmar digital veins set" EXACT PLURAL [FMA:70895] synonym: "set of palmar digital veins" RELATED [FMA:70895] synonym: "venae digitales palmares" EXACT LATIN [FMA:70895, FMA:TA, Wikipedia:Palmar_digital_veins] synonym: "volar digital veins" RELATED [Wikipedia:Palmar_digital_veins] xref: FMA:70895 xref: SCTID:83229009 xref: http://upload.wikimedia.org/wikipedia/commons/b/ba/Gray574.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/ba/Gray574.png/200px-Gray574.png is_a: UBERON:0004563 ! forelimb digital vein [Term] id: UBERON:0006141 name: palmar digital artery namespace: uberon is_a: UBERON:0004553 ! forelimb digital artery [Term] id: UBERON:0006142 name: common plantar digital vein namespace: uberon synonym: "common plantar vein" EXACT [MA:0002134] xref: MA:0002134 is_a: UBERON:0006139 ! plantar digital vein [Term] id: UBERON:0006143 name: proper plantar digital vein namespace: uberon synonym: "proper plantar vein" EXACT [MA:0002138] xref: MA:0002138 is_a: UBERON:0006139 ! plantar digital vein [Term] id: UBERON:0006144 name: medial plantar digital vein namespace: uberon synonym: "medial plantar vein" EXACT [MA:0002172] xref: MA:0002172 is_a: UBERON:0006139 ! plantar digital vein [Term] id: UBERON:0006145 name: dorsal digital artery of pes namespace: uberon def: "The dorsal digital arteries of foot are small arteries which supply the toes." [Wikipedia:Dorsal_digital_arteries_of_foot] synonym: "arteriae digitales dorsales pedis" RELATED LATIN [Wikipedia:Dorsal_digital_arteries_of_foot] synonym: "dorsal digital artery of foot" EXACT [FMA:44660] xref: FMA:44660 xref: SCTID:230173000 xref: http://upload.wikimedia.org/wikipedia/commons/e/ee/Gray553.png is_a: UBERON:0004554 ! hindlimb digital artery intersection_of: UBERON:0006163 ! dorsal digital artery intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0006146 name: dorsal digital artery of manus namespace: uberon def: "Dorsal digital arteries arise from the bifurcation of dorsal metacarpal arteries. They travel along the sides and dorsal aspects of the phalanges of the middle finger, ring finger, and little finger. They communicate with the proper palmar digital arteries. They run with the dorsal digital nerves of ulnar nerve and dorsal digital nerves of radial nerve." [Wikipedia:Dorsal_digital_arteries] synonym: "arteriae digitales dorsales manus" RELATED LATIN [Wikipedia:Dorsal_digital_arteries] synonym: "dorsal digital artery" BROAD [Wikipedia:Dorsal_digital_arteries] synonym: "dorsal digital artery of hand" EXACT [] xref: SCTID:91793005 is_a: UBERON:0004553 ! forelimb digital artery relationship: part_of UBERON:0002389 ! manual digit intersection_of: UBERON:0006163 ! dorsal digital artery intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0006163 name: dorsal digital artery namespace: uberon def: "." [Wikipedia:Dorsal_digital_arteries#] comment: Note Wikipedia article refers to manual dorsal digital artery synonym: "arteriae digitales dorsales" EXACT LATIN [FMA:70801, FMA:TA] synonym: "dorsal digital arteries" EXACT [FMA:70801] synonym: "dorsal digital arteries set" EXACT [FMA:70801] synonym: "set of dorsal digital arteries" RELATED [FMA:70801] xref: FMA:70801 is_a: UBERON:0004552 ! digital artery [Term] id: UBERON:0006164 name: forelimb common dorsal digital arteries namespace: uberon synonym: "wing common dorsal digital arteries" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0001954 is_a: UBERON:0006146 ! dorsal digital artery of manus [Term] id: UBERON:0006165 name: median dorsal digital artery for digit 1 namespace: uberon synonym: "median dorsal digital artery for digit 01" EXACT [MA:0001955] xref: MA:0001955 is_a: UBERON:0006146 ! dorsal digital artery of manus [Term] id: UBERON:0006166 name: lateral dorsal digital artery for digit 5 namespace: uberon synonym: "lateral dorsal digital artery for digit 05" EXACT [MA:0001956] xref: MA:0001956 is_a: UBERON:0006146 ! dorsal digital artery of manus [Term] id: UBERON:0006167 name: forelimb proper dorsal digital arteries namespace: uberon synonym: "wing proper dorsal digital arteries" NARROW SENSU [NCBITaxon:8782, OBOL:automatic] xref: MA:0001958 is_a: UBERON:0006146 ! dorsal digital artery of manus [Term] id: UBERON:0006168 name: hindlimb common dorsal digital arteries namespace: uberon xref: MA:0001965 is_a: UBERON:0006145 ! dorsal digital artery of pes [Term] id: UBERON:0006169 name: hindlimb proper dorsal digital arteries namespace: uberon xref: MA:0001967 is_a: UBERON:0006145 ! dorsal digital artery of pes [Term] id: UBERON:0006170 name: mesonephric capsule namespace: uberon def: "The mesonephric capsule is the tough fibrous layer surrounding the mesonephros, covered in a thick layer of perinephric adipose tissue." [GO:0061285, GOC:mtg_kidney_jan10] is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure intersection_of: UBERON:0002015 ! kidney capsule intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006171 name: renal sinus namespace: uberon xref: FMA:15611 xref: SCTID:362222000 is_a: UBERON:0002558 ! organ cavity relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0006172 name: rectal diverticulum namespace: uberon def: "The rectal diverticulum is an outgrowth of the cloaca and links the pronephric kidney to the exterior" [GO:0039009] xref: XAO:0001015 is_a: UBERON:0000061 ! anatomical structure relationship: continuous_with UBERON:0000163 ! embryonic cloaca relationship: continuous_with UBERON:0002120 ! pronephros [Term] id: UBERON:0006173 name: pronephric proximal tubule namespace: uberon def: "A pronephric nephron tubule is an epithelial tube that is part of the pronephros" [GO:0039011] synonym: "pronephros proximal tubule" EXACT [GO:0039011] is_a: UBERON:0005310 ! pronephric nephron tubule relationship: part_of UBERON:0005309 ! pronephric nephron intersection_of: UBERON:0004134 ! proximal tubule intersection_of: part_of UBERON:0002120 ! pronephros [Term] id: UBERON:0006174 name: pronephric sinus namespace: uberon def: "The pronephric sinus is an ill-defined capillary network that lies between the pronephric tubules" [GO:0039012] comment: todo - check relationship to renal sinus, improve definition xref: AAO:0011092 xref: XAO:0000385 intersection_of: UBERON:0006171 ! renal sinus intersection_of: part_of UBERON:0002120 ! pronephros [Term] id: UBERON:0006175 name: pronephric distal tubule namespace: uberon def: "A pronephric nephron tubule is an epithelial tube that is part of the pronephros" [GO:0039013] is_a: UBERON:0005310 ! pronephric nephron tubule relationship: part_of UBERON:0005309 ! pronephric nephron intersection_of: UBERON:0004135 ! distal tubule intersection_of: part_of UBERON:0002120 ! pronephros [Term] id: UBERON:0006182 name: mesonephric glomerular mesangium namespace: uberon def: "The mesonephric glomerular mesangium is the thin membrane connective tissue composed of mesangial cells in the mesonephros, which helps to support the capillary loops in a renal glomerulus" [GO:0061247] relationship: part_of UBERON:0005326 ! mesonephric glomerulus vasculature intersection_of: UBERON:0002320 ! glomerular mesangium intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006183 name: mesonephric glomerular capillary namespace: uberon def: "." [GO:0061249] is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0005327 ! mesonephric glomerular epithelium relationship: part_of UBERON:0005322 ! mesonephric nephron relationship: part_of UBERON:0005325 ! mesonephric glomerulus intersection_of: UBERON:0004212 ! glomerular capillary intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006189 name: mesonephric connecting tubule namespace: uberon def: "The mesonephric connecting tubule is a tubular segment of the mesonephric nephron; it connects the distal tubule to the collecting duct in the mesonephros" [GO:0061272] is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0005330 ! mesonephric nephron epithelium relationship: part_of UBERON:0005322 ! mesonephric nephron intersection_of: UBERON:0005097 ! renal connecting tubule intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006190 name: mesonephric distal tubule namespace: uberon def: "The mesonephric distal tubule is a mesonephric nephron tubule that begins at the macula densa and extends to the mesonephric connecting tubule" [GO:0061273] comment: note that ZFA has terms for developing tubule is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0005330 ! mesonephric nephron epithelium relationship: part_of UBERON:0005322 ! mesonephric nephron intersection_of: UBERON:0004135 ! distal tubule intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006192 name: mesonephric proximal tubule namespace: uberon def: "The mesonephric proximal tubule extends from the capsule to the distal tubule" [GO:0061275] comment: note that ZFA has terms for developing tubule is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0005330 ! mesonephric nephron epithelium relationship: part_of UBERON:0005322 ! mesonephric nephron intersection_of: UBERON:0004134 ! proximal tubule intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006194 name: renal sinus of right kidney namespace: uberon def: "A renal sinus that is part of a right kidney." [OBOL:automatic] synonym: "right renal sinus" EXACT [FMA:17621] xref: FMA:17621 intersection_of: UBERON:0006171 ! renal sinus intersection_of: part_of UBERON:0004539 ! right kidney [Term] id: UBERON:0006195 name: renal sinus of left kidney namespace: uberon def: "A renal sinus that is part of a left kidney." [OBOL:automatic] synonym: "left renal sinus" EXACT [FMA:17622] xref: FMA:17622 intersection_of: UBERON:0006171 ! renal sinus intersection_of: part_of UBERON:0004538 ! left kidney [Term] id: UBERON:0006196 name: mesonephric sinus namespace: uberon def: "A renal sinus that is part of a mesonephros." [OBOL:automatic] comment: todo - check relationship to renal sinus, add definition xref: AAO:0011063 xref: XAO:0000381 intersection_of: UBERON:0006171 ! renal sinus intersection_of: part_of UBERON:0000080 ! mesonephros [Term] id: UBERON:0006197 name: auricular vein namespace: uberon def: "Any vein serving the ear region" [http://www.thefreedictionary.com/auricular+vein] comment: Taxon notes: In humans this refers to either the anterior or posterior auricular vein, passing in front of or behind the ear. This class also groups other auricular veins, including the greater, ventral, central auricular nerves. These may exhibit different branching structures. In the pig, the external jugular branches to the maxillary to the caudal auricular to the middle auricular, then onto various unique patterns synonym: "vena auriculares" EXACT LATIN [] synonym: "venae auriculares" EXACT LATIN [] xref: UMLS:C2698201 xref: ncithesaurus:Auricular_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0000033 ! head relationship: tributary_of UBERON:0001101 ! external jugular vein [Term] id: UBERON:0006198 name: dorsal intercostal artery namespace: uberon def: "The highest intercostal artery (supreme intercostal artery, superior intercostal artery) is an artery in the human body that usually gives rise to the first and second posterior intercostal arteries, which supply blood to their corresponding intercostal space. It usually arises from the costocervical trunk, which is a branch of the subclavian artery." [Wikipedia:Highest_intercostal_artery] comment: classes unified on basis of spatial anatomy ontology synonyms synonym: "arteria intercostalis suprema" RELATED LATIN [Wikipedia:Highest_intercostal_artery] synonym: "dorsal branch of superior intercostal artery" RELATED [http://www.mondofacto.com/facts/dictionary?dorsal+branch+of+the+superior+intercostal+artery] synonym: "superior intercostal artery" EXACT [FMA:76998, Wikipedia:Highest_intercostal_artery] synonym: "supreme intercostal artery" EXACT [FMA:76998, Wikipedia:Highest_intercostal_artery] xref: FMA:76998 xref: MA:0001943 xref: SCTID:198427009 xref: http://upload.wikimedia.org/wikipedia/commons/7/75/Gray530.png is_a: UBERON:0005612 ! intercostal artery [Term] id: UBERON:0006199 name: posterior auricular vein namespace: uberon def: "The posterior auricular vein begins upon the side of the head, in a plexus which communicates with the tributaries of the occipital vein and superficial temporal veins. It descends behind the auricula, and joins the posterior division of the posterior facial vein to form the external jugular. It receive the stylomastoid vein, and some tributaries from the cranial surface of the auricula." [Wikipedia:Posterior_auricular_vein] comment: AO notes: check placement of AO class synonym: "posterior auricular vein" EXACT [FMA:50851] synonym: "venae auricularis posterior" RELATED LATIN [Wikipedia:Posterior_auricular_vein] xref: FMA:50851 xref: MA:0002090 xref: SCTID:150188002 xref: UMLS:C0226544 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xref: ncithesaurus:Posterior_Auricular_Vein is_a: UBERON:0006197 ! auricular vein relationship: tributary_of UBERON:0001101 ! external jugular vein [Term] id: UBERON:0006200 name: caudal humeral circumflex vein namespace: uberon comment: classes unified on basis of spatial anatomy ontology synonyms synonym: "posterior circumflex humeral vein" EXACT [FMA:71216] synonym: "posterior humeral circumflex vein" EXACT [FMA:71216] synonym: "vena circumflexa humeri posterior" EXACT LATIN [FMA:71216, FMA:TA] xref: FMA:71216 xref: MA:0002091 is_a: UBERON:0001638 ! vein relationship: tributary_of UBERON:0000985 ! axillary vein relationship: tributary_of UBERON:0001587 ! subclavian vein [Term] id: UBERON:0006201 name: dorsal cerebral vein namespace: uberon comment: classes unified on basis of spatial anatomy ontology synonyms synonym: "superior cerebral vein" EXACT [FMA:50978] xref: FMA:50978 xref: MA:0002103 xref: SCTID:244393005 is_a: UBERON:0001663 ! cerebral vein [Term] id: UBERON:0006202 name: ventral labial vein namespace: uberon is_obsolete: true consider: MA:0002260 ! ventral labial vein (mouse) comment: Was obsoleted as it grouped a lip structure with an unknown MA vein, which be a genital vein [Term] id: UBERON:0006203 name: conchal part of pinna namespace: uberon synonym: "concha" BROAD [FMA:61006] synonym: "concha auriculae" EXACT LATIN [FMA:61006, FMA:TA] synonym: "concha of auricle" EXACT [FMA:61006] synonym: "concha of pinna" EXACT [FMA:61006] xref: FMA:61006 xref: UMLS:C0229316 xref: ncithesaurus:Concha is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0006204 name: inguinal ligament namespace: uberon def: "a band running from the pubic tubercle to the anterior superior iliac spine. Its anatomy is very important for operating on hernia patients. It forms the base of the inguinal canal through which an indirect inguinal hernia may develop. The inguinal ligament runs from the anterior superior iliac spine of the ilium to the pubic tubercle of the pubic bone. It is formed by the external abdominal oblique aponeurosis and is continuous with the fascia lata of the thigh." [Wikipedia:Inguinal_ligament] synonym: "Poupart's ligament" EXACT DUBIOUS [FMA:19855, Wikipedia:Inguinal_ligament] synonym: "Vesalius' ligament" EXACT [FMA:19855] synonym: "fallopian ligament" EXACT DUBIOUS [FMA:19855, Wikipedia:Inguinal_ligament] xref: FMA:19855 xref: SCTID:361900000 is_a: UBERON:0000211 ! ligament is_a: UBERON:0003567 ! abdomen connective tissue relationship: part_of UBERON:0005442 ! external oblique [Term] id: UBERON:0006205 name: pectineal ligament namespace: uberon comment: we include a disjointness axiom to avoid confusion that may arise from the synonyms 'ligamentum pectineale' and 'ligamentum pectinum' synonym: "cooper's ligament (groin)" EXACT [FMA:20188] synonym: "ligamentum pectineale" EXACT [FMA:20188] xref: FMA:20188 xref: SCTID:256661003 is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0006204 ! inguinal ligament [Term] id: UBERON:0006206 name: iridocorneal angle namespace: uberon def: "acute angle occurring between the iris and the cornea at the periphery of the anterior chamber of the eye[MP]." [MP:0004221] synonym: "anterior chamber angle" EXACT [FMA:58577] xref: FMA:58577 xref: SCTID:244498000 is_a: UBERON:0000015 ! anatomical boundary relationship: part_of UBERON:0003956 ! aqueous drainage system [Term] id: UBERON:0006207 name: aortico-pulmonary spiral septum namespace: uberon alt_id: UBERON:0005999 def: "the spiral septum that separates the truncus arteriosus into a ventral pulmonary trunk and the dorsal aorta[MP]. The aorticopulmonary septum is developmentally formed from neural crest, specifically the cardiac neural crest, and actively separates the aorta and pulmonary arteries and fuses with the interventricular septum within the heart during development. The actual mechanism of septation of the outflow tract is poorly understood, but is recognized as a dynamic process with contributions from contractile, hemodynamic, and extracellular matrix interactions." [MP:0010650, Wikipedia:Aorticopulmonary_septum] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "aortic septum" RELATED [Wikipedia:Aorticopulmonary_septum] synonym: "aortico-pulmonary septum" EXACT [Wikipedia:Aorticopulmonary_septum] synonym: "aorticopulmonary septum" EXACT [Wikipedia:Aorticopulmonary_septum] synonym: "septum aorticopulmonale" EXACT LATIN [Wikipedia:Aorticopulmonary_septum] synonym: "spiral septum" RELATED [Wikipedia:Aorticopulmonary_septum] xref: EHDAA2:0000136 xref: EHDAA:2592 xref: EMAPA:16827 xref: VHOG:0000502 xref: http://upload.wikimedia.org/wikipedia/commons/b/b9/Gray470.png is_a: UBERON:0004142 ! outflow tract septum is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0000095 ! cardiac neural crest relationship: part_of UBERON:0004145 ! outflow tract intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002333 ! pulmonary trunk intersection_of: adjacent_to UBERON:0005805 ! dorsal aorta [Term] id: UBERON:0006208 name: auditory hillocks namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "auditory tubercles" RELATED INCONSISTENT [VHOG:0001364] synonym: "auricular hillock" RELATED [] xref: EHDAA2:0000155 xref: EHDAA:4685 xref: EMAPA:17280 xref: VHOG:0001364 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0001691 ! external ear property_value: homology_notes "Mammals have a third type of tympanic ear. An external flap, the auricle or pinna, helps funnel sound waves down the external acoustic meatus to the tympanic membrane.[inferred][VHOG]" xsd:string [Term] id: UBERON:0006209 name: basioccipital cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000164 xref: EHDAA:7141 xref: EMAPA:18337 xref: VHOG:0001124 is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from UBERON:0009197 ! basioccipital pre-cartilage condensation relationship: develops_into UBERON:0001692 ! basioccipital bone [Term] id: UBERON:0006210 name: body-wall mesenchyme namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000179 xref: EHDAA:3217 xref: EMAPA:16893 is_a: UBERON:0003104 ! mesenchyme [Term] id: UBERON:0006211 name: buccopharyngeal membrane namespace: uberon def: "The region where the crescentic masses of the ectoderm and endoderm come into direct contact with each other constitutes a thin membrane, the buccopharyngeal membrane (or oropharyngeal membrane), which forms a septum between the primitive mouth and pharynx. In front of the buccopharyngeal area, where the lateral crescents of mesoderm fuse in the middle line, the pericardium is afterward developed, and this region is therefore designated the pericardial area." [Wikipedia:Buccopharyngeal_membrane] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "oropharyngeal membrane" RELATED [Wikipedia:Buccopharyngeal_membrane] xref: EHDAA2:0000189 xref: EHDAA:536 xref: EMAPA:16259 xref: SCTID:361412007 xref: VHOG:0000380 xref: http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003037 ! septum relationship: has_part UBERON:0000924 ! ectoderm relationship: has_part UBERON:0000925 ! endoderm relationship: overlaps UBERON:0000930 ! stomodeum relationship: overlaps UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0006264 ! mouth-foregut junction [Term] id: UBERON:0006212 name: bulbo-ventricular groove namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "bulbo-ventricular sulcus" EXACT [EMAPA:16693] synonym: "bulboventricular groove" EXACT [VHOG:0001405] synonym: "ependymal groove" EXACT [EMAPA:16693] synonym: "ependymal sulcus" EXACT [EMAPA:16693] xref: EHDAA2:0000195 xref: EHDAA:766 xref: EMAPA:16693 xref: VHOG:0001405 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0006213 name: carpus cartilage condensation namespace: uberon def: "A cartilaginous condensation that develops_into a carpal bone." [OBOL:automatic] xref: EHDAA2:0000221 xref: EHDAA:8544 xref: EMAPA:18102 xref: VHOG:0001123 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010377 ! mesenchyme from somatopleure is_a: UBERON:0010883 ! forelimb bone cartilaginous condensation relationship: develops_from UBERON:0006214 ! carpus pre-cartilage condensation intersection_of: UBERON:0005863 ! cartilaginous condensation intersection_of: develops_into UBERON:0001435 ! carpal bone [Term] id: UBERON:0006214 name: carpus pre-cartilage condensation namespace: uberon def: "A pre-cartilage condensation that develops_into a carpal bone." [OBOL:automatic] xref: EHDAA2:0000222 xref: EHDAA:6324 xref: EMAPA:17724 xref: VHOG:0000955 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0009523 ! mesenchyme of handplate is_a: UBERON:0010884 ! forelimb bone pre-cartilage condensation relationship: develops_from UBERON:0003319 ! mesenchyme of carpal region relationship: part_of UBERON:0009523 ! mesenchyme of handplate intersection_of: UBERON:0005866 ! pre-cartilage condensation intersection_of: develops_into UBERON:0001435 ! carpal bone [Term] id: UBERON:0006215 name: rhombic lip namespace: uberon def: "Rhombic lips are a posterior section of the developing metencephalon within an embryo. They extend posteriorly from the roof of the fourth ventricle to dorsal neuroepithelial cells and contain cerebellar precursor cells, among others" [Wikipedia:Rhombic_lips] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cerebellum primordium" RELATED [EMAPA:17074] synonym: "dorsal part of alar plate of metencephalon" RELATED [EMAPA:17074] xref: TAO:0001440 xref: XAO:0004135 xref: ZFA:0001440 is_a: UBERON:0001048 ! primordium relationship: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0010092 ! future metencephalon property_value: external_definition "The interface between the dorsal neuroepithelium and the roofplate of the fourth ventricle. The source of a number of migratory neuron populations of the hindbrain.[TAO]" xsd:string [Term] id: UBERON:0006216 name: cervical sinus namespace: uberon def: "a temporary depression caudal to the second pharyngeal arch, containing the succeeding pharyngeal arches; it is overgrown by the second pharyngeal arch and closes off as the cervical vesicle[TFD]." [Wikipedia:Cervical_sinus, http://medical-dictionary.thefreedictionary.com/cervical+sinus] comment: This sinus is bounded in front by the hyoid arch, and behind by the thoracic wall; it is ultimately obliterated by the fusion of its walls. subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "sinus cervicalis" EXACT LATIN [Wikipedia:Cervical_sinus] xref: EHDAA2:0000078 xref: EHDAA:5105 xref: EHDAA:6534 xref: EMAPA:17526 xref: RETIRED_EHDAA2:0000239 xref: http://upload.wikimedia.org/wikipedia/commons/2/20/Kiemenbogen.jpg is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0008814 ! pharyngeal system [Term] id: UBERON:0006217 name: cloacal membrane namespace: uberon def: "the membrane that covers the embryonic cloaca, formed by the union of proctodeal (anal pit) ectoderm and cloacal endoderm, with no intervening mesoderm; the urorectal septum joins the cloacal membrane and divides it into an anal membrane and a urogenital membrane; the point where the urorectal septum intersects the cloacal membrane is the future site of the perineal body; proliferation of mesoderm and ectoderm around the cloacal membrane produces primordial tissues of the external genitalia in both sexes: the genital tubercle, genital folds, and genital swellings." [MP:0011837, MP:anna, Wikipedia:Cloacal_membrane] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "embryonic cloacal membrane" EXACT [] synonym: "membrana cloacalis" RELATED LATIN [Wikipedia:Cloacal_membrane] xref: EHDAA2:0000257 xref: EHDAA:214 xref: EHDAA:2933 xref: EMAPA:16832 xref: SCTID:308826008 xref: UMLS:C0231056 xref: VHOG:0001198 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray991.png xref: ncithesaurus:Cloacal_Membrane is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004906 ! ectodermal gut is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0004341 ! primitive streak relationship: has_developmental_contribution_from UBERON:0000924 ! ectoderm relationship: has_developmental_contribution_from UBERON:0000925 ! endoderm relationship: part_of UBERON:0000163 ! embryonic cloaca property_value: external_definition "A membrane that separates the proctodeum and the hindgut in the early embryo. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.497, see_Kardong_KV][VHOG]" xsd:string property_value: homology_notes "In mammals, the cloaca exists as an embryonic structure that undergoes septation to become distinct urethral, anal, and genital orifices.[well established][VHOG]" xsd:string [Term] id: UBERON:0006218 name: common atrial chamber namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:1267 xref: EMAPA:16225 xref: EMAPA:16342 xref: EMAPA:16689 xref: RETIRED_EHDAA2:0000268 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0006219 name: deltoid pre-muscle mass namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000340 xref: EHDAA:6002 xref: EMAPA:17749 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005865 ! pre-muscle condensation relationship: develops_from UBERON:0010963 ! trunk and cervical myotome group relationship: part_of UBERON:0008713 ! pectoral girdle and thoracic body wall skeletal muscle [Term] id: UBERON:0006220 name: diencephalic part of interventricular foramen namespace: uberon xref: EHDAA2:0000384 xref: EHDAA:3476 xref: EMAPA:16643 xref: EMAPA:16901 xref: VHOG:0000808 is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002286 ! third ventricle relationship: part_of UBERON:0003993 ! interventricular foramen of CNS [Term] id: UBERON:0006222 name: future diencephalon namespace: uberon def: "A multi-tissue structure that develops_into a diencephalon." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "presumptive diencephalon" EXACT [TAO:0000574] xref: EFO:0003442 xref: EHDAA2:0000600 xref: EHDAA:844 xref: EMAPA:16514 xref: RETIRED_EHDAA2:0000386 xref: TAO:0000574 xref: ZFA:0000574 is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: develops_into UBERON:0001894 ! diencephalon [Term] id: UBERON:0006223 name: dorsal meso-oesophagus namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "dorsal meso-esophagus" EXACT [MA:0001570] xref: EHDAA:2945 xref: EMAPA:16704 xref: EMAPA:16837 xref: EMAPA:18865 xref: MA:0001570 xref: RETIRED_EHDAA2:0000412 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003283 ! mesentery of oesophagus [Term] id: UBERON:0006224 name: elbow joint primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000431 xref: EHDAA:8483 xref: EMAPA:17710 is_a: UBERON:0001048 ! primordium relationship: develops_into UBERON:0001490 ! elbow joint relationship: part_of UBERON:0003318 ! mesenchyme of elbow [Term] id: UBERON:0006226 name: endolymphatic appendage namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000437 xref: EMAPA:16994 xref: EMAPA:17283 xref: VHOG:0000373 is_a: UBERON:0002050 ! embryonic structure property_value: external_definition "An outgrowth of the otic vesicle that forms the endolymphatic duct and sac during embryonic development. [TFD][VHOG]" xsd:string [Term] id: UBERON:0006227 name: ethmoid bone primordium namespace: uberon comment: Consider obsoleting, the ethmoid is endochondral? subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000456 xref: EHDAA:8363 xref: EMAPA:18023 is_a: UBERON:0001048 ! primordium relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_into UBERON:0001679 ! ethmoid bone relationship: part_of UBERON:0002517 ! basicranium relationship: part_of UBERON:0011241 ! ethmoid region [Term] id: UBERON:0006228 name: exoccipital pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000457 xref: EHDAA:8355 xref: EMAPA:18014 xref: VHOG:0000963 is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_into UBERON:0001693 ! exoccipital bone relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0006230 name: extrinsic ocular pre-muscle mass namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000483 xref: EHDAA:2925 xref: EMAPA:17845 is_a: UBERON:0003314 ! eye mesenchyme is_a: UBERON:0005865 ! pre-muscle condensation is_a: UBERON:0006904 ! head mesenchyme from mesoderm relationship: develops_from UBERON:0003314 ! eye mesenchyme relationship: part_of UBERON:0003269 ! skeletal muscle of eye [Term] id: UBERON:0006231 name: facial bone primordium namespace: uberon comment: Editor notes: check this for developmental relationships subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "facial bones primordia" EXACT [EHDAA2:0000488] synonym: "facial skeleton primordium" RELATED [] synonym: "viscerocranium primordium" RELATED [] xref: EHDAA2:0000488 xref: EHDAA:9552 xref: EMAPA:18024 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003462 ! facial bone is_a: UBERON:0007842 ! membrane bone relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0006232 name: facio-acoustic VII-VIII preganglion complex namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:1477 xref: EMAPA:16660 xref: RETIRED_EHDAA2:0000496 xref: VHOG:0000715 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0005565 ! facio-acoustic neural crest relationship: part_of UBERON:0001714 ! cranial ganglion [Term] id: UBERON:0006233 name: female genital tubercle namespace: uberon def: "A differentiated genital tubercle that is part of a female reproductive system." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "genital tubercle of female" EXACT [EMAPA:18680] xref: EHDAA:8118 xref: EMAPA:18680 xref: RETIRED_EHDAA2:0000500 xref: VHOG:0000666 relationship: part_of UBERON:0005056 ! external female genitalia intersection_of: UBERON:0011757 ! differentiated genital tubercle intersection_of: part_of UBERON:0000474 ! female reproductive system [Term] id: UBERON:0006234 name: femur pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000508 xref: EMAPA:17502 xref: VHOG:0000951 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010886 ! hindlimb bone pre-cartilage condensation relationship: develops_into UBERON:0000981 ! femur [Term] id: UBERON:0006235 name: foregut-midgut junction namespace: uberon def: "An anatomical boundary that adjacent_to a foregut and adjacent_to a midgut." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000569 xref: EHDAA:526 xref: EMAPA:16363 xref: VHOG:0000291 relationship: part_of UBERON:0001555 ! digestive tract intersection_of: UBERON:0000015 ! anatomical boundary intersection_of: adjacent_to UBERON:0001041 ! foregut intersection_of: adjacent_to UBERON:0001045 ! midgut property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[well established][VHOG]" xsd:string [Term] id: UBERON:0006236 name: frontal bone primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000577 xref: EHDAA:9540 xref: EMAPA:18017 is_a: UBERON:0002050 ! embryonic structure [Term] id: UBERON:0006238 name: future brain namespace: uberon comment: Usage notes: this class is restricted to neural-tube derived brains subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "brain rudiment" EXACT [TAO:0000146] synonym: "presumptive brain" EXACT [ZFA:0000146] xref: EFO:0003431 xref: EHDAA:300 xref: EHDAA:830 xref: EMAPA:16089 xref: EMAPA:16471 xref: RETIRED_EHDAA2:0000591 xref: TAO:0000146 xref: ZFA:0000146 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0001049 ! neural tube relationship: develops_into UBERON:0000955 ! brain relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006239 name: future central tendon namespace: uberon def: "A tendon that develops_into a central tendon." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000593 xref: EHDAA:4118 xref: EMAPA:25035 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo intersection_of: UBERON:0000043 ! tendon intersection_of: develops_into UBERON:0006670 ! central tendon [Term] id: UBERON:0006240 name: future forebrain namespace: uberon comment: TODO. Add relationships to neural plate (both ZFA and EMAPA time this with the neural plate) subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "presumptive forebrain" EXACT [ZFA:0000062] synonym: "presumptive prosencephalon" EXACT [TAO:0000062] synonym: "prosencephalon" RELATED [EHDAA2:0000661] xref: EFO:0003423 xref: EHDAA2:0000661 xref: EHDAA:2643 xref: EMAPA:16640 xref: TAO:0000062 xref: ZFA:0000062 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0006238 ! future brain intersection_of: UBERON:0006598 ! presumptive structure intersection_of: develops_into UBERON:0001890 ! forebrain [Term] id: UBERON:0006241 name: future spinal cord namespace: uberon subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "presumptive spinal cord" EXACT [ZFA:0000417] synonym: "presumptive spinal cord neural keel" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural plate" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural rod" EXACT [TAO:0000417] xref: EFO:0003438 xref: EHDAA2:0000674 xref: EHDAA:898 xref: EMAPA:16092 xref: EMAPA:16525 xref: EMAPA:16755 xref: TAO:0000417 xref: ZFA:0000417 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0001049 ! neural tube relationship: develops_into UBERON:0002240 ! spinal cord relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0006242 name: gall bladder primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000700 xref: EHDAA:3047 xref: EMAPA:16713 xref: EMAPA:16842 xref: XAO:0004205 is_a: UBERON:0001048 ! primordium is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0002110 ! gallbladder relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0002423 ! hepatobiliary system relationship: part_of UBERON:0004912 ! biliary bud [Term] id: UBERON:0006243 name: glossopharyngeal IX preganglion namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:1479 xref: EMAPA:16661 xref: RETIRED_EHDAA2:0000713 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001714 ! cranial ganglion [Term] id: UBERON:0006244 name: hip joint primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000785 xref: EHDAA:8462 xref: EMAPA:17739 is_a: UBERON:0001048 ! primordium relationship: develops_into UBERON:0001486 ! hip joint relationship: part_of UBERON:0003320 ! mesenchyme of hip [Term] id: UBERON:0006245 name: humerus cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000787 xref: EHDAA:6240 xref: EMAPA:17713 xref: VHOG:0001120 is_a: UBERON:0005258 ! upper arm mesenchyme is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010883 ! forelimb bone cartilaginous condensation relationship: develops_from UBERON:0006246 ! humerus pre-cartilage condensation relationship: develops_into UBERON:0000976 ! humerus relationship: part_of UBERON:0001440 ! forelimb skeleton relationship: part_of UBERON:0005258 ! upper arm mesenchyme [Term] id: UBERON:0006246 name: humerus pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000788 xref: EHDAA:4192 xref: EMAPA:17427 xref: VHOG:0000950 is_a: UBERON:0005258 ! upper arm mesenchyme is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010884 ! forelimb bone pre-cartilage condensation relationship: develops_into UBERON:0000976 ! humerus relationship: part_of UBERON:0001440 ! forelimb skeleton relationship: part_of UBERON:0005258 ! upper arm mesenchyme [Term] id: UBERON:0006247 name: iliac pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000809 xref: EHDAA:9568 xref: EMAPA:18029 xref: VHOG:0000964 is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: UBERON:0006248 name: incus pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000813 xref: EHDAA:9024 xref: EMAPA:17825 xref: VHOG:0000957 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0006250 name: infundibular recess of 3rd ventricle namespace: uberon def: "The floor of the third ventricle is prolonged downward as a funnel-shaped recess, the infundibular recess, into the infundibulum, and to the apex of the latter the hypophysis or pititary is attached" [Wikipedia:Infundibular_recess] comment: Editor note: in FMA this is a cavity, whereas in EHDAA2 it is an epithelial sac synonym: "infundibular recess" EXACT [FMA:78456] synonym: "infundibular recess of third ventricle" EXACT [FMA:78456] synonym: "recessus infundibularis" EXACT LATIN [FMA:TA] synonym: "recessus infundibuli" EXACT LATIN [FMA:TA, Wikipedia:Infundibular_recess] xref: EHDAA2:0000827 xref: EHDAA:4479 xref: EMAPA:16648 xref: EMAPA:16899 xref: FMA:78456 xref: SCTID:369280006 xref: http://upload.wikimedia.org/wikipedia/commons/7/75/Gray654.png is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007499 ! epithelial sac is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0003309 ! floor plate of diencephalon relationship: part_of UBERON:0000007 ! pituitary gland [Term] id: UBERON:0006251 name: interparietal bone primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000881 xref: EMAPA:18018 is_a: UBERON:0001048 ! primordium relationship: develops_into UBERON:0002229 ! interparietal bone [Term] id: UBERON:0006252 name: intersubcardinal venous anastomosis namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000883 xref: EHDAA:3452 xref: EMAPA:16828 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004581 ! systemic venous system [Term] id: UBERON:0006253 name: embryonic intraretinal space namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "intraretinal space" EXACT [EHDAA2:0000889] synonym: "intraretinal space of retina" EXACT [EMAPA:17170] synonym: "retina intraretinal space" EXACT [VHOG:0000534] xref: EHDAA2:0000889 xref: EHDAA:4761 xref: EMAPA:16676 xref: EMAPA:17170 xref: VHOG:0000534 is_a: UBERON:0012467 ! enclosed anatomical space relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000966 ! retina property_value: external_definition "The space separating the outer pigment epithelium and the inner neural retina of the optic cup and of the retina. [TFD][VHOG]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string [Term] id: UBERON:0006254 name: ischial cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000890 xref: EHDAA:9570 xref: EMAPA:26930 is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0006255 ! ischial pre-cartilage condensation relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: UBERON:0006255 name: ischial pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000891 xref: EHDAA:7153 xref: EMAPA:18348 xref: VHOG:0000962 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: UBERON:0006256 name: knee joint primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000897 xref: EHDAA:8467 xref: EMAPA:17740 is_a: UBERON:0001048 ! primordium is_a: UBERON:0002050 ! embryonic structure relationship: develops_into UBERON:0001485 ! knee joint relationship: part_of UBERON:0003321 ! mesenchyme of knee [Term] id: UBERON:0006257 name: laryngotracheal groove namespace: uberon def: "a groove in the floor of the pharynx formed from the ventral diverticulum of endoderm that arises from the floor of the foregut caudal to the pharynx. This structure is the precursor for the larynx and trachea[WP,edited]." [Wikipedia:Laryngotracheal_groove, http://isc.temple.edu/marino/embryology/resp98/respdev.htm] comment: Editor notes: Note we currently have pharynx as part of the upper respiratory tract - separate by development? synonym: "laryngo-tracheal groove" EXACT [EHDAA2:0004073] synonym: "laryngo-tracheal tube" RELATED [Wikipedia:Laryngotracheal_groove] synonym: "laryngotracheal endoderm" RELATED [] synonym: "sulcus laryngotrachealis" EXACT LATIN [Wikipedia:Laryngotracheal_groove] xref: EHDAA2:0004073 xref: EHDAA:1005 xref: EMAPA:16739 xref: RETIRED_EHDAA2:0000909 xref: SCTID:361426003 xref: UMLS:C1283960 xref: VHOG:0001404 xref: ncithesaurus:Laryngotracheal_Tube is_a: UBERON:0006846 ! groove relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001558 ! lower respiratory tract property_value: homology_notes "Lung development begins with the appearance of the laryngotracheal groove, which is a small diverticulum that arises from the floor of the primitive pharynx at E9 in mouse and 4 wk in human.[well established][VHOG]" xsd:string [Term] id: UBERON:0006259 name: lens pit namespace: uberon def: "a pitlike depression in the ectoderm of the lens placode where the primordial lens is developing[TFD]." [http://medical-dictionary.thefreedictionary.com/lens+pit] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000981 xref: EHDAA:3809 xref: EMAPA:16799 xref: UMLS:C1517769 xref: VHOG:0000806 xref: ncithesaurus:Lens_Pit is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010312 ! immature eye relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: external_definition "A pitlike depression in the ectoderm of the lens placode where the primordial lens is developing. [TFD][VHOG]" xsd:string [Term] id: UBERON:0006260 name: lingual swellings namespace: uberon comment: the collection consisting of the two lateral swellings and the medial swelling subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "lingual swelling" RELATED [EHDAA2:0000996] xref: EHDAA2:0000996 xref: EMAPA:17186 xref: VHOG:0000449 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010188 ! protuberance is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0010056 ! future tongue property_value: external_definition "Primordium of the tongue; the median swelling and the distal and proximal swellings arise from the ventral aspect of the stomodeum. [TFD][VHOG]" xsd:string property_value: homology_notes "Most adult amphibians have a tongue, as do all known reptiles, birds and mammals. Thus it is likely that the tongue appeared with the establishment of tetrapods and this structure seems to be related, to some extant, to the terrestrial lifestyle.[well established][VHOG]" xsd:string [Term] id: UBERON:0006261 name: male genital tubercle namespace: uberon def: "A differentiated genital tubercle that is part of a male reproductive system." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "genital tubercle of male" EXACT [EMAPA:17969] xref: EHDAA:8138 xref: EMAPA:17969 xref: RETIRED_EHDAA2:0001048 xref: VHOG:0000667 relationship: part_of UBERON:0004053 ! external male genitalia intersection_of: UBERON:0011757 ! differentiated genital tubercle intersection_of: part_of UBERON:0000079 ! male reproductive system [Term] id: UBERON:0006262 name: malleus pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001055 xref: EHDAA:9026 xref: EMAPA:17826 xref: VHOG:0000958 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0003107 ! Meckel's cartilage [Term] id: UBERON:0006263 name: Meckel's cartilage pre-cartilage condensation namespace: uberon comment: Development notes: NC contributes in EHDAA2. Todo: use EHDAA2 structure subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001074 xref: EMAPA:17358 xref: VHOG:0001121 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest relationship: develops_from UBERON:0006905 ! mandibular process mesenchyme relationship: develops_into UBERON:0003107 ! Meckel's cartilage relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006264 name: mouth-foregut junction namespace: uberon def: "An anatomical boundary that adjacent_to a mouth and adjacent_to a foregut." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:534 xref: EMAPA:16258 xref: RETIRED_EHDAA2:0001205 xref: VHOG:0000592 relationship: part_of UBERON:0005409 ! gastrointestinal system intersection_of: UBERON:0000015 ! anatomical boundary intersection_of: adjacent_to UBERON:0000165 ! mouth intersection_of: adjacent_to UBERON:0001041 ! foregut [Term] id: UBERON:0006265 name: mural trophectoderm namespace: uberon def: "Trophectoderm that surrounds blastocyst cavity." [PMID:16341078] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "mural trophoblast" RELATED [VHOG:0000597] xref: EHDAA2:0001206 xref: EHDAA:58 xref: EMAPA:16047 xref: VHOG:0000597 is_a: UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0004345 ! trophectoderm relationship: surrounds UBERON:0000090 ! blastocele property_value: external_definition "The part of the trophectoderm which surrounds the blastocoelic cavity. [See_Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.10][VHOG]" xsd:string property_value: homology_notes " (...) the trophoblast develops rapidly so that contact may be made with the maternal uterine tissues when conditions are appropriate. We have here an excellent example of an embryonic adaptation, the development of a structure never present in either adult or embryo of 'lower' vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0006266 name: nasolacrimal groove namespace: uberon def: "Groove between maxillary prominence and lateral nasal process." [Wikipedia:Lacrimal_groove, http://www.indiana.edu/~anat550/hnanim/face/face.html] comment: On the nasal surface of the body of the maxilla, in front of the opening of the sinus is a deep groove, the lacrimal groove (or lacrimal sulcus), which is converted into the nasolacrimal canal, by the lacrimal bone and inferior nasal concha; this canal opens into the inferior meatus of the nose and transmits the nasolacrimal duct[WP] See also: oblique facial cleft subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "naso-lacrimal groove" EXACT [EMAPA:16679] synonym: "s. lacrimalis maxillae" RELATED LATIN [Wikipedia:Lacrimal_groove] xref: EHDAA2:0001238 xref: EHDAA:4770 xref: EMAPA:16679 xref: UMLS:C1513875 xref: VHOG:0001307 xref: http://upload.wikimedia.org/wikipedia/commons/3/3f/Gray163.png xref: ncithesaurus:Nasolacrimal_Groove is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium relationship: adjacent_to UBERON:0004067 ! lateral nasal prominence relationship: adjacent_to UBERON:0005868 ! maxillary prominence relationship: develops_from UBERON:0012313 ! 1st arch maxillary ectoderm relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: part_of UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006267 name: notochordal plate namespace: uberon def: "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord." [VHOG:0001212] comment: TODO - check ordering; awaiting confirmation from JB subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001278 xref: EHDAA:264 xref: EMAPA:16101 xref: UMLS:C1518429 xref: VHOG:0001212 xref: ncithesaurus:Notochordal_Plate is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0006268 ! notochordal process relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG]" xsd:string [Term] id: UBERON:0006268 name: notochordal process namespace: uberon def: "a midline cellular cord formed from the migration of mesenchymal cells from the primitive knot" [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/05embryonicperiod.htm] comment: The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "chordamesoderm" RELATED [] synonym: "presumptive notochord" RELATED [] xref: EHDAA2:0001279 xref: EHDAA:224 xref: EMAPA:16102 xref: UMLS:C1518430 xref: VHOG:0001213 xref: ncithesaurus:Notochordal_Process is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0000924 ! ectoderm [Term] id: UBERON:0006269 name: optic foramen namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001312 xref: EHDAA:10646 xref: EMAPA:18716 xref: VHOG:0001408 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0011156 ! facial skeleton property_value: external_definition "An aperture in the root of the lesser wing of the sphenoid bone transmitting the optic nerve. [TFD][VHOG]" xsd:string [Term] id: UBERON:0006270 name: optic pit namespace: uberon def: "A small indentation in the central part of the optic placode." [VHOG:0001162] synonym: "optic evagination" RELATED [EMAPA:16199] synonym: "optic sulcus" EXACT [EHDAA2:0004433] xref: EHDAA2:0004433 xref: EHDAA:944 xref: EMAPA:16199 xref: EMAPA:16325 xref: RETIRED_EHDAA2:0001316 xref: VHOG:0001162 is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010312 ! immature eye relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "A small indentation in the central part of the optic placode. [157-169, Mueller_F_and_ObRahilly_R, The_first_appearance_of_the_neural_tube_and_optic_primordium_in_the_human_embryo_at_stage_10._Anatomy_and_Embryology_(1985)_172][VHOG]" xsd:string property_value: homology_notes " (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles (reference 1); The first morphological sign of eye development in vertebrates is the bilateral evagination of diencephalon in the early neurula. In mammals, this is marked by the appearance of the optic pit, whereas in fish and amphibians a bulging of the optic primordia is observed. Continued evagination of the optic primordia leads to the formation of the optic vesicles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0006271 name: orbital fissure namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001328 xref: EHDAA:10648 xref: EMAPA:18717 xref: SCTID:280546005 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0006272 name: oronasal cavity namespace: uberon def: "In humans, the oronasal membrane ruptures during the seventh week, producing a single, large oronasal cavity" [http://cwx.prenhall.com/bookbind/pubbooks/martini10/chapter24/custom3/deluxe-content.html] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001331 xref: EHDAA:5882 xref: EMAPA:17200 xref: VHOG:0001352 is_a: UBERON:0002553 ! anatomical cavity relationship: developmentally_replaces UBERON:0009672 ! oronasal membrane relationship: part_of UBERON:0000166 ! oral opening relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006273 name: otic pit namespace: uberon def: "The auditory pit, also known as the otic pit, is the first rudiment of the internal ear. It appears shortly after that of the eye, in the form of a patch of thickened ectoderm, the auditory plate, over the region of the hind-brain. The auditory plate becomes depressed and converted into the auditory pit (or otic pit)." [Wikipedia:Otic_pit] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001336 xref: EHDAA:929 xref: EMAPA:16536 xref: UMLS:C1518676 xref: VHOG:0001147 xref: ncithesaurus:Otic_Pit is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "A depression appearing in each otic placode, marking the beginnning of embryonic development of the internal ear. [TFD][VHOG]" xsd:string [Term] id: UBERON:0006274 name: parietal bone primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001404 xref: EHDAA:9544 xref: EMAPA:18019 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006275 name: pericardio-peritoneal canal namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "pericardio-peritoneal channel" RELATED [VHOG:0001498] xref: EHDAA2:0001440 xref: EHDAA:636 xref: EMAPA:16282 xref: SCTID:361428002 xref: UMLS:C1283967 xref: VHOG:0001498 xref: ncithesaurus:Pericardioperitoneal_Canal is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: located_in UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0003887 ! intraembryonic coelom property_value: external_definition "Each of the canal that connects the pericardial cavity with the peritoneal cavity and becomes a pleural cavity. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.42, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string [Term] id: UBERON:0006276 name: perioptic mesenchyme namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:4751 xref: EMAPA:17167 xref: RETIRED_EHDAA2:0001444 is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010312 ! immature eye relationship: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006277 name: pleuropericardial canals namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "pleuropericardial canal" EXACT [VHOG:0001497] synonym: "pleuropericardial channel" RELATED [VHOG:0001497] xref: EHDAA2:0001479 xref: EHDAA:4122 xref: EMAPA:17704 xref: VHOG:0001497 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006278 name: pleuropericardial folds namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "pleuropericardial membranes" RELATED [VHOG:0001499] xref: EHDAA2:0001480 xref: EHDAA:4126 xref: EMAPA:17706 xref: VHOG:0001499 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "Each of the folds that grow out from the lateral part of the body wall. They fuse and meet with the dorsal and ventral mesentery of the foregut, separating the pleural cavities from the pericardial cavity. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.43-46, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string property_value: homology_notes "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string [Term] id: UBERON:0006279 name: pleuroperitoneal canal namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "pleuroperitoneal channel" RELATED [VHOG:0001505] xref: EHDAA2:0001481 xref: EHDAA:4128 xref: EMAPA:17707 xref: EMAPA:25031 xref: SCTID:361413002 xref: VHOG:0001505 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo property_value: external_definition "Each of the canal that links the peritoneal cavity and the caudal part of a pleural cavity. [The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.46, see_Kaufman_MH_and_Bard_JBL][VHOG]" xsd:string [Term] id: UBERON:0006280 name: polar trophectoderm namespace: uberon def: "Trophectoderm that surrounds the inner cell mass (ICM)." [PMID:16341078] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "polar trophoblast" RELATED [VHOG:0000980] xref: EHDAA2:0001484 xref: EHDAA:60 xref: EMAPA:16048 xref: VHOG:0000980 is_a: UBERON:0000478 ! extraembryonic structure relationship: adjacent_to UBERON:0000087 ! inner cell mass relationship: develops_from UBERON:0004345 ! trophectoderm relationship: part_of UBERON:0004345 ! trophectoderm property_value: external_definition "The part of the trophectoderm overlying the inner cell mass. [See_Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.10][VHOG]" xsd:string property_value: homology_notes " (...) the trophoblast develops rapidly so that contact may be made with the maternal uterine tissues when conditions are appropriate. We have here an excellent example of an embryonic adaptation, the development of a structure never present in either adult or embryo of 'lower' vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0006281 name: pre-hepatic part namespace: uberon is_obsolete: true consider: EHDAA:8701 consider: EMAPA:18422 consider: FMA:71904 comment: was obsoleted as it had no definition and the name was unclear. May refer to part of inferior vena cava or pre-hepatic portal vein FMA:71904 xref: RETIRED_EHDAA2:0001492 [Term] id: UBERON:0006282 name: primary head vein namespace: uberon comment: early vein that gives rise to various sinuses subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001498 xref: EHDAA:818 xref: EMAPA:16242 is_a: UBERON:0001638 ! vein is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0004581 ! systemic venous system relationship: part_of UBERON:0009141 ! craniocervical region vein [Term] id: UBERON:0006283 name: primitive ventricle of heart namespace: uberon def: "The embryonic ventricle or primitive ventricle of the developing heart gives rise to the trabeculated parts of the left and right ventricles. In contrast, the smooth parts of the left and right ventricles originate from the embryological bulbus cordis. The primitive ventricle becomes divided by a septum, the septum inferius or ventricular septum, which grows upward from the lower part of the ventricle, its position being indicated on the surface of the heart by a furrow. Its dorsal part increases more rapidly than its ventral portion, and fuses with the dorsal part of the septum intermedium. For a time an interventricular foramen exists above its ventral portion, but this foramen is ultimately closed by the fusion of the aortic septum with the ventricular septum." [Wikipedia:Embryonic_ventricle] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "early heart ventricle" EXACT [] synonym: "embryonic heart ventricle" EXACT [] synonym: "embryonic ventricle" BROAD [] synonym: "future heart ventricle" EXACT [] synonym: "primitive ventricle" EXACT [EHDAA2:0001531] xref: EHDAA2:0001531 xref: EMAPA:16233 xref: EMAPA:16350 xref: SCTID:361524003 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0005498 ! primitive heart tube [Term] id: UBERON:0006284 name: early prosencephalic vesicle namespace: uberon def: "future brain vesicle that gives rise to telencephalic ventricle/lateral ventricles and 3rd ventricle" [UBERON:cjm] synonym: "forebrain ventricle" RELATED [VHOG:0000644] synonym: "forebrain vesicle" RELATED [VHOG:0000644] synonym: "prosencephalic ventricle" RELATED [VHOG:0000644] synonym: "prosencephalic vesicle" EXACT [EHDAA2:0001571] xref: EHDAA2:0001571 xref: EHDAA:1356 xref: EMAPA:16521 xref: SCTID:361480006 xref: TAO:0001259 xref: VHOG:0000644 xref: ZFA:0001259 is_a: UBERON:0013150 ! future brain vesicle relationship: located_in UBERON:0006240 ! future forebrain property_value: homology_notes "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0006285 name: pubic pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001574 xref: EHDAA:9572 xref: EMAPA:18349 xref: EMAPA:26928 xref: VHOG:0000965 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: UBERON:0006286 name: radius cartilage condensation namespace: uberon def: "A cartilaginous condensation that develops_into a radius bone." [OBOL:automatic] xref: EHDAA2:0001585 xref: EHDAA:7267 xref: EMAPA:18054 xref: VHOG:0001318 is_a: UBERON:0003327 ! mesenchyme of forearm is_a: UBERON:0010883 ! forelimb bone cartilaginous condensation relationship: part_of UBERON:0003327 ! mesenchyme of forearm relationship: part_of UBERON:0010703 ! forelimb zeugopod skeleton intersection_of: UBERON:0005863 ! cartilaginous condensation intersection_of: develops_into UBERON:0001423 ! radius bone [Term] id: UBERON:0006287 name: radius-ulna pre-cartilage condensation namespace: uberon comment: AO notes: EMAPA has a separate radius-ulna cartilage condensation. xref: EHDAA2:0001587 xref: EHDAA:4178 xref: EMAPA:17420 xref: VHOG:0000949 is_a: UBERON:0003327 ! mesenchyme of forearm is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0003327 ! mesenchyme of forearm [Term] id: UBERON:0006288 name: rib cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001716 xref: EHDAA:8347 xref: EMAPA:17678 xref: VHOG:0001122 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from UBERON:0006289 ! rib pre-cartilage condensation relationship: develops_into UBERON:0002228 ! rib relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0006289 name: rib pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001717 xref: EHDAA:6026 xref: EMAPA:17397 xref: VHOG:0000681 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from UBERON:0003089 ! sclerotome relationship: develops_into UBERON:0002228 ! rib relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0006290 name: scapula cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001777 xref: EHDAA:8368 xref: EMAPA:18343 xref: VHOG:0001125 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005863 ! cartilaginous condensation relationship: develops_from UBERON:0006291 ! scapula pre-cartilage condensation relationship: develops_into UBERON:0006849 ! scapula relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: UBERON:0006291 name: scapula pre-cartilage condensation namespace: uberon comment: Development notes: the scapula has been shown to develop from multiple tissues, such as the dermomyotome of the somites, the mesodermal portion of the soma- topleure (a domain of the lateral plate mesoderm or LPM) and neural crest cell-derived mesenchyme (Huang et al., 2000; Matsuoka et al., 2005; Wang et al., 2005).[PMID:21455939] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001778 xref: EHDAA:6041 xref: EMAPA:18027 xref: VHOG:0000960 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: develops_into UBERON:0006849 ! scapula relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: UBERON:0006292 name: shoulder joint primordium namespace: uberon comment: Note that this is part of the forelimb skeleton in EHDAA2, but this violates part-disjointness subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001836 xref: EHDAA:8493 xref: EMAPA:17712 is_a: UBERON:0003322 ! mesenchyme of shoulder is_a: UBERON:0005856 ! developing mesenchymal condensation relationship: develops_from UBERON:0003322 ! mesenchyme of shoulder relationship: develops_into UBERON:0001470 ! glenohumeral joint relationship: part_of UBERON:0003322 ! mesenchyme of shoulder [Term] id: UBERON:0006293 name: spleen primordium namespace: uberon alt_id: UBERON:0009750 def: "A dense syncitial-like mesenchymal thickening in the dorsal mesogastrium[ISBN]. the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing spleen[MP]." [ISBN:0123747295, MP:0011263] comment: AO notes: check difference between splenic and spleen in EMAPA; note that in EHDAA2 the class 'spleen' refers to the mesenchyme synonym: "left spleen primordium" NARROW [XAO:0000326] synonym: "spleen mesenchyme" EXACT [MP:0011263] synonym: "splenic mesenchyme" EXACT [UBERON:cjm] synonym: "splenic primordium" EXACT [EHDAA2:0001904] xref: EHDAA2:0001904 xref: EHDAA:3003 xref: EMAPA:18535 xref: EMAPA:18659 xref: XAO:0000326 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001048 ! primordium is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: part_of UBERON:0005602 ! dorsal mesogastrium [Term] id: UBERON:0006294 name: stapes pre-cartilage condensation namespace: uberon comment: independent of the mesenchymal condensation that will form the otic capsule subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "stapedial anlage" EXACT [doi:10.1111/j.1469-7580.2005.00441.x] xref: EHDAA2:0001910 xref: EHDAA:5699 xref: EMAPA:17827 xref: VHOG:0000956 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009506 ! associated mesenchyme of middle ear relationship: develops_from UBERON:0005689 ! 2nd arch mesenchyme relationship: part_of UBERON:0001686 ! auditory ossicle [Term] id: UBERON:0006295 name: sternebral bone pre-cartilage condensation namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001912 xref: EHDAA:9565 xref: EMAPA:18345 xref: VHOG:0000961 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_from UBERON:0006210 ! body-wall mesenchyme relationship: part_of UBERON:0000975 ! sternum [Term] id: UBERON:0006296 name: subcardinal vein namespace: uberon def: "a vein in the mammalian embryo or the adult of some lower vertebrates that is located on each side of the abdominal region ventromedial to the mesonephros and that in mammals participates in the formation of the inferior vena cava and the renal vein" [ISBN10:0073040584, http://www.merriam-webster.com/medical/subcardinal%20vein] comment: TBD: part of cardinal system? xref: EHDAA:2631 xref: EMAPA:16829 xref: SCTID:308830006 xref: UMLS:C0231088 xref: VHOG:0001336 xref: ncithesaurus:Subcardinal_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0005291 ! embryonic tissue relationship: channels_from UBERON:0002113 ! kidney relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006297 name: sublingual gland primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001935 xref: EHDAA:7989 xref: EMAPA:17752 is_a: UBERON:0001048 ! primordium is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0001832 ! sublingual gland relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001044 ! salivary gland [Term] id: UBERON:0006298 name: submandibular gland primordium namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001939 xref: EHDAA:9255 xref: EMAPA:17755 is_a: UBERON:0001048 ! primordium is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0001736 ! submandibular gland relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001044 ! salivary gland [Term] id: UBERON:0006300 name: supracardinal vein namespace: uberon def: "Either of two veins in the mammalian embryo and various adult lower vertebrate forms located in the thoracic and abdominal regions dorsolateral to and on either side of the descending aorta and giving rise to the azygos and hemiazygos veins and a part of the inferior vena cava[MW]. These veins drain the body wall via the segmental intercostal veins, thus taking over the function of the posterior cardinals[ISBN]" [ISBN-10:0443065837, http://www.merriam-webster.com/medical/supracardinal%20vein] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001964 xref: EHDAA:7492 xref: EMAPA:16830 xref: SCTID:308829001 xref: UMLS:C0231090 xref: ncithesaurus:Supracardinal_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0013140 ! systemic vein relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0004581 ! systemic venous system [Term] id: UBERON:0006301 name: telencephalic part of interventricular foramen namespace: uberon xref: EHDAA2:0001980 xref: EHDAA:5474 xref: EMAPA:16654 xref: EMAPA:16915 xref: VHOG:0000809 is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002285 ! telencephalic ventricle relationship: part_of UBERON:0003993 ! interventricular foramen of CNS [Term] id: UBERON:0006303 name: tracheal diverticulum namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EMAPA:16740 xref: RETIRED_EHDAA2:0002072 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006304 name: trigeminal V preganglion namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:924 xref: EMAPA:16663 xref: RETIRED_EHDAA2:0002089 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0001714 ! cranial ganglion [Term] id: UBERON:0006305 name: tunica vasculosa lentis namespace: uberon def: "an extensive capillary network, spreading over the posterior and lateral surfaces of the lens of the eye. It disappears shortly after birth." [Wikipedia:Tunica_vasculosa_lentis] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0002097 xref: EHDAA:5705 xref: EMAPA:18235 xref: VHOG:0000978 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0005607 ! hyaloid vascular plexus property_value: homology_notes "Soon after it forms, the mammalian lens becomes invested with a network of capillaries. (...) The capillary network on the posterior of the lens is the tunica vasculosa lentis (TVL).[well established][VHOG]" xsd:string [Term] id: UBERON:0006306 name: ulna cartilage condensation namespace: uberon def: "A cartilaginous condensation that develops_into a ulna." [OBOL:automatic] xref: EHDAA2:0002098 xref: EHDAA:7269 xref: EMAPA:18055 xref: VHOG:0001155 is_a: UBERON:0003327 ! mesenchyme of forearm is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010883 ! forelimb bone cartilaginous condensation relationship: part_of UBERON:0003327 ! mesenchyme of forearm relationship: part_of UBERON:0010703 ! forelimb zeugopod skeleton intersection_of: UBERON:0005863 ! cartilaginous condensation intersection_of: develops_into UBERON:0001424 ! ulna [Term] id: UBERON:0006307 name: urogenital membrane namespace: uberon comment: During the 7th week the urorectal septum divides the cloacal membrane into a urogenital membrane (ventrally) and an anal membrane (dorsally) [http://www.embryology.ch/anglais/ugenital/genitexterne01.html] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0004025 xref: EHDAA:7011 xref: EMAPA:17210 xref: EMAPA:17378 xref: RETIRED_EHDAA2:0002141 xref: SCTID:172994001 xref: VHOG:0001187 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0006217 ! cloacal membrane relationship: part_of UBERON:0001008 ! excretory system relationship: part_of UBERON:0004122 ! genitourinary system property_value: external_definition "Ventral part of the cloacal membrane separating the gut from the fetus external environment. [TFD][VHOG]" xsd:string [Term] id: UBERON:0006308 name: vagal X nerve trunk namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0002160 xref: EHDAA:4659 xref: EMAPA:17272 xref: VHOG:0000736 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002464 ! nerve trunk relationship: part_of UBERON:0004293 ! parasympathetic nerve [Term] id: UBERON:0006309 name: venous vitelline plexus namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA:1945 xref: EMAPA:17020 xref: RETIRED_EHDAA2:0002172 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004581 ! systemic venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0006310 name: vitelline venous plexus namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0002210 xref: EHDAA:1945 xref: EMAPA:17020 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004581 ! systemic venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0006311 name: chamber of eyeball namespace: uberon def: "Chamber of eyeball[FMA]" [FMA:58071] synonym: "eye chamber" EXACT [MA:0002459] synonym: "eyeball chamber" EXACT [FMA:58071] xref: BTO:0002085 xref: FMA:58071 xref: MA:0002459 xref: SCTID:280540004 xref: UMLS:C0459556 xref: ncithesaurus:Chamber_of_the_Eye is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0006312 name: ocular refractive media namespace: uberon xref: MA:0001911 is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0006314 name: bodily fluid namespace: uberon def: "Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not." [MESH:A12.207, Wikipedia:Body_fluid] comment: consider merging with parent class synonym: "body fluid" EXACT [GAID:266] xref: GAID:266 xref: MESH:A12.207 xref: NIF_GrossAnatomy:birnlex_20 xref: galen:BodyFluid is_a: UBERON:0000463 ! portion of organism substance relationship: output_of GO:0007589 ! body fluid secretion [Term] id: UBERON:0006318 name: orbitalis muscle namespace: uberon def: "An orbitalis muscle is a rudimentary nonstriated muscle (smooth muscle) that crosses from the infraorbital groove and sphenomaxillary fissure and intimately united with the periosteum of the orbit. It is often called Muller's muscle. One characteristic of Horner's Syndrome is enophthalmos (retraction of the eyeball into the orbit due to paralysis of the orbitalis muscle that spans the inferior orbital fissure). Its function is eyeball protrusion." [Wikipedia:Orbitalis_muscle] comment: subclass of 'muscle layer' in FMA synonym: "musculus orbitalis" EXACT LATIN [FMA:49034, FMA:TA, Wikipedia:Orbitalis_muscle] synonym: "orbital muscle" EXACT [FMA:49034] synonym: "orbital muscle of muller" EXACT [FMA:49034] synonym: "orbitalis" EXACT [FMA:49034, Wikipedia:Orbitalis_muscle] xref: FMA:49034 xref: MA:0001274 xref: SCTID:368790005 xref: UMLS:C0229105 xref: ncithesaurus:Orbitalis_Muscle is_a: UBERON:0003660 ! eyelid muscle is_a: UBERON:0004277 ! eye muscle is_a: UBERON:0006660 ! muscle layer relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0006319 name: spinal cord reticular nucleus namespace: uberon synonym: "spinal reticular nucleus" EXACT [FMA:73909] xref: FMA:73909 xref: MA:0001123 is_a: UBERON:0000125 ! neural nucleus is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002315 ! gray matter of spinal cord is_a: UBERON:0011777 ! nucleus of spinal cord relationship: part_of UBERON:0002256 ! dorsal horn of spinal cord [Term] id: UBERON:0006320 name: inferior oblique extraocular muscle namespace: uberon def: "thin, narrow muscle placed near the anterior margin of the floor of the orbit." [Wikipedia:Inferior_oblique_muscle] comment: Taxon notes (via VHOG): \"The ability to rotate the eyeball is common to all vertebrates with well-developed eyes, regardless of the habitat in which they live, so these [extrinsic ocular] muscles tend to be conservative. They change little during the course of evolution.\" Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective, Third Edition (2001) Orlando Fla.: Harcourt College Publishers, p.331 subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "inferior oblique" EXACT [FMA:49040] synonym: "inferior oblique muscle" EXACT [] synonym: "musculus obliquus inferior bulbi" EXACT LATIN [Wikipedia:Inferior_oblique_muscle] synonym: "obliquus inferior" EXACT [FMA:49040] synonym: "obliquus oculi inferior" EXACT [Wikipedia:Inferior_oblique_muscle] synonym: "ventral oblique extraocular muscle" EXACT [VHOG:0001132] synonym: "ventral oblique extraocular muscles" RELATED [VHOG:0001132] xref: FMA:49040 xref: MA:0001276 xref: SCTID:181156006 xref: TAO:0000861 xref: UMLS:C0582817 xref: VHOG:0001132 xref: ZFA:0000861 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Eyemuscles.png xref: ncithesaurus:Inferior_Oblique_Muscle is_a: UBERON:0006532 ! oblique extraocular muscle relationship: has_muscle_insertion UBERON:0001603 ! lateral rectus extra-ocular muscle relationship: has_muscle_origin UBERON:0002397 ! maxilla relationship: innervated_by UBERON:0001643 ! oculomotor nerve property_value: homology_notes "The ability to rotate the eyeball is common to all vertebrates with well-developed eyes, regardless of the habitat in which they live, so these [extrinsic ocular] muscles tend to be conservative. They change little during the course of evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0006321 name: superior oblique extraocular muscle namespace: uberon def: "The superior oblique muscle, or obliquus oculi superior, is a fusiform muscle in the upper, medial side of the orbit whose primary action is downward, lateral rotation of the eye. One of the extraocular muscles, the superior oblique is the only muscle innervated by the trochlear nerve (the fourth cranial nerve)." [Wikipedia:Superior_oblique_muscle] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "M. obliquus superior" RELATED [Wikipedia:Superior_oblique_muscle] synonym: "dorsal oblique extraocular muscle" EXACT [VHOG:0001131] synonym: "dorsal oblique extraocular muscles" RELATED [VHOG:0001131] synonym: "musculus obliquus superior" EXACT [AAO:0010119] synonym: "musculus obliquus superior bulbi" RELATED LATIN [Wikipedia:Superior_oblique_muscle] synonym: "obliquus oculi superior" RELATED [Wikipedia:Superior_oblique_muscle] synonym: "obliquus superior" EXACT [FMA:49039] synonym: "superior oblique" EXACT [FMA:49039] synonym: "superior oblique muscle" EXACT [] xref: AAO:0010119 xref: FMA:49039 xref: MA:0001277 xref: SCTID:181155005 xref: TAO:0000738 xref: UMLS:C0582816 xref: VHOG:0001131 xref: ZFA:0000738 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Eyemuscles.png xref: ncithesaurus:Superior_Oblique_Muscle is_a: UBERON:0006532 ! oblique extraocular muscle relationship: has_muscle_insertion UBERON:0010230 ! eyeball of camera-type eye relationship: innervated_by UBERON:0001644 ! trochlear nerve property_value: external_definition "Cranial nerve IV innervated; dorsal in the obliquus group.[AAO]" xsd:string property_value: homology_notes "The ability to rotate the eyeball is common to all vertebrates with well-developed eyes, regardless of the habitat in which they live, so these [extrinsic ocular] muscles tend to be conservative. They change little during the course of evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0006322 name: inferior rectus extraocular muscle namespace: uberon def: "a muscle in the orbit that depresses, adducts, and helps extort (rotate laterally) the eye. The inferior rectus muscle is the only muscle that is capable of depressing the pupil when it is in a fully abducted position." [Wikipedia:Inferior_rectus_muscle] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "inferior rectus" EXACT [FMA:49036] synonym: "inferior rectus muscle" EXACT [] synonym: "musculus rectus inferior bulbi" RELATED LATIN [Wikipedia:Inferior_rectus_muscle] synonym: "ventral recti" RELATED PLURAL [TAO:0000457] synonym: "ventral rectus" RELATED [TAO:0000457] synonym: "ventral rectus extraocular muscle" EXACT [VHOG:0001130] xref: FMA:49036 xref: MA:0001279 xref: SCTID:181154009 xref: TAO:0000457 xref: UMLS:C0582819 xref: VHOG:0001130 xref: ZFA:0000457 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Eyemuscles.png xref: ncithesaurus:Inferior_Rectus_Muscle is_a: UBERON:0006533 ! rectus extraocular muscle property_value: homology_notes "The ability to rotate the eyeball is common to all vertebrates with well-developed eyes, regardless of the habitat in which they live, so these [extrinsic ocular] muscles tend to be conservative. They change little during the course of evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0006323 name: superior rectus extraocular muscle namespace: uberon def: "The superior rectus muscle is a muscle in the orbit. It is one of the extraocular muscles. It is innervated by the superior division of the oculomotor nerve (Cranial Nerve III). In the primary position (looking straight ahead), the superior rectus muscle's primary function is elevation, although it also contributes to intorsion and adduction." [Wikipedia:Superior_rectus_muscle] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dorsal rectus" RELATED [TAO:0000345] synonym: "dorsal rectus extraocular muscle" EXACT [VHOG:0001128] synonym: "musculus rectus superior bulbi" RELATED LATIN [Wikipedia:Superior_rectus_muscle] synonym: "superior rectus" EXACT [FMA:49035] synonym: "superior rectus muscle" EXACT [] xref: FMA:49035 xref: MA:0001282 xref: SCTID:181153003 xref: TAO:0000345 xref: UMLS:C0582818 xref: VHOG:0001128 xref: ZFA:0000345 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Eyemuscles.png xref: ncithesaurus:Superior_Rectus_Muscle is_a: UBERON:0006533 ! rectus extraocular muscle relationship: innervated_by UBERON:0001643 ! oculomotor nerve property_value: homology_notes "The ability to rotate the eyeball is common to all vertebrates with well-developed eyes, regardless of the habitat in which they live, so these [extrinsic ocular] muscles tend to be conservative. They change little during the course of evolution.[well established][VHOG]" xsd:string [Term] id: UBERON:0006325 name: laryngeal intrinsic ligament namespace: uberon synonym: "intrinsic ligament of larynx" EXACT [FMA:72058] xref: FMA:72058 xref: MA:0001757 xref: SCTID:279557001 is_a: UBERON:0001743 ! ligament of larynx [Term] id: UBERON:0006326 name: base of arytenoid namespace: uberon synonym: "arytenoid cartilage base" EXACT [FMA:55349] synonym: "base of arytenoid" EXACT [FMA:55349] synonym: "base of arytenoid cartilage" EXACT [FMA:55349] xref: FMA:55349 xref: MA:0001761 xref: SCTID:279532006 is_a: UBERON:0001994 ! hyaline cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003583 ! larynx connective tissue is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001740 ! arytenoid cartilage [Term] id: UBERON:0006327 name: laryngeal extrinsic muscle namespace: uberon synonym: "extrinsic muscle of larynx" EXACT [FMA:55225] xref: FMA:55225 xref: MA:0001769 xref: SCTID:244808004 is_a: UBERON:0001568 ! muscle of larynx [Term] id: UBERON:0006328 name: laryngeal intrinsic muscle namespace: uberon synonym: "intrinsic laryneal muscles" RELATED [FEED:FEED] synonym: "intrinsic laryngeal muscle" EXACT [FEED:FEED] synonym: "intrinsic muscle of larynx" EXACT [FMA:55226] xref: FMA:55226 xref: MA:0001770 xref: SCTID:244810002 is_a: UBERON:0001568 ! muscle of larynx property_value: external_definition "each muscle listed separately.[FEED]" xsd:string [Term] id: UBERON:0006329 name: superior pharyngeal constrictor namespace: uberon def: "The superior pharyngeal constrictor muscle is a quadrilateral muscle, thinner and paler than the inferior pharyngeal constrictor muscle and middle pharyngeal constrictor muscle. [WP,unvetted]." [Wikipedia:Superior_pharyngeal_constrictor_muscle] synonym: "constrictor muscle of pharynx superior" EXACT [FMA:46621] synonym: "musculus constrictor pharyngis superior" EXACT LATIN [FMA:46621, FMA:TA, Wikipedia:Superior_pharyngeal_constrictor_muscle] synonym: "superior constrictor" EXACT [FMA:46621] synonym: "superior constrictor muscle" EXACT [ncithesaurus:Superior_Constrictor_Muscle] synonym: "superior constrictor of pharynx" EXACT [FMA:46621] synonym: "superior constrictor pharyngeus" EXACT [FMA:46621] xref: EMAPA:18966 xref: FMA:46621 xref: MA:0002280 xref: SCTID:244800006 xref: UMLS:C1515063 xref: http://upload.wikimedia.org/wikipedia/commons/a/ac/Musculusconstrictorpharyngissuperior.png xref: ncithesaurus:Superior_Constrictor_Muscle is_a: UBERON:0001569 ! constrictor muscle of pharynx relationship: has_muscle_origin UBERON:0004527 ! alveolar process of maxilla relationship: innervated_by UBERON:0001759 ! vagus nerve property_value: external_definition "The superior constrictor is a muscle that is an integral part of the pharyngeal tube that is attached to the mandible, pterygomandibular raphe, basioccipital bone, pterygoid process and midline raphe and is innervated by Cranial Nerve X via the pharyngeal plexus.[FEED]" xsd:string [Term] id: UBERON:0006330 name: anterior lingual gland namespace: uberon def: "Anterior lingual glands (also called apical glands) are deeply placed seromucous glands that are located near the tip of the tongue on each side of the frenulum linguae. They are found on the under surface of the apex of the tongue, and are covered by a bundle of muscular fibers derived from the Styloglossus and Longitudinalis inferior." [Wikipedia:Anterior_lingual_glands] synonym: "Bauhin's glands:" EXACT [Wikipedia:Anterior_lingual_glands] synonym: "Blandin's glands:" EXACT [Wikipedia:Anterior_lingual_glands] synonym: "Nuhn's glands:" EXACT [Wikipedia:Anterior_lingual_glands] synonym: "anterior lingual salivary gland" EXACT [FMA:59796] synonym: "lingual salivary gland" EXACT [FMA:59796] xref: FMA:59796 xref: MA:0002701 xref: SCTID:362179003 xref: UMLS:C0930558 xref: ncithesaurus:Lingual_Salivary_Gland is_a: UBERON:0001830 ! minor salivary gland relationship: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0006331 name: brainstem nucleus namespace: uberon def: "A nucleus of brain that is part of a brainstem." [OBOL:automatic] xref: MA:0000821 intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002298 ! brainstem [Term] id: UBERON:0006332 name: nasal capsule namespace: uberon def: "an embryonic cartilaginous frame, the nasal capsule, an evolutionary-conserved structure composed of ventral and dorsal components: the mesethmoid and ectethmoid cartilages, respectively.[PMID]." [PMID:21270050] comment: Taxon notes: In most mammals, the nasal capsule remains unossified, except in mammals where the ethmoid portion ossifies to form the turbinates[Kardong]. In avians, the mesethmoid supports upper beak formation, whereas the ectethmoid comprises elements of the olfactory system, including the lamina cribosa, the crista galli apophysis and the conchae. Editor's note - consider splitting this class. Developing cartilage in mammals? Connective tissue sheath in TAO. Structure that has both respiratory and olfactory functions and lies anterior to the braincase, in the foremost section of the cranium[AAO]. Cartilaginous envelope containing the nasal organ[FishBase] Multi-tissue structure composed of connective tissue that surrounds, the internal portions of the olfactory epithelium[ZFA]. Avian def: The nasal capsule is dorsoventrally divided into two parts: the upper part, the ectethmoid, serves olfaction and is composed of the lamina cribosa, the crista galli apophysis and the conchae. The lower part, the mesethmoid, is a thick cartilage bar extending from the corpus sphenoidalis to the rostral extremity of the nose (Fig. 1A-Bt0). In the avian embryo, the mesethmoid constitutes the cartilage primordium of the upper beak subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "cartilaginous nasal capsule" RELATED [] xref: AAO:0000313 xref: EMAPA:17852 xref: MA:0000283 xref: TAO:0002035 xref: ZFA:0005507 is_a: UBERON:0001823 ! nasal cartilage is_a: UBERON:0002418 ! cartilage tissue relationship: part_of UBERON:0000004 ! olfactory apparatus property_value: external_comment "Development information from Brian Hall, Bones and Cartilage: Developmental Skeletal Biology.[TAO]" xsd:string property_value: external_definition "Multi-tissue structure that is the connective tissue sheath that surrounds, except for external opening(s) in adult, the olfactory epithelium.[TAO]" xsd:string property_value: external_definition "Structure that has both respiratory and olfactory functions and lies anterior to the braincase, in the foremost section of the cranium.[AAO]" xsd:string [Term] id: UBERON:0006333 name: snout namespace: uberon def: "." [Wikipedia:Snout] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "muzzle" RELATED [MA:0001910] xref: MA:0001910 xref: SCTID:41127006 xref: TAO:0001712 xref: ZFA:0005496 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0001456 ! face property_value: external_definition "Surface structure that is the region of the head in front of and between the orbits, and above the lower jaw. Nares are located on the snout[ZFA]." xsd:string [Term] id: UBERON:0006334 name: posterior lateral line namespace: uberon def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFA:0000944] comment: check XAO/AAO subset: dubious_grouping ! Indicates that subclasses in AOs may be inappropriately linked synonym: "pll" EXACT [ZFA:0000944] xref: AAO:0011024 xref: EFO:0003595 xref: TAO:0000944 xref: XAO:0000465 xref: ZFA:0000944 is_a: UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: develops_from posterior lateral line primordium (TAO:0001157)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of posterior lateral line system (TAO:0001471)[TAO]" xsd:string property_value: external_definition "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string [Term] id: UBERON:0006336 name: obsolete unspecified namespace: uberon is_obsolete: true consider: XAO:0003003 ! unspecified (Xenopus) consider: ZFA:0001093 ! unspecified (zebrafish) [Term] id: UBERON:0006337 name: distal early tubule namespace: uberon def: "Portion of the renal tubule which is just posterior to the proximal straight tubule." [ZFA:0005293] comment: in XAO this is pronephric; in ZFA it is an adult structure. we treat it here as generic. consider placing XAO under proneprhic subclass. check relationship with EDCT. subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: AAO:0011034 xref: EMAPA:27788 xref: EMAPA:28007 xref: EMAPA:28390 xref: TAO:0005293 xref: XAO:0000287 xref: ZFA:0005293 is_a: UBERON:0007685 ! region of nephron tubule property_value: external_definition "Portion of the pronephric tubule that is immediately posterior to the late proximal tubule.[AAO]" xsd:string [Term] id: UBERON:0006338 name: lateral ventricle choroid plexus stroma namespace: uberon def: "A choroid plexus stroma that is part of a lateral ventricle." [OBOL:automatic] comment: editors note: definitions should be fixed to use generic stroma class xref: MA:0000963 relationship: part_of UBERON:0002307 ! choroid plexus of lateral ventricle intersection_of: UBERON:0005206 ! choroid plexus stroma intersection_of: part_of UBERON:0002285 ! telencephalic ventricle [Term] id: UBERON:0006339 name: third ventricle choroid plexus stroma namespace: uberon def: "A choroid plexus stroma that is part of a third ventricle." [OBOL:automatic] xref: MA:0000881 relationship: part_of UBERON:0002288 ! choroid plexus of third ventricle intersection_of: UBERON:0005206 ! choroid plexus stroma intersection_of: part_of UBERON:0002286 ! third ventricle [Term] id: UBERON:0006340 name: fourth ventricle choroid plexus stroma namespace: uberon def: "A choroid plexus stroma that is part of a fourth ventricle." [OBOL:automatic] xref: MA:0000985 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002290 ! choroid plexus of fourth ventricle intersection_of: UBERON:0005206 ! choroid plexus stroma intersection_of: part_of UBERON:0002422 ! fourth ventricle [Term] id: UBERON:0006341 name: outer renal medulla peritubular capillary namespace: uberon def: "A peritubular capillary that is part of a outer medulla of kidney." [OBOL:automatic] synonym: "kidney outer medulla peritubular capillary" EXACT [MA:0002589] xref: MA:0002589 intersection_of: UBERON:0005272 ! peritubular capillary intersection_of: part_of UBERON:0001293 ! outer medulla of kidney [Term] id: UBERON:0006342 name: left subhepatic recess namespace: uberon comment: Compare with lesser sac / omental bursa and its cavities / recesses synonym: "left hepatic recess" EXACT [MA:0000444] xref: EMAPA:18047 xref: FMA:20677 xref: MA:0000444 is_a: UBERON:0005252 ! omental bursa cavity is_a: UBERON:0006442 ! subhepatic recess relationship: part_of UBERON:0005252 ! omental bursa cavity [Term] id: UBERON:0006343 name: right subhepatic recess namespace: uberon def: "The hepatorenal recess or subhepatic recess is the space that separates the liver from the right kidney. As a potential space, the recess is not filled with fluid under normal conditions. However, fluid can collect in this space in circumstances where the abdomen fills with fluid, such as hemoperitoneum. This fluid may be seen on ultrasound or computed tomography (CT scan)." [Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "Morison pouch" RELATED [Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "Morison's pouch" EXACT [FMA:14715, Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "hepatorenal fossa" EXACT [FMA:14715] synonym: "hepatorenal recess" RELATED [Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "hepatorenal recess of subhepatic space" EXACT [FMA:14715] synonym: "pouch of Morison" RELATED [Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "pouch of Morrison" RELATED [Wikipedia:Hepatorenal_recess_of_subhepatic_space] synonym: "recessus hepatorenalis" EXACT [FMA:14715] synonym: "recessus hepatorenalis recessi subhepatici" EXACT LATIN [FMA:TA] synonym: "right hepatic recess" EXACT [MA:0000450] synonym: "right posterior subphrenic space" EXACT [FMA:14715] synonym: "right subhepatic space" EXACT [FMA:14715] xref: EMAPA:18050 xref: FMA:14715 xref: MA:0000450 is_a: UBERON:0006442 ! subhepatic recess [Term] id: UBERON:0006345 name: stapedial artery namespace: uberon def: "A small artery that passes through the ring of the stapes; while the stapedial artery is a temporary artery thought to disappear at late embryonic stage in humans, the mouse stapedial artery is complete by E13 and persists into adulthood[MP]." [MP:0004665] synonym: "stapedial" RELATED [EHDAA2:0001908] synonym: "stapedial artery temporary" EXACT [EHDAA2:0001908] xref: EHDAA2:0001908 xref: EMAPA:17313 xref: MA:0002044 xref: SCTID:361518009 xref: UMLS:C1284048 xref: ncithesaurus:Stapedial_Artery is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001637 ! artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003119 ! aortic arch 2 relationship: part_of UBERON:0001756 ! middle ear [Term] id: UBERON:0006347 name: communicating artery namespace: uberon comment: Grouping for anterior and posterior xref: EMAPA:18598 xref: MA:0001938 xref: UMLS:C1707451 xref: ncithesaurus:Communicating_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0006349 name: epigastric artery namespace: uberon xref: EMAPA:18750 xref: MA:0001948 xref: MESH:A07.231.114.330 xref: SCTID:261400009 xref: UMLS:C0282640 xref: ncithesaurus:Epigastric_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0006351 name: principal vein of forelimb namespace: uberon def: "A prinicipal vein of limb that is part of a forelimb." [OBOL:automatic] xref: EMAPA:17018 xref: MA:0002199 is_a: UBERON:0003515 ! forelimb blood vessel intersection_of: UBERON:0006443 ! prinicipal vein of limb intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0006353 name: principal vein of hindlimb namespace: uberon def: "A prinicipal vein of limb that is part of a hindlimb." [OBOL:automatic] xref: EMAPA:17019 xref: MA:0002200 is_a: UBERON:0003516 ! hindlimb blood vessel intersection_of: UBERON:0006443 ! prinicipal vein of limb intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0006355 name: superior vesical vein namespace: uberon xref: EMAPA:18646 xref: MA:0002227 is_a: UBERON:0002460 ! vesical vein [Term] id: UBERON:0006356 name: epigastric vein namespace: uberon xref: EMAPA:18759 xref: MA:0002114 xref: UMLS:C1707930 xref: ncithesaurus:Epigastric_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0006358 name: vasa hyaloidea propria namespace: uberon def: "The vasa hyaloidea propria and tunica vasculosa lentis are small branches of the hyaloid artery which fill the primary vitreous" [] xref: EMAPA:18236 xref: MA:0001285 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0005607 ! hyaloid vascular plexus [Term] id: UBERON:0006359 name: mesoduodenum namespace: uberon xref: EMAPA:17183 xref: EMAPA:17198 xref: EMAPA:19082 xref: MA:0001556 is_a: UBERON:0001170 ! mesentery of small intestine [Term] id: UBERON:0006360 name: intermolar eminence namespace: uberon xref: EMAPA:18273 xref: EMAPA:18876 xref: MA:0001590 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0006364 name: ureteric bud tip namespace: uberon def: "The terminal end of the ureteric tree; the ureteric tip cells are proliferating immature cells located at the branching points that induce the adjacent cap mesenchyme to undergo nephrogenesis." [MP:0011760, http://www.gudmap.org/Organ_Summaries/Metanephros/Ureteric_tip.html] comment: Editor note: MA placement to be checked synonym: "ureteric ampulla" RELATED [MP:0011760] synonym: "ureteric bud ampulla" RELATED [MP:0011760] xref: EMAPA:27605 xref: EMAPA:27625 xref: EMAPA:27694 xref: EMAPA:27749 xref: MA:0002601 xref: http://www.gudmap.org/Images/Organ_Summaries/Metanephros/Slide10.png is_a: UBERON:0000083 ! mesonephric tubule is_a: UBERON:0007499 ! epithelial sac relationship: part_of UBERON:0000084 ! ureteric bud [Term] id: UBERON:0006373 name: perihilar interstitium namespace: uberon xref: EMAPA:28083 xref: MA:0002618 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001224 ! renal pelvis relationship: part_of UBERON:0005215 ! kidney interstitium [Term] id: UBERON:0006374 name: part of afferent arteriole forming the juxtaglomerular complex namespace: uberon synonym: "part of afferent arteriole forming juxtaglomerular complex" EXACT [MA:0002580] synonym: "renin-producing cells" RELATED [MA:0002580] xref: EMAPA:28269 xref: MA:0002580 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002303 ! juxtaglomerular apparatus relationship: part_of UBERON:0004639 ! afferent arteriole [Term] id: UBERON:0006376 name: premacula segment of distal straight tubule namespace: uberon def: "." [PMID:14595018, https://sourceforge.net/tracker/?func=detail&aid=3123600&group_id=76834&atid=1205376] synonym: "distal straight tubule premacula segment" EXACT [MA:0002628] synonym: "kidney medulla loop of Henle ascending limb thick segment" EXACT [MA:th] synonym: "medullary thick ascending limb of Henle's loop" EXACT [MA:th] synonym: "renal medulla loop of Henle ascending limb thick segment" EXACT [MA:th] synonym: "renal medulla thick ascending limb" EXACT [MA:th] xref: EMAPA:28331 xref: EMAPA:29683 xref: EMAPA:31379 xref: MA:0002628 is_a: UBERON:0007685 ! region of nephron tubule is_a: UBERON:0008408 ! distal tubular epithelium relationship: part_of UBERON:0001291 ! thick ascending limb of loop of Henle relationship: part_of UBERON:0006541 ! outer medulla inner stripe loop of henle relationship: part_of UBERON:0006542 ! outer medulla outer stripe loop of henle [Term] id: UBERON:0006377 name: remnant of Rathke's pouch namespace: uberon synonym: "hypophyseal cleft" RELATED [MA:0000857] xref: EMAPA:17518 xref: MA:0000857 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0005356 ! Rathke's pouch relationship: part_of UBERON:0002196 ! adenohypophysis [Term] id: UBERON:0006378 name: vibrissa hair namespace: uberon def: "A specialized hair usually employed for tactile sensation. Vibrissae hair grow around the nostrils, above the lips, and on other parts of the face of most mammals, and all primates except humans. vibrissae are different from other hairs because they are implanted in a special hair follicle incorporating a capsule of blood called a blood sinus and heavily innervated by sensory nerves[WP]." [Wikipedia:Whiskers, https://sourceforge.net/tracker/?func=detail&aid=3213510&group_id=76834&atid=1205376] synonym: "contour hair" EXACT [MP:0009003] synonym: "macrovibrissa" NARROW [] synonym: "microvibrissa" NARROW [] synonym: "motile vibrissa" NARROW [] synonym: "sinus hair" EXACT [EMAPA:26747, MP:0009003] synonym: "touch hair" EXACT [MP:0009003] synonym: "true whisker" NARROW [] synonym: "vibrissa hair" EXACT [] synonym: "vibrissae" RELATED PLURAL [] synonym: "whisker" NARROW [MA:0000163] xref: BTO:0003488 xref: EMAPA:17529 xref: EMAPA:26747 xref: MA:0000782 xref: MESH:A13.950 xref: http://eulep.pdn.cam.ac.uk/~skinbase/Annotated_anatomy_of_the_mouse_vibrissa/vibrissa_labelled.jpg is_a: UBERON:0001037 ! strand of hair relationship: part_of UBERON:0011933 ! vibrissa unit disjoint_from: UBERON:0011931 ! nasal hair property_value: dubious_for_taxon NCBITaxon:9606 property_value: taxon_notes "In harbor seals, the structure of the vibrissal shaft is undulated (wavy) and flattened. This specialization is also found in most true seals. In contrast, the whiskers of the California sea lion are circular or elliptical in cross-section and are smooth." xsd:string [Term] id: UBERON:0006428 name: basisphenoid bone namespace: uberon comment: \"Endochondral ossification of the ventromedial portion of the braincase.\" [AAO:0000040] // \"An endochondral bone that is located ventral to the pterosphenoid and dorsal to the parasphenoid. Basisphenoid is a median bone that is usually Y-shaped.\" [TAO:0000169] synonym: "basisphcC)nocC/de@fr" RELATED [TAO:0000169] synonym: "basisphenoid" EXACT [AAO:0000040] synonym: "propituital@fr" RELATED [TAO:0000169] xref: AAO:0000040 xref: EMAPA:18706 xref: MA:0001463 xref: SCTID:95945003 xref: TAO:0000169 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0009194 ! basisphenoid cartilage condenstion relationship: part_of UBERON:0001677 ! sphenoid bone relationship: part_of UBERON:0002241 ! chondrocranium property_value: axiom_lost_from_external_ontology "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" xsd:string property_value: external_definition "An endochondral bone that is located ventral to the pterosphenoid and dorsal to the parasphenoid. Basisphenoid is a median bone that is usually Y-shaped.[TAO]" xsd:string property_value: external_definition "Endochondral ossification of the ventromedial portion of the braincase.[AAO]" xsd:string [Term] id: UBERON:0006430 name: xiphoid cartilage namespace: uberon def: "A costal cartilage that is part of a xiphoid process." [OBOL:automatic] subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "cartilage of xiphoid process" EXACT [FMA:32574] synonym: "ensiform cartilage" RELATED [Wikipedia:Xiphoid_process] synonym: "xiphoid cartilage" EXACT [] synonym: "xiphoid process cartilage" EXACT [FMA:32574] xref: AAO:0000940 xref: EMAPA:18725 xref: FMA:32574 xref: MA:0001884 is_a: UBERON:0000398 ! cartilage tissue of sternum intersection_of: UBERON:0002236 ! costal cartilage intersection_of: part_of UBERON:0002207 ! xiphoid process property_value: external_definition "Distal, cartilaginous portion of the sternum.[AAO]" xsd:string [Term] id: UBERON:0006431 name: xiphoid process bone namespace: uberon def: "A bone tissue that is part of a xiphoid process." [OBOL:automatic] synonym: "bone tissue of xiphoid process" EXACT [FMA:32577] synonym: "xiphoid bone" RELATED [Wikipedia:Xiphoid_process] xref: FMA:32577 xref: GAID:248 is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002481 ! bone tissue intersection_of: part_of UBERON:0002207 ! xiphoid process [Term] id: UBERON:0006435 name: os penis namespace: uberon def: "a bone found in the penis of most mammals. It is absent in humans, but present in other primates, such as the closely-related chimpanzee. The bone aids in sexual intercourse[WP]." [Wikipedia:Baculum] comment: Taxon notes: found in most mammals, with the exception of humans synonym: "baculum" EXACT [Wikipedia:Baculum] synonym: "penile bone" EXACT [Wikipedia:Baculum] synonym: "penis bone" EXACT [Wikipedia:Baculum] xref: EMAPA:29769 xref: MA:0000406 xref: SCTID:27962002 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0007719 ! bone of reproductive structure intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000989 ! penis property_value: never_in_taxon NCBITaxon:9606 [Term] id: UBERON:0006436 name: principal artery to forelimb namespace: uberon synonym: "7th cervical intersegmental artery" RELATED [EMAPA:16811] synonym: "axial artery of forelimb" RELATED [EMAPA:16811] xref: EMAPA:16811 xref: MA:0002024 is_a: UBERON:0007718 ! principal artery to limb [Term] id: UBERON:0006438 name: principal artery to hindlimb namespace: uberon xref: EMAPA:16812 xref: MA:0002025 is_a: UBERON:0007718 ! principal artery to limb [Term] id: UBERON:0006440 name: os clitoris namespace: uberon def: "A bone that is part of a clitoris." [OBOL:automatic] synonym: "baubellum" EXACT [Wikipedia:Baculum] synonym: "os clitoridis" EXACT [Wikipedia:Baculum] xref: EMAPA:30823 xref: MA:0000387 is_a: UBERON:0007719 ! bone of reproductive structure intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002411 ! clitoris property_value: never_in_taxon NCBITaxon:9606 property_value: sexually_homologous_to UBERON:0006435 [Term] id: UBERON:0006442 name: subhepatic recess namespace: uberon synonym: "hepatic recess" EXACT [] synonym: "subhepatic space" EXACT [FMA:20676] xref: FMA:20676 xref: SCTID:36051002 is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001179 ! peritoneal cavity [Term] id: UBERON:0006443 name: prinicipal vein of limb namespace: uberon is_a: UBERON:0001638 ! vein is_a: UBERON:0003514 ! limb blood vessel relationship: part_of UBERON:0002101 ! limb [Term] id: UBERON:0006444 name: annulus fibrosus namespace: uberon def: "A ring of fibrous or fibrocartilaginous tissue (as of an intervertebral disk or surrounding an orifice of the heart)." [BTO:0003627] subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "anulus fibrosus" EXACT [FMA:76704] synonym: "fibrous ring" RELATED [BTO:0003627] xref: BTO:0003627 xref: FMA:76704 is_a: UBERON:0001995 ! fibrocartilage [Term] id: UBERON:0006445 name: caudal middle frontal gyrus namespace: uberon def: "Component of the middle frontal gyrus. The rostral boundary of the middle frontal gyrus was the rostral extent of the middle frontal gyrus whereas the caudal boundary was the precentral gyrus. The medial and lateral boundaries were designated as the superior frontal sulcus and the inferior frontal sulcus respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1083] synonym: "caudal middle frontal gyrus" EXACT [NIF_GrossAnatomy:birnlex_1083] synonym: "posterior part of middle frontal gyrus" EXACT [FMA:70688] xref: FMA:70688 xref: NIF_GrossAnatomy:birnlex_1083 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0002702 ! middle frontal gyrus [Term] id: UBERON:0006446 name: rostral middle frontal gyrus namespace: uberon def: "Component of the middle frontal gyrus The rostral boundary is the first appearance of the superior frontal sulcus whereas the caudal boundary is the middle frontal gyrus. The medial and lateral boundaries are the superior frontal sulcus and the inferior frontal sulcus respectively (Christine Fennema-Notestine)." [NIF_GrossAnatomy:birnlex_1090] synonym: "anterior part of middle frontal gyrus" EXACT [FMA:70687] synonym: "rostral middle frontal gyrus" EXACT [NIF_GrossAnatomy:birnlex_1090] xref: FMA:70687 xref: NIF_GrossAnatomy:birnlex_1090 is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0003022 ! lobe parts of cerebral cortex relationship: part_of UBERON:0002702 ! middle frontal gyrus [Term] id: UBERON:0006447 name: fifth lumbar spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L5 segment" EXACT [FMA:71191] synonym: "L5 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1251] synonym: "fifth lumbar spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1251] xref: FMA:71191 xref: NIF_GrossAnatomy:birnlex_1251 xref: SCTID:278775008 is_a: UBERON:0007716 ! lumbar subsegment of spinal cord [Term] id: UBERON:0006448 name: first lumbar spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L1 segment" EXACT [FMA:71187] synonym: "L1 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1336] synonym: "first lumbar spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1336] xref: FMA:71187 xref: NIF_GrossAnatomy:birnlex_1336 xref: SCTID:278776009 is_a: UBERON:0007716 ! lumbar subsegment of spinal cord [Term] id: UBERON:0006449 name: third lumbar spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L3 segment" EXACT [FMA:71189] synonym: "L3 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1340] synonym: "third lumbar spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1340] xref: FMA:71189 xref: NIF_GrossAnatomy:birnlex_1340 xref: SCTID:278778005 is_a: UBERON:0007716 ! lumbar subsegment of spinal cord [Term] id: UBERON:0006450 name: second lumbar spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L2 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1345] synonym: "l2 segment" EXACT [FMA:71188] synonym: "second lumbar spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1345] xref: FMA:71188 xref: NIF_GrossAnatomy:birnlex_1345 xref: SCTID:278777000 is_a: UBERON:0007716 ! lumbar subsegment of spinal cord [Term] id: UBERON:0006451 name: fourth lumbar spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "L4 segment" EXACT [FMA:71190] synonym: "L4 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1352] xref: FMA:71190 xref: NIF_GrossAnatomy:birnlex_1352 xref: SCTID:278779002 is_a: UBERON:0007716 ! lumbar subsegment of spinal cord [Term] id: UBERON:0006452 name: fourth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T4 segment" EXACT [FMA:71170] synonym: "T4 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1378] xref: FMA:71170 xref: NIF_GrossAnatomy:birnlex_1378 xref: SCTID:278766006 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006453 name: fifth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T5 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1383] synonym: "fifth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1383] synonym: "t5 segment" EXACT [FMA:71171] xref: FMA:71171 xref: NIF_GrossAnatomy:birnlex_1383 xref: SCTID:278767002 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006454 name: sixth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T6 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1387] synonym: "sixth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1387] synonym: "t6 segment" EXACT [FMA:71172] xref: FMA:71172 xref: NIF_GrossAnatomy:birnlex_1387 xref: SCTID:278768007 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006455 name: seventh thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T7 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1392] synonym: "seventh thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1392] synonym: "t7 segment" EXACT [FMA:71173] xref: FMA:71173 xref: NIF_GrossAnatomy:birnlex_1392 xref: SCTID:278769004 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006456 name: eighth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T8 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1398] synonym: "eighth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1398] synonym: "t8 segment" EXACT [FMA:71174] xref: FMA:71174 xref: NIF_GrossAnatomy:birnlex_1398 xref: SCTID:278770003 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006457 name: first thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T1 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1452] synonym: "first thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1452] synonym: "t1 segment" EXACT [FMA:62421] xref: FMA:62421 xref: NIF_GrossAnatomy:birnlex_1452 xref: SCTID:278762008 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006458 name: second thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T2 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1454] synonym: "second thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1454] synonym: "t2 segment" EXACT [FMA:62422] xref: FMA:62422 xref: NIF_GrossAnatomy:birnlex_1454 xref: SCTID:278763003 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006459 name: third thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T3 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1458] synonym: "t3 segment" EXACT [FMA:71169] synonym: "third thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1458] xref: FMA:71169 xref: NIF_GrossAnatomy:birnlex_1458 xref: SCTID:278764009 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006460 name: first sacral spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "S1 segment" EXACT [FMA:256625] synonym: "S1 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1532] synonym: "first sacral spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1532] xref: FMA:256625 xref: NIF_GrossAnatomy:birnlex_1532 xref: SCTID:278780004 is_a: UBERON:0007717 ! sacral subsegment of spinal cord [Term] id: UBERON:0006461 name: second sacral spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "S2 segment" EXACT [FMA:256627] synonym: "S2 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1539] synonym: "second sacral spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1539] xref: FMA:256627 xref: NIF_GrossAnatomy:birnlex_1539 xref: SCTID:278781000 is_a: UBERON:0007717 ! sacral subsegment of spinal cord [Term] id: UBERON:0006462 name: third sacral spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "S3 segment" EXACT [FMA:256629] synonym: "S3 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1544] synonym: "third sacral spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1544] xref: FMA:256629 xref: NIF_GrossAnatomy:birnlex_1544 xref: SCTID:278782007 is_a: UBERON:0007717 ! sacral subsegment of spinal cord [Term] id: UBERON:0006463 name: fourth sacral spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "S4 segment" EXACT [FMA:256631] synonym: "S4 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1548] xref: FMA:256631 xref: NIF_GrossAnatomy:birnlex_1548 xref: SCTID:278783002 is_a: UBERON:0007717 ! sacral subsegment of spinal cord [Term] id: UBERON:0006464 name: fifth sacral spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "S5 segment" EXACT [FMA:256633] synonym: "S5 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1553] synonym: "fifth sacral spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1553] xref: FMA:256633 xref: NIF_GrossAnatomy:birnlex_1553 xref: SCTID:278784008 is_a: UBERON:0007717 ! sacral subsegment of spinal cord [Term] id: UBERON:0006465 name: ninth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T9 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1584] synonym: "ninth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1584] synonym: "t9 segment" EXACT [FMA:71175] xref: FMA:71175 xref: NIF_GrossAnatomy:birnlex_1584 xref: SCTID:278771004 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006466 name: tenth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T10 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1591] synonym: "t10 segment" EXACT [FMA:71176] synonym: "tenth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1591] xref: FMA:71176 xref: NIF_GrossAnatomy:birnlex_1591 xref: SCTID:278772006 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006467 name: eleventh thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T11 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1596] synonym: "eleventh thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1596] synonym: "t11 segment" EXACT [FMA:71177] xref: FMA:71177 xref: NIF_GrossAnatomy:birnlex_1596 xref: SCTID:278773001 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006468 name: twelfth thoracic spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "T12 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1598] synonym: "t12 segment" EXACT [FMA:71178] synonym: "twelfth thoracic spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1598] xref: FMA:71178 xref: NIF_GrossAnatomy:birnlex_1598 xref: SCTID:278774007 is_a: UBERON:0007715 ! thoracic subsegment of spinal cord [Term] id: UBERON:0006469 name: first cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C1 segment" EXACT [FMA:71179] synonym: "C1 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1694] synonym: "first cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1694] xref: FMA:71179 xref: NIF_GrossAnatomy:birnlex_1694 xref: SCTID:278754000 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006470 name: eighth cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C8 segment" EXACT [FMA:71186] synonym: "C8 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1696] synonym: "eighth cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_1696] xref: FMA:71186 xref: NIF_GrossAnatomy:birnlex_1696 xref: SCTID:278761001 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006471 name: brodmann (1909) area 5 namespace: uberon def: "Brodmann area 5 is one of Brodmann's cytologically defined regions of the brain. It is involved in somatosensory processing and association." [Wikipedia:Brodmann_area_5] synonym: "Area praeparietalis" EXACT [NIF_GrossAnatomy:birnlex_1736] synonym: "B09-5" EXACT [NIF_GrossAnatomy:birnlex_1736] synonym: "BA5" EXACT ABBREVIATION [] synonym: "Brodmann area 5" EXACT [FMA:68601] synonym: "Brodmann area 5, preparietal" EXACT [NIF_GrossAnatomy:birnlex_1736] synonym: "area 5 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1736] synonym: "brodmann (1909) area 5" EXACT [NIF_GrossAnatomy:birnlex_1736] synonym: "preparietal area 5" EXACT [FMA:68601, Wikipedia:Brodmann_area_5] synonym: "secondary somatosensory cortex" RELATED [Wikipedia:Brodmann_area_5] xref: FMA:68601 xref: NIF_GrossAnatomy:birnlex_1736 xref: SCTID:384764008 xref: http://upload.wikimedia.org/wikipedia/commons/5/52/Brodmann_areas_5.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006472 name: brodmann (1909) area 6 namespace: uberon def: "Brodmann area 6, or BA6, is part of the frontal cortex in the human brain. Situated just anterior to the primary motor cortex, it is composed of the premotor cortex and, medially, the supplementary motor area, or SMA. This large area of the frontal cortex is believed to play a role in the planning of complex, coordinated movements. Brodmann area 6 is also called agranular frontal area 6 in humans because it lacks an internal granular cortical layer (layer IV). It is a subdivision of the cytoarchitecturally defined precentral region of cerebral cortex. In the human brain, it is located on the portions of the precentral gyrus that are not occupied by the gigantopyramidal area 4; furthermore, BA6 extends onto the caudal portions of the superior frontal and middle frontal gyri. It extends from the cingulate sulcus on the medial aspect of the hemisphere to the lateral sulcus on the lateral aspect. It is bounded rostrally by the granular frontal region and caudally by the gigantopyramidal area 4 (Brodmann, 1909)." [Wikipedia:Brodmann_area_6] synonym: "Area frontalis agranularis" EXACT [NIF_GrossAnatomy:birnlex_1737] synonym: "B09-6" EXACT [NIF_GrossAnatomy:birnlex_1737] synonym: "BA6" EXACT ABBREVIATION [] synonym: "Brodmann area 6" EXACT [FMA:68602] synonym: "Brodmann area 6, agranular frontal" EXACT [NIF_GrossAnatomy:birnlex_1737] synonym: "agranular frontal area 6" EXACT [FMA:68602, Wikipedia:Brodmann_area_6] synonym: "area 6 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1737] synonym: "area 6 of brodmann" EXACT [FMA:68602] synonym: "brodmann (1909) area 6" EXACT [NIF_GrossAnatomy:birnlex_1737] synonym: "frontal belt" EXACT [FMA:68602] xref: FMA:68602 xref: NIF_GrossAnatomy:birnlex_1737 xref: SCTID:384765009 xref: http://upload.wikimedia.org/wikipedia/commons/1/11/Brodmann_areas_6.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006473 name: brodmann (1909) area 18 namespace: uberon synonym: "Area parastriata" EXACT LATIN [NIF_GrossAnatomy:birnlex_1749, Wikipedia:Brodmann_area_18] synonym: "B09-18" EXACT [NIF_GrossAnatomy:birnlex_1749] synonym: "BA18" EXACT ABBREVIATION [] synonym: "Brodmann area 18" EXACT [FMA:68615] synonym: "Brodmann area 18, parastriate" EXACT [NIF_GrossAnatomy:birnlex_1749] synonym: "area 18 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1749] synonym: "area 18 of brodmann" EXACT [FMA:68615] synonym: "brodmann (1909) area 18" EXACT [NIF_GrossAnatomy:birnlex_1749] synonym: "brodmann's area 18" EXACT [FMA:68615] synonym: "parastriate area 18" EXACT [FMA:68615] synonym: "secondary visual area" EXACT [FMA:68615] synonym: "visual area ii" EXACT [FMA:68615] xref: FMA:68615 xref: NIF_GrossAnatomy:birnlex_1749 xref: SCTID:384773000 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006474 name: brodmann (1909) area 30 namespace: uberon def: "Brodmann area 30, also known as agranular retrolimbic area 30, is a subdivision of the cytoarchitecturally defined retrosplenial region of the cerebral cortex. In the human it is located in the isthmus of cingulate gyrus. Cytoarchitecturally it is bounded internally by the granular retrolimbic area 29, dorsally by the ventral posterior cingulate area 23 and ventrolaterally by the ectorhinal area 36 (Brodmann-1909)." [Wikipedia:Brodmann_area_30] synonym: "Area retrolimbica agranularis" EXACT [NIF_GrossAnatomy:birnlex_1764] synonym: "Area retrosplenialis agranularis" EXACT LATIN [Wikipedia:Brodmann_area_30] synonym: "B09-30" EXACT [NIF_GrossAnatomy:birnlex_1764] synonym: "BA30" EXACT ABBREVIATION [] synonym: "Brodmann area 30" EXACT [FMA:68627] synonym: "Brodmann area 30, agranular retrolimbic" EXACT [NIF_GrossAnatomy:birnlex_1764] synonym: "agranular retrolimbic area 30" EXACT [FMA:68627] synonym: "area 30 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1764] synonym: "area 30 of brodmann" EXACT [FMA:68627] synonym: "brodmann (1909) area 30" EXACT [NIF_GrossAnatomy:birnlex_1764] synonym: "brodmann's area 30" EXACT [FMA:68627] xref: FMA:68627 xref: NIF_GrossAnatomy:birnlex_1764 xref: SCTID:384784007 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006475 name: brodmann (1909) area 31 namespace: uberon def: "Brodmann area 31, also known as dorsal posterior cingulate area 31, is a subdivision of the cytoarchitecturally defined cingulate region of the cerebral cortex. In the human it occupies portions of the posterior cingulate gyrus and medial aspect of the parietal lobe. Approximate boundaries are the cingulate sulcus dorsally and the parieto-occipital sulcus caudally. It partially surrounds the subparietal sulcus, the ventral continuation of the cingulate sulcus in the parietal lobe. Cytoarchitecturally it is bounded rostrally by the ventral anterior cingulate area 24, ventrally by the ventral posterior cingulate area 23, dorsally by the gigantopyramidal area 4 and preparietal area 5 and caudally by the superior parietal area 7 (H) (Brodmann-1909)." [Wikipedia:Brodmann_area_31] synonym: "Area cingularis posterior dorsalis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1765, Wikipedia:Brodmann_area_31] synonym: "B09-31" EXACT [NIF_GrossAnatomy:birnlex_1765] synonym: "BA31" EXACT ABBREVIATION [] synonym: "Brodmann area 31" EXACT [FMA:68628] synonym: "Brodmann area 31, dorsal posterior cingulate" EXACT [NIF_GrossAnatomy:birnlex_1765] synonym: "area 31 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1765] synonym: "area 31 of brodmann" EXACT [FMA:68628] synonym: "brodmann (1909) area 31" EXACT [NIF_GrossAnatomy:birnlex_1765] synonym: "brodmann's area 31" EXACT [FMA:68628] synonym: "cinguloparietal transition area" EXACT [FMA:68628] synonym: "dorsal posterior cingulate area 31" EXACT [FMA:68628] xref: FMA:68628 xref: NIF_GrossAnatomy:birnlex_1765 xref: SCTID:384785008 xref: http://upload.wikimedia.org/wikipedia/commons/e/ed/Brodmann_Cytoarchitectonics_31.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006476 name: brodmann (1909) area 33 namespace: uberon def: "Brodmann area 33, also known as pregenual area 33, is a subdivision of the cytoarchitecturally defined cingulate region of cerebral cortex. It is a narrow band located in the anterior cingulate gyrus adjacent to the supracallosal gyrus in the depth of the callosal sulcus, near the genu of the corpus callosum. Cytoarchitecturally it is bounded by the ventral anterior cingulate area 24 and the supracallosal gyrus (Brodmann-1909)." [Wikipedia:Brodmann_area_33] synonym: "Area praegenualis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1766, Wikipedia:Brodmann_area_33] synonym: "B09-33" EXACT [NIF_GrossAnatomy:birnlex_1766] synonym: "BA33" EXACT ABBREVIATION [] synonym: "Brodmann area 33" EXACT [FMA:68630] synonym: "Brodmann area 33, pregenual" EXACT [NIF_GrossAnatomy:birnlex_1766] synonym: "area 33 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1766] synonym: "area 33 of brodmann" EXACT [FMA:68630] synonym: "brodmann (1909) area 33" EXACT [NIF_GrossAnatomy:birnlex_1766] synonym: "brodmann's area 33" EXACT [FMA:68630] synonym: "pregenual area 33" EXACT [FMA:68630] xref: FMA:68630 xref: NIF_GrossAnatomy:birnlex_1766 xref: SCTID:384788005 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006477 name: brodmann (1909) area 34 namespace: uberon def: "Brodmann area 34 is a part of the brain. It has been described as part of the entorhinal area. It has been described as part of the superior temporal gyrus." [Wikipedia:Brodmann_area_34] synonym: "Area entorhinalis dorsalis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1767, Wikipedia:Brodmann_area_34] synonym: "B09-34" EXACT [NIF_GrossAnatomy:birnlex_1767] synonym: "BA34" EXACT ABBREVIATION [] synonym: "Brodmann area 34" EXACT [FMA:68631] synonym: "Brodmann area 34, dorsal entorhinal" EXACT [NIF_GrossAnatomy:birnlex_1767] synonym: "area 34 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1767] synonym: "area 34 of brodmann" EXACT [FMA:68631] synonym: "brodmann (1909) area 34" EXACT [NIF_GrossAnatomy:birnlex_1767] synonym: "dorsal entorhinal area 34" EXACT [FMA:68631] xref: FMA:68631 xref: NIF_GrossAnatomy:birnlex_1767 xref: SCTID:384789002 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006478 name: brodmann (1909) area 37 namespace: uberon def: "Brodmann area 37, or BA37, is part of the temporal cortex in the human brain. This area is known as occipitotemporal area 37 (H). It is a subdivision of the cytoarchitecturally defined temporal region of cerebral cortex. It is located primarily in the caudal portions of the fusiform gyrus and inferior temporal gyrus on the mediobasal and lateral surfaces at the caudal extreme of the temporal lobe. Cytoarchitecturally it is bounded caudally by the peristriate Brodmann area 19, rostrally by the inferior temporal area 20 and middle temporal area 21 and dorsally on the lateral aspect of the hemisphere by the angular area 39 (H) (Brodmann-1909)." [Wikipedia:Brodmann_area_37] synonym: "Area occipitotemporalis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1770, Wikipedia:Brodmann_area_37] synonym: "B09-37" EXACT [NIF_GrossAnatomy:birnlex_1770] synonym: "BA37" EXACT ABBREVIATION [] synonym: "Brodmann area 37" EXACT [FMA:68634] synonym: "Brodmann area 37, occipitotemporal" EXACT [NIF_GrossAnatomy:birnlex_1770] synonym: "area 37 0f brodmann" EXACT [FMA:68634] synonym: "area 37 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1770] synonym: "brodmann (1909) area 37" EXACT [NIF_GrossAnatomy:birnlex_1770] synonym: "occipitotemporal area 37" EXACT [FMA:68634] xref: FMA:68634 xref: NIF_GrossAnatomy:birnlex_1770 xref: SCTID:384792003 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006479 name: brodmann (1909) area 38 namespace: uberon synonym: "Area temporopolaris" EXACT [NIF_GrossAnatomy:birnlex_1771] synonym: "B09-38" EXACT [NIF_GrossAnatomy:birnlex_1771] synonym: "BA38" EXACT ABBREVIATION [] synonym: "Brodmann area 38" EXACT [FMA:68635] synonym: "Brodmann area 38, temporopolar" EXACT [NIF_GrossAnatomy:birnlex_1771] synonym: "area 38 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1771] synonym: "area 38 of brodmann" EXACT [FMA:68635] synonym: "brodmann (1909) area 38" EXACT [NIF_GrossAnatomy:birnlex_1771] synonym: "temporopolar area 38" EXACT [FMA:68635] xref: FMA:68635 xref: NIF_GrossAnatomy:birnlex_1771 xref: SCTID:384793008 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006480 name: brodmann (1909) area 39 namespace: uberon def: "." [Wikipedia:Brodmann_area_39] synonym: "Area angularis" EXACT [NIF_GrossAnatomy:birnlex_1772] synonym: "B09-39" EXACT [NIF_GrossAnatomy:birnlex_1772] synonym: "BA39" EXACT ABBREVIATION [] synonym: "Brodmann area 39" EXACT [FMA:68636] synonym: "Brodmann area 39, angular" EXACT [NIF_GrossAnatomy:birnlex_1772] synonym: "angular area 39" EXACT [FMA:68636] synonym: "area 39 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1772] synonym: "area 39 of brodmann" EXACT [FMA:68636] synonym: "brodmann (1909) area 39" EXACT [NIF_GrossAnatomy:birnlex_1772] xref: FMA:68636 xref: NIF_GrossAnatomy:birnlex_1772 xref: SCTID:384794002 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006481 name: brodmann (1909) area 44 namespace: uberon synonym: "Area opercularis" EXACT [NIF_GrossAnatomy:birnlex_1776] synonym: "B09-44" EXACT [NIF_GrossAnatomy:birnlex_1776] synonym: "BA44" EXACT ABBREVIATION [] synonym: "Brodmann area 44" EXACT [FMA:68641] synonym: "Brodmann area 44, opercular" EXACT [NIF_GrossAnatomy:birnlex_1776] synonym: "area 44 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1776] synonym: "area 44 of brodmann" EXACT [FMA:68641] synonym: "brodmann (1909) area 44" EXACT [NIF_GrossAnatomy:birnlex_1776] synonym: "opercular area 44" EXACT [FMA:68641] xref: FMA:68641 xref: NIF_GrossAnatomy:birnlex_1776 xref: SCTID:384803008 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006482 name: brodmann (1909) area 45 namespace: uberon def: "Brodmann area 45 (BA45), is part of the frontal cortex in the human brain. Situated on the lateral surface, inferior to BA9 and adjacent to BA46. This area is also known as pars triangular (of the inferior frontal gyrus). In the human, it occupies the triangular part of inferior frontal gyrus (H) and, surrounding the anterior horizontal limb of lateral sulcus (H), a portion of the orbital part of inferior frontal gyrus (H). Bounded caudally by the anterior ascending limb of lateral sulcus (H), it borders on the insula in the depth of the lateral sulcus. In terms of cytoarchitecture, it is bounded caudally by the opercular area 44 (BA44), rostrodorsally by the middle frontal area 46 (BA46), and ventrally by the orbital area 47 (BA47) (Brodmann-1909)." [Wikipedia:Brodmann_area_45] synonym: "Area triangularis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1777, Wikipedia:Brodmann_area_45] synonym: "B09-45" EXACT [NIF_GrossAnatomy:birnlex_1777] synonym: "BA45" EXACT ABBREVIATION [] synonym: "Brodmann area 45" EXACT [FMA:68642] synonym: "Brodmann area 45, triangular" EXACT [NIF_GrossAnatomy:birnlex_1777] synonym: "area 45 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1777] synonym: "area 45 of brodmann" EXACT [FMA:68642] synonym: "brodmann (1909) area 45" EXACT [NIF_GrossAnatomy:birnlex_1777] synonym: "triangular area 45" EXACT [FMA:68642] xref: FMA:68642 xref: NIF_GrossAnatomy:birnlex_1777 xref: SCTID:384805001 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006483 name: brodmann (1909) area 46 namespace: uberon def: "Brodmann area 46, or BA46, is part of the frontal cortex in the human brain. It is between BA10 and BA45. BA46 is known as middle frontal area 46. In the human it occupies approximately the middle third of the middle frontal gyrus and the most rostral portion of the inferior frontal gyrus. Brodmann area 46 roughly corresponds with the dorsolateral prefrontal cortex (DLPFC), although the borders of area 46 are based on cytoarchitecture rather than function. The DLPFC also encompasses part of granular frontal area 9, directly adjacent on the dorsal surface of the cortex. Cytoarchitecturally, BA46 is bounded dorsally by the granular frontal area 9, rostroventrally by the frontopolar area 10 and caudally by the triangular area 45 (Brodmann-1909). There is some discrepancy between the extent of BA8 (Brodmann-1905) and the same area as described by Walker (1940)" [Wikipedia:Brodmann_area_46] synonym: "Area frontalis media" EXACT [NIF_GrossAnatomy:birnlex_1778] synonym: "B09-46" EXACT [NIF_GrossAnatomy:birnlex_1778] synonym: "BA46" EXACT ABBREVIATION [] synonym: "Brodmann area 46" EXACT [FMA:68643] synonym: "Brodmann area 46, middle frontal" EXACT [NIF_GrossAnatomy:birnlex_1778] synonym: "area 46 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1778] synonym: "area 46 of brodmann" EXACT [FMA:68643] synonym: "brodmann (1909) area 46" EXACT [NIF_GrossAnatomy:birnlex_1778] synonym: "middle frontal area 46" EXACT [FMA:68643, Wikipedia:Brodmann_area_46] xref: FMA:68643 xref: NIF_GrossAnatomy:birnlex_1778 xref: SCTID:384806000 xref: http://upload.wikimedia.org/wikipedia/commons/c/cd/Brodmann_area_46.png is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006484 name: brodmann (1909) area 47 namespace: uberon def: "Brodmann area 47, or BA47, is part of the frontal cortex in the human brain. Curving from the lateral surface of the frontal lobe into the ventral (orbital) frontal cortex. It is below areas BA10 and BA45, and beside BA11. This area is also known as orbital area 47. In the human, on the orbital surface it surrounds the caudal portion of the orbital sulcus (H) from which it extends laterally into the orbital part of inferior frontal gyrus (H). Cytoarchitectonically it is bounded caudally by the triangular area 45, medially by the prefrontal area 11 of Brodmann-1909, and rostrally by the frontopolar area 10 (Brodmann-1909). It incorporates the region that Brodmann identified as \"Area 12\" in the monkey, and therefore, following the suggestion of Michael Petrides, some contemporary neuroscientists refer to the region as \"BA47/12. \" BA47 has been implicated in the processing of syntax in spoken and signed languages, and more recently in musical syntax." [Wikipedia:Brodmann_area_47] synonym: "Area orbitalis" EXACT LATIN [NIF_GrossAnatomy:birnlex_1779, Wikipedia:Brodmann_area_47] synonym: "B09-47" EXACT [NIF_GrossAnatomy:birnlex_1779] synonym: "BA47" EXACT ABBREVIATION [] synonym: "Brodmann area 47" EXACT [FMA:68644] synonym: "Brodmann area 47, orbital" EXACT [NIF_GrossAnatomy:birnlex_1779] synonym: "area 47 of Brodmann-1909" EXACT [NIF_GrossAnatomy:birnlex_1779] synonym: "area 47 of brodmann" EXACT [FMA:68644] synonym: "brodmann (1909) area 47" EXACT [NIF_GrossAnatomy:birnlex_1779] synonym: "orbital area 47" EXACT [FMA:68644] xref: FMA:68644 xref: NIF_GrossAnatomy:birnlex_1779 xref: SCTID:384807009 is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0006485 name: brodmann (1909) area 48 namespace: uberon def: "Retrosubicular area 48 is a subdivision of the cytoarchitecturally defined hippocampal region of the cerebral cortex. In the human it is located on the medial surface of the temporal lobe. Cytoarchitectually it is bounded rostrally by the perirhinal area 35 and medially by the presubiculum. While described by Brodmann (Brodmann-1909), it was not included in his areal maps of human cortex (Brodmann-1909; Brodmann-1910)." [Wikipedia:Brodmann_area_48] synonym: "Area retrosubicularis" EXACT [NIF_GrossAnatomy:birnlex_1791] synonym: "B09-48" EXACT [NIF_GrossAnatomy:birnlex_1791] synonym: "BA48" EXACT ABBREVIATION [] synonym: "Brodmann area 48" EXACT [FMA:81151] synonym: "Brodmann area 48, retrosubicular" EXACT [NIF_GrossAnatomy:birnlex_1791] synonym: "area 48 of brodmann" EXACT [FMA:81151] synonym: "brodmann (1909) area 48" EXACT [NIF_GrossAnatomy:birnlex_1791] synonym: "brodmann's area 48" EXACT [FMA:81151] synonym: "retrosubicular area 48" EXACT [FMA:81151] xref: FMA:81151 xref: NIF_GrossAnatomy:birnlex_1791 xref: SCTID:384808004 is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: UBERON:0006486 name: brodmann (1909) area 52 namespace: uberon synonym: "Area parainsularis" EXACT [NIF_GrossAnatomy:birnlex_1792] synonym: "B09-52" EXACT [NIF_GrossAnatomy:birnlex_1792] synonym: "BA52" EXACT ABBREVIATION [] synonym: "Brodmann area 52" EXACT [FMA:81153] synonym: "Brodmann area 52, parainsular" EXACT [NIF_GrossAnatomy:birnlex_1792] synonym: "area 52 of brodmann" EXACT [FMA:81153] synonym: "brodmann (1909) area 52" EXACT [NIF_GrossAnatomy:birnlex_1792] synonym: "parainsular area 52" EXACT [FMA:81153] xref: FMA:81153 xref: NIF_GrossAnatomy:birnlex_1792 xref: SCTID:384809007 is_a: UBERON:0002619 ! regional part of cerebral cortex [Term] id: UBERON:0006487 name: hadjikhani et al. (1998) visuotopic area v2d namespace: uberon synonym: "hadjikhani et al. (1998) visuotopic area v2d" EXACT [NIF_GrossAnatomy:birnlex_4055] xref: NIF_GrossAnatomy:birnlex_4055 is_a: UBERON:0003022 ! lobe parts of cerebral cortex [Term] id: UBERON:0006488 name: third cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C3 segment" EXACT [FMA:71181] synonym: "C3 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_744] synonym: "third cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_744] xref: FMA:71181 xref: NIF_GrossAnatomy:birnlex_744 xref: SCTID:278756003 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006489 name: second cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C2 segment" EXACT [FMA:71180] synonym: "C2 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_752] synonym: "second cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_752] xref: FMA:71180 xref: NIF_GrossAnatomy:birnlex_752 xref: SCTID:278755004 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006490 name: fourth cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C4 segment" EXACT [FMA:71182] synonym: "C4 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_753] synonym: "forth cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_753] xref: FMA:71182 xref: NIF_GrossAnatomy:birnlex_753 xref: SCTID:278757007 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006491 name: fifth cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C5 segment" EXACT [FMA:71183] synonym: "C5 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_760] synonym: "fifth cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_760] xref: FMA:71183 xref: NIF_GrossAnatomy:birnlex_760 xref: SCTID:278758002 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006492 name: sixth cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C6 segment" EXACT [FMA:71184] synonym: "C6 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_766] synonym: "sixth cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_766] xref: FMA:71184 xref: NIF_GrossAnatomy:birnlex_766 xref: SCTID:278759005 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006493 name: seventh cervical spinal cord segment namespace: uberon subset: defined_by_ordinal_series ! classes that are defined by relative position counting from first in a series of elements along an axis in an individual organism rather than by strict homology synonym: "C7 segment" EXACT [FMA:71185] synonym: "C7 spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_773] synonym: "seventh cervical spinal cord segment" EXACT [NIF_GrossAnatomy:birnlex_773] xref: FMA:71185 xref: NIF_GrossAnatomy:birnlex_773 xref: SCTID:278760000 is_a: UBERON:0007714 ! cervical subsegment of spinal cord [Term] id: UBERON:0006494 name: apex of arytenoid namespace: uberon synonym: "apex of arytenoid cartilage" EXACT [FMA:55348] synonym: "arytenoid cartilage apex" EXACT [FMA:55348] xref: FMA:55348 xref: MA:0001760 xref: SCTID:279534007 is_a: UBERON:0001996 ! elastic cartilage tissue is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0003583 ! larynx connective tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001740 ! arytenoid cartilage [Term] id: UBERON:0006495 name: osseus cochlear canal namespace: uberon synonym: "osseous cochlear canal" EXACT [FMA:75666] xref: FMA:75666 xref: MA:0001183 is_a: UBERON:0005744 ! cranial conduit [Term] id: UBERON:0006496 name: external acoustic meatus osseus part namespace: uberon synonym: "osseous external acoustic meatus" EXACT [] synonym: "osseous external acoustic tube" EXACT [FMA:61290] synonym: "osseous part of external acoustic meatus" EXACT [FMA:61290] xref: FMA:61290 xref: MA:0001235 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001352 ! external acoustic meatus [Term] id: UBERON:0006497 name: pes interosseus muscle namespace: uberon def: "An interosseus muscle that is part of a pes." [OBOL:automatic] synonym: "foot interosseous" EXACT [FMA:37456] synonym: "foot interosseus muscle" EXACT [MA:0002302] synonym: "interosseous of foot" EXACT [FMA:37456] xref: FMA:37456 xref: MA:0002302 xref: SCTID:181714004 xref: UMLS:C0448494 xref: ncithesaurus:Foot_Interosseous_Muscle is_a: UBERON:0001498 ! muscle of pes intersection_of: UBERON:0006508 ! interosseus muscle intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0006499 name: dorsal pes interosseus muscle namespace: uberon def: "In human anatomy, the dorsal interossei of the foot are four muscles situated between the metatarsal bones." [Wikipedia:Dorsal_interossei_of_the_foot] synonym: "dorsal foot interosseus muscle" EXACT [MA:0002303] synonym: "dorsal interosseous of foot" EXACT [FMA:37457] synonym: "musculi interossei dorsalis pedis" EXACT LATIN [Wikipedia:Dorsal_interossei_of_the_foot] xref: FMA:37457 xref: MA:0002303 xref: UMLS:C1744541 xref: http://upload.wikimedia.org/wikipedia/commons/5/57/Gray446.png xref: ncithesaurus:Dorsal_Foot_Interosseous_Muscle is_a: UBERON:0006497 ! pes interosseus muscle relationship: has_muscle_antagonist UBERON:0006502 ! plantar foot interosseus muscle relationship: has_muscle_insertion UBERON:0004302 ! proximal phalanx relationship: has_muscle_origin UBERON:0000983 ! metatarsus region [Term] id: UBERON:0006502 name: plantar foot interosseus muscle namespace: uberon def: "The plantar interossei, three in number, lie beneath rather than between the metatarsal bones, and each is connected with but one metatarsal bone. They arise from the bases and medial sides of the bodies of the third, fourth, and fifth metatarsal bones, and are inserted into the medial sides of the bases of the first phalanges of the same toes, and into the aponeuroses of the tendons of the Extensor digitorum longus." [Wikipedia:Plantar_interossei_muscles] synonym: "musculi interossei plantares" EXACT [] synonym: "musculi interosseus plantaris" RELATED LATIN [Wikipedia:Plantar_interossei_muscles] synonym: "plantar interosseous of foot" EXACT [FMA:37458] xref: FMA:37458 xref: MA:0002304 xref: UMLS:C1744540 xref: http://upload.wikimedia.org/wikipedia/commons/2/21/Gray447.png xref: ncithesaurus:Plantar_Foot_Interosseus_Muscle is_a: UBERON:0006497 ! pes interosseus muscle relationship: has_muscle_antagonist UBERON:0006499 ! dorsal pes interosseus muscle relationship: has_muscle_insertion UBERON:0004302 ! proximal phalanx relationship: has_muscle_origin UBERON:0000983 ! metatarsus region [Term] id: UBERON:0006505 name: palmar hand interosseus muscle namespace: uberon def: "The palmar interossei (interossei volares) are small muscles in the hand that lie on the anterior aspect of the metacarpals. They are smaller than the dorsal interossei of the hand, which lie between the metacarpals" [Wikipedia:Palmar_interossei_muscles] synonym: "musculi interossei palmares" EXACT LATIN [Wikipedia:Palmar_interossei_muscles] synonym: "palmar interosseous of hand" EXACT [FMA:37419] xref: FMA:37419 xref: MA:0002315 xref: UMLS:C1709453 xref: http://upload.wikimedia.org/wikipedia/commons/3/39/Gray429.png xref: ncithesaurus:Palmar_Hand_Interosseus_Muscle is_a: UBERON:0001502 ! interosseous muscle of manus relationship: has_muscle_insertion UBERON:0004302 ! proximal phalanx relationship: has_muscle_origin UBERON:0010544 ! metacarpus skeleton [Term] id: UBERON:0006508 name: interosseus muscle namespace: uberon is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0003661 ! limb muscle relationship: part_of UBERON:0002470 ! autopod region [Term] id: UBERON:0006514 name: pallidum namespace: uberon def: "Part of what are called the basal ganglia of the brain which consist of the globus pallidus and the ventral pallidum." [http://www.medterms.com/script/main/art.asp?articlekey=11614] synonym: "neuraxis pallidum" EXACT [FMA:83684] synonym: "pallidum of neuraxis" EXACT [FMA:83684] xref: ABA:PAL xref: FMA:83684 xref: MA:0000889 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0011300 ! gray matter of telencephalon relationship: part_of UBERON:0002420 ! basal ganglion property_value: spatially_disjoint_from UBERON:0002435 [Term] id: UBERON:0006516 name: dorsal pallidum namespace: uberon synonym: "dorsal globus pallidus" RELATED [BTO:0004376] xref: ABA:PALd xref: BTO:0004376 xref: FMA:77619 is_a: UBERON:0005401 ! cerebral grey matter is_a: UBERON:0006514 ! pallidum is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001875 ! globus pallidus [Term] id: UBERON:0006517 name: kidney calyx namespace: uberon def: "Recesses of the kidney pelvis which divides into two wide, cup-shaped major renal calices, with each major calix subdivided into 7 to 14 minor calices. Urine empties into a minor calix from collecting tubules, then passes through the major calix, renal pelvis, and ureter to enter the urinary bladder. (From Moore, Clinically Oriented Anatomy, 3d ed, p211)" [MESH:A05.810.453.537.503] synonym: "calyx" BROAD [EMAPA:18676] synonym: "renal calyx" EXACT [MA:0000369] xref: EMAPA:18676 xref: GAID:427 xref: MA:0000369 xref: MESH:A05.810.453.537.503 xref: SCTID:276832000 xref: UMLS:C0022651 xref: ncithesaurus:Renal_Calyx is_a: UBERON:0000063 ! organ segment is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001224 ! renal pelvis [Term] id: UBERON:0006518 name: right lung lobe namespace: uberon def: "A lobe of lung that is part of a right lung." [OBOL:automatic] comment: Taxon notes: 4 in mice, divided into 3 in human by two interlobal fissures [ISBN-10:0123813611] synonym: "lobe of right lung" EXACT [] synonym: "lobe of the right lung" EXACT [ncithesaurus:Lobe_of_the_Right_Lung] xref: MA:0001791 xref: SCTID:272654004 xref: UMLS:C1285106 xref: ncithesaurus:Lobe_of_the_Right_Lung intersection_of: UBERON:0000101 ! lobe of lung intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0006524 name: alveolar system namespace: uberon def: "System pertaining to a bronchus and alveoli." [BTO:0000136] synonym: "bronchoalveolar system" RELATED [BTO:0000136] synonym: "pulmonary alveolar system" EXACT [MP:0010899] xref: BTO:0000136 xref: EMAPA:19003 xref: EMAPA:19005 xref: EMAPA:19007 xref: EMAPA:19009 xref: MA:0000416 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0006525 name: left lung alveolar system namespace: uberon xref: EMAPA:19001 xref: MA:0001775 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002168 ! left lung relationship: part_of UBERON:0006524 ! alveolar system [Term] id: UBERON:0006526 name: right lung alveolar system namespace: uberon xref: MA:0001784 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002167 ! right lung relationship: part_of UBERON:0006524 ! alveolar system [Term] id: UBERON:0006530 name: seminal fluid namespace: uberon def: "The fluid portion of the semen, in which the spermatozoa are suspended[BTO]." [BTO:0001232] comment: Usage notes: we follow FMA and make this class a generic superclass of the secretions of different glands (prostate, bulbo-urethreal, seminal vesicle). MA (and ncit) follows a mixture model, where these secretions are part of the seminal fluid // Taxon notes: This term covers a variety of species. Example: In D. melanogaster, seminal fluid proteins affect female receptivity, ovulation, oogenesis, sperm storage, sperm competition and mating plug formation [doi:10.1046/j.1365-2540.2001.00961.x]. Note that ths intology contains a number of subtypes of seminal fluid, defined according to glands (which are more taxonomically restricted) synonym: "male genital fluid" RELATED [] synonym: "male genital secretion" RELATED [] synonym: "seminal fluid" RELATED [BTO:0001232] synonym: "seminal plasma" EXACT [BTO:0001232] xref: BTO:0001232 xref: FMA:62967 xref: MA:0002523 xref: MAT:0000057 xref: MIAA:0000057 is_a: UBERON:0000456 ! bodily secretion relationship: part_of UBERON:0001968 ! semen [Term] id: UBERON:0006531 name: oculomotor muscle namespace: uberon def: "The muscles that move the eye. Included in this group are the medial rectus, lateral rectus, superior rectus, inferior rectus, inferior oblique, superior oblique, musculus orbitalis, and levator palpebrae superioris." [MESH:A02.633.567.700] comment: we follow MA in making this a subckass of extra-ocular muscle but the distinction is not clear xref: MA:0002432 xref: MESH:A02.633.567.700 xref: UMLS:C0028863 xref: ncithesaurus:Oculomotor_Muscle is_a: UBERON:0001601 ! extra-ocular muscle [Term] id: UBERON:0006532 name: oblique extraocular muscle namespace: uberon xref: MA:0001275 is_a: UBERON:0006531 ! oculomotor muscle [Term] id: UBERON:0006533 name: rectus extraocular muscle namespace: uberon xref: MA:0001278 is_a: UBERON:0006531 ! oculomotor muscle [Term] id: UBERON:0006534 name: renal convoluted tubule namespace: uberon synonym: "convoluted tubule" EXACT [] synonym: "kidney convoluted tubule" EXACT [MA:0001665] xref: MA:0001665 xref: SCTID:361333002 xref: UMLS:C1707510 xref: ncithesaurus:Convoluted_Tubule is_a: UBERON:0007685 ! region of nephron tubule [Term] id: UBERON:0006535 name: skin fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a zone of skin." [OBOL:automatic] synonym: "skin fluid" RELATED [] synonym: "skin secretion" RELATED [] xref: MA:0002537 intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0000014 ! zone of skin [Term] id: UBERON:0006536 name: male reproductive system fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a male reproductive system." [OBOL:automatic] synonym: "male reproductive system fluid" RELATED [] synonym: "male reproductive system secretion" RELATED [] xref: MA:0002521 intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0000079 ! male reproductive system [Term] id: UBERON:0006537 name: female reproductive system fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a female reproductive system." [OBOL:automatic] synonym: "female reproductive system fluid" RELATED [] synonym: "female reproductive system secretion" RELATED [] xref: MA:0002510 intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0000474 ! female reproductive system [Term] id: UBERON:0006538 name: respiratory system fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a respiratory system." [OBOL:automatic] synonym: "respiratory system fluid" RELATED [] synonym: "respiratory system secretion" RELATED [] xref: MA:0002533 xref: UMLS:C1514899 xref: ncithesaurus:Respiratory_System_Fluid_or_Secretion intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0001004 ! respiratory system [Term] id: UBERON:0006539 name: mammary gland fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a mammary gland." [OBOL:automatic] synonym: "lactiferous gland fluid" RELATED [] synonym: "lactiferous gland secretion" RELATED [] synonym: "mammary gland fluid" RELATED [] synonym: "mammary gland secretion" RELATED [] synonym: "secretion of mammary gland" RELATED [] xref: MA:0002505 is_a: UBERON:0000456 ! bodily secretion intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: secreted_by UBERON:0001911 ! mammary gland [Term] id: UBERON:0006541 name: outer medulla inner stripe loop of henle namespace: uberon def: "A loop of Henle that is part of a kidney outer medulla inner stripe." [OBOL:automatic] xref: EMAPA:29679 xref: MA:0002627 intersection_of: UBERON:0001288 ! loop of Henle intersection_of: part_of UBERON:0004201 ! kidney outer medulla inner stripe [Term] id: UBERON:0006542 name: outer medulla outer stripe loop of henle namespace: uberon def: "A loop of Henle that is part of a kidney outer medulla outer stripe." [OBOL:automatic] xref: EMAPA:29665 xref: MA:0002630 intersection_of: UBERON:0001288 ! loop of Henle intersection_of: part_of UBERON:0004202 ! kidney outer medulla outer stripe [Term] id: UBERON:0006544 name: kidney vasculature namespace: uberon def: "A vasculature that is part of a kidney." [OBOL:automatic] subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO xref: EMAPA:28457 xref: TAO:0005305 xref: ZFA:0005305 is_a: UBERON:0002201 ! vasculature of trunk is_a: UBERON:0006554 ! urinary system structure is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0006553 name: renal duct namespace: uberon def: "A tube in the kidney that collect and transport urine." [ZFIN:ZDB-PUB-071029-9] comment: in ZFA this is defined as part of mesonephros xref: TAO:0005289 xref: ZFA:0005289 is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0006554 name: urinary system structure namespace: uberon def: "An anatomical structure that is part of a excretory system." [OBOL:automatic] comment: editor note: note that we do not explicitly exclude entities such as WBbt:0005777 (excretory duct) here, but they will be automatically classified under this class after reasoning xref: SCTID:122489005 intersection_of: UBERON:0000061 ! anatomical structure intersection_of: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0006555 name: excretory tube namespace: uberon def: "A tube that is part of a excretory system." [OBOL:automatic] is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0000025 ! tube intersection_of: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0006558 name: lymphatic part of lymphoid system namespace: uberon def: "." [Wikipedia:Lymphatic_system] comment: AO notes: in FMA this is part of the cardiovascular system, but here we treat the CV system as a separate component of the circulatory system from the lymphatic system synonym: "lymphatic system" EXACT [FMA:7162, MA:0002435] synonym: "lymphatic tree system" EXACT [FMA:7162] synonym: "lymporeticular system" RELATED [VHOG:0001761] xref: AAO:0010522 xref: EFO:0000870 xref: EMAPA:18248 xref: FMA:7162 xref: MA:0002961 xref: MESH:A15.382.520 xref: SCTID:362597000 xref: VHOG:0001761 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001009 ! circulatory system relationship: part_of UBERON:0002465 ! lymphoid system relationship: part_of UBERON:0007798 ! vascular system property_value: external_definition "Part of the circulatory system which consists of a series of vessels which collect blood (exclusive of erythrocytes) which seep through capillary walls and return it to the veins.[AAO]" xsd:string property_value: has_relational_adjective "lymporeticular" xsd:string [Term] id: UBERON:0006561 name: non-lymphatic part of lymphoid system namespace: uberon synonym: "non-lymphatic lymphoid system" EXACT [FMA:74623] xref: FMA:74623 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002465 ! lymphoid system [Term] id: UBERON:0006562 name: pharynx namespace: uberon def: "The pharynx is the part of the digestive system immediately posterior to the mouth[GO]." [GO:0060465] comment: Taxon notes: This is a dubious grouping class that collects structures as diverse as the chordate pharynx (which is a subclass - UBERON:0001042) and the nematode pharynx. This portion of the ontology should be revised, but this should be done in sync with GO, from which this grouping arises subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: uberon_slim ! Uberon slim - somewhat arbitrary subset that excludes obscure terms and deep compositional terms synonym: "pharyngeal tube" EXACT [] xref: FBbt:00005380 xref: MAT:0000049 xref: MIAA:0000049 xref: WBbt:0003681 is_a: UBERON:0004921 ! subdivision of digestive tract property_value: external_definition "A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]" xsd:string property_value: has_relational_adjective "branchial" xsd:string property_value: has_relational_adjective "pharyngeal" xsd:string [Term] id: UBERON:0006563 name: tunica media of pulmonary trunk namespace: uberon def: "Tunica media of artery which is continuous with the myocardium of right ventricle.[FMA]" [FMA:85030, FMA:FMA] xref: FMA:85030 is_a: UBERON:0007239 ! tunica media of artery intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0002333 ! pulmonary trunk [Term] id: UBERON:0006564 name: superficial palmar arch namespace: uberon synonym: "Superficial palmar arch" EXACT [FMA:22834] synonym: "arcus palmaris superficialis" EXACT LATIN [FMA:22834, FMA:TA] synonym: "superficial palmar arterial arch" EXACT [FMA:22834] xref: FMA:22834 xref: MA:0002127 xref: SCTID:362051006 xref: UMLS:C0226433 xref: ncithesaurus:Superficial_Palmar_Arch is_a: UBERON:0004563 ! forelimb digital vein [Term] id: UBERON:0006565 name: female urethral meatus namespace: uberon def: "A urethral meatus that is part of a female urethra[Automatically generated definition]." [OBOL:automatic, Wikipedia:External_urethral_orifice_%28female%29] synonym: "external orifice of female urethra" EXACT [FMA:85266] synonym: "external urethral orifice (female)" EXACT [FMA:85266] synonym: "female urethral meatus" EXACT [FMA:85266] synonym: "ostium urethrae externum (urethra feminina)" EXACT LATIN [FMA:85266, FMA:TA] xref: FMA:85266 xref: MA:0002639 xref: SCTID:279479008 relationship: part_of UBERON:0001334 ! female urethra intersection_of: UBERON:0012240 ! urethral meatus intersection_of: part_of UBERON:0003100 ! female organism property_value: external_definition "he external urethral orifice (urinary meatus) is the external opening of the urethra, from which urine is ejected during urination. It is placed about 2.5 cm behind the glans clitoridis and immediately in front of that of the vagina; it usually assumes the form of a short, sagittal cleft with slightly raised margins. To its left and right are the openings of the Skene's ducts.." xsd:string [Term] id: UBERON:0006566 name: left ventricle myocardium namespace: uberon def: "Myocardium of ventricle which is continuous with the tunica media of aorta.[FMA]" [FMA:9558, FMA:FMA] synonym: "Left ventricular myocardium" EXACT [FMA:9558] synonym: "myocardium of left ventricle" EXACT [FMA:9558] xref: FMA:9558 xref: MA:0002983 xref: SCTID:362021000 relationship: continuous_with UBERON:0003618 ! aorta tunica media intersection_of: UBERON:0001083 ! myocardium of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0006567 name: right ventricle myocardium namespace: uberon def: "Myocardium of ventricle which is continuous with the tunica media of the pulmonary trunk.[FMA]" [FMA:9535, FMA:FMA] synonym: "Right ventricular myocardium" EXACT [FMA:9535] synonym: "myocardium of right ventricle" EXACT [FMA:9535] xref: FMA:9535 xref: MA:0002984 xref: SCTID:362020004 relationship: continuous_with UBERON:0006563 ! tunica media of pulmonary trunk intersection_of: UBERON:0001083 ! myocardium of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0006568 name: hypothalamic nucleus namespace: uberon def: "A nucleus of brain that is part of a hypothalamus." [OBOL:automatic] synonym: "nucleus of hypothalamus" EXACT [FMA:258762] xref: BTO:0002449 xref: FMA:258762 xref: MA:0002426 xref: SCTID:279304003 is_a: UBERON:0003048 ! regional part of hypothalamus is_a: UBERON:0006569 ! diencephalic nucleus intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0001898 ! hypothalamus [Term] id: UBERON:0006569 name: diencephalic nucleus namespace: uberon def: "A nucleus of brain that is part of a diencephalon." [OBOL:automatic] xref: TAO:0002191 xref: ZFA:0001659 is_a: UBERON:0002784 ! regional part of diencephalon intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0006570 name: trabecula carnea of right ventricle namespace: uberon def: "A trabecula carnea that is part of a heart right ventricle." [OBOL:automatic] synonym: "trabeculae carneae (ventriculus dexter)" EXACT [FMA:7270] xref: FMA:7270 xref: SCTID:192373001 intersection_of: UBERON:0002511 ! trabecula carnea intersection_of: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0006571 name: trabecula carnea of left ventricle namespace: uberon def: "A trabecula carnea that is part of a heart left ventricle." [OBOL:automatic] synonym: "trabeculae carneae (ventriculus sinister)" EXACT [FMA:7271] xref: FMA:7271 xref: SCTID:190344008 intersection_of: UBERON:0002511 ! trabecula carnea intersection_of: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0006574 name: pectinate line namespace: uberon def: "The pectinate line (anocutaneous line, dentate line, anorectal junction) is a line which divides the upper 2/3rds and lower 1/3rd of the anal canal. Developmentally, this line represents the hindgut-proctodeum junction. It is an important anatomical landmark, and several distinctions can be made based upon the location of a structure relative to this line:" [Wikipedia:Pectinate_line] comment: FMA also has FMA:29321 but it's not clear how this differs synonym: "Hilton's 'white line'" RELATED [EMAPA:19159] synonym: "dentate line" RELATED [Wikipedia:Pectinate_line] synonym: "linea anocutanea" RELATED LATIN [Wikipedia:Pectinate_line] synonym: "pectinate line of anal canal" EXACT [FMA:75383] synonym: "recto-anal junction" RELATED [Wikipedia:Pectinate_line] synonym: "site of anal membrane" RELATED [EMAPA:19159] xref: EMAPA:19159 xref: FMA:75383 xref: SCTID:245445008 xref: UMLS:C0821671 xref: Wikipedia:Pectinate_line xref: http://upload.wikimedia.org/wikipedia/commons/7/7b/Hemorrhoid.png xref: ncithesaurus:Pectinate_Line relationship: part_of UBERON:0000159 ! anal canal intersection_of: UBERON:0000015 ! anatomical boundary intersection_of: adjacent_to UBERON:0000931 ! proctodeum intersection_of: adjacent_to UBERON:0001046 ! hindgut [Term] id: UBERON:0006575 name: mantle namespace: uberon def: "A fold or lobe or pair of lobes of the body wall of a mollusk or brachiopod that in shell-bearing forms lines the shell and bears shell-secreting glands." [BTO:0000825, Wipikedia:Mantle_(mollusc)] synonym: "mantle tissue" RELATED [BTO:0000825] synonym: "pallium" RELATED [Wipikedia:Mantle_(mollusc)] xref: BTO:0000825 is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0006580 name: mantle cavity namespace: uberon def: "Within the shell is a fleshy layer of tissue called the mantle; there is a cavity (the mantle cavity) between the mantle and the body wall proper." [BTO:0000826] xref: BTO:0000826 relationship: part_of UBERON:0006575 ! mantle intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0006575 ! mantle [Term] id: UBERON:0006581 name: mantle muscle namespace: uberon def: "A muscle organ that is part of a mantle." [OBOL:automatic] xref: BTO:0000827 intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0006575 ! mantle [Term] id: UBERON:0006582 name: statolith namespace: uberon def: "Acellular mineralized structure located in the statocyst (balance organ) of some aquatic invertebrates[WP,CJM]." [UBERON:cjm] synonym: "calcareousstatoliths" NARROW [] is_a: UBERON:0000476 ! acellular anatomical structure relationship: has_function_in GO:0009590 ! detection of gravity relationship: part_of UBERON:0006583 ! statocyst property_value: never_in_taxon NCBITaxon:7742 [Term] id: UBERON:0006583 name: statocyst namespace: uberon def: "a balance sensory receptor present in some aquatic invertebrates[WP]." [Wikipedia:Statocyst] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "balance organ" RELATED [] synonym: "statocyst organ" RELATED [] xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/7e/Statocyst.jpg/180px-Statocyst.jpg is_a: UBERON:0000062 ! organ relationship: capable_of GO:0050973 ! detection of mechanical stimulus involved in equilibrioception property_value: dubious_for_taxon NCBITaxon:110815 property_value: never_in_taxon NCBITaxon:7742 property_value: present_in_taxon NCBITaxon:147099 property_value: present_in_taxon NCBITaxon:6073 property_value: present_in_taxon NCBITaxon:6544 property_value: present_in_taxon NCBITaxon:6657 property_value: present_in_taxon NCBITaxon:7586 [Term] id: UBERON:0006585 name: vestibular organ namespace: uberon def: "An organ that is part of a vestibular system." [OBOL:automatic] synonym: "balance organ" EXACT [UBERON:cjm] xref: NIF_GrossAnatomy:birnlex_2519 intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0004681 ! vestibular system [Term] id: UBERON:0006586 name: otolymph namespace: uberon xref: MA:0002527 xref: UMLS:C1518679 xref: ncithesaurus:Otolymph is_a: UBERON:0007779 ! transudate relationship: part_of UBERON:0001846 ! internal ear [Term] id: UBERON:0006587 name: ligamentum venosum namespace: uberon def: "The ligamentum venosum is the fibrous remnant of the ductus venosus of the fetal circulation. Usually, it is attached to the left branch of the portal vein within the porta hepatis (gateway to the liver). It may be continuous with the round ligament of liver (ligamentum teres hepatis). It is invested by the peritoneal folds of the lesser omentum within a fissure on the inferior surface of the liver between the caudate and main parts of the left lobe." [Wikipedia:Ligamentum_venosum] synonym: "ligament of arantius" EXACT [FMA:14080] synonym: "ligamentum venosum (ductus venosus)" EXACT [FMA:14080] synonym: "ligamentum venosum of liver" EXACT [FMA:14080] synonym: "ligamentum venosus" EXACT [Wikipedia:Ligamentum_venosum] xref: FMA:14080 xref: SCTID:80391004 xref: http://upload.wikimedia.org/wikipedia/commons/a/a3/Gray1087-liver.png is_a: UBERON:0006592 ! transformed vein relationship: develops_from UBERON:0002083 ! ductus venosus [Term] id: UBERON:0006588 name: round ligament of liver namespace: uberon def: "a degenerative string of tissue that exists in the free edge of the falciform ligament of the liver. Anatomically, the round ligament divides the left part of the liver into medial and lateral sections. The round ligament represents the remnant of the fetal left umbilical vein. The round ligament therefore only exists in mammals. Prenatally and for a month or two after birth, the left umbilical vein is patent, subsequently degenerating to fibrous tissue, the round ligament. The umbilical vein/round ligament inserts around the umbilicus and is an important landmark of the inner surface of the anterior abdominal wall[WP]." [Wikipedia:Round_ligament_of_liver] synonym: "ligamentum teres" BROAD [Wikipedia:Round_ligament_of_liver] synonym: "ligamentum teres hepatis" EXACT LATIN [FMA:14079, FMA:TA] synonym: "ligamentum teres hepatitis" EXACT [Wikipedia:Round_ligament_of_liver] synonym: "ligamentum teres of liver" EXACT [FMA:14079] xref: FMA:14079 xref: SCTID:262209009 xref: UMLS:C0230247 xref: ncithesaurus:Round_Ligament_of_the_Liver is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0006592 ! transformed vein is_a: UBERON:0013139 ! ligament of liver relationship: develops_from UBERON:0002066 ! umbilical vein disjoint_from: UBERON:0006589 ! round ligament of uterus [Term] id: UBERON:0006589 name: round ligament of uterus namespace: uberon def: "The round ligament of the uterus originates at the uterine horns, in the parametrium. It leaves the pelvis via the deep inguinal ring, passes through the inguinal canal and continues on to the labia majora where its fibers spread and mix with the tissue of the mons pubis[WP]. A fibromuscular band that attaches to the uterus and then passes along the broad ligament, out through the inguinal ring, and into the labium majus[MESH]." [MESH:A02.513.803, Wikipedia:Round_ligament_of_uterus] synonym: "Hunter's ligament" EXACT [FMA:20420] synonym: "ligamentum teres of uterus" EXACT [] synonym: "ligamentum teres uteri" EXACT LATIN [Wikipedia:Round_ligament_of_uterus] synonym: "round ligament" BROAD [GAID:130] synonym: "round ligament of the uterus" EXACT [Wikipedia:Round_ligament_of_uterus] xref: FMA:20420 xref: GAID:130 xref: SCTID:245495009 xref: UMLS:C0035877 xref: http://upload.wikimedia.org/wikipedia/commons/7/76/Gray1138.png xref: ncithesaurus:Round_Ligament_of_the_Uterus is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0008845 ! nonskeletal ligament relationship: develops_from UBERON:0004346 ! gubernaculum [Term] id: UBERON:0006590 name: vestigial embryonic structure namespace: uberon def: "Anatomical structure which is a remnant of an embryonic structure in the postnatal period. Examples: median umbilical ligament, paroohoron, prostatic utricle, ligamentum arteriosum.[FMA]" [FMA:16558, FMA:FMA] xref: FMA:16558 is_a: UBERON:0000061 ! anatomical structure [Term] id: UBERON:0006591 name: transformed artery namespace: uberon def: "A vestigial embryonic structure that develops_from a artery." [OBOL:automatic] xref: FMA:14076 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0006590 ! vestigial embryonic structure intersection_of: immediate_transformation_of UBERON:0001637 ! artery [Term] id: UBERON:0006592 name: transformed vein namespace: uberon def: "A vestigial embryonic structure that develops_from a vein." [OBOL:automatic] xref: FMA:14078 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0006590 ! vestigial embryonic structure intersection_of: immediate_transformation_of UBERON:0001638 ! vein [Term] id: UBERON:0006594 name: chorda gubernaculum namespace: uberon def: "A portion of the gubernaculum testis and round ligament that develops in the body wall of the embryo." [Dorlands_Medical_Dictionary:MerckSource] synonym: "gubernacular cord" RELATED [] synonym: "plica gubernaculi" RELATED [PMID:11997885] xref: BTO:0002814 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0006590 ! vestigial embryonic structure relationship: part_of UBERON:0008843 ! gubernaculum testis [Term] id: UBERON:0006595 name: presumptive endoderm namespace: uberon xref: AAO:0000471 xref: EFO:0003437 xref: TAO:0000416 xref: ZFA:0000416 is_a: UBERON:0006598 ! presumptive structure [Term] id: UBERON:0006596 name: presumptive blood namespace: uberon xref: AAO:0000468 xref: EFO:0003439 xref: TAO:0000568 xref: ZFA:0000568 is_a: UBERON:0006598 ! presumptive structure [Term] id: UBERON:0006597 name: quadrate bone namespace: uberon def: "Ossified pars articularis of the palatoquadrate cartilage." [AAO:0000525, Wikipedia:Quadrate_bone] comment: Taxon notes: In snakes, the quadrate bone has become elongated and very mobile, and contributes greatly to their ability to swallow very large prey items. In mammals the articular and quadrate bones have migrated to the middle ear and are known as the malleus and incus. AO notes: Endochondral bone that commonly articulates with the ectopterygoid anteriorly, the metapterygoid dorsally, and the symplectic postero-medially. The quadrate is formed from the posterior part of the palatoquadrate cartilage, or pars quadrata. The quadrate is a paired bone.[TAO:0000621] synonym: "quadrate" EXACT [TAO:0000621] synonym: "quadrate - incus" BROAD [VHOG:0000689] synonym: "quadrate bone" EXACT [AAO:0000525] xref: AAO:0000525 xref: EFO:0003547 xref: TAO:0000621 xref: VHOG:0000689 xref: ZFA:0000621 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0011597 ! bone of upper jaw relationship: develops_from UBERON:0004752 ! palatoquadrate cartilage relationship: homologous_to UBERON:0001688 ! incus relationship: in_lateral_side_of UBERON:0003277 ! skeleton of upper jaw relationship: part_of UBERON:0003108 ! suspensorium relationship: part_of UBERON:0003277 ! skeleton of upper jaw property_value: never_in_taxon NCBITaxon:40674 property_value: axiom_lost_from_external_ontology "relationship loss: overlaps quadrate-hyomandibula joint (TAO:0001801)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: overlaps quadrate-metapterygoid joint (TAO:0001803)[TAO]" xsd:string property_value: external_comment "The quadrate commonly has a triangular shape, with its lower vertex, or condyle, for articulation with the lower jaw, and an elongate postero-ventral or postero-dorsal elongate process. The presence of an elongate postero-ventral or postero-dorsal process is a synapomorphy of teleosts (Arratia and Schultze, 1990; Arratia, 1999).[TAO]" xsd:string property_value: external_definition "Endochondral bone that commonly articulates with the ectopterygoid anteriorly, the metapterygoid dorsally, and the symplectic postero-medially. The quadrate is formed from the posterior part of the palatoquadrate cartilage, or pars quadrata. The quadrate is a paired bone.[TAO]" xsd:string property_value: homology_notes "According to this theory (Reichert-Gaupp theory), the mammalian stapes is derived from the reptilian columella, the incus from the quadrate and the malleus from the articular (...).[well established][VHOG]" xsd:string [Term] id: UBERON:0006598 name: presumptive structure namespace: uberon synonym: "presumptive structures" EXACT [ZFA:0001116] xref: AAO:0000479 xref: TAO:0001116 xref: ZFA:0001116 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0006599 name: presumptive hypochord namespace: uberon xref: AAO:0000474 xref: EFO:0003453 xref: TAO:0001217 xref: ZFA:0001217 is_a: UBERON:0006598 ! presumptive structure [Term] id: UBERON:0006600 name: presumptive enteric nervous system namespace: uberon xref: AAO:0000472 xref: EFO:0003462 xref: TAO:0001334 xref: ZFA:0001334 is_a: UBERON:0006598 ! presumptive structure relationship: develops_from UBERON:0005428 ! vagal neural crest [Term] id: UBERON:0006601 name: presumptive ectoderm namespace: uberon comment: Editors note: requires review. ZFA def: Presumptive structure at the animal poll of the blastula that will develop into ectoderm via the epiblast. Determined by fate mapping synonym: "presumptive epidermis" RELATED [ZFA:0001376] xref: AAO:0000470 xref: EFO:0003466 xref: TAO:0001376 xref: XAO:0004132 xref: ZFA:0001376 is_a: UBERON:0006598 ! presumptive structure [Term] id: UBERON:0006603 name: presumptive mesoderm namespace: uberon comment: Editors note: requires review xref: AAO:0000476 xref: EFO:0003467 xref: TAO:0001377 xref: ZFA:0001377 is_a: UBERON:0006598 ! presumptive structure [Term] id: UBERON:0006604 name: lamina orbitonasalis namespace: uberon def: "Cranial cartilage which is bilaterally paired and develops as a dorsal plate-like projection of the anterolateral ethmoid plate, which are oriented perpendicular to the ethmoid plate. It fuses dorsally to the taenia marginalis anterior, and it joins the ethmoid cartilage medially." [ZFA:0001503] synonym: "laminas orbitonasalis" EXACT [ZFA:0001503] xref: AAO:0000262 xref: TAO:0001503 xref: ZFA:0001503 is_a: UBERON:0003932 ! cartilage element of chondrocranium is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium property_value: external_definition "In the larva, structure that is fused to the wall of the braincase, lateral to the olfactory foramen, and separates the nasal capsule and orbit. In the adult frog it constitutes the ventral part of postnasal wall.[AAO]" xsd:string [Term] id: UBERON:0006605 name: tectum synoticum namespace: uberon def: "Unpaired thin dorsal sheet of cartilage that partially covers the posterior chondrocranium." [ZFA:0001506] comment: AAO def - \"Roof between frontoparietal foramen and otic capsules, confluent with taenia tecti marginales.\" [AAO:0010129]. In TAO/ZFA this gives rise to supraoccipital and sphenotic // posterior tectum synoticum in humans - a skull roof element of the chondrocranium - temporarily exists in the territory of the interparietal during fetal life, and may be resposible for the sutura mendosa [PMC1259625] xref: AAO:0010129 xref: TAO:0001506 xref: ZFA:0001506 is_a: UBERON:0003932 ! cartilage element of chondrocranium is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001703 ! neurocranium property_value: axiom_lost_from_external_ontology "relationship loss: part_of braincase and otic capsule skeleton (AAO:0000052)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: part_of otic and occipital (AAO:0000993)[AAO]" xsd:string property_value: external_definition "Roof between frontoparietal foramen and otic capsules, confluent with taenia tecti marginales.[AAO]" xsd:string [Term] id: UBERON:0006606 name: mandibular symphysis namespace: uberon def: "A cartilaginous joint that connects left and right mandibles/dentary bones. Mandibular symphysis is unpaired[TAO,modified]." [TAO:wd, Wikipedia:Symphysis_menti, ZFA:0005488] comment: Taxon notes: in snakes, the mandibular symphysis is composed of soft tissues, allowing independent movement of each mandible[Kardong] Editor notes: this is placed as part of lower jaw region, as in this ontology the skeleton does not include joints subset: vertebrate_core ! core classes typically found across vertebrates. one purpose is to create a rough set of terms that could be used to start a new vertebrate AO synonym: "dentary symphysis" EXACT [TAO:0001851] synonym: "inter-dentary joint" EXACT [TAO:0001851] synonym: "inter-mandibular joint" EXACT [TAO:0001851] synonym: "mental symphysis" RELATED [Wikipedia:Symphysis_menti] synonym: "symphysis mandibulae" RELATED LATIN [Wikipedia:Symphysis_menti] synonym: "symphysis menti" EXACT [MA:0001490] xref: AAO:0000277 xref: FMA:75779 xref: MA:0001490 xref: TAO:0001851 xref: ZFA:0005488 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png is_a: UBERON:0002216 ! symphysis is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: connects UBERON:0004742 ! dentary relationship: part_of UBERON:0001710 ! lower jaw region property_value: external_definition "Joint that articulates the left and right dentary bones. Mandibular symphysis is unpaired.[TAO]" xsd:string [Term] id: UBERON:0006607 name: medial umbilical ligament namespace: uberon def: "The medial umbilical ligament is a paired structure found in human anatomy. It is on the deep surface of the anterior abdominal wall, and is covered by the medial umbilical folds." [Wikipedia:Medial_umbilical_ligament] synonym: "chorda arteria umbilicalis; ligamentum umbilicale mediale" RELATED LATIN [Wikipedia:Medial_umbilical_ligament] synonym: "ligamentum umbilicale mediale" EXACT [FMA:14077] synonym: "medial umbilical fold" RELATED [Wikipedia:Medial_umbilical_ligament] synonym: "medial umbilical ligaments" RELATED [Wikipedia:Medial_umbilical_ligament] xref: FMA:14077 xref: SCTID:279427007 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Gray1037.png is_a: UBERON:0006591 ! transformed artery [Term] id: UBERON:0006608 name: corpus cavernosum clitoridis namespace: uberon def: "The corpus cavernosum clitoridis is one of a pair of sponge-like regions of erectile tissue which contain most of the blood in the clitoris during clitoral erection. This is homologous to the corpus cavernosum penis in the male; the body of the clitoris contains erectile tissue in a pair of corpora cavernosa (literally \"cave-like bodies\"), with a recognisably similar structure." [Wikipedia:Corpus_cavernosum_of_clitoris] synonym: "cavernous body of clitoris" RELATED [BTO:0002018] synonym: "clitoral corpus cavernosum" RELATED [BTO:0002018] synonym: "corpus cavernosum" RELATED [BTO:0002018] synonym: "corpus cavernosum clitoridis" RELATED LATIN [Wikipedia:Corpus_cavernosum_of_clitoris] synonym: "corpus cavernosum of clitoris" EXACT [FMA:20172] xref: BTO:0002018 xref: FMA:20172 xref: SCTID:16657007 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Clitoris_inner_anatomy.gif is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0006609 ! corpus cavernosum intersection_of: part_of UBERON:0002411 ! clitoris [Term] id: UBERON:0006609 name: corpus cavernosum namespace: uberon def: "." [Wikipedia:Corpus_cavernosum] is_a: UBERON:0008324 ! erectile tissue [Term] id: UBERON:0006610 name: tunica albuginea namespace: uberon def: "White covering over one of: penis, testicles or ovaries." [Wikipedia:Tunica_albuginea] is_a: UBERON:0000158 ! membranous layer is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0003133 ! reproductive organ [Term] id: UBERON:0006611 name: exoskeleton namespace: uberon def: "Exoskeleton or shell, including those of mollusks, turtles, insects and crustaceans." [Wikipedia:Exoskeleton] comment: Usage notes: not to be confused with dermal skeleton subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "lorica" NARROW [Wikipedia:Lorica_(biology)] synonym: "shell" RELATED [BTO:0004659] synonym: "test" NARROW [] xref: BTO:0004659 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002416 ! integumental system property_value: has_relational_adjective "exoskeletal" xsd:string [Term] id: UBERON:0006612 name: shell namespace: uberon def: "A rigid covering that envelops an object." [Wikipedia:Seashell, ncithesaurus:Shell] comment: Editor notes: may be obsoleted after integumental system overhaul subset: grouping_class ! Subset consisting of classes creating for grouping purposes xref: ncithesaurus:Shell is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0006614 name: aponeurosis namespace: uberon def: "A sheet of extracellular matrix." [AEO:0000092, Wikipedia:Aponeurosis] comment: AO notes: in ZFA, aponeuroses are subtypes of tendons, but this is inconsistent with tendons being muscle-bone connections synonym: "aponeuroses" RELATED PLURAL [Wikipedia:Aponeurosis] synonym: "aponeurotic" RELATED [Wikipedia:Aponeurosis] xref: AEO:0000092 xref: EHDAA2:0003092 xref: FMA:9722 xref: SCTID:331712004 xref: UMLS:C0225205 xref: ZFA:0005652 xref: http://upload.wikimedia.org/wikipedia/commons/e/e6/Aponeurosis.png xref: ncithesaurus:Aponeurosis is_a: UBERON:0000158 ! membranous layer relationship: has_part CL:0000327 ! extracellular matrix secreting cell relationship: has_part CL:0002320 ! connective tissue cell relationship: part_of UBERON:0001630 ! muscle organ property_value: external_definition "Aponeuroses are layers of flat broad tendons. They have a shiny, whitish-silvery color, and are histologically similar to tendons, but are very sparingly supplied with blood vessels and nerves. When dissected, aponeuroses are papery, and peel off by sections. The primary regions with thick aponeurosis is in the ventral abdominal region, the dorsal lumbar region, and in the palmar region. Their primary function is to join muscles and the body parts the muscles act upon[Wikipedia:Aponeurosis]." xsd:string [Term] id: UBERON:0006615 name: venous sinus namespace: uberon def: "a large vein or channel for the circulation of venous blood" [http://medical-dictionary.thefreedictionary.com/venous+sinus] comment: todo - add subclasses xref: MA:0000070 xref: SCTID:341586007 xref: UMLS:C0226504 xref: ncithesaurus:Venous_Sinus is_a: UBERON:0003920 ! venous blood vessel [Term] id: UBERON:0006616 name: right external ear namespace: uberon def: "An external ear that is in the right side of a multi-cellular organism." [OBOL:automatic] synonym: "right auricular region" BROAD [FMA:53643] xref: FMA:53643 xref: SCTID:368567003 intersection_of: UBERON:0001691 ! external ear intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0006617 name: left external ear namespace: uberon def: "An external ear that is in the left side of a multi-cellular organism." [OBOL:automatic] synonym: "left auricular region" BROAD [FMA:53644] xref: FMA:53644 xref: SCTID:368589004 intersection_of: UBERON:0001691 ! external ear intersection_of: in_left_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0006618 name: atrium auricular region namespace: uberon def: "A small conical pouch projections located on the upper anterior portion of each atrium of the heart." [MP:0010489, Wikipedia:Auricular_appendage] synonym: "atrial auricle" EXACT [MP:0010489] synonym: "auricle of atrium" EXACT [FMA:77110] synonym: "auricle of heart" EXACT [FMA:77110] synonym: "auricula (cor)" EXACT [FMA:77110] synonym: "auricula atrii" EXACT LATIN [FMA:77110, FMA:TA] synonym: "auricular appendage" EXACT [] synonym: "cardiac auricle" EXACT [FMA:77110] synonym: "heart atrium auriclular region" EXACT [MP:0010489] xref: FMA:77110 xref: MA:0002955 xref: SCTID:305223006 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0006630 name: left atrium auricular region namespace: uberon def: "a muscular pouch connected to the left atrium of the heart" [Wikipedia:Left_atrial_appendage] synonym: "auricula sinistra" EXACT LATIN [Wikipedia:Left_atrial_appendage, Wikipedia:Right_atrial_appendage] synonym: "left atrial appendage" RELATED [MA:0001869] synonym: "left auricle" EXACT [FMA:7219] synonym: "left auricula" EXACT [Wikipedia:Right_atrial_appendage] synonym: "left auricular appendage" RELATED [FMA:7219] synonym: "left auricular appendix" EXACT [Wikipedia:Right_atrial_appendage] synonym: "left auricular region" BROAD [EMAPA:16816] xref: EHDAA2:0000276 xref: EHDAA:5343 xref: EMAPA:16816 xref: FMA:7219 xref: MA:0001869 xref: SCTID:277930000 xref: VHOG:0001229 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray494.png intersection_of: UBERON:0006618 ! atrium auricular region intersection_of: part_of UBERON:0002079 ! left atrium [Term] id: UBERON:0006631 name: right atrium auricular region namespace: uberon def: "a small conical muscular pouch attached to the right atrium of the heart." [Wikipedia:Right_atrial_appendage] synonym: "auricula dextra" EXACT [Wikipedia:Right_atrial_appendage] synonym: "right atrial appendage" RELATED [MA:0001870] synonym: "right auricle" EXACT [FMA:7218] synonym: "right auricula" EXACT [Wikipedia:Right_atrial_appendage] synonym: "right auricular appendage" RELATED [FMA:7218] synonym: "right auricular region" BROAD [EMAPA:16824] synonym: "right auriculur appendix" EXACT [Wikipedia:Right_atrial_appendage] xref: EHDAA2:0000291 xref: EHDAA:5352 xref: EMAPA:16824 xref: FMA:7218 xref: MA:0001870 xref: SCTID:277713005 xref: VHOG:0001232 intersection_of: UBERON:0006618 ! atrium auricular region intersection_of: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0006632 name: musculo-phrenic artery namespace: uberon synonym: "musculophrenic artery" EXACT [FMA:10645] xref: EMAPA:19215 xref: FMA:10645 xref: SCTID:244242003 is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0002456 ! internal thoracic artery relationship: part_of UBERON:0002456 ! internal thoracic artery [Term] id: UBERON:0006633 name: coracoid process of scapula namespace: uberon def: "The coracoid process is a small hook-like structure on the lateral edge of the superior anterior portion of the scapula. Pointing laterally forward, it, together with the acromion, serves to stabilize the shoulder joint. It is palpable in the deltopectoral groove between the deltoid and pectoralis major muscles. It is the site of attachment for several structures: * The pectoralis minor muscle - to 3rd to 5th ribs. * The short head of biceps brachii muscle - to Radial tuberosity. * The coracobrachialis muscle - to medial humerus. * The coracoclavicular ligament - to the clavicle. (The ligament is formed by the conoid ligament and trapezoid ligament.) * The coracoacromial ligament - to the acromion[WP]." [Wikipedia:Coracoid_process] synonym: "coracoid process" EXACT [Wikipedia:Coracoid_process] synonym: "coracoid process of the scapula" EXACT [Wikipedia:Coracoid_process] synonym: "processus coracoideus" RELATED LATIN [Wikipedia:Coracoid_process] xref: EMAPA:25121 xref: FMA:13455 xref: SCTID:181912007 xref: http://upload.wikimedia.org/wikipedia/commons/a/a6/Gray205_left_scapula_lateral_view.png is_a: UBERON:0005913 ! zone of bone organ relationship: part_of UBERON:0001124 ! pectoral limb scapula [Term] id: UBERON:0006634 name: lingual vein namespace: uberon def: "The lingual veins begin on the dorsum, sides, and under surface of the tongue, and, passing backward along the course of the lingual artery, end in the internal jugular vein. The vena comitans of the hypoglossal nerve (ranine vein), a branch of considerable size, begins below the tip of the tongue, and may join the lingual; generally, however, it passes backward on the Hyoglossus, and joins the common facial." [Wikipedia:Lingual_veins] synonym: "deep lingual veins" RELATED [Wikipedia:Lingual_veins] synonym: "lingual vein" RELATED [Wikipedia:Lingual_veins] synonym: "ranine" RELATED [Wikipedia:Lingual_veins] synonym: "ranine vein" RELATED [Wikipedia:Lingual_veins] synonym: "vena lingualis" RELATED LATIN [Wikipedia:Lingual_veins] xref: AAO:0010514 xref: EMAPA:19312 xref: FMA:14326 xref: SCTID:181375007 xref: http://upload.wikimedia.org/wikipedia/commons/7/7a/Gray559.png is_a: UBERON:0001638 ! vein property_value: external_definition "Vein which collects blood from the tongue and drains into the external jugular vein.[AAO]" xsd:string [Term] id: UBERON:0006635 name: anterior abdominal wall namespace: uberon synonym: "ventral abdominal wall" EXACT [] xref: EHDAA:5976 xref: EMAPA:17744 xref: FMA:14627 xref: SCTID:362696003 xref: VHOG:0000764 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0003697 ! abdominal wall [Term] id: UBERON:0006636 name: lumbar artery namespace: uberon def: "The lumbar arteries are in series with the intercostals. They are usually four in number on either side, and arise from the back of the aorta, opposite the bodies of the upper four lumbar vertebrC&. A fifth pair, small in size, is occasionally present: they arise from the middle sacral artery. They run lateralward and backward on the bodies of the lumbar vertebrC&, behind the sympathetic trunk, to the intervals between the adjacent transverse processes, and are then continued into the abdominal wall. The arteries of the right side pass behind the inferior vena cava, and the upper two on each side run behind the corresponding crus of the diaphragm. The arteries of both sides pass beneath the tendinous arches which give origin to the Psoas major, and are then continued behind this muscle and the lumbar plexus. They now cross the Quadratus lumborum, the upper three arteries running behind, the last usually in front of the muscle. At the lateral border of the Quadratus lumborum they pierce the posterior aponeurosis of the Transversus abdominis and are carried forward between this muscle and the Obliquus internus. They anastomose with the lower intercostal, the subcostal, the iliolumbar, the deep iliac circumflex, and the inferior epigastric arteries." [Wikipedia:Lumbar_arteries] synonym: "Lumbar arterial tree" EXACT [FMA:14735] synonym: "arteria lumbalis" RELATED [Wikipedia:Lumbar_arteries] synonym: "arteriae lumbales" RELATED LATIN [Wikipedia:Lumbar_arteries] synonym: "lumbar artery" RELATED [Wikipedia:Lumbar_arteries] xref: EMAPA:19096 xref: FMA:14735 xref: SCTID:244285007 xref: UMLS:C0226408 xref: http://upload.wikimedia.org/wikipedia/commons/b/bd/Gray585.png xref: ncithesaurus:Lumbar_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0012254 ! abdominal aorta artery relationship: branch_of UBERON:0001516 ! abdominal aorta [Term] id: UBERON:0006637 name: coeliac trunk namespace: uberon def: "The celiac artery, also known as the celiac trunk, is the first major branch of the abdominal aorta. Branching from the aorta 'anterior to the upper part of T12' vertebra in humans, it is one of three anterior/ midline branches of the abdominal aorta." [Wikipedia:Celiac_artery] synonym: "Haller's tripus" EXACT [FMA:14812] synonym: "arteria celiaca" RELATED [Wikipedia:Celiac_artery] synonym: "celiac axis" RELATED [Wikipedia:Celiac_artery] synonym: "celiac trunk" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac axis" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunck" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunk" EXACT [FMA:14812, Wikipedia:Celiac_artery] synonym: "coeliaco-mesenteric trunk" EXACT [FMA:14812] synonym: "truncus coeliacus" RELATED [Wikipedia:Celiac_artery] xref: EHDAA2:0004519 xref: EMAPA:19212 xref: FMA:14812 xref: galen:CeliacTrunk is_a: UBERON:0000063 ! organ segment is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001640 ! celiac artery [Term] id: UBERON:0006638 name: median umbilical ligament namespace: uberon def: "The median umbilical ligament is a structure in human anatomy. It is a shrivelled piece of tissue that represents the remnant of the embryonic urachus. It extends from the apex of the bladder to the umbilicus, on the deep surface of the anterior abdominal wall. It is unpaired. It is covered by the median umbilical fold Lateral to this structure are the medial umbilical ligament (which is a different structure, not to be confused) and the lateral umbilical ligament." [Wikipedia:Median_umbilical_ligament] synonym: "ligamentum umbilicale medianum" RELATED LATIN [Wikipedia:Median_umbilical_ligament] synonym: "median umbilical fold" RELATED [Wikipedia:Median_umbilical_ligament] synonym: "middle umbilical ligament" RELATED [Wikipedia:Median_umbilical_ligament] xref: EMAPA:29637 xref: FMA:16568 xref: SCTID:89583000 xref: http://upload.wikimedia.org/wikipedia/commons/e/ef/Gray1036.png is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: develops_from UBERON:0002068 ! urachus relationship: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0006639 name: crus penis namespace: uberon def: "For their anterior three-fourths the corpora cavernosa penis lie in intimate apposition with one another, but behind they diverge in the form of two tapering processes, known as the crura, which are firmly connected to the ischial rami. Traced from behind forward, each crus begins by a blunt-pointed process in front of the tuberosity of the ischium, along the perineal surface of the conjoined (ischiopubic) ramus. Just before it meets its fellow it presents a slight enlargement, named by Georg Ludwig Kobelt (1804-1857) the bulb of the corpus cavernosum penis. Beyond this point the crus undergoes a constriction and merges into the corpus cavernosum proper, which retains a uniform diameter to its anterior end." [Wikipedia:Crus_of_penis] synonym: "crura of penis" RELATED [Wikipedia:Crus_of_penis] synonym: "crus of penis" EXACT [FMA:18248] synonym: "crus penis" RELATED LATIN [Wikipedia:Crus_of_penis] xref: EMAPA:19294 xref: FMA:18248 xref: SCTID:362270006 xref: http://upload.wikimedia.org/wikipedia/commons/e/ef/Gray1154.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0004713 ! corpus cavernosum penis [Term] id: UBERON:0006640 name: crus of clitoris namespace: uberon def: "The clitoral crura are an internal portion of the clitoris. A single one is called a clitoral crus. They are shaped like an inverted \"V\" with the vertex of the \"V\" connecting to the clitoral body. They are near the vestibular bulbs, also known as the clitoral bulbs. They are to the left and right of the urethra, urethral sponge, and vagina and extend back toward the pubic bone. The clitoral crura contain muscles called the ischiocavernosi. \"Crus\" basically translates as \"leg\", thus \"crura\" as \"legs\". Each clitoral crus connects to the rami of the pubis and the ischium. The crura, like the rest of the clitoris, are composed of two corpus cavernosa muscles, which are made up of erectile tissue." [Wikipedia:Crus_of_clitoris] synonym: "Clitoris crus" EXACT [FMA:20175] synonym: "crura of clitoris" RELATED [Wikipedia:Clitoral_crura] synonym: "crus clitoridis" RELATED [Wikipedia:Clitoral_crura] synonym: "crus of clitoris" RELATED [Wikipedia:Clitoral_crura] xref: EMAPA:19169 xref: EMAPA:30821 xref: FMA:20175 xref: SCTID:279860002 xref: http://upload.wikimedia.org/wikipedia/commons/8/8c/Clitoris_inner_anatomy.gif is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0006608 ! corpus cavernosum clitoridis [Term] id: UBERON:0006641 name: appendix epididymis namespace: uberon def: "On the head of the epididymis is a small stalked appendage (sometimes duplicated). It is named the appendix of the epididymis (or pedunculated hydatid), and is usually regarded as a detached efferent duct. This structure is derived from the Wolffian duct as opposed to the appendix testis which is derived from the mullerian duct remnant." [Wikipedia:Appendix_of_epididymidis] synonym: "appendix epididymidis" RELATED LATIN [Wikipedia:Appendix_of_epididymidis] synonym: "appendix epididymis" RELATED [Wikipedia:Appendix_of_epididymidis] synonym: "appendix of epididymis" EXACT [FMA:18268] synonym: "appendix of the epididymis" RELATED [Wikipedia:Appendix_of_epididymidis] synonym: "epididymal appendix" EXACT [FMA:18268] synonym: "epididymis appendix" EXACT [FMA:18268] xref: EMAPA:19086 xref: FMA:18268 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray1148.png is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0005160 ! vestigial structure relationship: develops_from UBERON:0003074 ! mesonephric duct relationship: part_of UBERON:0001301 ! epididymis [Term] id: UBERON:0006642 name: muscle layer of oviduct namespace: uberon def: "A muscle layer that is part of a fallopian tube." [OBOL:automatic] synonym: "muscle layer of fallopian tube" EXACT [FMA:18318] synonym: "muscle layer of oviduct" EXACT [FMA:18318] synonym: "muscle layer of uterine tube" EXACT [FMA:18318] synonym: "muscular coat of uterine tube" EXACT [FMA:18318] synonym: "muscular layer of uterine tube" EXACT [FMA:18318] synonym: "muscularis of uterine tube" EXACT [FMA:18318] synonym: "tunica muscularis (Tuba uterina)" EXACT [FMA:18318] synonym: "tunica muscularis tubae uterinae" EXACT LATIN [FMA:18318, FMA:TA] synonym: "uterine tubal muscularis" EXACT [FMA:18318] xref: EMAPA:29046 xref: FMA:18318 xref: SCTID:259488000 is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0006660 ! muscle layer intersection_of: part_of UBERON:0003889 ! fallopian tube [Term] id: UBERON:0006643 name: tunica albuginea of testis namespace: uberon def: "The Tunica Albuginea is the fibrous covering of the testis. It is a dense blue-white membrane, composed of bundles of white fibrous tissue which interlace in every direction. It is covered by the tunica vaginalis, except at the points of attachment of the epididymis to the testis, and along its posterior border, where the spermatic vessels enter the gland. It is applied to the tunica vasculosa over the glandular substance of the testis, and, at its posterior border, is reflected into the interior of the gland, forming an incomplete vertical septum, called the mediastinum testis (corpus Highmori)." [Wikipedia:Tunica_albuginea_of_testis_%28ovaries%29_%28penis%29_of_testis] synonym: "tunica albuginea" BROAD [EHDAA2:0002096, VHOG:0000801, ncithesaurus:Tunica_Albuginea] synonym: "tunica albuginea %28testicles%29" RELATED [Wikipedia:Tunica_albuginea_of_testis] synonym: "tunica albuginea (testis)" EXACT [FMA:19843] synonym: "tunica albuginea testis" RELATED LATIN [Wikipedia:Tunica_albuginea_of_testis] xref: EHDAA2:0002096 xref: EHDAA:9388 xref: EMAPA:19289 xref: FMA:19843 xref: SCTID:279604006 xref: UMLS:C0227999 xref: VHOG:0000801 xref: ncithesaurus:Tunica_Albuginea is_a: UBERON:0007475 ! matrix-based tissue relationship: develops_from UBERON:0003312 ! mesenchyme of testis intersection_of: UBERON:0006610 ! tunica albuginea intersection_of: part_of UBERON:0000473 ! testis property_value: external_definition "The layer of connective tissue covering the testicles. [Wikipedia_(15/09/09)][VHOG]" xsd:string property_value: homology_notes "The tunica albuginea testis is the major component of the capsule of mammalian testes. (...) Our results from studying the mole provide evidence that the spatio-temporal pattern of testis development is not perfectly conserved in mammals, since we found differences with respect to the mouse testis organogenesis. This fact is even more significant when we consider that, apart from the mouse, the mole is probably the one of the best-known mammalian species in terms of the genetic control of testis development, implying that more peculiarities would be found if more species were investigated.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0006644 name: tunica albuginea of ovary namespace: uberon def: "The tunica albuginea is the fibrous envelope of the corpora cavernosa penis. It is comprised of approximately 5% elastin, an extensible tissue that is primarily made up of the amino acids glycine, valine, alanine, and proline. The majority of the remaining tissue is comprised of collagen, which is made up of lysine, proline, glycine, alanine, and other amino acids . The tunica albuginea is directly involved in maintaining an erection; that is due to Buck's fascia constricting the deep dorsal vein of the penis, preventing blood from leaving and thus sustaining the erect state. The trabeculC& of the tunica albuginea are more delicate, nearly uniform in size, and the meshes between them smaller than in the corpora cavernosa penis: their long diameters, for the most part, corresponding with that of the penis. The external envelope or outer coat of the corpus spongiosum is formed partly of unstriped muscular fibers, and a layer of the same tissue immediately surrounds the canal of the urethra." [Wikipedia:Tunica_albuginea_of_testis_%28ovaries%29_%28penis%29_%28penis%29] synonym: "tunica albuginea corporum cavernosorum, tunica albuginea corporis spongiosi" RELATED LATIN [Wikipedia:Tunica_albuginea_%28penis%29] xref: EMAPA:30522 xref: FMA:18630 xref: SCTID:258409003 relationship: part_of UBERON:0001307 ! capsule of ovary intersection_of: UBERON:0006610 ! tunica albuginea intersection_of: part_of UBERON:0000992 ! female gonad [Term] id: UBERON:0006645 name: adventitia of epididymis namespace: uberon def: "An adventitia that is part of a epididymis." [OBOL:automatic] synonym: "epididymis adventitia" EXACT [FMA:19136] xref: EMAPA:30443 xref: FMA:19136 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0005742 ! adventitia intersection_of: part_of UBERON:0001301 ! epididymis [Term] id: UBERON:0006646 name: muscle layer of epididymis namespace: uberon def: "A muscle layer that is part of a epididymis." [OBOL:automatic] xref: EMAPA:30447 xref: FMA:19149 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0006660 ! muscle layer intersection_of: part_of UBERON:0001301 ! epididymis [Term] id: UBERON:0006647 name: adventitia of ductus deferens namespace: uberon def: "An adventitia that is part of a vas deferens." [OBOL:automatic] synonym: "adventitia of deferent duct" EXACT [FMA:19238] synonym: "adventitia of ductus deferens" EXACT [FMA:19238] synonym: "adventitia of vas deferens" EXACT [FMA:19238] synonym: "deferent ductal adventitia" EXACT [FMA:19238] synonym: "tunica adventitia (ductus deferens)" EXACT [FMA:19238] synonym: "tunica adventitia ductus deferentis" EXACT LATIN [FMA:19238, FMA:TA] xref: EMAPA:29767 xref: FMA:19238 xref: SCTID:299803005 is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0005742 ! adventitia intersection_of: part_of UBERON:0001000 ! vas deferens [Term] id: UBERON:0006648 name: adventitia of seminal vesicle namespace: uberon def: "An adventitia that is part of a seminal vesicle." [OBOL:automatic] synonym: "adventitia of seminal gland" EXACT [FMA:19403] synonym: "seminal vesicle adventitia" EXACT [FMA:19403] synonym: "tunica adventitia (vesicula seminalis)" EXACT [FMA:19403] synonym: "tunica adventitia glandulae vesiculosae" EXACT LATIN [FMA:19403, FMA:TA] xref: EMAPA:29775 xref: FMA:19403 xref: SCTID:252406002 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0005742 ! adventitia intersection_of: part_of UBERON:0000998 ! seminal vesicle [Term] id: UBERON:0006649 name: suspensory ligament of ovary namespace: uberon def: "A fold of peritoneum that extends out from the ovary to the wall of the pelvis. " [Wikipedia:Cooper%27s_ligaments_of_penis_of_ovary] comment: Some sources consider it a part of the broad ligament of uterus[2] while other sources just consider it a \"termination\" of the ligament.[3] synonym: "infundibulopelvic fold" EXACT [FMA:19822] synonym: "infundibulopelvic ligament" EXACT [FMA:19822] xref: EMAPA:19085 xref: FMA:19822 xref: SCTID:279917007 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002095 ! mesentery is_a: UBERON:0008841 ! suspensory ligament relationship: attaches_to UBERON:0000992 ! female gonad relationship: develops_from UBERON:0000080 ! mesonephros relationship: develops_from UBERON:0003074 ! mesonephric duct disjoint_from: UBERON:0008847 ! ovarian ligament [Term] id: UBERON:0006650 name: tunica vaginalis testis namespace: uberon def: "The tunica vaginalis is the serous covering of the testis. It is a pouch of serous membrane, derived from the saccus vaginalis of the peritoneum, which in the fetus preceded the descent of the testis from the abdomen into the scrotum. After its descent, that portion of the pouch which extends from the abdominal inguinal ring to near the upper part of the gland becomes obliterated; the lower portion remains as a shut sac, which invests the surface of the testis, and is reflected on to the internal surface of the scrotum; hence it may be described as consisting of a visceral and a parietal lamina." [Wikipedia:Tunica_vaginalis] comment: We follow FMA is classifying as membranous layer - but this does not account for relationship to mesolthelium (subclass or has part?). The FMA also has 'sac of tunica vaginalis', which is a serous sac synonym: "lamina parietalis" RELATED [Wikipedia:Tunica_vaginalis] synonym: "lamina visceralis" RELATED [Wikipedia:Tunica_vaginalis] synonym: "tunica vaginalis" RELATED [] synonym: "tunica vaginalis of testis" EXACT [FMA:19844] synonym: "tunica vaginalis testis" RELATED LATIN [Wikipedia:Tunica_vaginalis] xref: EMAPA:19179 xref: FMA:15863 xref: FMA:19844 xref: SCTID:362281009 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray1148.png is_a: UBERON:0000158 ! membranous layer is_a: UBERON:0005156 ! reproductive structure relationship: develops_from UBERON:0005344 ! peritoneal vaginal process relationship: has_part UBERON:0001136 ! mesothelium relationship: part_of UBERON:0000473 ! testis [Term] id: UBERON:0006651 name: appendix testis namespace: uberon def: "The appendix testis is a vestigial remnant of the Mullerian duct, present on the upper pole of the testis and attached to the tunica vaginalis. It is present about 90% of the time." [Wikipedia:Appendix_of_testis] comment: Editor notes: the label hydatid of morgagni is ambiguous w.r.t male vs female. The ncita structure 'hydatic of morgani[sic]' is male and thus belongs here. See also 'vesicular appendage of epoophoron' synonym: "appendices testis" RELATED PLURAL [Wikipedia:Appendix_of_testis] synonym: "appendix of testis" EXACT [FMA:19846] synonym: "appendix of the testis" RELATED [Wikipedia:Appendix_of_testis] synonym: "appendix testis" RELATED LATIN [Wikipedia:Appendix_of_testis] synonym: "appendix vesiculosus" RELATED [FMA:18696] synonym: "hydatid of Morgagni" BROAD [http://medical-dictionary.thefreedictionary.com/Hydatid+of+Morgagni] synonym: "hydatid of Morgani" BROAD [] synonym: "hydatid of morgagni" BROAD [FMA:18696] synonym: "testis appendix" EXACT [FMA:19846] xref: EMAPA:19087 xref: FMA:19846 xref: SCTID:279601003 xref: UMLS:C1512521 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray1148.png xref: ncithesaurus:Hydatid_of_Morgani is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0006590 ! vestigial embryonic structure relationship: attaches_to UBERON:0006650 ! tunica vaginalis testis relationship: develops_from UBERON:0013247 ! male paramesonephric duct relationship: part_of UBERON:0000079 ! male reproductive system property_value: external_definition "a cystlike remnant of the mC" EXACT LATIN [FMA:TA] xref: EMAPA:31250 xref: FMA:21531 xref: SCTID:244948006 xref: UMLS:C0224377 xref: http://upload.wikimedia.org/wikipedia/commons/6/67/Gray1143.png xref: ncithesaurus:Cremaster_Muscle is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0005156 ! reproductive structure relationship: has_muscle_insertion UBERON:0006650 ! tunica vaginalis testis relationship: has_muscle_origin UBERON:0006204 ! inguinal ligament relationship: part_of UBERON:0003135 ! male reproductive organ [Term] id: UBERON:0008521 name: gluteus minimus namespace: uberon def: "The gluteus minimus (or glutC&us minimus), the smallest of the three gluteal muscles, is situated immediately beneath the gluteus medius." [Wikipedia:Gluteus_minimus_muscle] synonym: "glut%c3%a6us minimus" RELATED [Wikipedia:Gluteus_minimus_muscle] synonym: "glutaeus minimus" RELATED [Wikipedia:Gluteus_minimus_muscle] synonym: "gluteus minimus" RELATED [Wikipedia:Gluteus_minimus_muscle] synonym: "gluteus minimus muscle" EXACT [] synonym: "musculus gluteus minimus" RELATED LATIN [Wikipedia:Gluteus_minimus_muscle] xref: FMA:22317 xref: SCTID:181676004 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Posterior_Hip_Muscles_1.PNG is_a: UBERON:0002000 ! gluteal muscle relationship: attaches_to UBERON:0002503 ! greater trochanter relationship: has_muscle_insertion UBERON:0002503 ! greater trochanter relationship: has_muscle_origin UBERON:0001273 ! ilium relationship: part_of UBERON:0004470 ! musculature of pelvic girdle [Term] id: UBERON:0008522 name: nasal muscle namespace: uberon def: "A muscle organ that is part of a olfactory apparatus." [OBOL:automatic] synonym: "muscle of nose" EXACT [OBOL:automatic] xref: FMA:73758 xref: SCTID:244730009 xref: UMLS:C0224219 xref: ncithesaurus:Nasal_Muscle is_a: UBERON:0001577 ! facial nerve muscle is_a: UBERON:0003831 ! respiratory system muscle is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000004 ! olfactory apparatus [Term] id: UBERON:0008523 name: infrahyoid muscle namespace: uberon def: "The infrahyoid muscles are a group of four pairs of muscles in the anterior part of the neck. (The term infrahyoid refers to the region below to the hyoid bone in the neck. ) Collectively, they are referred to as the strap muscles, because the muscles are long and flat much like a strap." [Wikipedia:Infrahyoid_muscles] synonym: "infrahyoid" RELATED [Wikipedia:Infrahyoid_muscles] synonym: "infrahyoid muscle" RELATED [Wikipedia:Infrahyoid_muscles] synonym: "infrahyoidala" RELATED [Wikipedia:Infrahyoid_muscles] synonym: "musculi infrahyoidei" RELATED LATIN [Wikipedia:Infrahyoid_muscles] synonym: "strap muscle" RELATED [Wikipedia:Infrahyoid_muscles] synonym: "strap muscles" RELATED [Wikipedia:Infrahyoid_muscles] xref: FMA:13338 xref: SCTID:244829008 xref: http://upload.wikimedia.org/wikipedia/commons/4/48/Infrahyoid_muscles.png is_a: UBERON:0005493 ! hyoid muscle relationship: innervated_by UBERON:0005430 ! ansa cervicalis [Term] id: UBERON:0008529 name: piriformis muscle namespace: uberon def: "The piriformis is a muscle in the gluteal region that originates from the anterior (front) part of the sacrum, the part of the spine in the gluteal region, and from the superior margin of the greater sciatic notch (as well as the sacroiliac joint capsule and the sacrotuberous ligament). It exits the pelvis through the greater sciatic foramen to insert on the greater trochanter of the femur. Its tendon often joins with the tendons of the superior gemellus, inferior gemellus, and obturator internus muscles prior to insertion[WP,modified]." [Wikipedia:Piriformis_muscle] synonym: "m.piriformis" EXACT [FMA:19082] synonym: "musculus piriformis" RELATED LATIN [Wikipedia:Piriformis_muscle] synonym: "piriform muscle" RELATED [Wikipedia:Piriformis_muscle] synonym: "piriformis" EXACT [FMA:19082] synonym: "piriformis muscle" RELATED [Wikipedia:Piriformis_muscle] xref: FMA:19082 xref: SCTID:245019009 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Posterior_Hip_Muscles_1.PNG is_a: UBERON:0002000 ! gluteal muscle relationship: has_muscle_insertion UBERON:0002503 ! greater trochanter relationship: has_muscle_origin UBERON:0003690 ! sacrum relationship: part_of UBERON:0004470 ! musculature of pelvic girdle [Term] id: UBERON:0008537 name: quadratus femoris namespace: uberon def: "The quadratus femoris is, as its name implies, a flat, quadrilateral skeletal muscle. Located on the posterior side of the hip joint, it is a strong lateral rotator and adductor of the thigh, but also acts to stabilize the femoral head in the Acetabulum." [Wikipedia:Quadratus_femoris_muscle] synonym: "musculus quadratus femoris" RELATED LATIN [Wikipedia:Quadratus_femoris_muscle] synonym: "quadratus femoris muscle" RELATED [Wikipedia:Quadratus_femoris_muscle] xref: FMA:22321 xref: SCTID:245020003 xref: http://upload.wikimedia.org/wikipedia/commons/5/55/Posterior_Hip_Muscles_1.PNG is_a: UBERON:0002000 ! gluteal muscle relationship: part_of UBERON:0004470 ! musculature of pelvic girdle [Term] id: UBERON:0008538 name: muscle of posterior compartment of thigh namespace: uberon def: "The posterior fascial compartment of the thigh contains the knee flexors and hip extensors. It consists of the following muscles: biceps femoris semitendinosus semimembranosus The muscles here (except for the short head of the biceps femoris) are the hamstrings." [Wikipedia:Posterior_compartment_of_thigh] synonym: "compartimentum femoris posterius" RELATED LATIN [Wikipedia:Posterior_compartment_of_thigh] synonym: "posterior fascial compartment of thigh" RELATED [Wikipedia:Posterior_compartment_of_thigh] synonym: "posterior femoral muscle" EXACT [FMA:22427] synonym: "posterior femoral muscles" RELATED [Wikipedia:Posterior_compartment_of_thigh] xref: FMA:22427 xref: http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray432_color.png is_a: UBERON:0004252 ! hindlimb stylopod muscle [Term] id: UBERON:0008544 name: splenius cervicis namespace: uberon def: "The splenius cervicis (splenius colli) arises by a narrow tendinous band from the spinous processes of the third to the sixth thoracic vertebrae; it is inserted, by tendinous fasciculi, into the posterior tubercles of the transverse processes of the upper two or three cervical vertebrae." [Wikipedia:Splenius_cervicis_muscle] synonym: "musculus splenius cervicis" RELATED LATIN [Wikipedia:Splenius_cervicis_muscle] synonym: "splenius cervicis muscle" RELATED [Wikipedia:Splenius_cervicis_muscle] xref: FMA:22681 xref: http://upload.wikimedia.org/wikipedia/commons/2/26/Musculus_splenius_cervicis.PNG is_a: UBERON:0002252 ! splenius relationship: has_muscle_insertion UBERON:0001077 ! transverse process of vertebra relationship: innervated_by UBERON:0000962 ! nerve of cervical vertebra [Term] id: UBERON:0008546 name: iliocostalis cervicis muscle namespace: uberon def: "The iliocostalis cervicis (cervicalis ascendens) arises from the angles of the third, fourth, fifth, and sixth ribs, and is inserted into the posterior tubercles of the transverse processes of the fourth, fifth, and sixth cervical vertebrae.." [Wikipedia:Iliocostalis#Iliocostalis_cervicis] synonym: "cervicalis ascendens" RELATED [Wikipedia:Iliocostalis] synonym: "cervicalis ascendens muscle" RELATED [Wikipedia:Iliocostalis] synonym: "iliocostalis cervicis" RELATED [Wikipedia:Iliocostalis] xref: FMA:22704 xref: SCTID:244851000 is_a: UBERON:0002251 ! iliocostalis muscle relationship: innervated_by UBERON:0006839 ! posterior ramus of spinal nerve [Term] id: UBERON:0008549 name: prevertebral muscle namespace: uberon def: "The prevertebral muscles are the muscles located between the prevertebral fascia (older definition) and the vertebral column, i.e. , the longus capitis and longus colli muscles. It also includes the recti capitis anterior and lateralis." [Wikipedia:Prevertebral_muscles] synonym: "flexor muscle of vertebral column" EXACT [FMA:32514] xref: FMA:32514 xref: http://upload.wikimedia.org/wikipedia/commons/b/b0/Prevertebral_muscles.png is_a: UBERON:0004518 ! muscle of vertebral column [Term] id: UBERON:0008571 name: suprahyoid muscle namespace: uberon def: "The term suprahyoid refers to the region above (superior to) the hyoid bone in the neck. The suprahyoid muscles include digastric, stylohyoid, geniohyoid, and mylohyoid." [Wikipedia:Suprahyoid_muscles] synonym: "musculi suprahyoidei" RELATED LATIN [Wikipedia:Suprahyoid_muscles] synonym: "suprahyoid" RELATED [Wikipedia:Suprahyoid_muscles] synonym: "suprahyoidala" RELATED [Wikipedia:Suprahyoid_muscles] xref: FMA:46290 xref: SCTID:244824003 xref: http://upload.wikimedia.org/wikipedia/commons/5/58/Suprahyoid_muscles.png is_a: UBERON:0005493 ! hyoid muscle [Term] id: UBERON:0008572 name: posterior crico-arytenoid namespace: uberon def: "The posterior cricoarytenoid muscles are extremely small, paired muscles that extend from the posterior cricoid cartilage to the arytenoid cartilages in the larynx. By rotating the arytenoid cartilages laterally, these muscles abduct the vocal cords and thereby open the rima glottidis. Their action opposes the lateral cricoarytenoid muscles. The posterior cricoarytenoid muscles receive innervation from the recurrent laryngeal branch of the vagus nerve (CN X). Paralysis of the posterior cricoarytenoid muscles may lead to asphyxiation as they are the only laryngeal muscles to open the true vocal folds, allowing inspiration and expiration." [Wikipedia:Posterior_cricoarytenoid_muscle] synonym: "cricoaryt%c3%a6noideus posterior" RELATED [Wikipedia:Posterior_cricoarytenoid_muscle] synonym: "cricoarytaenoideus posterior" RELATED [Wikipedia:Posterior_cricoarytenoid_muscle] synonym: "musculus cricoarytenoideus posterior" RELATED LATIN [Wikipedia:Posterior_cricoarytenoid_muscle] synonym: "posterior cricoarytenoid" EXACT [FMA:46576] synonym: "posterior cricoarytenoid muscle" EXACT [Wikipedia:Posterior_cricoarytenoid_muscle] synonym: "posterior cricoarytenoideus" EXACT [FMA:46576] xref: FMA:46576 xref: SCTID:244812005 xref: http://upload.wikimedia.org/wikipedia/commons/9/9d/Musculuscricoarytenoideusposterior.png is_a: UBERON:0010932 ! crico-arytenoid muscle relationship: has_muscle_antagonist UBERON:0008573 ! lateral crico-arytenoid relationship: has_muscle_insertion UBERON:0001740 ! arytenoid cartilage relationship: has_muscle_origin UBERON:0002375 ! cricoid cartilage relationship: innervated_by UBERON:0003716 ! recurrent laryngeal nerve [Term] id: UBERON:0008573 name: lateral crico-arytenoid namespace: uberon def: "The lateral cricoarytenoid (also anterior cricoarytenoid) muscles extend from the lateral cricoid cartilage to the ipsilateral arytenoid cartilage. By rotating the arytenoid cartilages medially, these muscles adduct the vocal cords and thereby close the rima glottidis, protecting the airway. (Their action is antagonistic to that of the posterior cricoarytenoid muscles. ) The lateral cricoarytenoid muscles receive innervation from the recurrent laryngeal branch of the vagus nerve (CN X)." [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "cricoaryt%c3%a6noideus lateralis" RELATED [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "cricoaryt%c3%a6noideus lateralis muscle" RELATED [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "cricoarytaenoideus lateralis" RELATED [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "cricoarytaenoideus lateralis muscle" RELATED [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "lateral cricoarytenoid" EXACT [FMA:46579] synonym: "lateral cricoarytenoid muscle" EXACT [Wikipedia:Lateral_cricoarytenoid_muscle] synonym: "lateral cricoarytenoideus" EXACT [FMA:46579] synonym: "musculus cricoarytenoideus lateralis" RELATED LATIN [Wikipedia:Lateral_cricoarytenoid_muscle] xref: FMA:46579 xref: SCTID:244813000 xref: http://upload.wikimedia.org/wikipedia/commons/3/34/Musculuscricoarytenoideuslateralis.png is_a: UBERON:0010932 ! crico-arytenoid muscle relationship: has_muscle_antagonist UBERON:0008572 ! posterior crico-arytenoid relationship: has_muscle_insertion UBERON:0001740 ! arytenoid cartilage relationship: has_muscle_origin UBERON:0002375 ! cricoid cartilage relationship: innervated_by UBERON:0003716 ! recurrent laryngeal nerve [Term] id: UBERON:0008574 name: transverse arytenoid namespace: uberon def: "The tranverse arytenoid crosses transversely between the two cartilages. It is an unpaired muscle running from one arytenoid to another to pull the arytenoids together." [Wikipedia:Arytenoid_muscle] synonym: "arytenoid transversus" RELATED [] synonym: "tranverse arytenoid muscle" RELATED [Wikipedia:Transverse_arytenoid] xref: FMA:46582 is_a: UBERON:0010958 ! arytenoid muscle [Term] id: UBERON:0008575 name: oblique arytenoid namespace: uberon def: "The oblique arytenoid, the more superficial Arytenoid muscle, forms two fasciculi, which pass from the base of one cartilage to the apex of the opposite one, and therefore cross each other like the limbs of the letter X; a few fibers are continued around the lateral margin of the cartilage, and are prolonged into the aryepiglottic fold; they are sometimes described as a separate muscle, the Aryepiglotticus. The aryepiglottic muscle together with the transverse arytenoid and the thyroarytenoid work as a sphincter and close the larynx as we swallow or cough. Its innervation is by the recurrent laryngeal nerve (from vagus) just like all the intrinsic muscles of the larynx except the cricothyroid muscle." [Wikipedia:Oblique_arytenoid_muscle] synonym: "arytenoid obliquus" RELATED [] synonym: "oblique arytenoid muscle" RELATED [Wikipedia:Oblique_arytenoid] xref: FMA:46583 xref: SCTID:244817004 is_a: UBERON:0010958 ! arytenoid muscle [Term] id: UBERON:0008576 name: thyro-arytenoid namespace: uberon def: "The Thyroarytenoid is a broad, thin, muscle which lies parallel with and lateral to the vocal fold, and supports the wall of the ventricle and its appendix. It functions in fine tonal control of the vocal cords." [Wikipedia:Thyroarytenoid_muscle] synonym: "musculus thyroarytenoideus" RELATED LATIN [Wikipedia:Thyroarytenoid_muscle] synonym: "thyreoaryt%c3%a6noideus" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyreoaryt%c3%a6noideus muscle" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyreoarytaenoideus" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyreoarytaenoideus muscle" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyreoepiglotticus" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyro-arytenoid %26 vocalis" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyro-arytenoid muscle" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyroaryt%c3%a6noideus" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "thyroarytenoid" EXACT [Wikipedia:Thyroarytenoid_muscle] synonym: "thyroarytenoid muscle" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "ventricularis" RELATED [Wikipedia:Thyroarytenoid_muscle] synonym: "ventricularis muscle" RELATED [Wikipedia:Thyroarytenoid_muscle] xref: FMA:46588 xref: SCTID:361814004 xref: UMLS:C0224183 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Musculusthyreoarytenoideus.png xref: ncithesaurus:Thyroarytenoid_Muscle is_a: UBERON:0006328 ! laryngeal intrinsic muscle relationship: has_muscle_insertion UBERON:0001740 ! arytenoid cartilage relationship: has_muscle_origin UBERON:0001738 ! thyroid cartilage relationship: innervated_by UBERON:0003716 ! recurrent laryngeal nerve relationship: part_of UBERON:0001737 ! larynx [Term] id: UBERON:0008577 name: vocalis muscle namespace: uberon def: "The vocal muscle is the upper portion of the thyroarytenoid muscle which is primarily involved in producing speech." [Wikipedia:Vocal_muscle] synonym: "musculus vocalis" RELATED LATIN [Wikipedia:Vocal_muscle] synonym: "vocal muscle" EXACT [FMA:46591] synonym: "vocalis" EXACT [] xref: FMA:46591 xref: SCTID:244820007 xref: UMLS:C0224181 xref: http://upload.wikimedia.org/wikipedia/commons/6/64/Musculusthyreoarytenoideus.png xref: ncithesaurus:Vocalis_Muscle is_a: UBERON:0006328 ! laryngeal intrinsic muscle relationship: has_function_in GO:0071625 ! vocalization behavior relationship: part_of UBERON:0001737 ! larynx relationship: part_of UBERON:0008576 ! thyro-arytenoid [Term] id: UBERON:0008582 name: superior longitudinal muscle of tongue namespace: uberon def: "The Longitudinalis linguC& superior (Superior lingualis) is a thin stratum of oblique and longitudinal fibers immediately underlying the mucous membrane on the dorsum of the tongue." [Wikipedia:Superior_longitudinal_muscle_of_tongue] synonym: "longitudinalis lingu%c3%a6 superior" RELATED [Wikipedia:Superior_longitudinal_muscle_of_tongue] synonym: "longitudinalis linguae superior" RELATED [Wikipedia:Superior_longitudinal_muscle_of_tongue] synonym: "musculus longitudinalis superior" EXACT [FMA:46693] synonym: "musculus longitudinalis superior linguae" RELATED LATIN [Wikipedia:Superior_longitudinal_muscle_of_tongue] synonym: "superior longitudinal muscle" RELATED [Wikipedia:Superior_longitudinal_muscle_of_tongue] xref: FMA:46693 xref: SCTID:244790006 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Musculuslongitudinalissuperiorlinguae.png is_a: UBERON:0001576 ! intrinsic muscle of tongue is_a: UBERON:0012369 ! longitudinal muscle layer relationship: has_muscle_insertion UBERON:0001723 ! tongue relationship: innervated_by UBERON:0001650 ! hypoglossal nerve [Term] id: UBERON:0008583 name: transverse muscle of tongue namespace: uberon def: "The Transversus linguC& (tansverse lingualis) is a muscle of the tongue. It consists of fibers which arise from the median fibrous septum and pass lateralward to be inserted into the submucous fibrous tissue at the sides of the tongue." [Wikipedia:Transverse_muscle_of_tongue] synonym: "intrinsic tongue muscle transverse component" EXACT [MA:0002328] synonym: "musculus transversus linguae" RELATED LATIN [Wikipedia:Transverse_muscle_of_tongue] synonym: "transverse lingual muscle" EXACT [FMA:46695] synonym: "transverse muscle" RELATED [Wikipedia:Transverse_muscle_of_tongue] synonym: "transversus lingu%c3%a6" RELATED [Wikipedia:Transverse_muscle_of_tongue] synonym: "transversus linguae" RELATED [Wikipedia:Transverse_muscle_of_tongue] synonym: "transversus muscle" RELATED [Wikipedia:Transverse_muscle_of_tongue] xref: FMA:46695 xref: MA:0002328 xref: SCTID:244792003 xref: UMLS:C1708561 xref: http://upload.wikimedia.org/wikipedia/commons/1/14/Musculustransversuslinguae.png xref: ncithesaurus:Intrinsic_Tongue_Muscle_Transverse_Component is_a: UBERON:0001576 ! intrinsic muscle of tongue relationship: has_muscle_insertion UBERON:0001723 ! tongue relationship: innervated_by UBERON:0001650 ! hypoglossal nerve [Term] id: UBERON:0008584 name: vertical muscle of tongue namespace: uberon def: "The Verticalis linguC& (Vertical lingualis) is found only at the borders of the forepart of the tongue. Its fibers extend from the upper to the under surface of the organ." [Wikipedia:Vertical_muscle_of_tongue] synonym: "intrinsic tongue muscle vertical component" EXACT [MA:0002329] synonym: "musculus verticalis linguae" RELATED LATIN [Wikipedia:Vertical_muscle_of_tongue] synonym: "vertical lingual muscle" EXACT [FMA:46696] synonym: "vertical muscle" RELATED [Wikipedia:Vertical_muscle_of_tongue] synonym: "verticalis lingu%c3%a6" RELATED [Wikipedia:Vertical_muscle_of_tongue] synonym: "verticalis lingu%c3%a6 muscle" RELATED [Wikipedia:Vertical_muscle_of_tongue] synonym: "verticalis linguae" RELATED [Wikipedia:Vertical_muscle_of_tongue] synonym: "verticalis linguae muscle" RELATED [Wikipedia:Vertical_muscle_of_tongue] synonym: "verticalis muscle" RELATED [Wikipedia:Vertical_muscle_of_tongue] xref: FMA:46696 xref: MA:0002329 xref: SCTID:244793008 xref: UMLS:C1708562 xref: http://upload.wikimedia.org/wikipedia/commons/d/d8/Gray1020.png xref: ncithesaurus:Intrinsic_Tongue_Muscle_Vertical_Component is_a: UBERON:0001576 ! intrinsic muscle of tongue relationship: has_muscle_insertion UBERON:0007373 ! inferior surface of tongue relationship: has_muscle_origin UBERON:0009471 ! dorsum of tongue relationship: innervated_by UBERON:0001650 ! hypoglossal nerve [Term] id: UBERON:0008585 name: levator veli palatini namespace: uberon def: "The levator veli palatini is the elevator muscle of the velum palatinum in the human body. During swallowing, it contracts, elevating the soft palate to help prevent food from entering the nasopharynx. It is innervated via the pharyngeal plexus, primarily by the vagus nerve (CN X). The levator veli palatini (Levator palati) is a thick, rounded muscle situated lateral to the choanC&. It arises from the under surface of the apex of the petrous part of the temporal bone and from the medial lamina of the cartilage of the auditory tube. After passing above the upper concave margin of the Constrictor pharyngis superior it spreads out in the palatine velum, its fibers extending obliquely downward and medially to the middle line, where they blend with those of the opposite side." [Wikipedia:Levator_veli_palatini] synonym: "levator palati" RELATED [Wikipedia:Levator_veli_palatini] synonym: "levator veli" RELATED [Wikipedia:Levator_veli_palatini] synonym: "levator veli palatini muscle" RELATED [Wikipedia:Levator_veli_palatini] synonym: "levator velum palatini muscle" RELATED [Wikipedia:Levator_veli_palatini] synonym: "musculus levator veli palatini" RELATED LATIN [Wikipedia:Levator_veli_palatini] xref: FMA:46727 xref: SCTID:244795001 xref: http://upload.wikimedia.org/wikipedia/commons/a/a5/Musculuslevatorvelipalatini.png is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003682 ! palatal muscle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_muscle_origin UBERON:0001678 ! temporal bone relationship: in_lateral_side_of UBERON:0001733 ! soft palate relationship: innervated_by UBERON:0000929 ! pharyngeal branch of vagus nerve property_value: external_definition "The levator veli palatini is part of the soft palate that attaches to the cranial base, pharyngotympanic tube and the soft palate and is innervated by Cranial Nerve X via the pharyngeal plexus.[FEED]" xsd:string [Term] id: UBERON:0008586 name: tensor veli palatini namespace: uberon def: "The tensor veli palatini (tensor palati) is a broad, thin, ribbon-like muscle in the head that tenses the soft palate." [Wikipedia:Tensor_veli_palatini_muscle] synonym: "musculus tensor veli palatini" RELATED LATIN [Wikipedia:Tensor_veli_palatini_muscle] synonym: "tensor palati" RELATED [Wikipedia:Tensor_veli_palatini_muscle] synonym: "tensor palati muscle" RELATED [Wikipedia:Tensor_veli_palatini_muscle] synonym: "tensor veli palatini" RELATED [Wikipedia:Tensor_veli_palatini_muscle] synonym: "tensor veli palatini muscle" EXACT [] xref: FMA:46730 xref: SCTID:361815003 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Musculustensorvelipalatini.png is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003682 ! palatal muscle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: in_lateral_side_of UBERON:0001733 ! soft palate relationship: innervated_by UBERON:0000375 ! mandibular nerve property_value: external_definition "The tensor veli palatini is a muscle of the soft palate that attaches to the cranial base and pharyngotympanic tube, wraps around the pterygoid hamulus and then attaches to the midline palatal raphe of the soft palate that is innervated by cranial nerve V3.[FEED]" xsd:string [Term] id: UBERON:0008588 name: procerus namespace: uberon def: "The Procerus is a small pyramidal slip of muscle deep to the superior orbital nerve, artery and vein." [Wikipedia:Procerus_muscle] synonym: "depressor glabellae" RELATED [Wikipedia:Procerus_muscle] synonym: "musculus procerus, pyramidalis nasi, depressor glabellae" RELATED LATIN [Wikipedia:Procerus_muscle] synonym: "procerus muscle" RELATED [Wikipedia:Procerus_muscle] synonym: "pyramidalis nasi" RELATED [Wikipedia:Procerus_muscle] xref: FMA:46769 xref: SCTID:244731008 xref: http://upload.wikimedia.org/wikipedia/commons/7/76/Procerus.png is_a: UBERON:0008522 ! nasal muscle relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008589 name: depressor septi nasi namespace: uberon def: "The depressor septi (Depressor alE nasi) arises from the incisive fossa of the maxilla. Its fibers ascend to be inserted into the nasal septum and back part of the alar part of nasalis muscle. It lies between the mucous membrane and muscular structure of the lip." [Wikipedia:Depressor_septi_nasi_muscle] synonym: "depressor al%c3%a6 nasi" RELATED [Wikipedia:Depressor_septi_nasi_muscle] synonym: "depressor alae nasi" RELATED [Wikipedia:Depressor_septi_nasi_muscle] synonym: "depressor septi" EXACT [Wikipedia:Depressor_septi_nasi_muscle] synonym: "depressor septi nasi muscle" RELATED [Wikipedia:Depressor_septi_nasi_muscle] synonym: "musculus depressor septi nasi" RELATED LATIN [Wikipedia:Depressor_septi_nasi_muscle] xref: FMA:46777 xref: SCTID:244733006 xref: http://upload.wikimedia.org/wikipedia/commons/6/6c/Musculusdepressorseptinasi.PNG is_a: UBERON:0008522 ! nasal muscle relationship: has_muscle_origin UBERON:0002397 ! maxilla relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008591 name: depressor supercilii namespace: uberon def: "The Depressor Supercilii is an eye muscle of the human body. The nature of this muscle is in some dispute. Few printed anatomies include it (Netter, et al. ) and many authorities consider it to be part of the orbicularis oculi muscle . On the other hand, many dermatologists, ophthalmologists and plastic surgeons hold that the depressor supercilli is a distinct muscle and has a definite, individual effect on the movement of the eybrow and skin of the glabella." [Wikipedia:Depressor_supercilii_muscle] synonym: "depressor supercilii muscle" RELATED [Wikipedia:Depressor_supercilii_muscle] synonym: "musculus depressor supercilii" RELATED LATIN [Wikipedia:Depressor_supercilii_muscle] xref: FMA:46798 xref: SCTID:244728007 xref: http://upload.wikimedia.org/wikipedia/commons/e/e2/Gray379.png is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0001697 ! orbital region relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008592 name: levator labii superioris alaeque nasi namespace: uberon def: "The levator labii superioris alaeque nasi muscle is, translated from Latin, the \"lifter of the upper lip and of the wing of the nose\". It has the longest name of any muscle in an animal." [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] synonym: "alaeque" RELATED [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] synonym: "elvis muscle" RELATED [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] synonym: "levator labii superioris alaequae nasi muscle" RELATED [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] synonym: "levator labii superioris alaeque nasi" RELATED [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] synonym: "musculus levator labii superioris alaequae nasi" RELATED LATIN [Wikipedia:Levator_labii_superioris_alaeque_nasi_muscle] xref: FMA:46802 xref: http://upload.wikimedia.org/wikipedia/commons/1/1c/Musculuslevatorlabiisuperiorisalaequenasi.png is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0001834 ! upper lip relationship: has_muscle_insertion UBERON:0005928 ! external naris relationship: has_muscle_origin UBERON:0002397 ! maxilla relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008593 name: zygomaticus major muscle namespace: uberon def: "The Zygomatic major is a muscle of the human body. It is a muscle of facial expression which draws the angle of the mouth superiorly and posteriorly. Like all muscles of facial expression, the zygomatic major is innervated by the facial nerve (Cranial Nerve VII). The Zygomaticus extends from each zygomatic arch to the corners of the mouth. It raises the corners of the mouth when a person smiles. Dimples may be caused by variations in the structure of this muscle." [Wikipedia:Zygomaticus_major_muscle] synonym: "musculus zygomaticus major" RELATED LATIN [Wikipedia:Zygomaticus_major_muscle] synonym: "zygomatic major" RELATED [Wikipedia:Zygomaticus_major_muscle] synonym: "zygomatic major muscle" RELATED [Wikipedia:Zygomaticus_major_muscle] synonym: "zygomatic muscle" RELATED [Wikipedia:Zygomaticus_major_muscle] synonym: "zygomaticcus major" RELATED [Wikipedia:Zygomaticus_major_muscle] synonym: "zygomaticus major" RELATED [Wikipedia:Zygomaticus_major_muscle] xref: FMA:46810 xref: SCTID:244739005 xref: SCTID:244740007 xref: UMLS:C0224115 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Zygomaticus.png xref: ncithesaurus:Zygomaticus_Major is_a: UBERON:0010437 ! zygomaticus muscle relationship: has_muscle_insertion UBERON:0011386 ! facial modiolus relationship: has_muscle_origin UBERON:0001683 ! jugal bone relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008594 name: zygomaticus minor muscle namespace: uberon def: "The zygomaticus minor is a muscle of facial expression. It originates from malar bone and continues with orbicularis oculi on the lateral face of the Levator labii superioris and then inserts into the outer part of the upper lip. Do not confuse this with the Zygomaticus major, which insets into the angle of the mouth. It draws the upper lip backward, upward, and outward (used in making sad facial expressions). </gallery> Like all muscles of facial expression, it is innervated by the facial nerve (CN VII)." [Wikipedia:Zygomaticus_minor_muscle] synonym: "zygomaticus minor" RELATED [Wikipedia:Zygomaticus_minor_muscle] xref: FMA:46811 xref: SCTID:244741006 xref: UMLS:C0224116 xref: http://upload.wikimedia.org/wikipedia/commons/4/46/Musculuszygomaticusminor.png xref: ncithesaurus:Zygomaticus_Minor is_a: UBERON:0010437 ! zygomaticus muscle relationship: has_muscle_insertion UBERON:0001458 ! skin of lip relationship: has_muscle_insertion UBERON:0001834 ! upper lip relationship: has_muscle_origin UBERON:0001683 ! jugal bone relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008595 name: levator anguli oris namespace: uberon def: "The levator anguli oris (caninus) is a facial muscle of the mouth arising from the canine fossa, immediately below the infraorbital foramen. Its fibers are inserted into the angle of the mouth, intermingling with those of the Zygomaticus, Triangularis, and Orbicularis oris." [Wikipedia:Levator_anguli_oris_muscle] synonym: "caninus" RELATED [Wikipedia:Levator_anguli_oris] synonym: "caninus muscle" RELATED [Wikipedia:Levator_anguli_oris] synonym: "levator anguli oris" RELATED [Wikipedia:Levator_anguli_oris] synonym: "levator anguli oris muscle" EXACT [Wikipedia:Levator_anguli_oris] synonym: "musculus levator anguli oris" RELATED [Wikipedia:Levator_anguli_oris] xref: FMA:46822 xref: SCTID:141501002 is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0011386 ! facial modiolus relationship: has_muscle_origin UBERON:0002397 ! maxilla relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008596 name: mentalis namespace: uberon def: "The Mentalis is a paired central muscle of the lower lip, situated at the tip of the chin. It raises and pushes up the lower lip, causing wrinkling of the chin, as in doubt or displeasure. It is ometimes referred to as the \"pouting muscle. \" Its fibers arise from the incisive fossa of the mandible, then course vertically downward to insert in the skin of the chin. A movement disorder of the mentalis muscle is Geniospasm which is a benign but socially excluding genetic disorder." [Wikipedia:Mentalis] synonym: "mentalis muscle" EXACT [Wikipedia:Mentalis] synonym: "musculus mentalis" EXACT LATIN [Wikipedia:Mentalis] xref: FMA:46825 xref: SCTID:244744003 xref: http://upload.wikimedia.org/wikipedia/commons/3/37/Mentalis.png is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0008199 ! chin relationship: has_muscle_origin UBERON:0001684 ! mandible relationship: in_lateral_side_of UBERON:0008199 ! chin relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008597 name: depressor anguli oris muscle namespace: uberon def: "The Depressor anguli oris (Triangularis) arises from the oblique line of the mandible, whence its fibers converge, to be inserted, by a narrow fasciculus, into the angle of the mouth." [Wikipedia:Depressor_anguli_oris_muscle] synonym: "depressor anguli oris" RELATED [Wikipedia:Depressor_anguli_oris_muscle] synonym: "musculus depressor anguli oris" RELATED LATIN [Wikipedia:Depressor_anguli_oris_muscle] synonym: "triangularis" RELATED [Wikipedia:Depressor_anguli_oris_muscle] synonym: "triangularis muscle" RELATED [Wikipedia:Depressor_anguli_oris_muscle] xref: FMA:46828 xref: SCTID:361812000 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Gray381.png is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0011386 ! facial modiolus relationship: has_muscle_origin UBERON:0001684 ! mandible relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008598 name: risorius muscle namespace: uberon def: "The risorius arises in the fascia over the parotid gland and, passing horizontally forward, superficial to the platysma, inserts onto the skin at the angle of the mouth. It is a narrow bundle of fibers, broadest at its origin, but varies much in its size and form." [Wikipedia:Risorius] synonym: "musculus risorius" RELATED LATIN [Wikipedia:Risorius] synonym: "risorius" EXACT [Wikipedia:Risorius] xref: FMA:46838 xref: SCTID:244755003 xref: http://upload.wikimedia.org/wikipedia/commons/a/af/Musculusrisorius.png is_a: UBERON:0001577 ! facial nerve muscle relationship: has_muscle_insertion UBERON:0011386 ! facial modiolus relationship: has_muscle_origin UBERON:0001831 ! parotid gland relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008603 name: helicis major namespace: uberon def: "The Helicis major is a narrow vertical band situated upon the anterior margin of the helix. It arises below, from the spina helicis, and is inserted into the anterior border of the helix, just where it is about to curve backward." [Wikipedia:Helicis_major] synonym: "helicis major muscle" RELATED [] synonym: "musculus helicis major" EXACT LATIN [Wikipedia:Helicis_major] xref: FMA:48968 xref: SCTID:244764008 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray906.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008604 name: helicis minor namespace: uberon def: "The Helicis minor is an oblique fasciculus, covering the crus helicis." [Wikipedia:Helicis_minor] synonym: "helicis minor muscle" RELATED [] synonym: "musculus helicis minor" RELATED LATIN [Wikipedia:Helicis_minor] xref: FMA:48971 xref: SCTID:244765009 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray906.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008605 name: tragicus muscle namespace: uberon def: "The Tragicus is a short, flattened vertical band on the lateral surface of the tragus." [Wikipedia:Tragicus] synonym: "musculus tragicus" RELATED LATIN [Wikipedia:Tragicus] synonym: "tragicus" EXACT [FMA:48974] synonym: "tragicus muscle" RELATED [] xref: FMA:48974 xref: SCTID:244766005 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray906.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008606 name: antitragicus muscle namespace: uberon def: "The Antitragicus arises from the outer part of the antitragus, and is inserted into the cauda helicis and antihelix." [Wikipedia:Antitragicus] synonym: "antitragicus" EXACT [FMA:48980] synonym: "antitragicus muscle" RELATED [] synonym: "musculus antitragicus" RELATED LATIN [Wikipedia:Antitragicus] xref: FMA:48980 xref: SCTID:63899000 xref: http://upload.wikimedia.org/wikipedia/commons/5/58/Musculusantitragicus.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008607 name: transverse muscle of auricle namespace: uberon def: "The transverse muscle of auricle is placed on the cranial surface of the pinna. It consists of scattered fibers, partly tendinous and partly muscular, extending from the eminentia conchae to the prominence corresponding with the scapha." [Wikipedia:Transverse_muscle_of_auricle] synonym: "musculus transversus auriculae" RELATED LATIN [Wikipedia:Transverse_muscle_of_auricle] synonym: "transverse muscle of pinna" EXACT [FMA:48983] synonym: "transversus auriculae" EXACT [Wikipedia:Transverse_muscle_of_auricle] synonym: "transversus auricularis" EXACT [FMA:48983] xref: FMA:48983 xref: SCTID:244767001 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray906.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008608 name: oblique muscle of auricle namespace: uberon def: "The oblique muscle of auricle, on the cranial surface, consists of a few fibers extending from the upper and back part of the concha to the convexity immediately above it." [Wikipedia:Oblique_muscle_of_auricle] synonym: "musculus obliquus auriculae" RELATED LATIN [Wikipedia:Oblique_muscle_of_auricle] synonym: "oblique muscle of pinna" EXACT [FMA:48986] synonym: "obliquus auricul%c3%a6" RELATED [Wikipedia:Oblique_muscle_of_auricle] synonym: "obliquus auriculae" EXACT [Wikipedia:Oblique_muscle_of_auricle] synonym: "obliquus auricularis muscle" EXACT [FMA:48986] xref: FMA:48986 xref: SCTID:244768006 xref: http://upload.wikimedia.org/wikipedia/commons/d/d2/Gray906.png is_a: UBERON:0001596 ! intrinsic auricular muscle [Term] id: UBERON:0008609 name: transversus menti muscle namespace: uberon def: "The transversus menti, or transverse muscle of the chin, is a facial muscle that is often considered to be the superficial fibers of the depressor anguli oris muscle which cross to the other side of the face." [Wikipedia:Transverse_muscle_of_the_chin] synonym: "musculus transversus menti" RELATED LATIN [Wikipedia:Transverse_muscle_of_the_chin] synonym: "transverse menti" EXACT [FMA:49080] synonym: "transversus menti" RELATED [Wikipedia:Transverse_muscle_of_the_chin] xref: FMA:49080 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Gray381.png is_a: UBERON:0001577 ! facial nerve muscle relationship: innervated_by UBERON:0001647 ! facial nerve [Term] id: UBERON:0008611 name: scalene muscle namespace: uberon def: "Any of the three pairs of muscles in the lateral neck, namely the scalenus anterior, scalenus medius, and scalenus posterior. They are innervated by the spinal nerves C4-C8[WP]." [Wikipedia:Scalene_muscles] synonym: "lateral cervical muscle" RELATED [Wikipedia:Scalene_muscles] synonym: "lateral cervical muscles" RELATED [Wikipedia:Scalene_muscles] synonym: "lateral vertebral muscle" RELATED [Wikipedia:Scalene_muscles] synonym: "m scalenus" RELATED [Wikipedia:Scalene_muscles] synonym: "scalene muscle" RELATED [Wikipedia:Scalene_muscles] synonym: "scalene muscles" EXACT [Wikipedia:Scalene_muscles] synonym: "scalenes" RELATED [Wikipedia:Scalene_muscles] synonym: "scaleneus" RELATED [Wikipedia:Scalene_muscles] synonym: "scaleni" RELATED [Wikipedia:Scalene_muscles] synonym: "scalenus" RELATED [Wikipedia:Scalene_muscles] synonym: "scalenus muscle" EXACT [FMA:64829] xref: FMA:64829 xref: SCTID:244843003 xref: UMLS:C0448350 xref: http://upload.wikimedia.org/wikipedia/commons/6/6e/Scalenus.png xref: ncithesaurus:Scalene_Muscle is_a: UBERON:0002377 ! muscle of neck is_a: UBERON:0004518 ! muscle of vertebral column relationship: has_muscle_insertion UBERON:0004601 ! rib 1 relationship: has_muscle_insertion UBERON:0004602 ! rib 2 relationship: has_muscle_origin UBERON:0002413 ! cervical vertebra [Term] id: UBERON:0008612 name: muscle of pelvic diaphragm namespace: uberon def: "The pelvic floor or pelvic diaphragm is composed of muscle fibers of the levator ani, the coccygeus, and associated connective tissue which span the area underneath the pelvis. The pelvic diaphragm is a muscular partition formed by the levatores ani and coccygei, with which may be included the parietal pelvic fascia on their upper and lower aspects. The pelvic floor separates the pelvic cavity above from the perineal region below. The right and left levator ani lie almost horizontally in the floor of the pelvis, separated by a narrow gap that transmits the urethra, vagina, and anal canal. The levator ani is usually considered in three parts: pubococcygeus, puborectalis, and iliococcygeus. The pubococcygeus, the main part of the levator, runs backward from the body of the pubis toward the coccyx and may be damaged during parturition. Some fibers are inserted into the prostate, urethra, and vagina. The right and left puborectalis unite behind the anorectal junction to form a muscular sling . Some regard them as a part of the sphincter ani externus. The iliococcygeus, the most posterior part of the levator ani, is often poorly developed. The coccygeus, situated behind the levator ani and frequently tendinous as much as muscular, extends from the ischial spine to the lateral margin of the sacrum and coccyx. The pelvic cavity of the true pelvis has the pelvic floor as its inferior border (and the pelvic brim as its superior border. ) The perineum has the pelvic floor as its superior border. Some sources do not consider \"pelvic floor\" and \"pelvic diaphragm\" to be identical, with the \"diaphragm\" consisting of only the levator ani and coccygeus, while the \"floor\" also includes the perineal membrane and deep perineal pouch. However, other sources include the fascia as part of the diaphragm. In practice, the two terms are often used interchangeably. Inferiorly, the pelvic floor extends into the anal triangle." [Wikipedia:Pelvic_floor] synonym: "diaphragm of the pelvis" RELATED [Wikipedia:Pelvic_floor] synonym: "diaphragma pelvis" RELATED LATIN [Wikipedia:Pelvic_floor] synonym: "muscle of pelvic floor" EXACT [FMA:64856] synonym: "pelvic diaphragm" RELATED [Wikipedia:Pelvic_floor] synonym: "pelvic diaphragm muscle" EXACT [FMA:64856] synonym: "pelvic floor muscles" RELATED [Wikipedia:Pelvic_floor] synonym: "pelvic muscles" RELATED [Wikipedia:Pelvic_floor] xref: FMA:64856 xref: SCTID:367748001 xref: UMLS:C0932441 xref: http://upload.wikimedia.org/wikipedia/commons/6/63/Gray404.png xref: ncithesaurus:Pelvic_Floor_Muscle is_a: UBERON:0001325 ! muscle of pelvis [Term] id: UBERON:0008617 name: innermost intercostal muscle namespace: uberon def: "The Innermost intercostal muscle is a layer of intercostal muscle beneath the intercostal nerves and internal intercostal muscles. These are divided into transversus thoracis anteriorly, lateral muscle slips laterally and subcostalis posteriorly." [Wikipedia:Innermost_intercostal_muscle] synonym: "musculus intercostalis intimus" RELATED LATIN [Wikipedia:Innermost_intercostal_muscle] xref: FMA:9758 xref: SCTID:368054008 is_a: UBERON:0001111 ! intercostal muscle relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0002228 ! rib relationship: innervated_by UBERON:0003727 ! intercostal nerve [Term] id: UBERON:0008618 name: subcostal muscle namespace: uberon def: "The Subcostales (Infracostales) consist of muscular and aponeurotic fasciculi, which are usually well-developed only in the lower part of the thorax; each originates from the inner surface of one rib, and is inserted into the inner surface of the second or third rib above, near its angle. Their fibers run in the same direction as those of the Intercostales interni." [Wikipedia:Subcostalis_muscle] synonym: "musculus subcostalis" RELATED LATIN [Wikipedia:Subcostalis_muscle] synonym: "subcostal muscles" RELATED [Wikipedia:Subcostalis_muscle] synonym: "subcostales" RELATED [Wikipedia:Subcostalis_muscle] synonym: "subcostales muscle" RELATED [Wikipedia:Subcostalis_muscle] synonym: "subcostales muscles" RELATED [Wikipedia:Subcostalis_muscle] synonym: "subcostalis" RELATED [Wikipedia:Subcostalis_muscle] xref: FMA:9759 xref: SCTID:244914005 is_a: UBERON:0002426 ! chest muscle relationship: has_muscle_insertion UBERON:0002228 ! rib relationship: has_muscle_origin UBERON:0002228 ! rib relationship: innervated_by UBERON:0003727 ! intercostal nerve [Term] id: UBERON:0008622 name: scalenus anterior namespace: uberon def: "The Scalenus anterior (Scalenus anticus), also known as anterior scalene muscle, lies deeply at the side of the neck, behind the Sternocleidomastoideus. It arises from the anterior tubercles of the transverse processes of the third, fourth, fifth, and sixth cervical vertebrC&, and descending, almost vertically, is inserted by a narrow, flat tendon into the scalene tubercle on the inner border of the first rib, and into the ridge on the upper surface of the rib in front of the subclavian groove." [Wikipedia:Scalenus_anterior] synonym: "anterior scalene" EXACT [Wikipedia:Scalenus_anterior] synonym: "musculus scalenus anterior" RELATED LATIN [Wikipedia:Scalenus_anterior] synonym: "scalenus anterior muscle" RELATED [Wikipedia:Scalenus_anterior] synonym: "scalenus anticus" RELATED [Wikipedia:Scalenus_anterior] xref: FMA:13385 xref: SCTID:181742002 xref: http://upload.wikimedia.org/wikipedia/commons/b/bf/Scalenus_anterior.png is_a: UBERON:0008611 ! scalene muscle relationship: has_muscle_insertion UBERON:0004601 ! rib 1 relationship: has_muscle_origin UBERON:0002413 ! cervical vertebra [Term] id: UBERON:0008712 name: stylohyoid muscle namespace: uberon def: "The stylohyoid muscle is a slender muscle, lying anterior, and superior of the posterior belly of the digastric muscle. It shares this muscle's innervation by the facial nerve." [Wikipedia:Stylohyoid_muscle] synonym: "musculus stylohyoideus" RELATED LATIN [Wikipedia:Stylohyoid_muscle] synonym: "stylohyoid" RELATED [Wikipedia:Stylohyoid_muscle] synonym: "stylohyoideus" RELATED [Wikipedia:Stylohyoid_muscle] synonym: "stylohyoideus muscle" RELATED [Wikipedia:Stylohyoid_muscle] synonym: "stylohyoideus muscles" RELATED [Wikipedia:Stylohyoid_muscle] xref: FMA:9625 xref: SCTID:244826001 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Musculi_colli_stylohyoideus.svg is_a: UBERON:0001577 ! facial nerve muscle is_a: UBERON:0008571 ! suprahyoid muscle relationship: has_muscle_insertion UBERON:0003997 ! hyoid bone greater horn relationship: has_muscle_origin UBERON:0003960 ! styloid process of temporal bone relationship: innervated_by UBERON:0001647 ! facial nerve property_value: external_definition "The stylohyoid is a pharyngeal arch II muscle that participates in oral/pharygeal behaviors and is innervated by the stylohoid branch of the facial nerve and attaches to the stylohyal.[FEED]" xsd:string [Term] id: UBERON:0008713 name: pectoral girdle and thoracic body wall skeletal muscle namespace: uberon xref: EHDAA2:0001421 xref: RETIRED_EHDAA2:0001422 is_a: UBERON:0001134 ! skeletal muscle tissue [Term] id: UBERON:0008715 name: muscle tissue of prostate namespace: uberon def: "A muscle tissue that is part of a prostate gland." [OBOL:automatic] synonym: "prostate gland muscle tissue" EXACT [OBOL:automatic] synonym: "prostate muscle tissue" EXACT [OBOL:automatic] xref: UMLS:C1183911 xref: ncithesaurus:Prostatic_Muscular_Tissue is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0002385 ! muscle tissue intersection_of: part_of UBERON:0002367 ! prostate gland [Term] id: UBERON:0008716 name: hilum of kidney namespace: uberon def: "A hilum that is part of a kidney." [OBOL:automatic] synonym: "renal hilum" EXACT [FMA:15610] xref: FMA:15610 xref: SCTID:279370006 xref: UMLS:C0227608 xref: galen:HilumOfKidney xref: ncithesaurus:Hilar_Area_of_the_Kidney is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0004885 ! hilum intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0008772 name: proximal epiphysis of tibia namespace: uberon def: "A proximal epiphysis that is part of a tibia." [OBOL:automatic] synonym: "head of tibia" EXACT [FMA:33113] synonym: "proximal end of tibia" EXACT [FMA:33113] synonym: "upper end of tibia" EXACT [FMA:33113] xref: FMA:33113 xref: SCTID:302526005 xref: UMLS:C0932431 xref: ncithesaurus:Head_of_the_Tibia is_a: UBERON:0004383 ! epiphysis of tibia intersection_of: UBERON:0004380 ! proximal epiphysis intersection_of: part_of UBERON:0000979 ! tibia [Term] id: UBERON:0008775 name: proximal epiphysis of fibula namespace: uberon def: "A proximal epiphysis that is part of a fibula." [OBOL:automatic] synonym: "head of fibula" EXACT [FMA:33729] synonym: "proximal end of fibula" EXACT [FMA:33729] synonym: "upper end of fibula" EXACT [FMA:33729] xref: FMA:33729 xref: SCTID:182080006 xref: UMLS:C0223908 xref: galen:HeadOfFibula xref: ncithesaurus:Head_of_the_Fibula is_a: UBERON:0004388 ! epiphysis of fibula intersection_of: UBERON:0004380 ! proximal epiphysis intersection_of: part_of UBERON:0001446 ! fibula property_value: external_definition "The upper extremity or head of the fibula is of an irregular quadrate form, presenting above a flattened articular surface, directed upward, forward, and medialward, for articulation with a corresponding surface on the lateral condyle of the tibia. On the lateral side is a thick and rough prominence continued behind into a pointed eminence, the apex, which projects upward from the posterior part of the head. The prominence, at its upper and lateral part, gives attachment to the tendon of the Biceps femoris and to the fibular collateral ligament of the knee-joint, the ligament dividing the tendon into two parts. The remaining part of the circumference of the head is rough, for the attachment of muscles and ligaments. It presents in front a tubercle for the origin of the upper and anterior fibers of the PeronC&us longus, and a surface for the attachment of the anterior ligament of the head; and behind, another tubercle, for the attachment of the posterior ligament of the head and the origin of the upper fibers of the Soleus[Wikipedia:Head_of_fibula]." xsd:string [Term] id: UBERON:0008776 name: inner cell mass derived hypoblast namespace: uberon alt_id: UBERON:0000417 alt_id: UBERON:0003225 alt_id: UBERON:0003226 def: "The hypoblast is a tissue type that forms from the inner cell mass. It lies beneath the epiblast and consists of small cuboidal cells. Extraembryonic endoderm is derived from hypoblast." [Wikipedia:Hypoblast] comment: Note this inherits the taxon constraint to Theria; this may be too conservative subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "hypoblast" RELATED SENSU [GO:0090008, ISBN:9780878932504, VHOG:0001222] synonym: "primary endoderm" RELATED [MP:0011185] synonym: "primitive endoderm" EXACT [ISBN:9780878932504, MP:0011185] synonym: "visceral endoderm" RELATED [ISBN:9780878932504] xref: BTO:0002123 xref: EHDAA2:0000796 xref: EHDAA:44 xref: EHDAA:79 xref: EMAPA:16051 xref: EMAPA:16063 xref: FMA:85520 is_a: UBERON:0000089 ! hypoblast (generic) relationship: adjacent_to UBERON:0002532 ! epiblast (generic) relationship: develops_from UBERON:0000087 ! inner cell mass [Term] id: UBERON:0008777 name: hypaxial musclulature namespace: uberon def: "trunk muscles that lie ventral to the horizontal septum of the vertebrae." [Wikipedia:Epaxial_and_Hypaxial_muscles] synonym: "hypaxial muscle" RELATED [XAO:0003228] xref: AAO:0000228 xref: XAO:0003228 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004479 ! musculature of trunk relationship: part_of UBERON:0001774 ! muscle of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: develops_from UBERON:0003895 ! hypaxial myotome region property_value: external_definition "Trunk muscle that lies ventral to the horizontal septum of the vertebrae.[AAO]" xsd:string [Term] id: UBERON:0008778 name: epaxial musclulature namespace: uberon def: "." [Wikipedia:Epaxial_and_Hypaxial_muscles] synonym: "epaxial muscle" EXACT [XAO:0003229] xref: AAO:0000142 xref: XAO:0003229 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004479 ! musculature of trunk relationship: part_of UBERON:0001774 ! muscle of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: develops_from UBERON:0003900 ! epaxial myotome region property_value: external_definition "Trunk muscles that lies dorsal to the horizontal septum.[AAO]" xsd:string [Term] id: UBERON:0008779 name: subclavius namespace: uberon def: "The Subclavius is a small triangular muscle, placed between the clavicle and the first rib. Along with the pectoralis major and pectoralis minor muscles, the subclavius muscle makes up the anterior wall of the axilla." [Wikipedia:Subclavius_muscle] synonym: "musculus subclavius" RELATED LATIN [Wikipedia:Subclavius_muscle] synonym: "subclavicular muscle" RELATED [Wikipedia:Subclavius_muscle] xref: FMA:13410 xref: UMLS:C0224348 xref: http://upload.wikimedia.org/wikipedia/commons/a/a2/Gray411subclavius.png xref: ncithesaurus:Subclavius is_a: UBERON:0001495 ! pectoral muscle relationship: has_muscle_insertion UBERON:0001105 ! clavicle relationship: has_muscle_origin UBERON:0004601 ! rib 1 [Term] id: UBERON:0008780 name: inner cell mass derived epiblast namespace: uberon def: "An epiblast (generic) that develops_from a inner cell mass." [OBOL:automatic] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "embryonic epiblast" RELATED [MP:0003886] xref: EHDAA2:0000444 xref: EHDAA:42 xref: EHDAA:75 xref: EMAPA:16050 xref: UMLS:C1516906 xref: ncithesaurus:Epiblast relationship: develops_from UBERON:0000087 ! inner cell mass relationship: part_of UBERON:0000091 ! bilaminar disc intersection_of: UBERON:0002532 ! epiblast (generic) intersection_of: develops_from UBERON:0000087 ! inner cell mass [Term] id: UBERON:0008781 name: blastodisc derived epiblast namespace: uberon def: "An epiblast (generic) that develops_from a blastodisc." [OBOL:automatic] comment: part of blastodisc in BTO; indirect development in ZFA: df DEL df deep blastomere isa blastomere po blastodisc subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. xref: TAO:0000018 xref: ZFA:0000018 relationship: develops_from UBERON:0004749 ! blastodisc relationship: part_of UBERON:0002541 ! germ ring intersection_of: UBERON:0002532 ! epiblast (generic) intersection_of: develops_from UBERON:0004749 ! blastodisc property_value: dubious_for_taxon NCBITaxon:40674 property_value: axiom_lost_from_external_ontology "relationship type change: subclass embryonic structure (VSAO:0000178) CHANGED TO: develops_from embryonic structure (UBERON:0002050)[TAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass embryonic structure (VSAO:0000178) CHANGED TO: part_of embryonic structure (UBERON:0002050)[TAO]" xsd:string property_value: external_definition "The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0008783 name: dorsal venous arch namespace: uberon def: "The dorsal venous arch of the foot is a superficial vein that connects the small saphenous vein and the great saphenous vein. Anatomically, it is defined by where the dorsal veins of the first and fifth digit, respectively, meet the great saphenous vein and small saphenous vein." [Wikipedia:Dorsal_venous_arch_of_the_foot] synonym: "arcus venosus dorsalis pedis" EXACT LATIN [Wikipedia:Dorsal_venous_arch_of_the_foot] synonym: "dorsal venous arch of foot" EXACT [FMA:44356] xref: FMA:44356 xref: MA:0002110 xref: SCTID:231189006 xref: http://upload.wikimedia.org/wikipedia/commons/4/4e/Gray581.png is_a: UBERON:0001638 ! vein [Term] id: UBERON:0008784 name: lower limb segment namespace: uberon def: "A limb segment that is part of a hindlimb." [OBOL:automatic] synonym: "free lower limb segment" EXACT [FMA:24877] synonym: "free lower limb subdivision" EXACT [FMA:24877] synonym: "segment of free lower limb" EXACT [FMA:24877] synonym: "subdivision of free lower limb" EXACT [FMA:24877] xref: FMA:24877 intersection_of: UBERON:0002529 ! limb segment intersection_of: part_of UBERON:0002103 ! hindlimb [Term] id: UBERON:0008785 name: upper limb segment namespace: uberon def: "A limb segment that is part of a forelimb." [OBOL:automatic] synonym: "free upper limb segment" EXACT [FMA:24876] synonym: "free upper limb subdivision" EXACT [FMA:24876] synonym: "segment of free upper limb" EXACT [FMA:24876] synonym: "subdivision of free upper limb" EXACT [FMA:24876] xref: FMA:24876 intersection_of: UBERON:0002529 ! limb segment intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0008786 name: third trochanter namespace: uberon def: "The upper part of the gluteal tuberosity is often elongated into a roughened crest, on which a more or less well-marked, rounded tubercle, the third trochanter, is occasionally developed." [Wikipedia:Third_trochanter] synonym: "trochanter tertius" RELATED LATIN [Wikipedia:Third_trochanter] xref: FMA:75824 xref: http://upload.wikimedia.org/wikipedia/commons/2/2b/Third_trochanter-tweaked.png is_a: UBERON:0000980 ! trochanter relationship: part_of UBERON:0004412 ! proximal epiphysis of femur [Term] id: UBERON:0008787 name: fourth trochanter namespace: uberon def: "a knob-like feature on the medial side of the femur that serves as a muscle attachment." [Wikipedia:Fourth_trochanter] comment: The fourth trochanter first appeared in the Erythrosuchidae, large basal archosaurian predators of the early Triassic period. This seemingly insignificant detail may have made the evolution of dinosaurs possible (all early dinosaurs and many later ones were bipeds), and may also be connected with the ability of the archosaurs or their immediate ancestors to survive the catastrophic Permian-Triassic extinction event[WP]. is_a: UBERON:0000980 ! trochanter [Term] id: UBERON:0008788 name: posterior cranial fossa namespace: uberon def: "The infratentorial compartment that contains the CEREBELLUM and BRAIN STEM. It is formed by the posterior third of the superior surface of the body of the sphenoid (SPHENOID BONE), by the occipital, the petrous, and mastoid portions of the TEMPORAL BONE, and the posterior inferior angle of the PARIETAL BONE." [MESH:A01.456.830.200, Wikipedia:Posterior_cranial_fossa] synonym: "fossa cranii posterior" RELATED LATIN [Wikipedia:Posterior_cranial_fossa] synonym: "posterior fossa" BROAD [ncithesaurus:Posterior] xref: FMA:54368 xref: GAID:85 xref: MESH:A01.456.830.200 xref: UMLS:C0010265 xref: http://upload.wikimedia.org/wikipedia/commons/c/c2/Posterior_fossa.png xref: ncithesaurus:Posterior_Fossa is_a: UBERON:0004704 ! bone fossa is_a: UBERON:0008789 ! cranial fossa relationship: part_of UBERON:0003128 ! cranium [Term] id: UBERON:0008789 name: cranial fossa namespace: uberon def: "any of the three large depressions in the posterior, middle, and anterior aspects of the floor of the cranial cavity" [http://mw1.merriam-webster.com/medical/cranial%20fossa] comment: editor note - todo - review the relationships for this and its subclasses; the relation should be bounded rather than part of, and contains should be used for the brain parts contained by the fossae relationship: part_of UBERON:0004766 ! cranial bone intersection_of: UBERON:0004704 ! bone fossa intersection_of: part_of UBERON:0003128 ! cranium [Term] id: UBERON:0008790 name: rugal fold namespace: uberon def: "a ridge or fold, such as the rugae of the stomach, which are large folds in the mucous membrane of that organ." [Wikipedia:Rugae, http://medical-dictionary.thefreedictionary.com/Rugal+folds] synonym: "ruga" EXACT [Wikipedia:Rugae] synonym: "rugae" RELATED PLURAL [Wikipedia:Rugae] is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000344 ! mucosa [Term] id: UBERON:0008791 name: rugal fold of stomach namespace: uberon def: "A rugal fold that is part of a stomach." [OBOL:automatic] synonym: "gastric ruga" EXACT [FMA:15106] synonym: "gastric ruga(e)" RELATED [FMA:15106] synonym: "gastric rugae" EXACT PLURAL [FMA:15106] synonym: "ruga of stomach" EXACT [FMA:15106] xref: FMA:15106 xref: SCTID:268518001 xref: UMLS:C0227199 xref: ncithesaurus:Gastric_Rugae is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001199 ! mucosa of stomach intersection_of: UBERON:0008790 ! rugal fold intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0008798 name: rugal fold of vagina namespace: uberon def: "A rugal fold that is part of a vagina." [OBOL:automatic] synonym: "ruga of vagina" EXACT [FMA:19991] synonym: "vaginal ruga" EXACT [FMA:19991] xref: FMA:19991 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0004983 ! mucosa of vagina intersection_of: UBERON:0008790 ! rugal fold intersection_of: part_of UBERON:0000996 ! vagina [Term] id: UBERON:0008799 name: transverse palatine fold namespace: uberon def: "a masticatory vestige on the hard palate; one of several irregular, sometimes branching, crests of soft tissue that radiate from the region of the incisive papillae at their most anterior parts and extend a slight distance backward, crossing the hard palate and reaching laterally for variable distances." [http://www.drugs.com/dict/transverse-palatine-fold.html] comment: note that this class refers to the singular and the FMA class refers to the set. In future this class may be split. synonym: "palatal rugae" EXACT [MP:0009652] synonym: "palatine fold" EXACT [FMA:75652] synonym: "palatine rugae" EXACT PLURAL [FMA:75652] synonym: "plica palatina transversa" EXACT [http://www.drugs.com/dict/transverse-palatine-fold.html] synonym: "plicae palatinae transversae" EXACT LATIN [FMA:75652, FMA:TA] synonym: "ruga of palate" EXACT [UBERON:cjm] synonym: "ruga palatina" EXACT [http://www.drugs.com/dict/transverse-palatine-fold.html] synonym: "rugae of palate" EXACT PLURAL [UBERON:cjm] synonym: "rugae palatinae" EXACT PLURAL [FMA:75652, FMA:TA] synonym: "set of transverse palatine folds" RELATED [FMA:75652] synonym: "transverse palatine folds" EXACT PLURAL [FMA:75652] synonym: "transverse palatine folds set" EXACT PLURAL [FMA:75652] synonym: "transverse palatine ridge" EXACT [http://www.drugs.com/dict/transverse-palatine-fold.html] xref: FMA:75652 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0005046 ! mucosa of hard palate intersection_of: UBERON:0008790 ! rugal fold intersection_of: part_of UBERON:0003216 ! hard palate [Term] id: UBERON:0008800 name: parietal endoderm namespace: uberon def: "primitive endoderm-derived tissue that lines the luminal surface of the mural trophectoderm[MP]" [MP:0011187, PMID:19201946] synonym: "distal endoderm" RELATED [EMAPA:16053] xref: EMAPA:16053 is_a: UBERON:0000478 ! extraembryonic structure relationship: develops_from UBERON:0008780 ! inner cell mass derived epiblast [Term] id: UBERON:0008801 name: parotid gland primordium namespace: uberon xref: EHDAA2:0001413 xref: EHDAA:9246 is_a: UBERON:0001048 ! primordium [Term] id: UBERON:0008802 name: cheek pouch namespace: uberon def: "A pocketlike fold of skin in the cheeks of various animals, such as squirrels, gophers, and monkeys, that functions as a means of carrying food." [BTO:0002224] synonym: "buccal pouch" EXACT [] xref: BTO:0002224 xref: SCTID:31293007 is_a: UBERON:0000014 ! zone of skin is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0008803 ! skin of cheek relationship: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0001567 ! cheek [Term] id: UBERON:0008803 name: skin of cheek namespace: uberon def: "A zone of skin that is part of a cheek." [OBOL:automatic] synonym: "cheek skin" EXACT [FMA:24759] xref: FMA:24759 xref: SCTID:181472009 is_a: UBERON:1000021 ! skin of face intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001567 ! cheek [Term] id: UBERON:0008804 name: stylopharyngeus muscle namespace: uberon def: "The stylopharyngeus is a muscle in the head that stretches between the styloid process and the pharynx." [Wikipedia:Stylopharyngeus_muscle] synonym: "M. stylopharyngeus" RELATED [Wikipedia:Stylopharyngeus_muscle] synonym: "musculus stylopharyngeus" RELATED LATIN [Wikipedia:Stylopharyngeus_muscle] synonym: "stylopharyngeus" EXACT [Wikipedia:Stylopharyngeus_muscle] xref: FMA:46664 xref: SCTID:244806000 xref: UMLS:C1522014 xref: http://upload.wikimedia.org/wikipedia/commons/5/59/Musculusstylopharyngeus.png xref: ncithesaurus:Stylopharyngeus is_a: UBERON:0000933 ! pharyngeal muscle is_a: UBERON:0003831 ! respiratory system muscle is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003114 ! pharyngeal arch 3 relationship: has_muscle_insertion UBERON:0001738 ! thyroid cartilage relationship: has_muscle_origin UBERON:0003960 ! styloid process of temporal bone relationship: in_lateral_side_of UBERON:0001042 ! chordate pharynx relationship: innervated_by UBERON:0001649 ! glossopharyngeal nerve property_value: external_definition "The stylopharyngeus is a pharyngeal arch III muscle that participates in oral/pharyngeal behaviors and is innervated by the n. to stylopharyngeus branch of the glossopharyngeal n. and attaches to the hyoid apparatus and the pharynx.[FEED]" xsd:string [Term] id: UBERON:0008805 name: gingival groove namespace: uberon def: "The gingival sulcus is an area of potential space between a tooth and the surrounding gingival tissue and is lined by sulcular epithelium. The depth of the sulcus (Latin for groove) is bounded by two entities: apically by the gingival fibers of the connective tissue attachment and coronally by the free gingival margin." [Wikipedia:Gingival_sulcus] synonym: "gingival sulcus" EXACT [FMA:74580] synonym: "sulcus gingivalis" EXACT LATIN [FMA:TA, Wikipedia:Gingival_sulcus] xref: FMA:74580 xref: SCTID:245753001 xref: http://upload.wikimedia.org/wikipedia/commons/5/5e/Gingival_sulcus.PNG intersection_of: UBERON:0006800 ! anatomical line intersection_of: adjacent_to UBERON:0001091 ! calcareous tooth intersection_of: adjacent_to UBERON:0001828 ! gingiva [Term] id: UBERON:0008806 name: buccal funnel namespace: uberon synonym: "suctorial disc" EXACT [] synonym: "suctorial disk" EXACT [] is_a: UBERON:0000166 ! oral opening [Term] id: UBERON:0008807 name: coagulating gland namespace: uberon synonym: "anterior prostate gland" EXACT [EMAPA:29794] synonym: "prostate gland anterior lobe" RELATED [MA:0000402] xref: BTO:0000265 xref: EMAPA:29794 xref: MA:0000402 xref: SCTID:78779004 xref: ncithesaurus:Coagulating_Gland is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0010147 ! male accessory sex gland relationship: part_of UBERON:0002367 ! prostate gland [Term] id: UBERON:0008808 name: prostate gland dorsolateral lobe namespace: uberon xref: MA:0001739 is_a: UBERON:0001328 ! lobe of prostate [Term] id: UBERON:0008809 name: foramina of scarpa namespace: uberon def: "In the maxilla, occasionally two additional canals are present in the middle line of the palatine process; they are termed the foramina of Scarpa, and when present transmit the nasopalatine nerves, the left passing through the anterior, and the right through the posterior canal." [Wikipedia:Foramina_of_Scarpa] synonym: "foramina of scarpa" RELATED [Wikipedia:Foramina_of_Scarpa] xref: Wikipedia:Foramina_of_Scarpa xref: http://upload.wikimedia.org/wikipedia/commons/4/4a/Gray160.png is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0005871 ! palatine process of maxilla relationship: surrounds UBERON:0008810 ! nasopalatine nerve [Term] id: UBERON:0008810 name: nasopalatine nerve namespace: uberon def: "One branch of the posterior superior nasal branches (trigeminal, maxillary branch), longer and larger than the others, is named the nasopalatine nerve (sometimes called the long sphenopalatine nerve). It enters the nasal cavity through the sphenopalatine foramen, passes across the roof of the nasal cavity below the orifice of the sphenoidal sinus to reach the septum, and then runs obliquely downward and forward between the periosteum and mucous membrane of the lower part of the septum. It descends to the roof of the mouth through the incisive canal and communicates with the corresponding nerve of the opposite side and with the greater palatine nerve. It supplies the palatal structures around the upper central and lateral incisors and the canines (the upper front six teeth). It also furnishes a few filaments to the mucous membrane of the nasal septum. The medial superior posterior nasal branches of maxillary nerve usually branches from the nasopalatine nerve." [Wikipedia:Nasopalatine_nerve] synonym: "Scarpa's nerve" EXACT [FMA:52797] synonym: "naso-palatine nerve" RELATED [Wikipedia:Nasopalatine_nerve] synonym: "nasopalatine" RELATED [Wikipedia:Nasopalatine_nerve] synonym: "nasopalatine nerves" RELATED [Wikipedia:Nasopalatine_nerve] synonym: "nervus nasopalatinus" RELATED LATIN [Wikipedia:Nasopalatine_nerve] xref: FMA:52797 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray858.png is_a: UBERON:0001021 ! nerve relationship: branch_of UBERON:0000377 ! maxillary nerve [Term] id: UBERON:0008811 name: intromittent organ namespace: uberon def: "an external organ of a male organism that is specialized to deliver sperm during copulation. Intromittent organs are found most often in terrestrial species, as most aquatic species fertilize their eggs externally, although there are exceptions[WP]." [Wikipedia:Intromittent_organ] comment: this is a broad grouping class connecting a number of different analagous organs by their function. We place the insect aedeagus here rather than penis, although this is somewhat arbitrary given the broadness of the current definition subset: grouping_class ! Subset consisting of classes creating for grouping purposes subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "aedeagus" NARROW SENSU [FBbt:00004850] synonym: "penis" NARROW [] xref: AAO:0010255 xref: FBbt:00004850 xref: HAO:0000091 xref: TAO:0002036 xref: TGMA:0000585 is_a: UBERON:0003133 ! reproductive organ is_a: UBERON:0003135 ! male reproductive organ relationship: has_function_in GO:0007620 ! copulation relationship: part_of UBERON:0000079 ! male reproductive system property_value: external_definition "Surface structure that is an external structure of a male organism through which sperm is transferred to a female organism during mating.[TAO]" xsd:string [Term] id: UBERON:0008812 name: hemipenis namespace: uberon def: "one of a pair of intromittent organs of male squamates. Hemipenes are usually held inverted, within the body, and are everted for reproduction via erectile tissue like that in the human penis. Only one is used at a time, and some evidence indicates males alternate use between copulations. The hemipenis itself has a variety of shapes, depending on species. Often the hemipenis bears spines or hooks, in order to anchor the male within the female. Some species even have forked hemipenes (each hemipenis has two tips). Due to being everted and inverted, hemipenes do not have a completely enclosed channel for the conduction of sperm, but rather a seminal groove which seals as the erectile tissue expands" [Wikipedia:Hemipenis] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "hemipenes" RELATED PLURAL [Wikipedia:Hemipenis] xref: SCTID:27265006 is_a: UBERON:0008811 ! intromittent organ [Term] id: UBERON:0008813 name: helicotrema namespace: uberon def: "The part of the cochlear labyrinth where the scala tympani and the scala vestibuli meet. It is the main component of the cochlear apex. The hair cells in this area best detect low frequency sounds." [Wikipedia:Helicotrema] synonym: "Scarpa's orifice" EXACT [FMA:61275] synonym: "apex of cochlea" BROAD [Wikipedia:Cochlea] synonym: "cochlear apex" BROAD [Wikipedia:Cochlea] xref: FMA:61275 xref: SCTID:279775003 xref: UMLS:C0229512 xref: http://upload.wikimedia.org/wikipedia/commons/1/19/Gray923.png xref: ncithesaurus:Helicotrema is_a: UBERON:0000161 ! orifice is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002499 ! cochlear labyrinth [Term] id: UBERON:0008814 name: pharyngeal system namespace: uberon def: "A transient embryonic complex that is specific to vertebrates. It comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming: the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear." [GO:0060037, GOC:dph] synonym: "pharyngeal apparatus" EXACT [] synonym: "pharyngeal arch region" EXACT [EHDAA2:0000187] synonym: "pharyngeal arches and clefts" RELATED [] xref: EHDAA2:0000187 xref: UMLS:C1519038 xref: ncithesaurus:Pharyngeal_Apparatus is_a: UBERON:0002050 ! embryonic structure [Term] id: UBERON:0008815 name: pharyngeal slit namespace: uberon def: "filter-feeding organs found in non-vertebrate chordates (lancelets and tunicates) and hemichordates living in aquatic environments. These repeated segments are controlled by similar developmental mechanisms." [Wikipedia:Pharyngeal_slit] comment: Editor/Taxon notes: requires review. Kardong uses the term pharyngeal slit for Chondrichthyans. 'branchial slit' may also be used for aminiote structures? subset: organ_slim ! organs, excluding individual muscles and skeletal elements is_a: UBERON:0000062 ! organ relationship: has_function_in GO:0007631 ! feeding behavior property_value: never_in_taxon NCBITaxon:7742 [Term] id: UBERON:0008816 name: embryonic head namespace: uberon def: "A head that is part of a embryo." [OBOL:automatic] xref: FBbt:00000155 is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0000033 ! head intersection_of: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0008817 name: thymus primordium endoderm namespace: uberon def: "An endoderm that is part of a thymus primordium." [OBOL:automatic] is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_developmental_contribution_from UBERON:0007124 ! pharyngeal pouch 3 intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0005562 ! thymus primordium [Term] id: UBERON:0008818 name: superior mediastinum namespace: uberon def: "The superior mediastinum is that portion of the interpleural space which lies between the manubrium sterni in front, and the upper thoracic vertebrae behind." [Wikipedia:Superior_mediastinum] synonym: "mediastinum superius" RELATED LATIN [Wikipedia:Superior_mediastinum] synonym: "superior mediastinal part of chest" EXACT [FMA:9827] xref: FMA:9827 xref: SCTID:362687003 xref: UMLS:C0230147 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Mediastinum.png xref: ncithesaurus:Superior_Mediastinum is_a: UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0003728 ! mediastinum [Term] id: UBERON:0008819 name: inferior mediastinum namespace: uberon def: "Anterior, middle and posterior mediastinum." [Wikipedia:Inferior_mediastinum] synonym: "inferior mediastinal part of chest" EXACT [FMA:9828] xref: FMA:9828 xref: SCTID:243950006 is_a: UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0001443 ! chest relationship: part_of UBERON:0003728 ! mediastinum [Term] id: UBERON:0008820 name: anterior mediastinum namespace: uberon def: "The anterior mediastinum exists only on the left side where the left pleura diverges from the mid-sternal line. It is narrow, above, but widens out a little below." [Wikipedia:Anterior_mediastinum] synonym: "anterior mediastinal part of chest" EXACT [FMA:9838] synonym: "mediastinum anterius" RELATED LATIN [Wikipedia:Anterior_mediastinum] xref: FMA:9838 xref: SCTID:261048003 xref: UMLS:C0230148 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Mediastinum.png xref: ncithesaurus:Anterior_Mediastinum is_a: UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0008819 ! inferior mediastinum [Term] id: UBERON:0008821 name: middle mediastinum namespace: uberon def: "The middle mediastinum is the broadest part of the interpleural space. It is made up of the pericardial sac and its contents." [Wikipedia:Middle_mediastinum] synonym: "mediastinum medium" RELATED LATIN [Wikipedia:Middle_mediastinum] synonym: "middle mediastinal part of chest" EXACT [FMA:9839] xref: FMA:9839 xref: SCTID:362688008 xref: UMLS:C0230149 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Mediastinum.png xref: ncithesaurus:Middle_Mediastinum is_a: UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0008819 ! inferior mediastinum [Term] id: UBERON:0008822 name: posterior mediastinum namespace: uberon def: "The posterior mediastinum is an irregular triangular space running parallel with the vertebral column." [Wikipedia:Posterior_mediastinum] synonym: "mediastinum posterius" RELATED LATIN [Wikipedia:Posterior_mediastinum] synonym: "posterior mediastinal part of chest" EXACT [FMA:9840] xref: FMA:9840 xref: SCTID:243957009 xref: UMLS:C0230150 xref: http://upload.wikimedia.org/wikipedia/commons/a/ab/Mediastinum.png xref: ncithesaurus:Posterior_Mediastinum is_a: UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0008819 ! inferior mediastinum [Term] id: UBERON:0008823 name: neural tube derived brain namespace: uberon def: "A brain that develops_from a neural tube." [OBOL:automatic] comment: note that a reasoner should automatically classify all the vertebrate ontology brain classes here synonym: "vertebrate brain" NARROW [] is_a: UBERON:0000489 ! cavitated compound organ relationship: immediate_transformation_of UBERON:0006238 ! future brain relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0000955 ! brain intersection_of: develops_from UBERON:0001049 ! neural tube [Term] id: UBERON:0008824 name: duct of epididymis namespace: uberon def: "A duct that is part of a epididymis." [OBOL:automatic] synonym: "epididymal duct" EXACT [MA:0001735] synonym: "epididymis duct" EXACT [FMA:18297] xref: FMA:18297 xref: MA:0001735 xref: SCTID:279623004 xref: UMLS:C0458632 xref: ncithesaurus:Duct_of_the_Epididymis is_a: UBERON:0000058 ! duct is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005904 ! duct of male reproductive system relationship: part_of UBERON:0001301 ! epididymis intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001301 ! epididymis [Term] id: UBERON:0008826 name: pulmonary surfactant namespace: uberon def: "Secretion produced by Type 2 pulmonary alveolar cell." [FMA:62780] synonym: "alveolar surfactant" EXACT [FMA:62780] synonym: "lung surfactant" EXACT [MA:0002534] xref: FMA:62780 xref: MA:0002534 xref: UMLS:C0034085 xref: ncithesaurus:Lung_Surfactant is_a: UBERON:0006538 ! respiratory system fluid/secretion [Term] id: UBERON:0008827 name: forestomach namespace: uberon comment: This class is based on the murine structure. Other groups, such as cetaceans, also have a forestomach (which is essentially an enlargement of the esophagus) synonym: "murine forestomach" RELATED [] xref: MA:0001606 xref: UMLS:C0033745 xref: ncithesaurus:Forestomach is_a: UBERON:0011954 ! stomach non-glandular region relationship: continuous_with UBERON:0007650 ! esophagogastric junction relationship: continuous_with UBERON:0011953 ! stomach glandular region relationship: part_of UBERON:0000945 ! stomach property_value: external_definition "The mouse stomach contains two well-defined areas, a (nonglandular) forestomach and a glandular stomach, which are separated by the limiting ridge (margo plicatus)[http://ctrgenpath.net/static/atlas/mousehistology/Windows/digestive/forestomach.html]." xsd:string [Term] id: UBERON:0008828 name: presphenoid bone namespace: uberon def: "The anterior part of the body of the sphenoid bone in front of the basisphenoid. It is usually a separate bone in the young or fetus, but becomes a part of the sphenoid in the adult." [Wikipedia:Ossification_of_sphenoid#Presphenoid, http://www.thefreedictionary.com/Presphenoid+bone] comment: todo - account for developmental change synonym: "presphenoidal bone" EXACT [SCTID:95949009] xref: MA:0001470 xref: SCTID:95949009 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: part_of UBERON:0001677 ! sphenoid bone relationship: part_of UBERON:0003111 ! sphenoid region [Term] id: UBERON:0008829 name: cerebellum external granule cell layer namespace: uberon def: "transient layer of the cerebellar cortex present during development which is composed of dividing and migrating granule cells[MP]. The granule neurons migrate from the exterior layer to form an inner layer known as the internal granule layer. The external granular layer ceases to exist in the mature cerebellum, leaving only granule cells in the internal granule layer" [MP:0000874, Wikipedia:Anatomy_of_the_cerebellum#Development] xref: MA:0000994 xref: NIF_GrossAnatomy:birnlex_797 is_a: UBERON:0002956 ! granular layer of cerebellar cortex [Term] id: UBERON:0008830 name: cerebellum internal granule cell layer namespace: uberon xref: MA:0000995 xref: NIF_GrossAnatomy:birnlex_790 xref: UMLS:C1708540 xref: ncithesaurus:Internal_Granular_Layer_of_the_Cerebellum is_a: UBERON:0002956 ! granular layer of cerebellar cortex [Term] id: UBERON:0008831 name: inner spiral sulcus namespace: uberon def: "a concavity in the floor of the cochlear duct formed by the overhanging vestibular lip." [http://www.drugs.com/dict/inner-spiral-sulcus.html] comment: part_of spiral sulcus in MA synonym: "internal spiral sulcus" EXACT [MA:0001197] synonym: "sulcus spiralis internus" EXACT [http://www.drugs.com/dict/inner-spiral-sulcus.html] xref: FMA:77850 xref: MA:0001197 is_a: UBERON:0002277 ! spiral sulcus [Term] id: UBERON:0008832 name: outer spiral sulcus namespace: uberon def: "a concavity in the outer wall of the cochlear duct between the spiral prominence and the spiral organ." [http://www.drugs.com/dict/outer-spiral-sulcus.html] comment: part_of spiral sulcus in MA synonym: "external spiral sulcus" EXACT [MA:0001196] synonym: "sulcus spiralis externus" EXACT [http://www.drugs.com/dict/outer-spiral-sulcus.html] xref: FMA:77851 xref: MA:0001196 is_a: UBERON:0002277 ! spiral sulcus [Term] id: UBERON:0008833 name: great auricular nerve namespace: uberon def: "The great auricular nerve originates from the cervical plexus, composed of branches of spinal nerves C2 and C3. It provides sensory innervation for the skin over parotid gland and mastoid process, and both surfaces of the outer ear." [Wikipedia:Great_auricular_nerve] comment: todo - check MA grouping; in MA this is part_of pinna - should this be a different relationship? synonym: "auricular nerve" EXACT [MA:0001232] synonym: "great auricular" RELATED [Wikipedia:Great_auricular_nerve] synonym: "greater auricular nerve" RELATED [Wikipedia:Great_auricular_nerve] synonym: "nervus auricularis magnus" RELATED LATIN [Wikipedia:Great_auricular_nerve] xref: FMA:6872 xref: MA:0001232 xref: SCTID:181110003 xref: Wikipedia:Great_auricular_nerve xref: http://upload.wikimedia.org/wikipedia/commons/d/dc/Gray805.png is_a: UBERON:0002003 ! peripheral nerve relationship: branch_of UBERON:0003725 ! cervical plexus [Term] id: UBERON:0008834 name: prostomium namespace: uberon def: "The first body segment in annelids worms. It is in front of (but does not include) the mouth, being usually a small shelf- or lip-like extension over the dorsal side of the mouth. It sometimes bears antennae and eyes. By feeding, it often functions like a kind of overlip. The shape and composition of prostomium are important for annelid systematics." [Wikipedia:Prostomium] synonym: "acron" RELATED [BTO:0004198] xref: BTO:0004198 is_a: UBERON:0000914 ! organismal segment [Term] id: UBERON:0008835 name: hepatic diverticulum namespace: uberon def: "The first morphological sign of the embryonic liver is the formation of the hepatic diverticulum, an out-pocket of thickened ventral foregut epithelium adjacent to the developing heart. The anterior portion of the hepatic diverticulum gives rise to the liver and intrahepatic biliary tree, while the posterior portion forms the gall bladder and extrahepatic bile duct." [Wikipedia:Hepatic_diverticulum, http://www.stembook.org/node/512] synonym: "diverticulum hepaticum" RELATED LATIN [Wikipedia:Hepatic_diverticulum] synonym: "liver diverticulum" EXACT [XAO:0000101] xref: AAO:0011057 xref: EHDAA2:0000740 xref: EHDAA:1530 xref: UMLS:C1512407 xref: XAO:0000101 xref: http://upload.wikimedia.org/wikipedia/commons/4/4f/Gray1088.png xref: ncithesaurus:Hepatic_Diverticulum is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007499 ! epithelial sac is_a: UBERON:0009497 ! epithelium of foregut-midgut junction is_a: UBERON:0009854 ! digestive tract diverticulum relationship: develops_from UBERON:0003894 ! liver primordium relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0006235 ! foregut-midgut junction [Term] id: UBERON:0008836 name: liver bud namespace: uberon xref: BTO:0001642 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0008835 ! hepatic diverticulum [Term] id: UBERON:0008837 name: palmar/plantar part of autopod namespace: uberon is_a: UBERON:0002529 ! limb segment relationship: part_of UBERON:0002470 ! autopod region [Term] id: UBERON:0008838 name: metapodial pad namespace: uberon def: "A thick, spongy layer of tissue located under the metacarpal and metatarsal joints of the foot" [ncithesaurus:Footpad] comment: Editor notes: check synonyms - re footpad synonym: "foot pad" RELATED [] synonym: "footpad" RELATED [] synonym: "metapodium pad" RELATED [] xref: ncithesaurus:Footpad intersection_of: UBERON:0012348 ! autopod pad intersection_of: part_of UBERON:0009877 ! metapodium region [Term] id: UBERON:0008839 name: palmar pad namespace: uberon def: "An autopod pad that is in the metacarpal region" [UBERON:cjm] comment: note that the EMAPA term refers to the plural synonym: "metacarpal foot pad" RELATED [] synonym: "metacarpal pad" RELATED [] synonym: "palmar pads" RELATED PLURAL [EMAPA:18489] xref: EMAPA:18489 is_a: UBERON:0013622 ! manual autopod pad relationship: part_of UBERON:0001519 ! skin of manus relationship: part_of UBERON:0008878 ! palmar part of manus intersection_of: UBERON:0008838 ! metapodial pad intersection_of: part_of UBERON:0004453 ! metacarpus region [Term] id: UBERON:0008840 name: plantar pad namespace: uberon def: "An autopod pad that is in the metatarsal region" [UBERON:cjm] synonym: "metatarsal foot pad" RELATED [] synonym: "metatarsal pad" RELATED [] synonym: "plantar pads" RELATED PLURAL [EMAPA:18507] xref: EMAPA:18507 is_a: UBERON:0013623 ! pedal autopod pad relationship: part_of UBERON:0001513 ! skin of pes relationship: part_of UBERON:0008338 ! plantar part of pes intersection_of: UBERON:0008838 ! metapodial pad intersection_of: part_of UBERON:0000983 ! metatarsus region property_value: external_definition "The canine metatarsal pad is large and heart-shaped, and functions to cushion the foot. The pad is covered by a naked, densely cornified epidermis, which is usually highly pigmented and is the toughest region of the canine skin. The digital cushion or bulk of the foot pad is composed of a subcutaneous adipose tissue, partitioned by reticular, collagenous and elastic fibres. The subcutis of the canine footpads contains sweat glands embedded in the adipose tissue. The ducts of these glands channel through the thick epidermis of the foot pad. The secretions from these glands function as territorial or trail markers[MURDOCH:1334]." xsd:string [Term] id: UBERON:0008841 name: suspensory ligament namespace: uberon def: "A ligament that supports a body part, especially an organ." [Wikipedia:Cooper%27s_ligaments_of_penis] is_a: UBERON:0008845 ! nonskeletal ligament [Term] id: UBERON:0008842 name: suspensory ligament of testis namespace: uberon def: "The cranial atrophic portion of the urogenital ridge attached to the cranial pole of the intraabdominal embryonic testis" [Wikipedia:Scrotal_ligament, http://www.medilexicon.com/medicaldictionary.php?t=49790] is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0008841 ! suspensory ligament relationship: part_of UBERON:0004876 ! urogenital ridge intersection_of: UBERON:0008841 ! suspensory ligament intersection_of: attaches_to UBERON:0000473 ! testis [Term] id: UBERON:0008843 name: gubernaculum testis namespace: uberon def: "The fetal ligament attached to the inferior end of the epididymis and testis and, at its other end, to the bottom of the scrotum; it is present during, and is thought to guide, the descent of the testis into the scrotum and then atrophies." [BTO:0002813] comment: The upper part of the gubernaculum degenerates; The lower part persists as the gubernaculum testis (\"scrotal ligament\"). This ligament secures the testis to the most inferior portion of the scrotum, tethering it in place and limiting the degree to which the testis can move within the scrotum[WP] synonym: "Hunter's gubernaculum" RELATED [BTO:0002813] xref: BTO:0002813 xref: EMAPA:19089 xref: FMA:20421 xref: SCTID:299983007 intersection_of: UBERON:0004346 ! gubernaculum intersection_of: part_of UBERON:0000079 ! male reproductive system [Term] id: UBERON:0008844 name: gubernaculum (female) namespace: uberon def: "A gubernaculum that is part of a female reproductive system." [OBOL:automatic] comment: The upper part of the gubernaculum, together with the ovarian artery and vein form the suspensory ligament of the ovary,[1] which suspends the ovary from the pelvic wall.; The lower gubernaculum has two vestigial remnants in females, the ovarian ligament and the round ligament of the uterus (ligamentum teres uteri) which respectively serve to support the ovaries and uterus in the pelvis intersection_of: UBERON:0004346 ! gubernaculum intersection_of: part_of UBERON:0000474 ! female reproductive system [Term] id: UBERON:0008845 name: nonskeletal ligament namespace: uberon def: "Ligament organ that primarily consists of dense connective tissue aggregated into fasciculi which may be admixed with smooth muscle. Examples: ligament of liver, ovarian ligament." [FMA:25625] synonym: "fibrous ligament" RELATED [Wikipedia:Ligament] synonym: "non-skeletal ligament" EXACT [] xref: FMA:25625 xref: MA:0003004 xref: SCTID:410746001 is_a: UBERON:0000211 ! ligament disjoint_from: UBERON:0008846 ! skeletal ligament [Term] id: UBERON:0008846 name: skeletal ligament namespace: uberon def: "Ligament organ that primarily consists of regular dense connective tissue aggregated into fasciculi; connects bone and cartilage organs. Examples: sutural ligament, ligament of pinna, tarsal ligament." [FMA:25624, Wikipedia:Ligament#Articular_ligaments] comment: Editor notes: logical definition deliberately made strict to avoid classifying MA:spiral ligament as both nonskeletal and skeletal. see https://sourceforge.net/tracker/?group_id=76834&atid=1205376 synonym: "articular larua" EXACT [Wikipedia:Ligament] synonym: "articular ligament" EXACT [Wikipedia:Ligament] synonym: "ligament" BROAD [VSAO:0000072, ZFA:0001675] synonym: "true ligament" EXACT [Wikipedia:Ligament] xref: AAO:0010444 xref: AEO:0000090 xref: EHDAA2:0003232 xref: EV:0100144 xref: FMA:25624 xref: GAID:118 xref: MA:0003005 xref: SCTID:410744003 xref: VSAO:0000072 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/9a/Knee_diagram.svg/200px-Knee_diagram.svg.png is_a: UBERON:0000211 ! ligament relationship: connects UBERON:0004765 ! skeletal element relationship: has_part CL:0000057 ! fibroblast relationship: has_part CL:0000327 ! extracellular matrix secreting cell intersection_of: UBERON:0000211 ! ligament intersection_of: connects UBERON:0004765 ! skeletal element intersection_of: part_of UBERON:0001434 ! skeletal system property_value: external_definition "Dense regular connective tissue connecting two or more adjacent skeletal elements or supporting an organ.[VSAO]" xsd:string [Term] id: UBERON:0008847 name: ovarian ligament namespace: uberon def: "a fibrous ligament that connects the ovary to the lateral surface of the uterus." [Wikipedia:Ovarian_ligament] comment: The ligament runs in the broad ligament of the uterus, which is a fold of peritoneum rather than a fibrous ligament. Specifically, it is located in the parametrium synonym: "ligament of ovary" EXACT [FMA:55422] synonym: "ligamentum ovarii proprium" EXACT LATIN [FMA:TA] synonym: "proper ovarian ligament" EXACT [FMA:55422] xref: FMA:55422 xref: SCTID:279915004 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0008845 ! nonskeletal ligament relationship: attaches_to UBERON:0000992 ! female gonad relationship: attaches_to UBERON:0000995 ! uterus relationship: develops_from UBERON:0004346 ! gubernaculum [Term] id: UBERON:0008848 name: cranial suspensory ligament namespace: uberon def: "Connects the cranial tip of the future gonad to the dorsocranial abdominal cavity." [] comment: todo - check - add cranial ovarian susp ligaments xref: EMAPA:30068 is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0008841 ! suspensory ligament relationship: part_of UBERON:0003135 ! male reproductive organ [Term] id: UBERON:0008851 name: ectoplacental cavity namespace: uberon def: "closed space within the ectoplacental cone, formed by the fusion of the parts of the amniotic fold that separate it from the amniotic cavity[MP]. a developmental cavity that exists in some mammals and is derived by division of the proamniotic space; it is further removed from the embryo than the amniotic cavity in some mammals" [MP:0011207, http://www.medilexicon.com/medicaldictionary.php?s=epamniotic+cavity] synonym: "chorionic cavity" RELATED [MP:0011207] synonym: "epamniotic cavity" EXACT [MP:0011207, http://www.medilexicon.com/medicaldictionary.php?s=epamniotic+cavity] xref: EMAPA:16080 relationship: part_of UBERON:0004364 ! ectoplacental cone intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0004364 ! ectoplacental cone [Term] id: UBERON:0008852 name: visceral yolk sac namespace: uberon def: "extraembryonic tissue membrane, formed from the visceral endoderm and the extraembryonic mesoderm, which is located ventral to the embryonic disc and is connected to the presumptive midgut of the embryo; the yolk that it contains is the site of embryonic hematopoiesis and vitelline circulation is involved in early embryonic circulation; it is the origin of the primordial germ cells" [MP:0001718] comment: TODO - check synonym: "secondary yolk sac" EXACT [MP:0001718] synonym: "umbilical vesicle" EXACT [MP:0001718] synonym: "vitelline sac" EXACT [MP:0001718] synonym: "yolk sac" BROAD [MP:0001718] is_a: UBERON:0001040 ! yolk sac [Term] id: UBERON:0008853 name: parietal yolk sac namespace: uberon def: "tissue that consists of two cellular layers (parietal endoderm and trophoblast) separated by a relatively thick nonvascular basement membrane (Reichert's membrane), and acts as a protective layer to supports and facilitates transport of nutrients between the uterine tissue and the yolk sac cavity." [MP:0011203, PMID:1150659, PMID:21123814] synonym: "primary yolk sac" EXACT [MP:0011203] xref: EHDAA2:0003237 is_a: UBERON:0001040 ! yolk sac [Term] id: UBERON:0008854 name: root of molar tooth namespace: uberon def: "the part of a molar tooth that is implanted in the gum; mandibular and maxillary molars usually have two and three roots, respectively." [MP:0011165] synonym: "molar root" EXACT [FMA:85302] synonym: "molar tooth root" EXACT [FMA:85302] xref: FMA:85302 is_a: UBERON:0003677 ! tooth root intersection_of: UBERON:0003677 ! tooth root intersection_of: part_of UBERON:0003655 ! molar tooth [Term] id: UBERON:0008855 name: placenta metrial gland namespace: uberon def: "group of granular epithelial cells in the uterine muscle beneath the placenta that develops during pregnancy in rodents and some other species." [MP:0010777] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: MA:0001723 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002530 ! gland is_a: UBERON:0005398 ! female reproductive gland relationship: part_of UBERON:0002450 ! decidua property_value: never_in_taxon NCBITaxon:9443 [Term] id: UBERON:0008856 name: stomach muscularis externa namespace: uberon def: "the smooth muscle layer of the stomach wall that functions to churn and mix food and gastric secretions as well as to move food along the digestive tract to the intestines" [MP:0010779] synonym: "gastric muscularis" EXACT [FMA:14909] synonym: "muscle layer of stomach" EXACT [FMA:14909] synonym: "muscularis externa of stomach" EXACT [FMA:14909] synonym: "tunica muscularis (gaster)" EXACT [FMA:14909] synonym: "tunica muscularis gastris" EXACT [] xref: FMA:14909 xref: SCTID:362132003 is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004222 ! stomach smooth muscle is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0001167 ! wall of stomach intersection_of: UBERON:0006660 ! muscle layer intersection_of: part_of UBERON:0001167 ! wall of stomach [Term] id: UBERON:0008857 name: stomach smooth muscle circular layer namespace: uberon def: "the middle layer of the muscularis; it is continuous with the circular layer of the esophagus, but is absent in the fundus and lies concentric to the longitudinal axis of the stomach; the circular layer is normally tonically constricted forming a functional pyloric sphincter, which controls the movement of chyme into the duodenum" [MP:0010780] comment: todo - check synonym: "circular layer of gastric muscularis" EXACT [FMA:14911] synonym: "circular muscle layer of stomach" EXACT [FMA:14911] synonym: "stratum circulare (tunica muscularis)(gaster)" EXACT [FMA:14911] synonym: "stratum circulare gastris" EXACT [] xref: FMA:14911 xref: MA:0001628 xref: SCTID:2746007 is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004222 ! stomach smooth muscle is_a: UBERON:0009034 ! stomach region is_a: UBERON:0012368 ! circular muscle layer relationship: part_of UBERON:0008856 ! stomach muscularis externa [Term] id: UBERON:0008858 name: pyloric canal namespace: uberon def: "the short narrow part of the stomach extending from the pyloric antrum to the pyloric sphincter" [MP:0010791, Wikipedia:Pyloric_canal] synonym: "canalis pyloricus" EXACT LATIN [Wikipedia:Pyloric_canal] xref: FMA:14580 xref: SCTID:245417002 xref: http://upload.wikimedia.org/wikipedia/commons/3/33/Illu_stomach.jpg is_a: UBERON:0009870 ! zone of stomach relationship: continuous_with UBERON:0001165 ! pyloric antrum relationship: continuous_with UBERON:0001202 ! pyloric sphincter relationship: part_of UBERON:0001166 ! pylorus [Term] id: UBERON:0008859 name: cardiac gastric gland namespace: uberon def: "A gastric gland in the cardiac region of the stomach; cardiac glands are fewer in number than in the fundus and body, and secrete mucin which coats the stomach and protects it[MP]" [MP:0010795, Wikipedia:Cardiac_glands] comment: Consistency note: Kardong places this in the glandular epithelium, FMA more generally in the mucosa subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "cardiac gland" RELATED [FMA:14920] synonym: "gardiac gland" EXACT [ISBN10:0073040584] synonym: "gastric cardiac gland" EXACT [FMA:14920] synonym: "gastric gland of cardia" EXACT [FMA:14920] synonym: "glandula cardiaca (gaster)" EXACT [FMA:14920] xref: FMA:14920 xref: SCTID:8894005 relationship: has_part CL:0000319 ! mucus secreting cell relationship: part_of UBERON:0004996 ! mucosa of cardia of stomach intersection_of: UBERON:0000325 ! gastric gland intersection_of: part_of UBERON:0001162 ! cardia of stomach property_value: external_definition "The cardiac glands of the stomach secrete primarily mucus. They are few in number and occur close to the cardiac orifice where the esophagus joins the stomach. In general, they are more shallow than those in the other parts of the stomach. They are of two kinds: (1) simple tubular glands resembling those of the pyloric end of the stomach, but with short ducts. (2) compound racemose glands resembling the duodenal glands. The cardiac gland is both innervated by the parasympathetic and symapthetic nerve fibres of the autonomic nervous system[Wikipedia:Cardiac_glands]." xsd:string [Term] id: UBERON:0008860 name: intermediate gastric gland namespace: uberon def: "any of the branched tubular glands in the mucosa of the fundus and body of the stomach that secrete most of the digestive substances secreted by the stomach" [MP:0010796] comment: check me is_a: UBERON:0000325 ! gastric gland is_a: UBERON:0010038 ! fundic gastric gland relationship: part_of UBERON:0001160 ! fundus of stomach [Term] id: UBERON:0008861 name: pyloric gastric gland namespace: uberon def: "the gastric glands in the pyloric region of the stomach; the pyloric glands secrete mucin, which coats the stomach and protects it, and hormones such as gastrin and enkephalin[MP]." [MP:0010797, Wikipedia:Pyloric_gland] comment: Editors note: check relationship to pylorus vs antrum synonym: "glandula pylorica" EXACT [FMA:14922] synonym: "pyloric antrum gland" EXACT [OBOL:automatic] synonym: "pyloric gland" EXACT [FMA:14922] xref: FMA:14922 xref: SCTID:70710007 xref: UMLS:C0227239 xref: http://upload.wikimedia.org/wikipedia/commons/b/bf/Gray1054.png xref: ncithesaurus:Pyloric_Gland relationship: has_part CL:0000319 ! mucus secreting cell relationship: has_quality PATO:0001873 ! cylindrical relationship: part_of UBERON:0004998 ! mucosa of pylorus intersection_of: UBERON:0000325 ! gastric gland intersection_of: part_of UBERON:0001166 ! pylorus [Term] id: UBERON:0008862 name: stomach smooth muscle inner oblique layer namespace: uberon def: "the innermost layer of the muscularis; it is not present in all sections of the stomach but is clearly seen in the fundus and near the lesser curvature of the corpus; the oblique fibers disappear distally (towards the pyloric antrum); the oblique layer is responsible for creating the motion that churns and physically breaks down the food" [MP:0010804] is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002385 ! muscle tissue relationship: part_of UBERON:0008856 ! stomach muscularis externa [Term] id: UBERON:0008863 name: stomach smooth muscle outer longitudinal layer namespace: uberon def: "the most superficial layer of the muscularis; it has two sections, a longitudinal layer that is common with the esophagus and ends in the corpus, and a longitudinal layer that originates in the corpus and spreads into the duodenum" [MP:0010805] is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0009034 ! stomach region is_a: UBERON:0012369 ! longitudinal muscle layer relationship: part_of UBERON:0008856 ! stomach muscularis externa [Term] id: UBERON:0008866 name: enamel knot namespace: uberon def: "a transient cluster of cells in the central part of the dental epithelium facing the dental mesenchyme, which acts as an organizing center, providing positional information for tooth morphogenesis and regulating the growth of tooth cusps" [MP:0010864] is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0003843 ! dental epithelium relationship: part_of UBERON:0005176 ! tooth enamel organ [Term] id: UBERON:0008867 name: trabecular network of bone namespace: uberon def: "the network of intersecting plates and spicules in cancellous bone which form a meshwork of intercommunicating spaces filled with blood vessels and marrow; in mature bone, the trabeculae are aligned in parallel with the lines of major compressive or tensile force" [MP:0010867] comment: Editor note: consider revision - we have 3 classes, the tissue itself, the network, and the spaces. synonym: "bone trabecula" RELATED [MP:0010867] synonym: "bone trabeculae" RELATED [MP:0010867] xref: MP:0010867 xref: UMLS:C2826619 xref: ncithesaurus:Bone_Trabeculae is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002483 ! trabecular bone tissue [Term] id: UBERON:0008870 name: pulmonary alveolar parenchyma namespace: uberon def: "the distinguishing cell types of the lung alveolar tissue, including pulmonary epithelial cells (pneumocytes), alveolar capillary endothelial cells, interstitial cells (fibroblasts) and alveolar macrophages" [MP:0010901] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0008946 ! lung parenchyma intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002299 ! alveolus of lung [Term] id: UBERON:0008872 name: pulmonary alveolus wall namespace: uberon def: "." [MP:0010903] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002299 ! alveolus of lung [Term] id: UBERON:0008873 name: alveolar pore namespace: uberon def: "the openings in the alveolar septum that permit air flow between adjacent alveoli" [MP:0010904] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002299 ! alveolus of lung [Term] id: UBERON:0008874 name: pulmonary acinus namespace: uberon def: "the part of the airway consisting of a respiratory bronchiole and all of its branches" [MP:0010911, Wikipedia:Acinus#The_Lungs] synonym: "primary pulmonary lobule" EXACT [FMA:7313] xref: FMA:7313 xref: SCTID:361365004 xref: UMLS:C0225696 xref: ncithesaurus:Pulmonary_Acinus is_a: UBERON:0010368 ! pulmonary lobule relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0008875 name: hypodermis fat layer namespace: uberon def: "the superficial portion of the subcutaneous tissue which is specialized for fat storage" [MP:0011156] is_a: UBERON:0002190 ! subcutaneous adipose tissue relationship: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0008876 name: hypodermis muscle layer namespace: uberon def: "the skeletal muscle layer in the superficial fascia" [MP:0011157] is_a: UBERON:0001134 ! skeletal muscle tissue relationship: part_of UBERON:0002190 ! subcutaneous adipose tissue [Term] id: UBERON:0008877 name: epidermal-dermal junction namespace: uberon def: "the multi-layer basement membrane between the dermis and epidermis that serves to adhere the dermis and epidermis, provide mechanical support for the epidermis, and forms a barrier to cells and large molecules across the junction" [MP:0011159] synonym: "dermal-epidermal junction" EXACT [FMA:70963] synonym: "dermo-epidermal junction" EXACT [] synonym: "dermoepidermal junction" EXACT [FMA:70963] synonym: "epidermal dermol junction" EXACT [] xref: FMA:70963 xref: SCTID:51025007 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005769 ! basement membrane relationship: adjacent_to UBERON:0001003 ! epidermis relationship: adjacent_to UBERON:0002067 ! dermis relationship: part_of UBERON:0000014 ! zone of skin [Term] id: UBERON:0008878 name: palmar part of manus namespace: uberon synonym: "front of hand" EXACT [FMA:24920] synonym: "palm" EXACT [FMA:24920] synonym: "palm of hand" EXACT [FMA:24920] synonym: "palmar region" EXACT [FMA:24920] synonym: "regio palmaris" EXACT LATIN [FMA:TA] xref: FMA:24920 xref: UMLS:C0931849 xref: galen:Palm xref: ncithesaurus:Palmar_Region is_a: UBERON:0005451 ! segment of manus is_a: UBERON:0008837 ! palmar/plantar part of autopod [Term] id: UBERON:0008879 name: ligament of pinna namespace: uberon comment: subclasses (anterior, superior, posterior) can be added on request synonym: "auricular ligament" EXACT [MA:0001228] synonym: "ligament of auricle" EXACT [FMA:61035] synonym: "pinna ligament" EXACT [FMA:61035] xref: FMA:61035 xref: MA:0001228 xref: SCTID:362548009 is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0008846 ! skeletal ligament relationship: part_of UBERON:0001757 ! pinna [Term] id: UBERON:0008880 name: annelid pygidium namespace: uberon def: "Rearmost segment of annelid worms." [Wikipedia:Annelid#Segmentation] is_a: UBERON:0000914 ! organismal segment [Term] id: UBERON:0008881 name: rostral migratory stream namespace: uberon def: "Unique telencephalic subventricular zones that extend from the lateral ventricles into the olfactory bulbs. Newly produced GABAergic interneurons migrate along the RMS and settle in the bulb[NIF]. In rodents, the anterior region of the SVZ produces neuroblasts that migrate in chain toward the olfactory bulb along the so-called rostral migratory stream (RMS)[BTO]. the transient structure formed by neurons migrating from the subventricular zone into the olfactory bulbs[MP] The rostral migratory stream (RMS) or rostral migratory pathway is a pathway, found in the brain of some animals, along which neuronal precursors that originated in the subventricular zone (SVZ) of the brain migrate to reach the main olfactory bulb, where they differentiate into interneurons. Neurogenesis has been shown to occur in the SVZ into adulthood[WP]" [] synonym: "RMS" RELATED ABBREVIATION [BTO:0003412] synonym: "rostral migratory pathway" RELATED [Wikipedia:Rostral_migratory_stream] xref: BTO:0003412 xref: NIF_GrossAnatomy:birnlex_1702 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: connects UBERON:0002264 ! olfactory bulb relationship: connects UBERON:0004922 ! postnatal subventricular zone relationship: overlaps UBERON:0002285 ! telencephalic ventricle relationship: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0008882 name: spinal cord commissure namespace: uberon def: "The nerve fiber tracts that span the midline of the spinal cord" [MP:0009694] is_a: UBERON:0007699 ! tract of spinal cord intersection_of: UBERON:0001020 ! commissure intersection_of: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0008883 name: osteoid namespace: uberon def: "Bone tissue that is an unmineralized bone matrix deposited by osteoblasts prior to the mineralization of bone tissue" [VSAO:0000046, Wikipedia:Osteoid] comment: AO notes: Note that in VSAO this was classified both as tissue and acellular extracellular matrix. Consider also the AEO class 'bone condensation'. is_a intercellular matrix in FMA. synonym: "pre-bone" EXACT [PSPUB:0000170] synonym: "prebone" EXACT [VSAO:curator] synonym: "prebone tissue" EXACT [FMA:66830] xref: FMA:66830 xref: SCTID:39365008 xref: UMLS:C0682561 xref: VSAO:0000046 xref: XAO:0004035 xref: galen:Osteoid xref: http://upload.wikimedia.org/wikipedia/commons/9/9c/Active_osteoblasts.jpg xref: ncithesaurus:Osteoid is_a: UBERON:0002481 ! bone tissue is_a: UBERON:0007475 ! matrix-based tissue relationship: composed_primarily_of GO:0005578 ! proteinaceous extracellular matrix property_value: axiom_lost_from_external_ontology "relationship loss: subclass proteinaceous extracellular matrix (VSAO:0000021)[VSAO]" xsd:string property_value: external_definition "Bone tissue that is an unmineralized bone matrix deposited by osteoblasts prior to the mineralization of bone tissue.[VSAO]" xsd:string [Term] id: UBERON:0008884 name: left putamen namespace: uberon def: "A putamen that is part of a left cerebral hemisphere." [OBOL:automatic] xref: FMA:72829 intersection_of: UBERON:0001874 ! putamen intersection_of: part_of UBERON:0002812 ! left cerebral hemisphere [Term] id: UBERON:0008885 name: right putamen namespace: uberon def: "A putamen that is part of a right cerebral hemisphere." [OBOL:automatic] xref: FMA:72828 intersection_of: UBERON:0001874 ! putamen intersection_of: part_of UBERON:0002813 ! right cerebral hemisphere [Term] id: UBERON:0008886 name: pulmonary vascular system namespace: uberon def: "The part of the cardiovascular system consisting of all pulmonary arteries and all pulmonary veins." [ISBN10:0073040584, Wikipedia:Pulmonary_circulation] synonym: "pulmonary system" EXACT [ISBN10:0073040584] synonym: "pulmonary circulatory system" EXACT [FMA:45621] xref: FMA:45621 is_a: UBERON:0007798 ! vascular system relationship: part_of UBERON:0004535 ! cardiovascular system property_value: external_definition "Subdivision of cardiovascular system which has as its parts the pulmonary arterial and venous tree organs.[FMA]" xsd:string [Term] id: UBERON:0008887 name: rectal venous plexus namespace: uberon def: "The hemorrhoidal plexus (or rectal venous plexus) surrounds the rectum, and communicates in front with the vesical venous plexus in the male, and the uterovaginal plexus in the female. A free communication between the portal and systemic venous systems is established through the hemorrhoidal plexus." [Wikipedia:Rectal_venous_plexus] synonym: "haemorrhoidal plexus" RELATED [Wikipedia:Rectal_venous_plexus] synonym: "hemorrhoidal plexus" RELATED [Wikipedia:Rectal_venous_plexus] synonym: "plexus venosus rectalis, plexus haemorrhoidalis" RELATED LATIN [Wikipedia:Rectal_venous_plexus] xref: FMA:18933 xref: SCTID:303051005 xref: UMLS:C0226766 xref: http://upload.wikimedia.org/wikipedia/commons/6/69/Gray587.png xref: ncithesaurus:Hemorrhoidal_Plexus is_a: UBERON:0001593 ! venous plexus intersection_of: UBERON:0001593 ! venous plexus intersection_of: surrounds UBERON:0001052 ! rectum [Term] id: UBERON:0008888 name: vesical venous plexus namespace: uberon def: "The vesical plexus envelops the lower part of the bladder and the base of the prostate and communicates with the pudendal and prostatic plexuses. It is drained, by means of several vesical veins, into the hypogastric veins." [Wikipedia:Vesical_venous_plexus] synonym: "plexus venosus vesicalis" RELATED LATIN [Wikipedia:Vesical_venous_plexus] xref: FMA:18934 xref: SCTID:31510008 xref: http://upload.wikimedia.org/wikipedia/commons/b/bd/Gray585.png is_a: UBERON:0001593 ! venous plexus [Term] id: UBERON:0008889 name: uterine venous plexus namespace: uberon def: "The uterine plexuses lie along the sides and superior angles of the uterus between the two layers of the broad ligament, and communicate with the ovarian and vaginal plexuses. They are drained by a pair of uterine veins on either side: these arise from the lower part of the plexuses, opposite the external orifice of the uterus, and open into the corresponding hypogastric vein." [Wikipedia:Uterine_venous_plexus] synonym: "plexus venosus uterinus" RELATED LATIN [Wikipedia:Uterine_venous_plexus] synonym: "uterine plexus" RELATED [Wikipedia:Uterine_venous_plexus] xref: FMA:29712 xref: SCTID:294553007 xref: http://upload.wikimedia.org/wikipedia/commons/d/d4/Gray589.png is_a: UBERON:0001593 ! venous plexus [Term] id: UBERON:0008891 name: external gill namespace: uberon def: "External gills are the gills of an animal, most typically an amphibian, that are exposed to the environment, rather than set inside the pharynx and covered by gill slits, as they are in most fishes[BTO]." [BTO:0004689, Wikipedia:External_gills] xref: AAO:0010174 xref: BTO:0004689 xref: XAO:0000120 is_a: UBERON:0002535 ! gill is_a: UBERON:0003102 ! surface structure property_value: external_definition "External gills are the gills of an animal, most typically an amphibian, that are exposed to the environment, rather than set inside the pharynx and covered by gill slits, as they are in most fishes. Instead, the respiratory organs are set on a frill of stalks protruding from the sides of an animals head. This type of gill is most commonly observed on the aquatic larva of most species of salamanders, lungfish, and bichirs (which have only one large pair), and are retained by neotenic adult salamanders and some species of adult lungfish. They are present on non-transforming salamander species such as the mudpuppy, as well as most members of the Proteidae and Sirenidae families, which naturally never metamorphose into an air-breathing form. The embryos of frogs and caecilians also develop external gills at some point in their development, though these are either resorbed before or disappear shortly after hatching. Fossils of the distant relatives of modern amphibians, such as Branchiosaurus and Apateon, also show evidence of external gills. The external gills commonly consist of a single stalk (rami) protruding from a gill arch behind the head of the animal, above an associated gill slit. The stalk usually contains muscle tissue, and may be moved by the animal as a free appendage, in order to stir up stagnant water. The stalk is lined by many thinly walled filaments (fimbriae), containing the majority of blood vessels used in gas exchange. Animals usually have one external gill originating on each gill arch (except the hyoid), which leads to there being three pairs of external gills in salamanders, and four in the gilled larvae of lungfish[Wikipedia:External_gills]." xsd:string [Term] id: UBERON:0008892 name: internal gill namespace: uberon xref: AAO:0010176 is_a: UBERON:0002535 ! gill [Term] id: UBERON:0008894 name: gill precursor namespace: uberon def: "A primordium or bud that develops into a gill." [] synonym: "gill primordium" EXACT [XAO:0000448] synonym: "internal gill bud" EXACT [ZFA:0001107] xref: TAO:0001107 xref: XAO:0000448 xref: ZFA:0001107 is_a: UBERON:0001048 ! primordium relationship: develops_from UBERON:0003114 ! pharyngeal arch 3 relationship: develops_from UBERON:0003115 ! pharyngeal arch 4 relationship: develops_from UBERON:0004117 ! pharyngeal pouch [Term] id: UBERON:0008895 name: splanchnocranium namespace: uberon def: "Subdivision of endoskeleton derived from pharyngeal arches" [ISBN10:0073040584, UBERON:cjm, Wikipedia:Facial_skeleton] comment: AO notes: VSAO labels this term 'pharyngeal arch' (2012-06-01) - however, it clearly means pharyngeal arch skeleton. Editor/AO notes: many sources define this as the part of the endoskeletal that is from pharyngeal arches - this would make it part-disjoint from dermatocranium. However, there are many bones in AOs that have part-paths to both synonym: "branchial arch skeleton" RELATED [] synonym: "gill arch skeleton" RELATED [] synonym: "pharyngeal arch" RELATED INCONSISTENT [VSAO:0000149] synonym: "pharyngeal arch skeleton" RELATED [ZFA:0001216] synonym: "pharyngeal skeleton" RELATED [ZFA:0001216] synonym: "visceral skeleton" RELATED [UBERONREF:0000007] synonym: "viscerocranium" EXACT INCONSISTENT [VHOG:0000315, Wikipedia:Viscerocranium, ZFA:0001216] xref: AAO:0010157 xref: TAO:0001216 xref: VHOG:0000315 xref: VSAO:0000149 xref: XAO:0003176 xref: ZFA:0001216 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/7/77/Illu_facial_bones.jpg/200px-Illu_facial_bones.jpg is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system relationship: develops_from UBERON:0002539 ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003099 ! cranial neural crest relationship: overlaps UBERON:0011156 ! facial skeleton disjoint_from: UBERON:0011156 ! facial skeleton property_value: external_definition "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" xsd:string property_value: external_definition "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO]" xsd:string property_value: external_definition "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" xsd:string property_value: homology_notes "The skull of ancestral tetrapods has the three basic components that we have been considering: (1) chondrocranium, (2) splanchnocranium, and (3) dermatocranium (reference 1); Each part of the skull arises from a separate phylogenetic source. The most ancient part is the splanchnocranium (visceral cranium), which first arose to support pharyngeal slits in protochordates (reference 2).[well established][VHOG]" xsd:string [Term] id: UBERON:0008896 name: post-hyoid pharyngeal arch namespace: uberon def: "A pharyngeal arch that is posterior to the hyoid arch. i.e. any pharyngeal arch with a number 3 or higher." [UBERON:cjm] synonym: "branchial arch" EXACT [ZFA:0001613] synonym: "branchial arches" EXACT PLURAL [ZFA:0001613] synonym: "branchial bar" EXACT [ZFA:0001613] synonym: "branchial bars" EXACT PLURAL [ZFA:0001613] synonym: "gill arch" EXACT [ZFA:0001613] synonym: "gill arches 1-5" EXACT [ZFA:0001613] synonym: "gill bar" RELATED [UBERON:cjm] synonym: "pharyngeal arch 3-7" EXACT [ZFA:0001613] synonym: "visceral arches 3-7" EXACT [ZFA:0001613] xref: AAO:0010362 xref: BTO:0002152 xref: EFO:0003694 xref: SCTID:308766004 xref: TAO:0001597 xref: XAO:0000099 xref: ZFA:0001613 is_a: UBERON:0002539 ! pharyngeal arch property_value: external_definition "Posterior-most stream of cranial neural crest, which sub-divides during migration.[AAO]" xsd:string [Term] id: UBERON:0008897 name: fin namespace: uberon def: "An external projection of an aquatic animal as a fish used in propelling or guiding the body[BTO]." [BTO:0004649, Wikipedia:Fin] comment: This class groups together various structures that may have arisen through convergent evolution, including, for example, the dorsal fin of a cetacean xref: AAO:0010374 xref: AEO:0001004 xref: BTO:0004649 xref: EFO:0000875 xref: MAT:0000087 xref: MESH:A13.077 xref: MIAA:0000087 xref: OpenCyc:Mx4rvVjcBZwpEbGdrcN5Y29ycA xref: SCTID:73003005 xref: TAO:0000108 xref: VSAO:0000099 xref: XAO:0000002 xref: ZFA:0000108 is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0003102 ! surface structure property_value: never_in_taxon NCBITaxon:8782 property_value: external_definition "Surface structure involved in locomotion.[TAO]" xsd:string property_value: external_definition "Surface structure involved in locomotion.[VSAO]" xsd:string [Term] id: UBERON:0008902 name: lateral recess of third vetricle namespace: uberon def: "Lateral protrusion of the third ventricle." [ZFIN:curator] synonym: "lateral recess" BROAD PLURAL [ZFA:0000231] synonym: "lateral recess of diencephalic ventricle" EXACT [ZFIN:ZDB-PUB-091221-27] xref: TAO:0000231 xref: ZFA:0000231 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002286 ! third ventricle [Term] id: UBERON:0008904 name: neuromast namespace: uberon def: "Volcano-shaped lateral line sensory organ located in characteristic positions within the skin epithelium and containing hair cells and their support elements. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "cyatocC/de@fr" RELATED [TAO:0000243] synonym: "lateral line neuromast" EXACT [ZFA:0000243] synonym: "lateral line organ" EXACT [ZFA:0000243] synonym: "neuromaste superficiel@fr" RELATED [TAO:0000243] synonym: "neuromasts" EXACT PLURAL [ZFA:0000243] xref: AAO:0001004 xref: EFO:0003513 xref: TAO:0000243 xref: ZFA:0000243 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0010202 ! lateral line property_value: axiom_lost_from_external_ontology "relationship loss: part_of lateral line receptor organ (AAO:0001001)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: subclass lateral line receptor (AAO:0010705)[AAO]" xsd:string property_value: external_definition "Type of mechanoreceptive organ of the lateral line which are arranged in lines on the body surface. These organs are constituted by hair cells and supporting cells and it is located in the epidermis with its hair cells exposed to the surface. Absent in some caecilians. These receptors receive afferent and efferent innervations.[AAO]" xsd:string property_value: external_definition "Volcano-shaped lateral line sensory organ located in characteristic positions within the skin epithelium and containing hair cells and their support elements. Kimmel et al, 1995. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)[TAO]" xsd:string [Term] id: UBERON:0008906 name: lateral line nerve namespace: uberon def: "Cranial nerves that carry afferent and efferent fibers for the lateral line system." [ZFIN:curator] synonym: "lateral line nerves" EXACT PLURAL [ZFA:0001479] xref: AAO:0010077 xref: TAO:0001479 xref: ZFA:0001479 is_a: UBERON:0001785 ! cranial nerve relationship: develops_from UBERON:0009128 ! lateral line placode relationship: part_of UBERON:0002540 ! lateral line system intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002540 ! lateral line system property_value: axiom_lost_from_external_ontology "relationship loss: innervates lateral line receptor organ (AAO:0001001)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: part_of_proxy lateral line system (AAO:0000975) CHANGED TO: part_of lateral line system (UBERON:0002540)[AAO]" xsd:string property_value: external_definition "Any of the sensory nerves that innervate mechano- and electroreceptors of the lateral line system. The lateral line nerves may be separated in two components, anterior and posterior, in relation to the position of its roots with respect to the otic capsule. These nerves develop from lateral line placodes.[AAO]" xsd:string [Term] id: UBERON:0008907 name: dermal bone namespace: uberon def: "Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]." [VSAO:0000130, VSAO:curator, Wikipedia:Dermal_bone] comment: Note that other AOs are not yet in sync with this classification xref: AAO:0010769 xref: TAO:0001590 xref: VSAO:0000130 xref: XAO:0004015 xref: ZFA:0001590 is_a: UBERON:0007842 ! membrane bone relationship: part_of UBERON:0010364 ! dermal skeleton intersection_of: UBERON:0007842 ! membrane bone intersection_of: part_of UBERON:0010364 ! dermal skeleton property_value: external_definition "Intramembranous bone that forms superficially in the organism.[TAO]" xsd:string [Term] id: UBERON:0008909 name: perichordal bone namespace: uberon def: "Bone element that is adjacent to the notochord." [VSAO:0000307] comment: Editor notes: We go with the latest VSAO in making this a subtype of bone, and add a logical definition based on the textual definition in VSAO. We also include the subtyping under 'replacement bone', for consistency with ZFA synonym: "perichordal bone" RELATED [ZFA:0001629] synonym: "perichordal bones" EXACT PLURAL [ZFA:0001629] xref: AAO:0010777 xref: TAO:0001639 xref: VSAO:0000307 xref: ZFA:0001629 is_a: UBERON:0012075 ! replacement bone intersection_of: UBERON:0001474 ! bone element intersection_of: adjacent_to UBERON:0002328 ! notochord disjoint_from: UBERON:0008913 ! perichondral bone property_value: external_definition "Replacement bone that forms within the connective tissue surrounding the notochord.[TAO]" xsd:string [Term] id: UBERON:0008911 name: chondral bone namespace: uberon def: "Replacement bone that forms within or surrounding a cartilaginous skeletal element." [zfin:curator] comment: This class was introduced to be consistent with the ZFA hierarchy. The term was never introduced into VSAO. xref: AAO:0010774 xref: ZFA:0001693 is_a: UBERON:0012075 ! replacement bone [Term] id: UBERON:0008913 name: perichondral bone namespace: uberon def: "Bone element that is located on the surface of a cartilage element." [VSAO:0000308] comment: include the subtyping under 'replacement bone', for consistency with ZFA, but VSAO does not include this intermediate class synonym: "perichondral bone" RELATED [ZFA:0001630] synonym: "perichondral bones" EXACT PLURAL [ZFA:0001630] xref: AAO:0010779 xref: TAO:0001638 xref: VSAO:0000308 xref: ZFA:0001630 is_a: UBERON:0007842 ! membrane bone relationship: develops_from UBERON:0002222 ! perichondrium relationship: participates_in GO:0036073 ! perichondral ossification property_value: external_definition "Replacement bone that forms within the connective tissue surrounding cartilage.[TAO]" xsd:string [Term] id: UBERON:0008915 name: pore namespace: uberon def: "An anatomical space that is an opening, usually at the end of a canal or duct, on the surface of the integument or the lining of an internal anatomical space." [TAO:curator] xref: AAO:0010441 xref: TAO:0001791 xref: UMLS:C1325742 xref: ZFA:0005449 xref: ncithesaurus:Pore is_a: UBERON:0000464 ! anatomical space [Term] id: UBERON:0008917 name: ampullary organ namespace: uberon def: "Organ that consists of receptor cells located within an epidermal invagination and functions as an electroreceptor." [TAO:wd] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "ampullary electroreceptor organ" EXACT [TAO:0002104] xref: AAO:0001006 xref: TAO:0002104 is_a: UBERON:0003103 ! compound organ is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010521 ! electroreceptor organ relationship: capable_of GO:0050964 ! detection of electrical stimulus involved in electroception relationship: part_of UBERON:0002540 ! lateral line system property_value: axiom_lost_from_external_ontology "relationship loss: part_of lateral line receptor organ (AAO:0001001)[AAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship loss: subclass lateral line receptor organ (AAO:0001001)[AAO]" xsd:string property_value: external_definition "An electroreceptor consisting of receptor cells sunk into the epidermis or located in an epidermal cavity opening to the surface through a duct and pore. It can detect weak electric currents generated by other animals.[AAO]" xsd:string [Term] id: UBERON:0008918 name: ampulla of Lorenzini namespace: uberon def: "The ampullae of Lorenzini are special sensing organs called electroreceptors, forming a network of jelly-filled pores... Each ampulla consists of a jelly-filled canal opening to the surface by a pore in the skin and ending blindly in a cluster of small pockets full of special jelly. The ampullae are mostly clustered into groups inside the body, each cluster having ampullae connecting with different parts of the skin, but preserving a left-right symmetry. The canal lengths vary from animal to animal, but the distribution of the pores is generally specific to each species. The ampullae pores are plainly visible as dark spots in the skin. They provide fish with a sixth sense capable of detecting electromagnetic fields as well as temperature gradients[WP]." [Wikipedia:Ampullae_of_Lorenzini] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "ampullae of Lorenzini" EXACT PLURAL [Wikipedia:Ampullae_of_Lorenzini] xref: http://upload.wikimedia.org/wikipedia/commons/8/88/Electroreceptors_in_a_sharks_head.svg is_a: UBERON:0003103 ! compound organ is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010521 ! electroreceptor organ relationship: capable_of GO:0050964 ! detection of electrical stimulus involved in electroception relationship: part_of UBERON:0002540 ! lateral line system property_value: never_in_taxon NCBITaxon:32443 property_value: never_in_taxon NCBITaxon:32523 [Term] id: UBERON:0008919 name: obsolete mesenchyme from somatopleure namespace: uberon is_obsolete: true replaced_by: UBERON:0010377 ! mesenchyme from somatopleure [Term] id: UBERON:0008920 name: obsolete mesenchyme from splanchnopleure namespace: uberon is_obsolete: true replaced_by: UBERON:0010378 ! mesenchyme from splanchnopleure [Term] id: UBERON:0008921 name: substratum of layer of retina namespace: uberon def: "." [UBERON:CL_meeting_20110725, http://retina.anatomy.upenn.edu/~lance/eye/retina_gross.html] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 ! organ component layer relationship: part_of UBERON:0000966 ! retina [Term] id: UBERON:0008922 name: sublaminar layer S1 namespace: uberon def: "A retinal neural layer that is immediately adjacent to the inner nuclear layer and comprises 20 percent of the inner plexiform layer of retina." [GOC:tfm] xref: CP:0000113 relationship: part_of UBERON:0001795 ! inner plexiform layer of retina relationship: part_of UBERON:0008927 ! sublaminar layers S1 or S2 intersection_of: UBERON:0008921 ! substratum of layer of retina intersection_of: adjacent_to UBERON:0001791 ! inner nuclear layer of retina intersection_of: adjacent_to UBERON:0008923 ! sublaminar layer S2 [Term] id: UBERON:0008923 name: sublaminar layer S2 namespace: uberon def: "A retinal neural layer that is immediately adjacent to the S1 and S3 layers and comprises 20 percent of the inner plexiform layer of retina." [GOC:tfm] xref: CP:0000114 relationship: part_of UBERON:0001795 ! inner plexiform layer of retina relationship: part_of UBERON:0008927 ! sublaminar layers S1 or S2 relationship: part_of UBERON:0008928 ! sublaminar layers S2 or S3 intersection_of: UBERON:0008921 ! substratum of layer of retina intersection_of: adjacent_to UBERON:0008922 ! sublaminar layer S1 intersection_of: adjacent_to UBERON:0008924 ! sublaminar layer S3 [Term] id: UBERON:0008924 name: sublaminar layer S3 namespace: uberon def: "A retinal neural layer that is immediately adjacent to the S2 and S4 layers and comprises 20 percent of the inner plexiform layer of retina." [GOC:tfm] xref: CP:0000115 relationship: part_of UBERON:0001795 ! inner plexiform layer of retina relationship: part_of UBERON:0008928 ! sublaminar layers S2 or S3 intersection_of: UBERON:0008921 ! substratum of layer of retina intersection_of: adjacent_to UBERON:0008923 ! sublaminar layer S2 intersection_of: adjacent_to UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0008925 name: sublaminar layer S4 namespace: uberon def: "A retinal neural layer that is immediately adjacent to the S3 and S5 layer and comprises 20 percent of the inner plexiform layer of retina." [GOC:tfm] xref: CP:0000116 relationship: part_of UBERON:0001795 ! inner plexiform layer of retina relationship: part_of UBERON:0008929 ! sublaminar layers S4 or S5 intersection_of: UBERON:0008921 ! substratum of layer of retina intersection_of: adjacent_to UBERON:0008924 ! sublaminar layer S3 intersection_of: adjacent_to UBERON:0008926 ! sublaminar layer S5 [Term] id: UBERON:0008926 name: sublaminar layer S5 namespace: uberon def: "A retinal neural layer that is immediately adjacent to the retinal ganglion cell layer and comprises 20 percent of the ganglion plexiform layer of retina." [GOC:tfm] xref: CP:0000117 relationship: part_of UBERON:0001795 ! inner plexiform layer of retina relationship: part_of UBERON:0008929 ! sublaminar layers S4 or S5 intersection_of: UBERON:0008921 ! substratum of layer of retina intersection_of: adjacent_to UBERON:0001792 ! ganglionic layer of retina intersection_of: adjacent_to UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0008927 name: sublaminar layers S1 or S2 namespace: uberon def: "One of sublaminar layers S1 or S2." [GOC:tfm] xref: CP:0000118 is_a: UBERON:0008921 ! substratum of layer of retina relationship: part_of UBERON:0001795 ! inner plexiform layer of retina union_of: UBERON:0008922 ! sublaminar layer S1 union_of: UBERON:0008923 ! sublaminar layer S2 [Term] id: UBERON:0008928 name: sublaminar layers S2 or S3 namespace: uberon def: "One of sublaminar layers S2 or S3." [GOC:tfm] xref: CP:0000119 is_a: UBERON:0008921 ! substratum of layer of retina relationship: part_of UBERON:0001795 ! inner plexiform layer of retina union_of: UBERON:0008923 ! sublaminar layer S2 union_of: UBERON:0008924 ! sublaminar layer S3 [Term] id: UBERON:0008929 name: sublaminar layers S4 or S5 namespace: uberon def: "One of sublaminar layers S4 or S5." [GOC:tfm] xref: CP:0000120 is_a: UBERON:0008921 ! substratum of layer of retina relationship: part_of UBERON:0001795 ! inner plexiform layer of retina union_of: UBERON:0008925 ! sublaminar layer S4 union_of: UBERON:0008926 ! sublaminar layer S5 [Term] id: UBERON:0008930 name: somatosensory cortex namespace: uberon def: "Area of the parietal lobe concerned with receiving general sensations. It lies posterior to the central sulcus." [MESH:A08.186.211.730.885.213.670.675] comment: TODO - add layers synonym: "somesthetic area" RELATED [BTO:0004353] xref: BTO:0004353 xref: EFO:0001391 xref: GAID:681 xref: MESH:A08.186.211.730.885.213.670.675 xref: SCTID:279252006 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: part_of UBERON:0002581 ! postcentral gyrus [Term] id: UBERON:0008933 name: primary somatosensory cortex namespace: uberon comment: _:comment___:_:@___:_:source__MA___:.__ABA disjointness - Removed relationship: part_of UBERON:0001870 xref: MA:0000908 is_a: UBERON:0008930 ! somatosensory cortex relationship: part_of UBERON:0001872 ! parietal lobe [Term] id: UBERON:0008934 name: secondary somatosensory cortex namespace: uberon comment: TODO - check brodmann xref: MA:0000918 is_a: UBERON:0008930 ! somatosensory cortex relationship: part_of UBERON:0001872 ! parietal lobe [Term] id: UBERON:0008935 name: albumen gland namespace: uberon def: "The posterior oviduct opens into the large white albumen gland which adds a layer of albumen to the zygote before it reaches the egg capsule gland." [BTO:0000054] xref: BTO:0000054 is_a: UBERON:0005398 ! female reproductive gland [Term] id: UBERON:0008936 name: gastropod genital pore namespace: uberon def: "A small opening on the side of the head in some gastropods through which the penis is protruded." [BTO:0004684] synonym: "genital orifice" RELATED [BTO:0004684] synonym: "genital pore" EXACT [BTO:0004684] xref: BTO:0004684 is_a: UBERON:0000161 ! orifice is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000990 ! reproductive system [Term] id: UBERON:0008937 name: visceral hump namespace: uberon def: "Mollusks have three distinct divisions of their body. The head contains the sensory equipment (eyes, antennae, etc) and the primitive brain. The visceral hump, which is the main body, contains most of the organs, including a complete digestive and excretory tract as well as the reproductive organs. The visceral hump also includes the two external flaps of tissue, which are known as the mantle." [BTO:0001448, http://www.britannica.com/EBchecked/topic/630349/visceral-hump] synonym: "visceral sac" RELATED [BTO:0001448] xref: BTO:0001448 is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0008939 name: pedal ganglion namespace: uberon def: "The pedal ganglia mainly are necessary for coordination of locomotion of a snail." [BTO:0001012] xref: BTO:0001012 is_a: UBERON:0000045 ! ganglion relationship: part_of UBERON:0008937 ! visceral hump [Term] id: UBERON:0008940 name: parietal ganglion namespace: uberon def: "The lateral ganglia of a snail nervous system are called parietal ganglia. They innerve pallial cavity, gills and skin." [BTO:0001841] xref: BTO:0001841 is_a: UBERON:0000045 ! ganglion relationship: part_of UBERON:0008937 ! visceral hump [Term] id: UBERON:0008941 name: pleural ganglion namespace: uberon def: "The pallial cavity's nerve knots are called pleural ganglia. They innerve primarily the mantle or a snail." [BTO:0001842] xref: BTO:0001842 is_a: UBERON:0000045 ! ganglion relationship: part_of UBERON:0008937 ! visceral hump [Term] id: UBERON:0008942 name: gastropod cerebral ganglion namespace: uberon def: "The cerebral ganglia are primarily sensual centres, that compute information from the eyes as well as from the tactile and position sensors (statocystes). Besides coordination they also serve the locational memory of a snail." [BTO:0001843] synonym: "cerebral ganglion" EXACT [BTO:0001843] xref: BTO:0001843 is_a: UBERON:0000045 ! ganglion [Term] id: UBERON:0008943 name: headfoot namespace: uberon def: "The head-foot is the part you see most easily in slugs and snails. It is mostly a muscular organ covered in cilia and rich in mucous cells, which the mollusc uses to move around, it normally tapers to a tail at one end and has a head incorporated in the front. The head includes a mouth, eyes and tentacles, the last two may be much reduced or even absent. In those species with shells the head-foot can be drawn into the shell." [BTO:0003509] xref: BTO:0003509 is_a: UBERON:0000475 ! organism subdivision [Term] id: UBERON:0008944 name: albumen namespace: uberon def: "Albumen is the clear liquid contained within an egg and consists of water and proteins, among which are ovomucin and ovomucoid. It protects the egg yolk and provides additional nutrition for the growth of the embryo." [GO:0097099, Wikipedia:Albumen, https://sourceforge.net/tracker/index.php?func=detail&aid=3357613&group_id=36855&atid=440764] synonym: "egg white" EXACT [GO:0097099] xref: GO:0097099 xref: ncithesaurus:Egg_White is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0007379 ! egg [Term] id: UBERON:0008945 name: extraembryonic endoderm namespace: uberon def: "An extraembryonic epithelium that is formed by the delaminated cells of the primitive endoderm (hypoblast) that goes on to form the yolk sac. In mammals, as in avians, these cells do not produce any part of the newborn organism (i.e. they are extraembryonic)" [ISBN:9780878932504, UBERON:cjm, http://www.ana.ed.ac.uk/database/humat/notes/extraemb/mesoder.htm] comment: The origin of extraembryonic endoderm is a highly controversial issue // forms the yolk sac (Gilbert) xref: EHDAA2:0000473 xref: EHDAA:105 xref: EMAPA:16052 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005292 ! extraembryonic tissue [Term] id: UBERON:0008946 name: lung parenchyma namespace: uberon def: "A parenchyma that is part of a lung." [OBOL:automatic] synonym: "respiratory portion of lung" EXACT [FMA:27360] xref: FMA:27360 xref: SCTID:201712001 is_a: UBERON:0000353 ! parenchyma is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002048 ! lung intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0008947 name: respiratory primordium namespace: uberon xref: EHDAA2:0004069 xref: UMLS:C1514898 xref: ncithesaurus:Respiratory_Primordium is_a: UBERON:0001048 ! primordium relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0008948 name: upper lobe of lung namespace: uberon def: "A lobe of the lung that is closest to the head." [UBERON:cjm] comment: Editor notes: the logical definition must have a clause stating position relative to a lower lobe, otherwise a single lobed side (such as the left lobe in the mouse) trivially classifies as an upper lobe synonym: "cranial lobe of lung" EXACT [UBERON:cjm] synonym: "lobus superior" EXACT [FMA:7334] synonym: "lobus superior pulmonis" EXACT LATIN [FMA:TA] synonym: "superior lobe of lung" EXACT [FMA:7334] xref: FMA:7334 xref: SCTID:303548008 xref: UMLS:C0225756 xref: galen:UpperLobeOfLung xref: ncithesaurus:Lung_Upper_Lobe intersection_of: UBERON:0000101 ! lobe of lung intersection_of: anterior_part_of UBERON:0002048 ! lung intersection_of: anterior_to UBERON:0008949 ! lower lobe of lung disjoint_from: UBERON:0008955 ! middle lobe of lung [Term] id: UBERON:0008949 name: lower lobe of lung namespace: uberon comment: Editor notes: defining lobes spatially across species synonym: "inferior lobe of lung" EXACT [UBERON:cjm] synonym: "lobus inferior" EXACT [UBERON:cjm] synonym: "lobus inferior pulmonis" EXACT [UBERON:cjm] xref: FMA:7335 xref: SCTID:303549000 xref: UMLS:C0225758 xref: galen:LowerLobeOfLung xref: ncithesaurus:Lung_Lower_Lobe is_a: UBERON:0000101 ! lobe of lung relationship: posterior_part_of UBERON:0002048 ! lung disjoint_from: UBERON:0008955 ! middle lobe of lung [Term] id: UBERON:0008950 name: azygous lobe of lung namespace: uberon def: "The azygous lobe of the lung is an accessory lobe of the right lung. It is rare and usually associated with an abnormality of the azygous vein. It is produced by an aberrant position of the azygous vein near the hilum of the lung. It divides the right superior lobe near the apex of the lung down to the hilum in roughly the median plane. The fissure created, the meso-azygous fissure, is lined by both visceral and parietal pleura. The lobe lies superomedial to the fissure." [http://www.e-radiography.net/radpath/a/azygoslobe.htm, http://www.gpnotebook.co.uk] is_a: UBERON:0004890 ! right lung accessory lobe [Term] id: UBERON:0008951 name: left lung lobe namespace: uberon def: "A lobe of lung that is part of a left lung." [OBOL:automatic] comment: Taxon notes: 1 in mice, divided into 2 in human by a single interlobar fissure, the oblqiue fissure [ISBN-10:0123813611] synonym: "lobe of left lung" EXACT [] synonym: "lobe of the left lung" EXACT [] xref: EHDAA:2981 xref: SCTID:272655003 xref: UMLS:C1285107 xref: ncithesaurus:Lobe_of_the_Left_Lung intersection_of: UBERON:0000101 ! lobe of lung intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0008952 name: upper lobe of left lung namespace: uberon def: "The lobe of the left lung that is closest to the head." [UBERON:cjm] synonym: "left lung cranial lobe" EXACT [EHDAA2:0000953] synonym: "left upper lobe" EXACT [FMA:7370] synonym: "left upper lobe of lung" EXACT [FMA:7370] synonym: "lobus superior pulmonis sinistri" EXACT LATIN [FMA:TA] synonym: "superior lobe of left lung" EXACT [FMA:7370] xref: EHDAA2:0000953 xref: EHDAA:4957 xref: FMA:7370 xref: SCTID:361984006 xref: UMLS:C1261076 xref: galen:UpperLobeOfLeftLung xref: ncithesaurus:Upper_Lobe_of_the_Left_Lung is_a: UBERON:0008948 ! upper lobe of lung is_a: UBERON:0008951 ! left lung lobe intersection_of: UBERON:0008948 ! upper lobe of lung intersection_of: part_of UBERON:0002168 ! left lung property_value: never_in_taxon NCBITaxon:10088 [Term] id: UBERON:0008953 name: lower lobe of left lung namespace: uberon def: "A lower lobe of lung that is part of a left lung." [OBOL:automatic] synonym: "inferior lobe of left lung" EXACT [FMA:7371] synonym: "left lower lobe" EXACT [FMA:7371] synonym: "left lower lobe of lung" EXACT [FMA:7371] synonym: "left lung caudal lobe" EXACT [EHDAA2:0000945] synonym: "lobus inferior (pulmo sinister)" EXACT [FMA:7371] synonym: "lobus inferior pulmonis sinistri" EXACT LATIN [FMA:TA] xref: EHDAA2:0000945 xref: EHDAA:4949 xref: FMA:7371 xref: SCTID:361989001 xref: UMLS:C1261077 xref: galen:LowerLobeOfLeftLung xref: ncithesaurus:Lower_Lobe_of_the_Left_Lung is_a: UBERON:0008949 ! lower lobe of lung is_a: UBERON:0008951 ! left lung lobe intersection_of: UBERON:0008949 ! lower lobe of lung intersection_of: part_of UBERON:0002168 ! left lung property_value: never_in_taxon NCBITaxon:10088 [Term] id: UBERON:0008954 name: lingula of left lung namespace: uberon def: "Anterioinferior portion of left upper lung lobe" [ISBN-10:0123813611, Wikipedia:Lingula_of_left_lung] comment: the lingula of the left lung in humans is not normally considered a true lobe. AO notes: in Galen, it is a middle lobe synonym: "left pulmonary lingula" EXACT [FMA:7433] synonym: "lingula of lung" EXACT [FMA:7433] synonym: "lingula of the lung" EXACT [] synonym: "middle lobe of left lung" RELATED [galen:MiddleLobeOfLeftLung] xref: FMA:7433 xref: SCTID:184916009 xref: UMLS:C0225740 xref: galen:MiddleLobeOfLeftLung xref: ncithesaurus:Lingula is_a: UBERON:0000063 ! organ segment is_a: UBERON:0000072 ! segment of respiratory tract relationship: part_of UBERON:0008952 ! upper lobe of left lung property_value: never_in_taxon NCBITaxon:10088 [Term] id: UBERON:0008955 name: middle lobe of lung namespace: uberon def: "A lobe of the lung that is situated somewhere between an upper lobe and lower lobe." [UBERON:cjm] comment: Taxon notes: mice have 4 right lobes (5 in some schemes), humans have 2, and thus no middle lobe (the lingula is not a lobe) synonym: "lung middle lobe" EXACT [] xref: SCTID:362900002 xref: galen:MiddleLobeOfLung is_a: UBERON:0000101 ! lobe of lung relationship: anterior_to UBERON:0008949 ! lower lobe of lung relationship: posterior_to UBERON:0008948 ! upper lobe of lung [Term] id: UBERON:0008956 name: involucrum namespace: uberon def: "a layer of new bone growth outside existing bone seen in pyogenic osteomyelitis. It results from the stripping off of the periosteum by the accumulation of pus within the bone, and new bone growing from the periosteum." [Wikipedia:Involucrum] is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0008957 name: sequestrum namespace: uberon def: "a piece of dead bone that has become separated during the process of necrosis from normal/sound bone.." [Wikipedia:Sequestrum] is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0008958 name: cetacean involucrum namespace: uberon synonym: "whale involucrum" RELATED [] is_a: UBERON:0000064 ! organ part relationship: capable_of GO:0050910 ! detection of mechanical stimulus involved in sensory perception of sound relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0008959 name: auditory bulla namespace: uberon def: "a hollow bony structure on the ventral, posterior portion of the skull of placental mammals that encloses parts of the middle and inner ear. In most species, it is formed by the tympanic part of the temporal bone." [Wikipedia:Auditory_bulla] comment: In extant primates, the structure is found in tarsiers, lemurs, and lorises[WP]. When present in marsupials, it usually forms the alisphenoid; in placentals variously constructed of ectotympanic, entotympanic, petrosal, or a combination of these and others[Rose] Comment: may be formed from entotympanic and ectotympanic synonym: "auditory bullae" RELATED PLURAL [] synonym: "bulla" BROAD [] synonym: "bulla tympanica" RELATED LATIN [UBERON:cjm] synonym: "sigmoid process" NARROW [] synonym: "tympanic bulla" RELATED [] xref: http://upload.wikimedia.org/wikipedia/commons/a/af/Toothed_whale_sound_production.png is_a: UBERON:0004530 ! bony projection relationship: homologous_to UBERON:0011079 ! angular bone relationship: part_of UBERON:0001690 ! ear relationship: part_of UBERON:0003113 ! dermatocranium relationship: surrounds UBERON:0004114 ! tympanic cavity [Term] id: UBERON:0008960 name: melon organ namespace: uberon def: "The melon is an ovoid-shaped, fatty organ found in the forehead of all toothed whales (odontocetes), including dolphins and porpoises (Cranford et al., 1996; Harper, C. J., et al., 2008) and believed to be used in echolocation" [Wikipedia:Melon_(whale)] synonym: "melon" RELATED [] is_a: UBERON:0000062 ! organ is_a: UBERON:0010053 ! echolocation organ relationship: has_function_in GO:0050959 ! echolocation relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0008961 name: parabronchus namespace: uberon def: "tertiary bronchus in the avian lung." [http://medical-dictionary.thefreedictionary.com/parabronchi] synonym: "neopulmonic parabronchus" NARROW [] synonym: "paleopulmonic parabronchus" NARROW [] synonym: "parabronchi" RELATED PLURAL [] is_a: UBERON:0002184 ! segmental bronchus relationship: connected_to UBERON:0009072 ! ventrobronchus relationship: connected_to UBERON:0009073 ! dorsobronchus relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0008962 name: forelimb bone namespace: uberon def: "A bone that is part of a forelimb region. Examples: any manus phalanx, humerus. Counter-examples: scapula (it is part of the pectoral girdle)" [UBERON:cjm] synonym: "free forelimb bone" EXACT [UBERON:cjm, UBERONREF:0000003] synonym: "wing bone" NARROW SENSU [Geisha:syn, NCBITaxon:8782, OBOL:automatic] xref: GAID:178 xref: MESH:A02.835.232.087 xref: SCTID:368532003 xref: UMLS:C0003793 xref: ncithesaurus:Bone_of_the_Upper_Extremity is_a: UBERON:0010741 ! bone of pectoral complex relationship: develops_from UBERON:0010883 ! forelimb bone cartilaginous condensation relationship: part_of UBERON:0001440 ! forelimb skeleton intersection_of: UBERON:0002428 ! limb bone intersection_of: part_of UBERON:0002102 ! forelimb [Term] id: UBERON:0008963 name: hoof namespace: uberon def: "The tip of a toe of an ungulate mammal, strengthened by a thick horny (keratin) covering. The hoof consists of a hard or rubbery sole, and a hard wall formed by a thick nail rolled around the tip of the toe. The weight of the animal is normally borne by both the sole and the edge of the hoof wall. Hooves grow continuously, and are constantly worn down by use." [Wikipedia:Hoof] comment: The hoof is the integument of the foot. Like skin, the integument of the foot has three layers, namely the epidermis, dermis, and SC tissue. xref: BTO:0003994 xref: SCTID:410026002 is_a: UBERON:0009564 ! distal limb integumentary appendage [Term] id: UBERON:0008964 name: abdominal ganglion of visceral hump namespace: uberon def: "The visceral sacs nerve knot is called visceral ganglion. In contrary to the mostly paired other ganglia this nerve knot is unpaired. The visceral ganglion innerves the pallial organs as well as the inner organs." [BTO:0000022] synonym: "abdominal ganglion" RELATED [BTO:0000022] synonym: "visceral ganglion" RELATED [BTO:0000022] xref: BTO:0000022 is_a: UBERON:0000045 ! ganglion relationship: part_of UBERON:0008937 ! visceral hump disjoint_from: UBERON:0009758 ! abdominal ganglion [Term] id: UBERON:0008967 name: centrum semiovale namespace: uberon def: "The semioval center is the white matter found underneath the grey matter on the surface of the cerebrum. The term is synonymous with cerebral white matter. The white matter, located in each hemisphere between the cerebral cortex and nuclei, as a whole has a semioval shape. It consists of cortical projection fibers, association fibers and cortical fibers." [Wikipedia:Semioval_center] comment: note that WP suggests a merge with cerebral white matter synonym: "centrum semiovale" RELATED LATIN [Wikipedia:Semioval_center] synonym: "medullary center" EXACT [FMA:61939] synonym: "semioval center" RELATED [BTO:0000229] synonym: "white matter of cerebrum" EXACT [FMA:61939] xref: BTO:0000229 xref: FMA:61939 xref: SCTID:369198002 xref: http://upload.wikimedia.org/wikipedia/commons/9/95/Gray752.png is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0002437 ! cerebral white matter [Term] id: UBERON:0008969 name: dental follicle namespace: uberon def: "The dental follicle is a sac containing the developing tooth and its odontogenic organ. The dental follicle (DF) differentiates into the periodontal ligament. In addition, it may be the precursor of other cells of the periodontium, including osteoblasts, cementoblasts and fibroblasts. They develop into the alveolar bone, the cementum with Sharpey's fibers and the periodontal ligament fibers respectively." [Wikipedia:Dental_follicle] synonym: "tooth follicle" RELATED [BTO:0000337] xref: BTO:0000337 xref: SCTID:110975002 is_a: UBERON:0005087 ! tooth placode relationship: develops_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0008971 name: left colon namespace: uberon def: "The distal portion of the colon; it develops embryonically from the hindgut and functions in the storage and elimination of waste." [BTO:0000646] synonym: "distal colon" RELATED [BTO:0000646] xref: BTO:0000646 xref: SCTID:362164005 xref: UMLS:C0227388 xref: galen:LeftColon xref: ncithesaurus:Left_Colon is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0001046 ! hindgut relationship: part_of UBERON:0001155 ! colon [Term] id: UBERON:0008972 name: right colon namespace: uberon def: "The proximal portion of the colon, extending from the ileocecal valve usually to a point proximal to the left colic flexure; it develops embryonically from the terminal portion of the midgut and functions in absorption." [BTO:0000649] synonym: "proximal colon" RELATED [BTO:0000649] xref: BTO:0000649 xref: SCTID:362161002 xref: UMLS:C1305188 xref: galen:RightColon xref: ncithesaurus:Right_Colon is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0001045 ! midgut relationship: part_of UBERON:0001155 ! colon [Term] id: UBERON:0008974 name: apocrine gland namespace: uberon def: "A gland whose discharged secretion contains part of the secreting cells." [BTO:0001162, Wikipedia:Apocrine] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "true apocrine gland" EXACT [] xref: BTO:0001162 xref: SCTID:361698000 is_a: UBERON:0002530 ! gland property_value: has_relational_adjective "apocrine" xsd:string [Term] id: UBERON:0008975 name: shell gland namespace: uberon def: "Any of various structures that secrete covering material for eggs or egg masses" [http://www.answers.com/topic/nidamental-gland] subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "nidamental gland" RELATED [] xref: BTO:0001241 xref: SCTID:14478002 is_a: UBERON:0005398 ! female reproductive gland [Term] id: UBERON:0008976 name: snake venom gland namespace: uberon def: "The venom gland of snakes is in actual fact a modified salivary gland and is linked to the groove in the fangs by a duct." [BTO:0001440] comment: snake venom glands are modified salivary glands. In future this class may be merged into a more general modified salivary gland venom gland class synonym: "poison gland" RELATED [BTO:0001440] synonym: "venenosalivary gland" RELATED [] synonym: "venom gland" BROAD [BTO:0001440] xref: BTO:0001440 xref: SCTID:23993002 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0011579 ! venom gland relationship: homologous_to UBERON:0001044 ! salivary gland relationship: secretes UBERON:0013076 ! snake venom property_value: has_relational_adjective "venenosalivary" xsd:string [Term] id: UBERON:0008977 name: pes anserinus of tibia namespace: uberon def: "The pes anserinus is the insertion of the conjoined tendons of three muscles onto the anteromedial (front and inside) surface of the proximal extremity of the tibia." [Wikipedia:Pes_anserinus_%28leg%29] comment: Editors note: Consider adding muscle insertion site class synonym: "pes anserine" RELATED [Wikipedia:Pes_anserinus_%28leg%29] synonym: "pes anserinus" EXACT [BTO:0001507] synonym: "pes anserinus of leg" RELATED [Wikipedia:Pes_anserinus_%28leg%29] xref: BTO:0001507 xref: SCTID:360767004 xref: http://upload.wikimedia.org/wikipedia/commons/b/b1/Pes_anserinus.png is_a: UBERON:0001630 ! muscle organ relationship: has_muscle_insertion UBERON:0000979 ! tibia relationship: part_of UBERON:0000043 ! tendon [Term] id: UBERON:0008978 name: anal sac namespace: uberon def: "In carnivores, either of two sacs found between the internal and external anal sphincters, lined with sebaceous glands and in some species with apocrine glands." [BTO:0001681] xref: BTO:0001681 xref: MESH:A13.073 xref: SCTID:362169000 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001245 ! anus [Term] id: UBERON:0008979 name: carcass namespace: uberon def: "A dead body." [BTO:0001965] synonym: "cadaver" RELATED [BTO:0001965] synonym: "dead body" RELATED [BTO:0001965] xref: BTO:0001965 xref: SCTID:127853004 is_a: UBERON:0000468 ! multi-cellular organism relationship: has_quality PATO:0001422 ! dead [Term] id: UBERON:0008981 name: rhinencephalon namespace: uberon def: "The olfactory region of the brain, located in the cerebrum." [BTO:0002785] is_obsolete: true consider: BTO:0002785 consider: SCTID:361576004 comment: Obsoleted because The term rhinencephalon has been used to describe different structures at different points in time.[ISBN 0-8493-8631-4]. May refer to: a specific structure in aves; a part of the brain involved with olfaction; synonym: "olfactory brain" RELATED [BTO:0002785] [Term] id: UBERON:0008982 name: fascia namespace: uberon def: "A dense regular connective tissue that that connects muscles together[WP, modified]." [Wikipedia:Fascia] synonym: "fascia cluster" EXACT [FMA:30318] xref: BTO:0002930 xref: EV:0100150 xref: FMA:30318 xref: MESH:A02.340 xref: SCTID:181772008 xref: UMLS:C0015641 xref: ncithesaurus:Fascia is_a: UBERON:0007846 ! dense regular connective tissue relationship: connects UBERON:0001630 {cardinality="2"} ! muscle organ relationship: part_of UBERON:0002204 ! musculoskeletal system [Term] id: UBERON:0008987 name: renal parenchyma namespace: uberon def: "The functional tissue of the kidney, consisting of the nephrons." [BTO:0003604] synonym: "kidney parenchyma" RELATED [BTO:0003604] synonym: "parenchyma of kidney" EXACT [FMA:15574] xref: BTO:0003604 xref: FMA:15574 xref: SCTID:29704000 is_a: UBERON:0000353 ! parenchyma is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002113 ! kidney intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0008989 name: esophageal gland namespace: uberon def: "One of the racemose glands in the walls of the esophagus that in humans are small and serve principally to lubricate the food but in some birds secrete a milky fluid on which the young are fed." [BTO:0003634, Wikipedia:Esophageal_glands] synonym: "glandulae oesophageae" EXACT [Wikipedia:Esophageal_glands] synonym: "mucous gland of submucosa of esophagus" EXACT [FMA:9404] xref: BTO:0003634 xref: FMA:9404 xref: SCTID:322749003 xref: UMLS:C0227178 xref: http://upload.wikimedia.org/wikipedia/commons/e/e8/Illu_esophageal_layers.jpg xref: ncithesaurus:Esophageal_Gland is_a: UBERON:0003408 ! gland of gut is_a: UBERON:0011148 ! submucosal gland relationship: part_of UBERON:0001972 ! submucosa of esophagus relationship: part_of UBERON:0002330 ! exocrine system relationship: secretes UBERON:0000912 ! mucus [Term] id: UBERON:0008992 name: chorion frondosum namespace: uberon def: "The part of the chorion where the villi persist, forming the foetal part of the placenta." [BTO:0003677] synonym: "shaggy chorion" RELATED [BTO:0003677] xref: BTO:0003677 xref: SCTID:37333001 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0003265 ! chorionic mesoderm relationship: part_of UBERON:0003124 ! chorion [Term] id: UBERON:0008993 name: habenular nucleus namespace: uberon def: "The gray matter of the habenula, composed of a small-celled medial and a larger-celled lateral habenular nucleus; both nuclei receive fibres from basal forebrain regions (septum, basal nucleus, lateral preoptic nucleus); the lateral habenular nucleus receives an additional projection from the medial segment of the globus pallidus. Both nuclei project by way of the retroflex fasciculus to the interpeduncular nucleus and a medial zone of the midbrain tegmentum." [BTO:0003685] synonym: "ganglion habenulae" RELATED [BTO:0003685] synonym: "nucleus habenulae" RELATED [BTO:0003685] xref: BTO:0003685 xref: EHDAA2:0004710 xref: SCTID:279303009 is_a: UBERON:0000445 ! habenular trigone relationship: part_of UBERON:0001904 ! habenula [Term] id: UBERON:0008994 name: equine glandular stomach namespace: uberon def: "Stomach found in horses; includes cardiac, proper gastric and pyloric glandular zones." [BTO:0003791] comment: Editor notes: We have a distinct class for 'glandular region of stomach'. We may want to merge into this class, even though this is not considered a distinct stomach. synonym: "stomachus glandularis" RELATED [BTO:0003791] xref: BTO:0003791 is_a: UBERON:0000945 ! stomach [Term] id: UBERON:0008995 name: nucleus of cerebellar nuclear complex namespace: uberon def: "Four accumulations of gray substance embedded in the white substance of the cerebellum, comprising the nucleus dentatus, nucleus emboliformis, nucleus globosus, and nucleus fastigii." [BTO:0003835] synonym: "cerebellar nucleus" EXACT [BTO:0003835] synonym: "deep cerebellar nucleus" EXACT [] xref: BTO:0003835 xref: MA:0000203 xref: SCTID:279220006 is_a: UBERON:0002946 ! regional part of cerebellum is_a: UBERON:0009662 ! hindbrain nucleus intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002130 ! cerebellar nuclear complex [Term] id: UBERON:0008998 name: cerebrovascular system namespace: uberon def: "System pertaining to blood vessels in the brain." [BTO:0003840] xref: BTO:0003840 xref: SCTID:362029003 is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0007798 ! vascular system [Term] id: UBERON:0008999 name: hoof lamina namespace: uberon def: "The tissues which attach the third phalanx to the hoof wall." [BTO:0003997] synonym: "hoof laminae" RELATED [BTO:0003997] xref: BTO:0003997 xref: SCTID:370743008 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0008963 ! hoof [Term] id: UBERON:0009000 name: ischial spine namespace: uberon def: "A bony process projecting backward and medialward from the posterior border of the ischium." [BTO:0004149] synonym: "spina ischialis" EXACT [FMA:17028] xref: BTO:0004149 xref: FMA:17028 xref: SCTID:18074002 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004530 ! bony projection relationship: part_of UBERON:0001130 ! vertebral column [Term] id: UBERON:0009002 name: placental membrane namespace: uberon def: "The membrane separating the fetal from the maternal blood in the placenta; sometimes inappropriately called the placental barrier." [BTO:0004196] synonym: "placental barrier" RELATED [BTO:0004196] xref: BTO:0004196 xref: SCTID:256591004 xref: UMLS:C0230984 xref: ncithesaurus:Placental_Membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0001987 ! placenta [Term] id: UBERON:0009005 name: femorotibial joint namespace: uberon def: "One of the two primary bendings of a typical leg, pertains to the femur and the tibia." [BTO:0004396] comment: Editor notes: proposed OWL definition: skeletal join that connects ONLY tibia and femur synonym: "femoratibial joint" EXACT [] synonym: "knee" RELATED [] synonym: "tibiofemoral joint" EXACT [FMA:43571] xref: BTO:0004396 xref: FMA:43571 xref: SCTID:182203004 is_a: UBERON:0003840 ! hindlimb joint is_a: UBERON:0011139 ! synovial limb joint relationship: connects UBERON:0000979 ! tibia relationship: connects UBERON:0000981 ! femur relationship: part_of UBERON:0001485 ! knee joint [Term] id: UBERON:0009006 name: deep inguinal lymph node namespace: uberon def: "One of several small inconstant lymph nodes, proximal, intermediate and distal deep to the fascia lata and medial to the femoral vein; they receive lymph from the deep structures of the lower limb, from the glans penis and from superficial inguinal nodes; efferents pass to the external iliac nodes." [BTO:0004548] synonym: "deep inguinal node" EXACT [FMA:44225] synonym: "nodi lymphatici inguinales profundi" RELATED [BTO:0004548] synonym: "nodus lymphaticus inguinalis profundus" EXACT [FMA:44225] xref: BTO:0004548 xref: FMA:44225 xref: SCTID:65266007 is_a: UBERON:0000029 ! lymph node [Term] id: UBERON:0009007 name: superficial inguinal lymph node namespace: uberon def: "A group of 12-20 lymph nodes that lie in the subcutaneous tissue below the inguinal ligament and along the terminal part of the great saphenous vein; they drain the skin and subcutaneous tissue of the lower abdominal wall, perineum, buttocks, external genitalia, and lower limbs." [BTO:0004549] synonym: "lymph node of cloquet" EXACT [FMA:5036] synonym: "lymph node of rosenmuller" EXACT [FMA:5036] synonym: "nodus lymphaticus inguinalis superficialis" EXACT [FMA:5036] synonym: "superficial inguinal node" EXACT [FMA:5036] xref: BTO:0004549 xref: FMA:5036 xref: SCTID:113340006 is_a: UBERON:0000029 ! lymph node [Term] id: UBERON:0009009 name: carotid sinus nerve namespace: uberon def: "Carotid branch of glossopharyngeal nerve." [BTO:0004978] synonym: "carotid branch of glossopharyngeal nerve" EXACT [FMA:53488] synonym: "ramus sinus carotici" EXACT [FMA:53488] xref: BTO:0004978 xref: FMA:53488 xref: SCTID:50624003 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0001649 ! glossopharyngeal nerve [Term] id: UBERON:0009010 name: periurethral tissue namespace: uberon def: "Tissue around the urethra." [BTO:0005081] xref: BTO:0005081 xref: SCTID:256880003 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000479 ! tissue is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0000057 ! urethra [Term] id: UBERON:0009013 name: white fibrocartilage namespace: uberon xref: MA:0000486 xref: SCTID:3008003 is_a: UBERON:0001995 ! fibrocartilage [Term] id: UBERON:0009014 name: lower back skin namespace: uberon def: "A zone of skin that is part of a lower back." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: MA:0000504 xref: SCTID:286601005 is_a: UBERON:0001068 ! skin of back is_a: UBERON:0003836 ! abdominal segment skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0005462 ! lower back [Term] id: UBERON:0009015 name: upper back skin namespace: uberon def: "A zone of skin that is part of a dorsal thoracic segment of trunk." [OBOL:automatic] xref: MA:0000510 xref: SCTID:304890003 is_a: UBERON:0001068 ! skin of back is_a: UBERON:0001418 ! skin of thorax intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: UBERON:0009016 name: ciliary stroma namespace: uberon synonym: "ocular ciliary stroma" EXACT [] synonym: "stroma of ciliary body" EXACT [] xref: MA:0001239 xref: SCTID:280868008 is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0003891 ! stroma is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001775 ! ciliary body [Term] id: UBERON:0009020 name: left uterine horn namespace: uberon def: "An uterine horn that is in the left side of a uterus." [OBOL:automatic] xref: MA:0001727 xref: SCTID:245482004 intersection_of: UBERON:0002247 ! uterine horn intersection_of: in_left_side_of UBERON:0000995 ! uterus [Term] id: UBERON:0009022 name: right uterine horn namespace: uberon def: "An uterine horn that is in the right side of a uterus." [OBOL:automatic] xref: MA:0001728 xref: SCTID:245481006 intersection_of: UBERON:0002247 ! uterine horn intersection_of: in_right_side_of UBERON:0000995 ! uterus [Term] id: UBERON:0009024 name: adrenal gland X zone namespace: uberon def: "A wide juxta-medullary layer of cells in the adrenal glands of young mature virgin female mice." [http://www.jstor.org/pss/82802] synonym: "juvenile zone" RELATED [MA:0001888] xref: MA:0001888 xref: SCTID:24306004 is_a: UBERON:0009753 ! adrenal gland cortex zone relationship: part_of UBERON:0001235 ! adrenal cortex relationship: part_of UBERON:0003100 ! female organism [Term] id: UBERON:0009025 name: gastroepiploic artery namespace: uberon def: "Abdominal artery that follows the curvature of the stomach. The right gasteroepiploic artery is frequently used in coronary artery bypass grafting, myocardial revascularization, and other vascular reconstruction." [MESH:A07.231.114.379] subset: grouping_class ! Subset consisting of classes creating for grouping purposes xref: MA:0001962 xref: MESH:A07.231.114.379 xref: SCTID:261401008 xref: UMLS:C0447070 xref: ncithesaurus:Gastroepiploic_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009026 name: iliac circumflex artery namespace: uberon xref: MA:0001975 xref: SCTID:244327004 xref: UMLS:C0447101 xref: ncithesaurus:Circumflex_Iliac_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009027 name: vesical artery namespace: uberon xref: MA:0002078 xref: SCTID:244307000 is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009029 name: pudendal vein namespace: uberon xref: MA:0002202 xref: SCTID:395225000 is_a: UBERON:0001638 ! vein [Term] id: UBERON:0009030 name: left pulmonary vein namespace: uberon xref: MA:0002207 xref: SCTID:304057004 xref: UMLS:C0226670 xref: ncithesaurus:Left_Pulmonary_Vein is_a: UBERON:0002016 ! pulmonary vein [Term] id: UBERON:0009032 name: right pulmonary vein namespace: uberon xref: MA:0002208 xref: SCTID:304056008 xref: UMLS:C0226669 xref: ncithesaurus:Right_Pulmonary_Vein is_a: UBERON:0002016 ! pulmonary vein [Term] id: UBERON:0009034 name: stomach region namespace: uberon def: "An organ part that is part of a stomach." [OBOL:automatic] xref: MA:0002561 xref: SCTID:245415005 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000064 ! organ part intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0009035 name: renal straight tubule namespace: uberon comment: todo - add relationships synonym: "kidney straight tubule" EXACT [MA:0002634] xref: MA:0002634 xref: SCTID:245151008 is_a: UBERON:0001231 ! nephron tubule [Term] id: UBERON:0009038 name: sulcus ampullaris namespace: uberon def: "the groove on the external surface of the ampulla of each semicircular duct where the nerve enters the ampullary crest." [http://www.medilexicon.com/medicaldictionary.php?s=ampullary+groove] synonym: "ampullary groove" EXACT [FMA:74584] synonym: "ampullary sulcus" EXACT [] xref: FMA:74584 xref: MA:0002835 xref: SCTID:368954006 is_a: UBERON:0006800 ! anatomical line relationship: part_of UBERON:0004043 ! semicircular canal ampulla [Term] id: UBERON:0009039 name: lymph node germinal center namespace: uberon def: "A germinal center that is located in a lymph node" [CL:tm] synonym: "germinal center" BROAD [BTO:0003671] synonym: "lymph node activated zone" RELATED [] synonym: "lymph node central zone" RELATED [] synonym: "lymph node light zone" RELATED [] synonym: "lymph node nodule" RELATED [] xref: BTO:0003671 xref: MA:0002989 xref: SCTID:327147000 xref: ncithesaurus:Lymph_Node_Germinal_Center relationship: part_of UBERON:0010753 ! lymph node secondary follicle intersection_of: UBERON:0010754 ! germinal center intersection_of: part_of UBERON:0000029 ! lymph node [Term] id: UBERON:0009040 name: deep circumflex iliac artery namespace: uberon def: "The deep circumflex iliac artery (or deep iliac circumflex artery) is an artery in the pelvis that travels along the iliac crest of the pelvic bone." [Wikipedia:Deep_circumflex_iliac_artery] synonym: "arteria circumflexa ilium profunda" EXACT LATIN [Wikipedia:Deep_circumflex_iliac_artery] synonym: "deep iliac circumflex" RELATED [Wikipedia:Deep_circumflex_iliac_artery] synonym: "deep iliac circumflex artery" RELATED [Wikipedia:Deep_circumflex_iliac_artery] xref: FMA:20687 xref: SCTID:181353005 xref: UMLS:C0226405 xref: http://upload.wikimedia.org/wikipedia/commons/0/07/Gray586.png xref: http://upload.wikimedia.org/wikipedia/commons/7/74/Gray586.png xref: ncithesaurus:Deep_Circumflex_Iliac_Artery is_a: UBERON:0003520 ! pelvis blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0009026 ! iliac circumflex artery relationship: branch_of UBERON:0001308 ! external iliac artery relationship: part_of UBERON:0001308 ! external iliac artery [Term] id: UBERON:0009041 name: superficial circumflex iliac artery namespace: uberon def: "The superficial iliac circumflex artery (or superficial circumflex iliac), the smallest of the cutaneous branches of the femoral artery, arises close to the superficial epigastric artery, and, piercing the fascia lata, runs lateralward, parallel with the inguinal ligament, as far as the crest of the ilium. It divides into branches which supply the integument of the groin, the superficial fascia, and the superficial subinguinal lymph glands, anastomosing with the deep iliac circumflex, the superior gluteal and lateral femoral circumflex arteries." [Wikipedia:Superficial_circumflex_iliac_artery] synonym: "arteria circumflexa ilium superficialis" EXACT [Wikipedia:Superficial_iliac_circumflex_artery] synonym: "iliac circumflex artery" RELATED [Wikipedia:Superficial_iliac_circumflex_artery] synonym: "superficial circumflex iliac artery" RELATED [Wikipedia:Superficial_iliac_circumflex_artery] xref: FMA:20737 xref: UMLS:C0738891 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray548.png xref: ncithesaurus:Superficial_Circumflex_Iliac_Artery is_a: UBERON:0003520 ! pelvis blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0009026 ! iliac circumflex artery relationship: branch_of UBERON:0002060 ! femoral artery relationship: part_of UBERON:0001308 ! external iliac artery relationship: part_of UBERON:0002060 ! femoral artery [Term] id: UBERON:0009042 name: prostatic venous plexus namespace: uberon def: "The prostatic veins form a well-marked prostatic plexus which lies partly in the fascial sheath of the prostate and partly between the sheath and the prostatic capsule. It communicates with the pudendal and vesical plexuses." [Wikipedia:Prostatic_venous_plexus] synonym: "plexus venosus prostaticus" RELATED LATIN [Wikipedia:Prostatic_venous_plexus] synonym: "pudendal venous plexus" RELATED [FMA:29711] xref: FMA:29711 xref: SCTID:303052003 xref: http://upload.wikimedia.org/wikipedia/commons/b/bd/Gray585.png is_a: UBERON:0001593 ! venous plexus [Term] id: UBERON:0009044 name: pudendal venous plexus namespace: uberon def: "The pudendal plexus (vesicoprostatic plexus) lies behind the arcuate pubic ligament and the lower part of the pubic symphysis, and in front of the bladder and prostate. Its chief tributary is the deep dorsal vein of the penis, but it also receives branches from the front of the bladder and prostate. It communicates with the vesical plexus and with the internal pudendal vein and drains into the vesical and hypogastric veins." [Wikipedia:Pudendal_plexus_(veins)] xref: SCTID:65326006 is_a: UBERON:0001593 ! venous plexus [Term] id: UBERON:0009046 name: inferior external pudendal vein namespace: uberon xref: MA:0002203 is_a: UBERON:0009029 ! pudendal vein [Term] id: UBERON:0009047 name: superior external pudendal vein namespace: uberon xref: MA:0002204 is_a: UBERON:0009029 ! pudendal vein [Term] id: UBERON:0009048 name: deep external pudendal vein namespace: uberon xref: FMA:44488 is_a: UBERON:0009029 ! pudendal vein [Term] id: UBERON:0009049 name: superficial external pudendal vein namespace: uberon xref: FMA:21377 is_a: UBERON:0009029 ! pudendal vein [Term] id: UBERON:0009050 name: nucleus of solitary tract namespace: uberon def: "A neural nucleus that is part of the solitary tract nuclear complex. The solitary tract and nucleus are structures in the brainstem that carry and receive visceral sensation and taste from the facial (VII), glossopharyngeal (IX) and vagus (X) cranial nerves. [WP,unvetted]." [OBOL:automatic, Wikipedia:Solitary_nucleus] synonym: "nucleus of the tractus solitarius" EXACT [NIF_GrossAnatomy:birnlex_1429] synonym: "nucleus of tractus solitarius" EXACT [Wikipedia:Solitary_nucleus] synonym: "nucleus tractus solitarii medullae oblongatae" RELATED LATIN [Wikipedia:Solitary_nucleus] synonym: "solitary nucleus" EXACT [] synonym: "solitary tract nucleus" EXACT [] xref: ABA:NTS xref: BM:Me-NS xref: BTO:0003963 xref: EV:0100288 xref: FMA:256691 xref: GAID:593 xref: MA:0001052 xref: MESH:A08.186.211.132.810.406.750 xref: NIF_GrossAnatomy:birnlex_1429 xref: UMLS:C0175518 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/30/Gray696.png/200px-Gray696.png xref: ncithesaurus:Nucleus_of_the_Solitary_Tract xref: ncithesaurus:Solitary_Nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata is_a: UBERON:0011775 ! vagus nerve nucleus intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002126 ! solitary tract nuclear complex [Term] id: UBERON:0009051 name: gelatinous nucleus of solitary tract namespace: uberon xref: ABA:NTSge xref: FMA:77463 is_a: UBERON:0009050 ! nucleus of solitary tract [Term] id: UBERON:0009052 name: medial nucleus of solitary tract namespace: uberon xref: ABA:NTSm xref: FMA:229585 is_a: UBERON:0009050 ! nucleus of solitary tract [Term] id: UBERON:0009053 name: dorsal nucleus of trapezoid body namespace: uberon synonym: "dorsal nucleus of trapezoid body" EXACT [NIF_GrossAnatomy:birnlex_2575] xref: NIF_GrossAnatomy:birnlex_2575 xref: SCTID:369021001 is_a: UBERON:0007633 ! nucleus of trapezoid body [Term] id: UBERON:0009054 name: open circulatory system namespace: uberon comment: The Open Circulatory System is a system in which fluid (called hemolymph) in a cavity called the hemocoel bathes the organs directly with oxygen and nutrients and there is no distinction between blood and interstitial fluid; this combined fluid is called hemolymph or haemolymph is_a: UBERON:0001009 ! circulatory system [Term] id: UBERON:0009055 name: closed circulatory system namespace: uberon comment: Editor notes: consider merging with cardiovascular system? Taxon notes: The circulatory systems of all vertebrates, as well as of annelids (for example, earthworms) and cephalopods (squid and octopus) are closed, just as in humans. Still, the systems of fish, amphibians, reptiles, and birds show various stages of the evolution of the circulatory system is_a: UBERON:0001009 ! circulatory system [Term] id: UBERON:0009056 name: two-pass circulatory system namespace: uberon def: "A closed circulatory system in which blood passes twice through the heart to supply the body once." [GO:0035905, Wikipedia:Double_circulatory_system] is_a: UBERON:0009055 ! closed circulatory system [Term] id: UBERON:0009057 name: one-pass circulatory system namespace: uberon def: "A closed circulatory system in which blood passes once through the heart to supply the body once." [GO:0035907] is_a: UBERON:0009055 ! closed circulatory system [Term] id: UBERON:0009058 name: faveolus namespace: uberon def: "A bellows-shaped respiratory unit extending from the outer wall of the lung into a central air space." [PMID:12869615] comment: Dunker (1978) coined the terms ediculae or faveoli to describe the unit structure of the reptilian parenchymal, which are analogous to mammalian alveoli, but are up to 1,000 times larger than alveoli of similar sized mammals[PMID:12625309] synonym: "edicula" RELATED SENSU [PMID:12625309] synonym: "faveoli" RELATED PLURAL [] synonym: "lung faveolus" EXACT [] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0009060 name: air sac namespace: uberon def: "any of the membranous air-filled extensions of the lungs of birds, which increase the efficiency of gaseous exchange in the lungs" [Wikipedia:Bird_anatomy#Respiratory_system, http://www.thefreedictionary.com/air+sac] comment: Three distinct sets of organs perform respirationbthe anterior air sacs (interclavicular, cervicals, and anterior thoracics), the lungs, and the posterior air sacs (posterior thoracics and abdominals). The posterior and anterior air sacs, typically nine, expand during inhalation. Air enters the bird via the trachea. Half of the inhaled air enters the posterior air sacs, the other half passes through the lungs and into the anterior air sacs. Air from the anterior air sacs empties directly into the trachea and out the bird's mouth or nares. The posterior air sacs empty their air into the lungs. Air passing through the lungs as the bird exhales is expelled via the trachea. Some taxonomic groups (Passeriformes) possess 7 air sacs, as the clavicular air sacs may interconnect or be fused with the cranial thoracic air sacs[WP] synonym: "psotcranial air sac" RELATED [UBERON:cjm] synonym: "sacci pneumatici" EXACT LATIN [] xref: MESH:A13.048 xref: SCTID:49081009 xref: http://upload.wikimedia.org/wikipedia/commons/f/f2/BirdRespiration.svg is_a: UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0009061 name: anterior air sac namespace: uberon comment: interclavicular, cervicals, & anterior thoracics subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "cranial air sac" RELATED [] is_a: UBERON:0009060 ! air sac [Term] id: UBERON:0009062 name: posterior air sac namespace: uberon comment: Half of the inhaled air enters the posterior air sacs. The posterior air sacs empty their air into the lungs. // posterior thoracics & abdominals subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "caudal air sac" RELATED [] is_a: UBERON:0009060 ! air sac [Term] id: UBERON:0009063 name: interclavicular air sac namespace: uberon comment: Unapaired[Kardong] is_a: UBERON:0009061 ! anterior air sac [Term] id: UBERON:0009064 name: cervical air sac namespace: uberon xref: SCTID:62426003 is_a: UBERON:0009061 ! anterior air sac relationship: in_lateral_side_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0009065 name: anterior thoracic air sac namespace: uberon synonym: "cranial thoracic air sac" RELATED [] synonym: "cranial thoracic sac" RELATED [] is_a: UBERON:0009061 ! anterior air sac relationship: in_lateral_side_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0009066 name: posterior thoracic air sac namespace: uberon synonym: "caudal thoracic air sac" RELATED [] synonym: "caudal thoracic sac" RELATED [] xref: SCTID:10576005 is_a: UBERON:0009062 ! posterior air sac relationship: in_lateral_side_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0009067 name: abdominal air sac namespace: uberon xref: SCTID:43701009 is_a: UBERON:0009062 ! posterior air sac relationship: in_lateral_side_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0009071 name: mesobronchus namespace: uberon subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "mesobronchi" RELATED PLURAL [] is_a: UBERON:0002182 ! main bronchus relationship: connected_to UBERON:0009060 ! air sac relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0009072 name: ventrobronchus namespace: uberon subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "ventrobronchi" RELATED PLURAL [] is_a: UBERON:0002185 ! bronchus relationship: connected_to UBERON:0008961 ! parabronchus relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0009073 name: dorsobronchus namespace: uberon synonym: "dorsobronchi" RELATED PLURAL [] is_a: UBERON:0002183 ! lobar bronchus relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0009074 name: syrinx organ namespace: uberon def: "vocal organ of birds, located at the base of a trachea" [Wikipedia:Syrinx_(bird_anatomy)] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "avian vocal organ" RELATED [] synonym: "syrinx" RELATED [] xref: http://upload.wikimedia.org/wikipedia/commons/8/87/Syrinx.jpg is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_function_in GO:0071625 ! vocalization behavior relationship: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0009075 name: membrana tympaniformis namespace: uberon synonym: "syrinx organ wall" EXACT [] synonym: "wall of syrinx" EXACT [Wikipedia:Syrinx_(bird_anatomy)] is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0009074 ! syrinx organ [Term] id: UBERON:0009076 name: membrana tympaniformis lateralis namespace: uberon synonym: "lateral wall of syrinx" EXACT [] is_a: UBERON:0009075 ! membrana tympaniformis [Term] id: UBERON:0009077 name: membrana tympaniformis medialis namespace: uberon synonym: "medial wall of syrinx" EXACT [] is_a: UBERON:0009075 ! membrana tympaniformis [Term] id: UBERON:0009078 name: pessulus namespace: uberon def: "A delicate bar of cartilage connecting the dorsal and ventral extremities of the first pair of bronchial cartilages in the syrinx of birds" [http://www.encyclo.co.uk/webster/P/64] is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007844 ! cartilage element relationship: part_of UBERON:0009074 ! syrinx organ [Term] id: UBERON:0009089 name: inner medulla vasa recta descending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the inner medullar parallel to the descending limb xref: KUPO:0001003 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0004776 ! inner renal medulla vasa recta [Term] id: UBERON:0009090 name: outer medulla vasa recta descending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the outer medullar parallel to the descending limb xref: KUPO:0001004 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0004775 ! outer renal medulla vasa recta [Term] id: UBERON:0009091 name: vasa recta ascending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta parallel to the ascending limb xref: KUPO:0001005 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0004726 ! vasa recta [Term] id: UBERON:0009092 name: inner medulla vasa recta ascending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the inner medulla parallel to the ascending limb xref: KUPO:0001006 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0004776 ! inner renal medulla vasa recta [Term] id: UBERON:0009093 name: outer medulla vasa recta ascending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta in the outer medulla parallel to the ascending limb xref: KUPO:0001007 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0004775 ! outer renal medulla vasa recta [Term] id: UBERON:0009095 name: tip of renal papilla namespace: uberon synonym: "papillary tip" EXACT [KUPO:0001009] synonym: "papillary tips" EXACT PLURAL [KUPO:0001009] xref: KUPO:0001009 is_a: UBERON:0000064 ! organ part is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001228 ! renal papilla [Term] id: UBERON:0009096 name: gravid stage namespace: uberon is_obsolete: true consider: UBERON:0009097 ! gravid organism comment: Obsoleted as the gravid stage is not a life cycle stage. A similar term may be recreated when we have stages specific to structures such as the uterus [Term] id: UBERON:0009097 name: gravid organism namespace: uberon def: "An organism containing a developing embryo, fetus, or unborn offspring within the body." [BTO:0004733] synonym: "gravid" RELATED [BTO:0004733] synonym: "pregnant adult stage" RELATED [BTO:0004733] synonym: "pregnant organism" RELATED [] synonym: "pregnant stage" RELATED [BTO:0004733] xref: BTO:0004733 relationship: participates_in GO:0007565 ! female pregnancy intersection_of: UBERON:0007023 ! adult organism intersection_of: has_part UBERON:0000922 ! embryo [Term] id: UBERON:0009098 name: gravid uterus namespace: uberon def: "The uterus in pregnancy" [http://medical-dictionary.thefreedictionary.com/gravid+uterus] synonym: "womb" RELATED [] xref: SCTID:362253003 xref: UMLS:C1514389 xref: ncithesaurus:Gravid_Uterus xref: ncithesaurus:Pregnant_Uterus relationship: part_of UBERON:0009097 ! gravid organism relationship: site_of GO:0007565 ! female pregnancy intersection_of: UBERON:0000995 ! uterus intersection_of: contains UBERON:0000922 ! embryo [Term] id: UBERON:0009099 name: typhlosole namespace: uberon def: "an invagination of the intestinal epithelium that emanates from a lamina of mesenchymal cells located between the dorsal aorta and the upper intestine and constitute one of the two principal hematopoietic organs at the ammocoete stage of development." [Wikipedia:Typhlosole, http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2093943/] is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003104 ! mesenchyme relationship: part_of UBERON:0001277 ! intestinal epithelium relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0009101 ! ammocoete [Term] id: UBERON:0009100 name: nephric fold namespace: uberon def: "." [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2093943/] comment: Lymphocytes are also abundant in the lamprey kidney, where large populations are intermingled around the renal tubules is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0009101 ! ammocoete [Term] id: UBERON:0009101 name: ammocoete namespace: uberon def: "lamprey at larval stage" [] is_a: UBERON:0002548 ! larva [Term] id: UBERON:0009102 name: supraneural body namespace: uberon def: "One of the primary immunological organs of the adult lamprey is the supraneural body. This structure lies dorsal to spinal column and becomes heavily populated with lymphocytes following after immune challenge [13b15]. The supraneural body from hematopoietically stimulated lampreys appears to be histologically-similar to bbone marrowb in higher vertebrates and contains all blood cell lineages and their precursors, including lymphocytes at all stages of maturity[16]." [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2823822/#R16] subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "dorsal fat body" EXACT [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2093943/] synonym: "pro-vertebral arch" EXACT [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2093943/] is_a: UBERON:0000062 ! organ is_a: UBERON:0004177 ! hemopoietic organ is_a: UBERON:0005057 ! immune organ relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002405 ! immune system [Term] id: UBERON:0009113 name: thymic region namespace: uberon is_a: UBERON:0000475 ! organism subdivision relationship: overlaps UBERON:0000974 ! neck relationship: overlaps UBERON:0002224 ! thoracic cavity relationship: overlaps UBERON:0003728 ! mediastinum relationship: part_of UBERON:0000153 ! anterior region of body [Term] id: UBERON:0009114 name: cervical thymus namespace: uberon def: "A mature thymus that is entirely part of the cervical region." [UBERON:cjm] comment: A cervical thymus is a pathological structure in a human - it can form during the migration of the thymus to its location in the mediastinum. Some mice have a cervical thymus. There are examples of cervical thymi in marsupials and prosimians[ISBN-10:0781714125] subset: organ_slim ! organs, excluding individual muscles and skeletal elements intersection_of: UBERON:0002370 ! thymus intersection_of: part_of UBERON:0000974 ! neck property_value: present_in_taxon NCBITaxon:9263 [Term] id: UBERON:0009115 name: thoracic thymus namespace: uberon def: "A mature thymus that is entirely part of thoracic region." [UBERON:cjm] subset: organ_slim ! organs, excluding individual muscles and skeletal elements is_a: UBERON:0005178 ! thoracic cavity organ is_a: UBERON:0005181 ! thoracic segment organ relationship: located_in UBERON:0002224 ! thoracic cavity intersection_of: UBERON:0002370 ! thymus intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0009116 name: thymoid namespace: uberon def: "A thymus-like lympho-epithelial structures, in the tips of the gill filaments and the neighbouring secondary lamellae (both within the gill basket) of lamprey larvae." [PMID:21293377] comment: Genes: FOXN1 subset: organ_slim ! organs, excluding individual muscles and skeletal elements is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0003295 ! pharyngeal gland is_a: UBERON:0004177 ! hemopoietic organ is_a: UBERON:0005057 ! immune organ is_a: UBERON:0005058 ! hemolymphoid system gland is_a: UBERON:0006925 ! digestive gland is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002405 ! immune system relationship: part_of UBERON:0009101 ! ammocoete relationship: part_of UBERON:0009119 ! branchial basket [Term] id: UBERON:0009117 name: indifferent gonad namespace: uberon def: "A gonad prior to differentiating into a definitive testis or ovary." [http://www.medterms.com/script/main/art.asp?articlekey=8981] comment: typically part of the embryo - however, in male tammar wallabies the gonads are indifferent at the neonatal stage[8827321] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: EHDAA2:0000716 xref: UMLS:C1512703 xref: ncithesaurus:Indifferent_Gonad is_a: UBERON:0000991 ! gonad relationship: part_of UBERON:0009196 ! indifferent external genitalia [Term] id: UBERON:0009118 name: marsupial pouch namespace: uberon def: "." [Wikipedia:Pouch_(marsupial)] synonym: "pouch" BROAD [] is_a: UBERON:0005156 ! reproductive structure [Term] id: UBERON:0009119 name: branchial basket namespace: uberon def: "the network-like cartilaginous skeleton of the gill region of Petromyzontiformes and Holocephali" [http://www.briancoad.com/dictionary/DicPics/branchial%20basket.htm] comment: May also be present in amphioxus. Editor notes: developmental relationship needs to be changed if the scope is broadened, as NC is vertebrate-specific subset: cyclostome_subset ! cyclostome structures synonym: "gill basket" EXACT [http://www.briancoad.com/dictionary/DicPics/branchial%20basket.htm] xref: http://dev.duit.uwa.edu.au/zoology/media/lamp/E19.jpg is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010912 ! subdivision of skeleton relationship: develops_from UBERON:0002342 ! neural crest relationship: has_part UBERON:0002418 ! cartilage tissue relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0009120 name: gill filament namespace: uberon def: "Portion of tissue that projects outward from the gill and is a thread-like, soft, red respiratory and excretory structure." [ZFIN:ZDB-PUB-961014-576, http:www.briancoad.com/Dictionary/G.htm] synonym: "gill filaments" EXACT PLURAL [ZFA:0000667] xref: BTO:0002150 xref: EFO:0003554 xref: TAO:0000667 xref: ZFA:0000667 is_a: UBERON:0000479 ! tissue relationship: capable_of GO:0007585 ! respiratory gaseous exchange relationship: part_of UBERON:0002535 ! gill property_value: external_definition "Branched region of the gill where respiratory exchange takes place. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0009121 name: vomeronasal nerve namespace: uberon def: "Nerve carrying fibers from the vomeronasal organ to the accessory olfactory bulb[AAO]. originates in the olfactory epithelial cells of Jacobson's organ, and that passes through the submucous tissue of the nasal septum and the cribriform plate of the ethmoid bone to the olfactory bulb[BTO]." [AAO:DSM, BTO:0001351, ISBN10:0471888893] comment: in the human this disappears before birth xref: AAO:0010608 xref: BTO:0001351 xref: NIF_GrossAnatomy:nlx_anat_1005018 is_a: UBERON:0001785 ! cranial nerve relationship: develops_from UBERON:0003050 ! olfactory placode relationship: overlaps UBERON:0002264 ! olfactory bulb relationship: overlaps UBERON:0003367 ! epithelium of vomeronasal organ property_value: external_definition "Nerve carrying fibers from the vomeronasal organ to the accessory olfactory bulb.[AAO]" xsd:string [Term] id: UBERON:0009122 name: adenohypophyseal placode namespace: uberon def: "The adenohypophyseal placode forms the anterior lobe of the pituitary gland and gives rise to the endocrine secretory cells of the pituitary" [http://www.ncbi.nlm.nih.gov/books/NBK53175/] comment: Editor notes: consider adding more detailed spatial placement - e.g. oral ectoderm and/or rostal ectoderm. Addtional notes: Fate-mapping studies in amphibian, chick and mouse embryos (Eagleson et al., 1986; 1995; Couly and Le Douarin, 1985; Cobos et al., 2001; Osumi-Yamachita et al., 1994; Kawamura et al., 2002) have shown that the cells contributing to the adenohypophysis develop at the midline of the anterior neural ridge, which delineates the rostral boundary of the neural plate, a region devoid of neural crest. The anterior neural ridge also gives rise to the olfactory placodes and some forebrain tissues including the olfactory bulbs (reviewed in Papalopulu, 1995). Ablation of this region in chick embryos at the 2-4 somite stage confirmed these lineage analyses as it prevented formation of Rathkebs pouch and any further pituitary development (elAmraoui and Dubois, 1993). Upon head folding, the oral ectoderm cells of the adenohypophyseal placode invaginate towards the prospective ventral diencephalon to form Rathkebs pouch, the anlage of the adenohypophysis. Rathkebs pouch starts as an invagination of the oral ectoderm in response to inductive signals from the prospective diencephalon. The region of the diencephalon above the pouch is known as the infundibulum and forms the posterior lobe of the pituitary or neurohypohysis (Figure 3). While in most basal fish and tetrapods the adenohypophyseal anlagen invaginates to form Rathkebs pouch, in teleost fish the adenohypophyseal placode does not invaginate but rather maintains its initial organization forming a solid structure in the head (reviewed in Pogoda and Hammerschmidt; 2009) synonym: "pituitary placode" RELATED [ZFA:0001198] xref: EFO:0000229 xref: TAO:0001198 xref: XAO:0004208 xref: ZFA:0001198 is_a: UBERON:0002546 ! cranial placode is_a: UBERON:0011814 ! non-neurogenic ectodermal placode relationship: develops_from UBERON:0005497 ! non-neural ectoderm [Term] id: UBERON:0009123 name: otic cup namespace: uberon is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0003069 ! otic placode [Term] id: UBERON:0009124 name: geniculate placode namespace: uberon def: "Rostralmost epibranchial placode. Associated with 1st branchial cleft." [NBK:NBK53175] comment: Taxonomic equivalence to EHDAA2 class made on basis of shared development: gives rise to geniculate ganglion synonym: "epibranchial placode 1" EXACT [EHDAA2:0004206] synonym: "facial VII placode" RELATED [] synonym: "facial epibranchial placode" EXACT [XAO:0004211] synonym: "facial placode" EXACT [ZFA:0001295] synonym: "hyoid VII placode" RELATED [ISBN10:0471888893] synonym: "hyoid placode" RELATED [ISBN10:0471888893] xref: EHDAA2:0004206 xref: TAO:0001295 xref: XAO:0004211 xref: ZFA:0001295 is_a: UBERON:0003078 ! epibranchial placode [Term] id: UBERON:0009125 name: petrosal placode namespace: uberon def: "Epibranchial placode between geniculate and nodose. Associated with 2nd branchial cleft." [NBK:NBK53175] comment: Taxonomic equivalence to EHDAA2 class made on basis of shared development: gives rise to glossopharyngeal ganglion synonym: "epibranchial placode 2" EXACT [EHDAA2:0004207] synonym: "glossopharyngeal IX placode" EXACT [ISBN10:0471888893] synonym: "glossopharyngeal epibranchial placode" EXACT [XAO:0004212] synonym: "glossopharyngeal placode" EXACT [ISBN10:0471888893, ZFA:0001296] xref: EHDAA2:0004207 xref: TAO:0001296 xref: XAO:0004212 xref: ZFA:0001296 is_a: UBERON:0003078 ! epibranchial placode [Term] id: UBERON:0009126 name: nodosal placode namespace: uberon def: "Caudalmost epibranchial placode. Associated with 3rd branchial cleft." [NBK:NBK53175] comment: Taxonomic equivalence to EHDAA2 class made on basis of shared development: Gives rise to inferior vagus ganglion. Note that ZFA has 4 vagal placodes synonym: "epibranchial placode 3" EXACT [EHDAA2:0004208] synonym: "nodose placode" EXACT [XAO:0004213] synonym: "vagal X placode" RELATED [ISBN10:0471888893] synonym: "vagal epibranchial placode" EXACT [XAO:0004213] synonym: "vagal placode" RELATED [ISBN10:0471888893] xref: EHDAA2:0004208 xref: XAO:0004213 is_a: UBERON:0003078 ! epibranchial placode [Term] id: UBERON:0009127 name: epibranchial ganglion namespace: uberon def: "Cranial ganglion which develops from an epibranchial placode." [PMID:20133851, ZFIN:curator] comment: Epibranchial ganglia orchestrate the development of the cranial neurogenic crest synonym: "epibranchial ganglia" EXACT PLURAL [ZFA:0001555] xref: TAO:0001555 xref: ZFA:0001555 is_a: UBERON:0001714 ! cranial ganglion relationship: develops_from UBERON:0003078 ! epibranchial placode intersection_of: UBERON:0001714 ! cranial ganglion intersection_of: develops_from UBERON:0003078 ! epibranchial placode [Term] id: UBERON:0009128 name: lateral line placode namespace: uberon synonym: "lateral line placodes" RELATED PLURAL [XAO:0000440] xref: AAO:0010718 xref: XAO:0000440 is_a: UBERON:0003067 ! dorsolateral placode property_value: never_in_taxon NCBITaxon:32524 property_value: external_definition "Specialized series of dorsolateral ectodermal placodes.[AAO]" xsd:string [Term] id: UBERON:0009129 name: right atrium endocardium namespace: uberon def: "An endocardium that is part of a right atrium." [OBOL:automatic] synonym: "endocardium of right atrium" EXACT [FMA:7281] synonym: "right atrial endocardium" EXACT [FMA:7281] synonym: "right atrium endocardial tissue" RELATED [VHOG:0001228] xref: EHDAA2:0000274 xref: FMA:7281 xref: SCTID:3194006 xref: VHOG:0001228 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0002166 ! endocardium of atrium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0005092 ! right horn of sinus venosus relationship: part_of UBERON:0006218 ! common atrial chamber intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002078 ! right atrium [Term] id: UBERON:0009130 name: dorsal meso-duodenum namespace: uberon xref: RETIRED_EHDAA2:0000411 xref: SCTID:361433003 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0005712 ! midgut duodenum mesentery [Term] id: UBERON:0009131 name: obsolete midbrain vesicle namespace: uberon is_obsolete: true consider: EHDAA2:0001103 ! midbrain vesicle consider: SCTID:361481005 comment: Obsoleted as the meaning of the class was unclear in earlier versions of EHDAA2 [Term] id: UBERON:0009132 name: peroneus namespace: uberon def: "a group of three muscles fibularis (peronC&us) longus, brevis, and tertius originating on the fibula and inserting on the metatarsals" [Wikipedia:Fibularis_muscles] synonym: "fibularis" EXACT [] synonym: "fibularis muscle" EXACT [] synonym: "peroneal muscle" EXACT [] synonym: "peroneal muscle group" EXACT [] synonym: "peroneal muscles" EXACT [] synonym: "peroneus muscle" EXACT [] xref: EHDAA2:0001450 xref: EHDAA:8297 xref: SCTID:181694005 is_a: UBERON:0001383 ! muscle of leg is_a: UBERON:0002036 ! striated muscle tissue is_a: UBERON:0004256 ! hindlimb zeugopod muscle relationship: part_of UBERON:0003823 ! hindlimb zeugopod [Term] id: UBERON:0009133 name: pleuroperitoneal membrane namespace: uberon alt_id: UBERON:0009146 def: "A fold of tissue which extends into the peritoneal cavity of the developing embryo and participates in the separation of the pleural and peritoneal cavities." [Wikipedia:Pleuroperitoneal, http://medical-dictionary.thefreedictionary.com/pleuroperitoneal+membrane] synonym: "pleuroperitoneal fold" EXACT [VHOG:0000757] synonym: "pleuroperitoneal membranes" EXACT PLURAL [EHDAA2:0001483] xref: EHDAA2:0001483 xref: EMAPA:17709 xref: SCTID:361429005 xref: UMLS:C1283968 xref: VHOG:0000757 xref: ncithesaurus:Pleuroperitoneal_Membrane is_a: UBERON:0000479 ! tissue is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: adjacent_to UBERON:0001179 ! peritoneal cavity relationship: adjacent_to UBERON:0002402 ! pleural cavity property_value: homology_notes "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string [Term] id: UBERON:0009138 name: right common cardinal vein namespace: uberon comment: Taxon notes: only a vestige of the right duct in the adult hagfish (21)[PMID:20959416, S1] synonym: "common cardinal vein right" EXACT [EHDAA2:0004535] xref: EHDAA2:0004535 xref: FMA:70310 xref: SCTID:361507009 is_a: UBERON:0002064 ! common cardinal vein relationship: part_of UBERON:0004344 ! cardinal vein [Term] id: UBERON:0009139 name: right posterior cardinal vein namespace: uberon alt_id: UBERON:0013123 synonym: "posterior cardinal vein right" EXACT [EHDAA2:0004536] synonym: "right postcardinal vein" EXACT [FMA:70315] xref: EHDAA2:0004536 xref: FMA:70315 xref: SCTID:361505001 intersection_of: UBERON:0002065 ! posterior cardinal vein intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009140 name: right subcardinal vein namespace: uberon synonym: "subcardinal vein right" EXACT [EHDAA2:0004538] xref: EHDAA2:0004538 xref: SCTID:361452009 intersection_of: UBERON:0006296 ! subcardinal vein intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009141 name: craniocervical region vein namespace: uberon def: "A vein that is part of a craniocervical region." [OBOL:automatic] synonym: "craniocervical vein" EXACT [] synonym: "head and neck veins" EXACT [EHDAA2:0004542] synonym: "vein of head and neck" EXACT [] xref: EHDAA2:0004542 xref: SCTID:32945007 is_a: UBERON:0013140 ! systemic vein relationship: part_of UBERON:0004581 ! systemic venous system intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0007811 ! craniocervical region [Term] id: UBERON:0009142 name: entire mesenchyme namespace: uberon alt_id: UBERON:0003313 comment: consider adding new class (EMAPA:16097) for mesenchyme of embryo (some mesenchyme is extraembryonic - e.g. amnion mesoderm) xref: EHDAA2:0001113 xref: EHDAA:177 xref: EMAPA:16097 is_a: UBERON:0000481 ! multi-tissue structure relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm [Term] id: UBERON:0009143 name: developing esophageal region namespace: uberon comment: consider merging into esophagus synonym: "esophageal region" BROAD [] synonym: "oesophageal region" BROAD [EMAPA:16700, RETIRED_EHDAA2:0000654] xref: EMAPA:16700 xref: RETIRED_EHDAA2:0000654 xref: SCTID:245404000 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0009145 name: pharyngeal region namespace: uberon xref: EMAPA:16549 xref: RETIRED_EHDAA2:0001454 is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001557 ! upper respiratory tract [Term] id: UBERON:0009149 name: foramen primum namespace: uberon def: "opening in the septum primum between the two atria of the embryonic heart[TMD]." [Wikipedia:Primary_interatrial_foramen, http://medical-dictionary.thefreedictionary.com/foramen+primum] synonym: "interatrial foramen primum" EXACT [Wikipedia:Primary_interatrial_foramen] synonym: "ostium primum" EXACT [http://medical-dictionary.thefreedictionary.com/foramen+primum] synonym: "primary interatrial foramen" EXACT [Wikipedia:Primary_interatrial_foramen] xref: EHDAA2:0001826 xref: EMAPA:17012 xref: SCTID:308852002 xref: UMLS:C1517292 xref: VHOG:0001470 xref: ncithesaurus:Foramen_Primum is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0002085 ! interatrial septum relationship: part_of UBERON:0004154 ! septum primum property_value: external_definition "First of the two openings to perforate the septum primum between the two atria of the embryonic heart. [TFD][VHOG]" xsd:string property_value: homology_notes "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether. [ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620]; [about heart development] In the various tetrapod classes ontogenetic events essentially recapitulate the phylogenetic stages.[well established][VHOG]" xsd:string [Term] id: UBERON:0009191 name: sphenoid bone pre-cartilage condensation namespace: uberon xref: EHDAA2:0003446 xref: EMAPA:18015 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0009192 name: basisphenoid pre-cartilage condensation namespace: uberon synonym: "basi-sphenoid pre-cartilage condensation" EXACT [EHDAA2:0003447] xref: EHDAA2:0003447 xref: EMAPA:18013 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0009193 name: sphenoid bone cartilage condensation namespace: uberon xref: EHDAA2:0001888 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0009191 ! sphenoid bone pre-cartilage condensation relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0009194 name: basisphenoid cartilage condenstion namespace: uberon synonym: "basisphenoid cartilage condensation" EXACT [VHOG:0001338] xref: EHDAA2:0000166 xref: VHOG:0001338 is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0009192 ! basisphenoid pre-cartilage condensation relationship: part_of UBERON:0009193 ! sphenoid bone cartilage condensation [Term] id: UBERON:0009195 name: anal membrane namespace: uberon comment: During the 7th week the urorectal septum divides the cloacal membrane into a urogenital membrane (ventrally) and an anal membrane (dorsally) [http://www.embryology.ch/anglais/ugenital/genitexterne01.html] xref: EHDAA2:0004018 xref: SCTID:344130000 xref: UMLS:C1288337 xref: ncithesaurus:Anal_Membrane is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0006217 ! cloacal membrane relationship: part_of UBERON:0001353 ! anal region [Term] id: UBERON:0009196 name: indifferent external genitalia namespace: uberon subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: EHDAA2:0004021 is_a: UBERON:0004176 ! external genitalia [Term] id: UBERON:0009197 name: basioccipital pre-cartilage condensation namespace: uberon xref: EHDAA2:0000165 xref: EHDAA:6033 xref: EMAPA:18012 xref: VHOG:0000959 is_a: UBERON:0005866 ! pre-cartilage condensation relationship: develops_into UBERON:0001692 ! basioccipital bone relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0009198 name: craniofacial suture namespace: uberon def: "any suture between cranial and/or facial bones." [GO:0097094] comment: Editor notes: we follow GO in dividing sutures into cranial and facial and making a grouping class, but this is not consistent with FMA synonym: "articulation of skull bones" RELATED [OBOL:automatic] synonym: "joint of the skull bones" EXACT [OBOL:automatic] is_a: UBERON:0002209 ! fibrous joint [Term] id: UBERON:0009199 name: facial suture namespace: uberon def: "any suture between facial bones." [GO:0097096] is_a: UBERON:0009198 ! craniofacial suture relationship: connects UBERON:0003462 ! facial bone [Term] id: UBERON:0009200 name: limb epidermis namespace: uberon def: "The limb epidermis is the outer epithelial layer of the limb, it is a complex stratified squamous epithelium." [GOC:dph, GOC:sdb_2009, GOC:tb] intersection_of: UBERON:0001003 ! epidermis intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0009201 name: nephric duct namespace: uberon def: "A nephric duct is a tube that drains a primitive kidney[GO]." [GO:0072176] comment: pronephric duct or mesonephric duct is_a: UBERON:0000058 ! duct is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0004819 ! kidney epithelium is_a: UBERON:0006553 ! renal duct is_a: UBERON:0006555 ! excretory tube relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0009202 name: vasa recta descending limb namespace: uberon comment: This class was created in order to align KUPO with CL. The original class was undefined, and the intended meaning is not clear, may be obsoleted in future. The vasa recta is parallel to the loop of Henles, this may refer to the portion of the vasa recta parallel to the descending limb xref: KUPO:0001002 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0004726 ! vasa recta [Term] id: UBERON:0009203 name: internasal suture namespace: uberon def: "a suture joining the nasal bones." [Wikipedia:Internasal_suture] synonym: "inter-nasal suture" EXACT [] synonym: "internasal suture of skull" EXACT [FMA:52959] synonym: "nasal suture" BROAD [GO:0097097] synonym: "sutura internasalis" EXACT LATIN [Wikipedia:Internasal_suture] xref: FMA:52959 xref: SCTID:368990004 is_a: UBERON:0011160 ! nasal suture relationship: connects UBERON:0001681 ! nasal bone [Term] id: UBERON:0009204 name: medial nasal process mesenchyme namespace: uberon def: "Mesenchyme that is part of a medial nasal prominence." [OBOL:automatic] xref: EHDAA2:0001077 xref: EMAPA:16810 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0009501 ! mesenchyme of fronto-nasal process relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest relationship: part_of UBERON:0004068 ! medial nasal prominence intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004068 ! medial nasal prominence [Term] id: UBERON:0009205 name: lateral nasal process mesenchyme namespace: uberon def: "Mesenchyme that is part of a lateral nasal prominence." [OBOL:automatic] synonym: "mesenchyme of latero-nasal process" EXACT [EMAPA:16807] xref: EHDAA2:0000917 xref: EMAPA:16807 is_a: UBERON:0009501 ! mesenchyme of fronto-nasal process relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004067 ! lateral nasal prominence [Term] id: UBERON:0009206 name: lateral nasal process surface ectoderm namespace: uberon def: "An ectoderm that is part of a lateral nasal prominence." [OBOL:automatic] synonym: "ectoderm of latero-nasal process" EXACT [EMAPA:16806] xref: EHDAA2:0000918 xref: EMAPA:16806 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 ! external ectoderm relationship: part_of UBERON:0000076 ! external ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0004067 ! lateral nasal prominence [Term] id: UBERON:0009207 name: geschmacksstreifen namespace: uberon def: "Area on the rostral portion of the soft palate rich in tastebuds (Miller and Spangler 1982)." [PMID:19295142] is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001716 ! secondary palate [Term] id: UBERON:0009210 name: pharyngeal membrane namespace: uberon def: "a thin fold of ectoderm and endoderm that separates the pharyngeal pouches from the branchial clefts in a developing embryo." [http://musom.marshall.edu/anatomy/grosshom/z_devbranc.html] synonym: "pharyngeal membrane" EXACT [] xref: UMLS:C1519040 xref: ncithesaurus:Pharyngeal_Membrane is_a: UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0000924 ! ectoderm relationship: has_part UBERON:0000925 ! endoderm relationship: overlaps UBERON:0004117 ! pharyngeal pouch relationship: overlaps UBERON:0005879 ! pharyngeal cleft [Term] id: UBERON:0009213 name: pharyngeal membrane of 1st arch namespace: uberon def: "separates the first pharyngeal groove from the first pharyngeal pouch." [ISBN10:1416037055] comment: check EMAPA - 3 terms appear to match. We follow EMAPA in making each membrane part of the arch with the same number, though in fact it is between these arches synonym: "1st branchial membrane" EXACT [EMAPA:16992] synonym: "1st pharyngeal membrane" EXACT [VHOG:0001427] synonym: "future tympanic membrane" EXACT [EMAPA:17281] synonym: "tympanic membrane primordium" EXACT [ISBN10:1416037055] xref: EHDAA:3788 xref: EMAPA:16121 xref: EMAPA:16992 xref: EMAPA:17281 xref: VHOG:0001427 is_a: UBERON:0009210 ! pharyngeal membrane relationship: overlaps UBERON:0005872 ! 1st arch pharyngeal cleft relationship: overlaps UBERON:0007122 ! pharyngeal pouch 1 relationship: part_of UBERON:0004362 ! pharyngeal arch 1 property_value: homology_notes "In all vertebrates, the endodermal epithelium lining each pouch contacts the surface ectoderm of the clefts to form a series of bilayered branchial membranes, that break down in fish to form the gill openings.[well established][VHOG]" xsd:string [Term] id: UBERON:0009215 name: pharyngeal membrane of 2nd arch namespace: uberon synonym: "2nd pharyngeal membrane" EXACT [VHOG:0000877] xref: EMAPA:16273 xref: VHOG:0000877 is_a: UBERON:0009210 ! pharyngeal membrane relationship: overlaps UBERON:0005873 ! 2nd arch pharyngeal cleft relationship: overlaps UBERON:0007123 ! pharyngeal pouch 2 relationship: part_of UBERON:0003066 ! pharyngeal arch 2 property_value: homology_notes "In all vertebrates, the endodermal epithelium lining each pouch contacts the surface ectoderm of the clefts to form a series of bilayered branchial membranes, that break down in fish to form the gill openings.[well established][VHOG]" xsd:string [Term] id: UBERON:0009216 name: pharyngeal membrane of 3rd arch namespace: uberon synonym: "3rd pharyngeal membrane" EXACT [VHOG:0000876] xref: EMAPA:16583 xref: VHOG:0000876 is_a: UBERON:0009210 ! pharyngeal membrane relationship: overlaps UBERON:0005874 ! 3rd arch pharyngeal cleft relationship: overlaps UBERON:0007124 ! pharyngeal pouch 3 relationship: part_of UBERON:0003114 ! pharyngeal arch 3 property_value: homology_notes "In all vertebrates, the endodermal epithelium lining each pouch contacts the surface ectoderm of the clefts to form a series of bilayered branchial membranes, that break down in fish to form the gill openings.[well established][VHOG]" xsd:string [Term] id: UBERON:0009217 name: pharyngeal membrane of 4th arch namespace: uberon synonym: "4th pharyngeal membrane" EXACT [UBERON:cjm] xref: EMAPA:16763 is_a: UBERON:0009210 ! pharyngeal membrane relationship: overlaps UBERON:0005875 ! 4th arch pharyngeal cleft relationship: overlaps UBERON:0007125 ! pharyngeal pouch 4 relationship: part_of UBERON:0003115 ! pharyngeal arch 4 [Term] id: UBERON:0009291 name: cartilaginous centrum of vertebra namespace: uberon comment: cartilaginous centrum of vertebra[PMID:11746457] xref: SCTID:317278007 is_a: UBERON:0001075 ! body of vertebra is_a: UBERON:0007844 ! cartilage element [Term] id: UBERON:0009292 name: embryonic nasal process namespace: uberon comment: medial or lateral; in EHDAA2 also frontonasal or intermaxillary synonym: "nasal placode" RELATED [] xref: EHDAA2:0000581 xref: EHDAA:4776 xref: EMAPA:16680 xref: SCTID:308881001 is_a: UBERON:0012314 ! embryonic facial prominence [Term] id: UBERON:0009293 name: embryonic frontal process namespace: uberon synonym: "frontal process" EXACT [VHOG:0001323] xref: EHDAA:4780 xref: EMAPA:16802 xref: SCTID:346265009 xref: VHOG:0001323 is_a: UBERON:0012314 ! embryonic facial prominence relationship: part_of UBERON:0004066 ! frontonasal prominence [Term] id: UBERON:0009468 name: basiotic bone namespace: uberon def: "a small bone in the fetus between the basilar process and the basisphenoid." [http://medical-dictionary.thefreedictionary.com/basiotic+bone] synonym: "basiotic" EXACT [] xref: SCTID:95946002 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0011164 ! neurocranium bone relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0009470 name: postsphenoidal bone namespace: uberon def: "the posterior portion of the sphenoid bone developed in five separate parts consisting of a central basisphenoid, the two alisphenoids, and the two medial pterygoid laminae." [Wikipedia:Ossification_of_sphenoid#Postsphenoid, http://www.merriam-webster.com/dictionary/postsphenoid] xref: SCTID:95950009 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: part_of UBERON:0001677 ! sphenoid bone [Term] id: UBERON:0009471 name: dorsum of tongue namespace: uberon def: "the superior surface of the tongue divided by the sulcus terminalis into an anterior two-thirds, the presulcal part (pars presulcalis). and a posterior one-third, the postsulcal part (pars postsulcalis)." [http://www.drugs.com/dict/dorsum-of-tongue.html] synonym: "dorsal tongue" EXACT [FMA:54651] synonym: "dorsum linguae" EXACT [http://www.drugs.com/dict/dorsum-of-tongue.html] synonym: "tongue dorsum" EXACT [FMA:54651] xref: FMA:54651 xref: SCTID:66938003 xref: UMLS:C0226952 xref: ncithesaurus:Dorsum_of_the_Tongue is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0009472 name: axilla namespace: uberon def: "The axilla is the area on the human body directly under the joint where the arm connects to the shoulder." [Wikipedia:Axilla] synonym: "arm pit" EXACT [Wikipedia:Axilla] synonym: "armpit" EXACT [Wikipedia:Axilla] synonym: "armpits" RELATED [Wikipedia:Axilla] synonym: "axilla" RELATED LATIN [Wikipedia:Axilla] synonym: "axillae" RELATED [Wikipedia:Axilla] synonym: "axillary region" EXACT [FMA:24864, Wikipedia:Axilla] synonym: "oxter" RELATED [Wikipedia:Axilla] synonym: "regio axillaris" EXACT LATIN [FMA:TA] synonym: "underarm" RELATED [Wikipedia:Axilla] xref: EFO:0001395 xref: FMA:24864 xref: MESH:A01.378.800.090 xref: SCTID:362732006 xref: UMLS:C0004454 xref: galen:Axilla xref: http://upload.wikimedia.org/wikipedia/commons/f/f2/Gray411.png xref: ncithesaurus:Axilla is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0001421 ! pectoral girdle region property_value: has_relational_adjective "axillary" xsd:string [Term] id: UBERON:0009473 name: parapodium namespace: uberon def: "either of a pair of fleshy lateral processes borne by most segments of a polychaete worm." [Wikipedia:Parapodium, http://www.merriam-webster.com/dictionary/parapodium?show=0&t=1314575672] synonym: "paradpod" EXACT [] synonym: "paradpodia" RELATED PLURAL [] synonym: "polychaete paradpodium" EXACT [] is_a: UBERON:0000026 ! appendage relationship: part_of UBERON:0000914 ! organismal segment [Term] id: UBERON:0009474 name: ascidian ampulla namespace: uberon synonym: "ampulla" BROAD [] is_a: UBERON:0000026 ! appendage [Term] id: UBERON:0009475 name: ampullar siphon namespace: uberon is_a: UBERON:0000026 ! appendage relationship: part_of UBERON:0009474 ! ascidian ampulla [Term] id: UBERON:0009476 name: madreporite namespace: uberon def: "The madreporite is an opening used to filter water into the water vascular system of echinoderms. It is visible as a small red or yellow button-like structure, looking like a small wart, on the aboral surface of the central disk of a sea star. Close up, it is visibly structured, resembling a \"madrepore\" colony. From this, it derives its name. The water vascular system of the sea star consists of a series of seawater-filled ducts that function in locomotion and feeding and respiration. Its main parts are the madreporite, the stone canal, the ring canal, the radial canals, the lateral canals, and the tube feet. The sieve-like madreporite allows entry of seawater into the stone canal, which connects to the ring canal around the mouth. Five or more radial canals extend from the ring canal, one in each arm above the ambulacral groove. From the radial canals extend many lateral canals, each of which leads to a tube foot. Each tube foot is a closed cylinder with muscular walls, having a sucker at the outer end and a bulb-like ampulla at its inner end within the body cavity." [Wikipedia:Madreporite] is_a: UBERON:0003978 ! valve relationship: part_of UBERON:0008251 ! water vascular system relationship: part_of UBERON:0008259 ! aboral surface [Term] id: UBERON:0009477 name: associated mesenchyme of otic placode namespace: uberon def: "Mesenchyme that is part of a otic placode." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001340 xref: EMAPA:16196 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003069 ! otic placode [Term] id: UBERON:0009478 name: associated mesenchyme of midgut namespace: uberon def: "Mesenchyme that is part of a midgut." [OBOL:automatic] comment: Editors note: previously logically defined as mesenchyme of midgut, but this caused disjointness violations between dense and loose mesenchyme subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "early midgut associated mesenchyme" EXACT [EHDAA2:0001186] xref: EHDAA2:0001186 xref: EMAPA:16256 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010378 ! mesenchyme from splanchnopleure relationship: develops_from UBERON:0010378 ! mesenchyme from splanchnopleure relationship: part_of UBERON:0001045 ! midgut [Term] id: UBERON:0009479 name: ectoderm of buccopharyngeal membrane namespace: uberon def: "An ectoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000190 xref: EMAPA:16260 intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009480 name: endoderm of buccopharyngeal membrane namespace: uberon def: "An endoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000191 xref: EMAPA:16261 intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009481 name: cavity of pericardio-peritoneal canal namespace: uberon def: "A tube lumen that is part of a pericardio-peritoneal canal." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "cavity of the pericardio-peritoneal canal" EXACT [VHOG:0000564] xref: EHDAA2:0001441 xref: EMAPA:16283 xref: VHOG:0000564 intersection_of: UBERON:0005082 ! tube lumen intersection_of: part_of UBERON:0006275 ! pericardio-peritoneal canal [Term] id: UBERON:0009482 name: associated mesenchyme of foregut-midgut junction namespace: uberon def: "Mesenchyme that is part of a foregut-midgut junction." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000570 xref: EMAPA:16364 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006235 ! foregut-midgut junction [Term] id: UBERON:0009483 name: mesentery of foregut-midgut junction namespace: uberon def: "A mesentery that is part of a foregut-midgut junction." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "foregut-midgut junction mesentery" EXACT [VHOG:0000430] xref: EHDAA2:0000575 xref: EMAPA:16365 xref: VHOG:0000430 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0002095 ! mesentery intersection_of: part_of UBERON:0006235 ! foregut-midgut junction property_value: homology_notes "Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG]" xsd:string [Term] id: UBERON:0009484 name: dorsal mesentery of mesentery of foregut-midgut junction namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000571 xref: EMAPA:16366 is_a: UBERON:0009483 ! mesentery of foregut-midgut junction [Term] id: UBERON:0009494 name: pharyngeal arch mesenchymal region namespace: uberon def: "A portion of mesenchymal tissue associated with an individual pharyngeal arch." [UBERON:cjm] comment: Editor notes: this represents a part of the entire arch mesenchyme (UBERON:0010046), and is therefore a superclass of the individual arch mesenchyme classes. Alternate definition: primordial embryonic connective tissue associated with the branchial arches, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to facial and cranial nerve-associated structures. [MP:0011262] synonym: "branchial arch mesenchyme" EXACT [MP:0011262] synonym: "pharyngeal arch mesenchyme" EXACT [UBERON:cjm] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: has_developmental_contribution_from UBERON:0003099 ! cranial neural crest relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002539 ! pharyngeal arch [Term] id: UBERON:0009495 name: extrahepatic part of biliary bud namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000172 xref: EMAPA:16562 is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0004912 ! biliary bud [Term] id: UBERON:0009496 name: intrahepatic part of biliary bud namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000173 xref: EMAPA:16563 is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0004912 ! biliary bud [Term] id: UBERON:0009497 name: epithelium of foregut-midgut junction namespace: uberon def: "An epithelium that is part of a foregut-midgut junction." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000573 xref: EMAPA:16564 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0006235 ! foregut-midgut junction [Term] id: UBERON:0009499 name: parietal of mesothelium of pericardio-peritoneal canal namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001409 xref: EMAPA:16590 is_a: UBERON:0001136 ! mesothelium is_a: UBERON:0007185 ! pericardio-peritoneal canal mesothelium relationship: part_of UBERON:0007185 ! pericardio-peritoneal canal mesothelium [Term] id: UBERON:0009500 name: associated mesenchyme of otocyst namespace: uberon def: "Mesenchyme that is part of a ear vesicle." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001343 xref: EMAPA:16670 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0009477 ! associated mesenchyme of otic placode intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003051 ! ear vesicle [Term] id: UBERON:0009501 name: mesenchyme of fronto-nasal process namespace: uberon def: "the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the frontonasal region of the head" [MP:0011266] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "frontonasal mesenchyme" EXACT [MP:0011266] synonym: "naso-frontal mesenchyme" EXACT [MP:0011266] xref: EHDAA2:0004109 xref: EMAPA:16683 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: develops_from UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004066 ! frontonasal prominence [Term] id: UBERON:0009502 name: ventral mesentery of mesentery of foregut-midgut junction namespace: uberon subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EMAPA:16714 xref: RETIRED_EHDAA2:0000576 is_a: UBERON:0009483 ! mesentery of foregut-midgut junction [Term] id: UBERON:0009503 name: associated mesenchyme of hindgut namespace: uberon def: "Mesenchyme that is part of a hindgut." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000780 xref: EMAPA:16716 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001046 ! hindgut [Term] id: UBERON:0009504 name: associated mesenchyme of main bronchus namespace: uberon def: "Mesenchyme that is part of a main bronchus." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001045 xref: EMAPA:16850 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002182 ! main bronchus [Term] id: UBERON:0009505 name: associated mesenchyme of trachea namespace: uberon def: "Mesenchyme that is part of a trachea." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0002067 xref: EMAPA:16854 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0002539 ! pharyngeal arch intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0009506 name: associated mesenchyme of middle ear namespace: uberon def: "Mesenchyme that is part of a middle ear." [OBOL:automatic] comment: Also 1st arch maxillary mesenchyme in EHDAA2 subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "middle ear associated mesenchyme" EXACT [EHDAA2:0001182] synonym: "otic mesenchyme" BROAD [] xref: EHDAA2:0001182 xref: EMAPA:17001 is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: has_developmental_contribution_from UBERON:0005689 ! 2nd arch mesenchyme relationship: has_developmental_contribution_from UBERON:0010045 ! 1st arch maxillary mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001756 ! middle ear [Term] id: UBERON:0009521 name: anal membrane endodermal component namespace: uberon def: "An endoderm that is part of a anal region." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0004020 xref: EMAPA:17177 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001353 ! anal region [Term] id: UBERON:0009522 name: lateral lingual swelling epithelium namespace: uberon def: "An epithelium that is part of a lateral lingual swelling." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000913 xref: EMAPA:17190 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003351 ! pharyngeal epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0006757 ! lateral lingual swelling [Term] id: UBERON:0009523 name: mesenchyme of handplate namespace: uberon def: "Mesenchyme that is part of a handplate." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "hand plate mesenchyme" EXACT [] synonym: "handplate mesenchyme" EXACT [EHDAA2:0000731] xref: EHDAA2:0000731 xref: EMAPA:17248 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0003413 ! pectoral appendage bud mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006875 ! handplate [Term] id: UBERON:0009526 name: maxillary process mesenchyme namespace: uberon def: "Mesenchyme that is part of a maxillary prominence." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "mesenchyme of maxillary process" EXACT [EMAPA:17361] synonym: "mesenchyme of maxillary prominence" EXACT [UBERON:cjm] xref: EHDAA2:0001071 xref: EMAPA:17361 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005868 ! maxillary prominence [Term] id: UBERON:0009536 name: vascular element of left lung namespace: uberon def: "A vascular plexus that is part of a left lung." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000963 xref: EMAPA:17660 is_a: UBERON:0000102 ! lung vasculature intersection_of: UBERON:0005629 ! vascular plexus intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0009537 name: vascular element of right lung namespace: uberon def: "A vascular plexus that is part of a right lung." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001757 xref: EMAPA:17668 is_a: UBERON:0000102 ! lung vasculature intersection_of: UBERON:0005629 ! vascular plexus intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0009538 name: mesenchyme of sublingual gland primordium namespace: uberon def: "Mesenchyme that is part of a sublingual gland primordium." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001937 xref: EMAPA:17754 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003324 ! mesenchyme of lower jaw intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006297 ! sublingual gland primordium [Term] id: UBERON:0009539 name: mesenchyme of submandibular gland primordium namespace: uberon def: "Mesenchyme that is part of a submandibular gland primordium." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0001941 xref: EMAPA:17757 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003324 ! mesenchyme of lower jaw intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006298 ! submandibular gland primordium [Term] id: UBERON:0009548 name: hepatic sinusoid of left of lobe of liver namespace: uberon def: "A hepatic sinusoid that is part of a left lobe of liver." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "left lobe hepatic sinusoids" EXACT [VHOG:0000709] xref: EHDAA2:0001001 xref: EMAPA:18309 xref: VHOG:0000709 relationship: develops_in UBERON:0001115 ! left lobe of liver intersection_of: UBERON:0001281 ! hepatic sinusoid intersection_of: part_of UBERON:0001115 ! left lobe of liver [Term] id: UBERON:0009549 name: hepatic sinusoid of right of lobe of liver namespace: uberon def: "A hepatic sinusoid that is part of a right lobe of liver." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked synonym: "right lobe hepatic sinusoids" EXACT [VHOG:0000710] xref: EHDAA2:0001009 xref: EMAPA:18316 xref: VHOG:0000710 relationship: develops_in UBERON:0001114 ! right lobe of liver intersection_of: UBERON:0001281 ! hepatic sinusoid intersection_of: part_of UBERON:0001114 ! right lobe of liver [Term] id: UBERON:0009550 name: endoderm of foregut-midgut junction namespace: uberon def: "An endoderm that is part of a foregut-midgut junction." [OBOL:automatic] subset: emapa_ehdaa2 ! derived from the union of EHDAA2 and EMAPA - still to be checked xref: EHDAA2:0000572 xref: EMAPA:18403 is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0006235 ! foregut-midgut junction [Term] id: UBERON:0009551 name: distal segment of digit namespace: uberon def: "A segment of a digit containing the distal phalanx, and overlapping the interphalangeal joint[CJM]. The digit tip is derived from multiple and distinct embryonic origins, and includes the distal bone with associated marrow cavity and haematopoietic cells, ventral (flexor) and dorsal (extensor) tendons, sweat glands with myoepithelial and luminal secreting cells and associated neurons for innervation, dermis with resident melanocytes and dendritic cells, mesenchyme with resident fibroblasts, skin epidermis with hair follicles, a nail organ composed of six specific parts (the root, nail bed, nail plate, eponychium (cuticle), perionychium and hyponychium)." [doi:10.1038/nature10346] comment: Newborn and adult mice are able to regrow forelimb (finger) and hindlimb (toe) digit tips after their amputation through the distal interphalangeal joint. Regeneration of the digit tip involves the integrated regrowth of multiple tissues within 2b3b months, reaching an external morphology that is cosmetically and functionally similar to normal digits. Most importantly, regeneration of the mouse distal digit shares morphological similarities with clinical cases documenting regrowth of missing distal portions of fingers in both children and adults synonym: "digit tip" EXACT [UBERON:cjm] synonym: "distal digit segment" EXACT [UBERON:cjm] synonym: "tip of digit" EXACT [UBERON:cjm] is_a: UBERON:0002529 ! limb segment relationship: overlaps UBERON:0006658 ! inter-phalangeal joint relationship: part_of UBERON:0002544 ! digit [Term] id: UBERON:0009552 name: distal segment of manual digit namespace: uberon alt_id: UBERON:0004093 def: "." [HP:0001211] comment: in SNOMED this is a surface region. Here we intend it to be the entire distal segment synonym: "finger digit tip" EXACT [doi:10.1038/nature10346] synonym: "finger distal segment" EXACT [UBERON:cjm] synonym: "finger tip" EXACT [UBERON:cjm] synonym: "fingertip" EXACT [HP:0001211] synonym: "forelimb digit tip" EXACT [doi:10.1038/nature10346] synonym: "tip of finger" EXACT [SCTID:312543003] xref: OpenCyc:Mx4rvVjpf5wpEbGdrcN5Y29ycA xref: SCTID:312543003 is_a: UBERON:0005451 ! segment of manus intersection_of: UBERON:0009551 ! distal segment of digit intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0009553 name: distal segment of pedal digit namespace: uberon def: "A distal segment of digit that is part of a pedal digit." [OBOL:automatic] synonym: "hindlimb digit tip" EXACT [doi:10.1038/nature10346] synonym: "tip of toe" EXACT [UBERON:cjm] synonym: "toe digit tip" EXACT [doi:10.1038/nature10346] synonym: "toe distal segment" EXACT [UBERON:cjm] is_a: UBERON:0005445 ! segment of pes intersection_of: UBERON:0009551 ! distal segment of digit intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0009554 name: coffin bone namespace: uberon def: "the bottommost bone in the equine leg and is encased by the hoof capsule. The distal phalanx articulates with both the middle phalanx and the distal sesamoid, forming the distal interphalangeal joint " [Wikipedia:Coffin_bone] synonym: "equine distal phalanx" EXACT [UBERON:cjm] synonym: "pedal bone" EXACT [Wikipedia:Coffin_bone, Wikipedia:Equine_forelimb_anatomy#Distal_phalanx] is_a: UBERON:0004300 ! distal phalanx relationship: part_of UBERON:0006050 ! digit 3 [Term] id: UBERON:0009555 name: short pastern bone namespace: uberon def: "." [Wikipedia:Equine_forelimb_anatomy#Middle_phalanx] synonym: "equine middle phalanx" EXACT [UBERON:cjm] is_a: UBERON:0004301 ! middle phalanx is_a: UBERON:0009558 ! pastern bone relationship: part_of UBERON:0009563 ! pastern region of limb [Term] id: UBERON:0009556 name: long pastern bone namespace: uberon def: "." [Wikipedia:Equine_forelimb_anatomy#Proximal_phalanx] synonym: "equine proximal phalanx" EXACT [UBERON:cjm] is_a: UBERON:0004302 ! proximal phalanx is_a: UBERON:0009558 ! pastern bone relationship: part_of UBERON:0009563 ! pastern region of limb [Term] id: UBERON:0009557 name: coffin joint namespace: uberon synonym: "equine distal interphalangeal joint" EXACT [UBERON:cjm] xref: SCTID:196392002 is_a: UBERON:0006658 ! inter-phalangeal joint relationship: part_of UBERON:0009563 ! pastern region of limb [Term] id: UBERON:0009558 name: pastern bone namespace: uberon def: "A bone that is part of the pastern region of a horse limb." [Wikipedia:Pastern] xref: http://upload.wikimedia.org/wikipedia/commons/5/56/Equine-dist-forelimb-bones.png intersection_of: UBERON:0003221 ! phalanx intersection_of: part_of UBERON:0009563 ! pastern region of limb [Term] id: UBERON:0009559 name: metacarpal/tarsal-phalangeal joint namespace: uberon def: "A skeletal joint that connects a mesopodium bone and connects a proximal phalanx." [OBOL:automatic] comment: Editor notes: We include these joints as being part of the digits; this is consistent with the FMA, and makes classification easier. Note that digit and metapodial regions are part-disjoint synonym: "fetlock" NARROW SENSU [NCBITaxon:9788, UBERON:cjm, Wikipedia:Fetlock] synonym: "metacarpo-tarsophalangeal joint" EXACT [UBERON:cjm] synonym: "metapodium-phalanx joint" EXACT [UBERON:cjm] is_a: UBERON:0002217 ! synovial joint is_a: UBERON:0003841 ! autopod joint is_a: UBERON:0011139 ! synovial limb joint relationship: part_of UBERON:0002544 ! digit intersection_of: UBERON:0000982 ! skeletal joint intersection_of: connects UBERON:0003656 ! mesopodium bone intersection_of: connects UBERON:0004302 ! proximal phalanx [Term] id: UBERON:0009563 name: pastern region of limb namespace: uberon def: "a part of the leg of a horse between the fetlock and the top of the hoof. It incorporates the long pastern bone (proximal phalanx) and the short pastern bone (middle phalanx), which are held together by two sets of paired ligaments to form the pastern joint (proximal interphalangeal joint)" [Wikipedia:Pastern] comment: note that digit is used very generically in uberon, to include the homologous region in ungulates. Taxon notes: Anatomically homologous to the two largest bones found in the human finger xref: SCTID:370725009 is_a: UBERON:0002529 ! limb segment relationship: part_of UBERON:0006050 ! digit 3 [Term] id: UBERON:0009564 name: distal limb integumentary appendage namespace: uberon def: "A nail, hoof or claw." [PMID:11710767] comment: Consider classifying as something different from appendage synonym: "unguis" RELATED [] xref: MESH:A13.491 is_a: UBERON:0000026 ! appendage is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004708 ! limb/fin relationship: develops_from UBERON:0011272 ! embryonic skin basal layer relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0009551 ! distal segment of digit [Term] id: UBERON:0009565 name: nail of manual digit namespace: uberon def: "A nail that is part of a manual digit." [OBOL:automatic] synonym: "finger nail" EXACT [FMA:54327] synonym: "fingernail" EXACT [FMA:54327] synonym: "nail of finger" EXACT [FMA:54327] synonym: "nail plate of finger" RELATED [FMA:54327] xref: FMA:54327 xref: SCTID:244197001 xref: UMLS:C0222001 xref: ncithesaurus:Fingernail is_a: UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0005276 ! dorsal skin of finger relationship: part_of UBERON:0009552 ! distal segment of manual digit intersection_of: UBERON:0001705 ! nail intersection_of: part_of UBERON:0002389 ! manual digit [Term] id: UBERON:0009566 name: intestinal submucosa namespace: uberon def: "A submucosa that is part of a intestine." [OBOL:automatic] synonym: "submucosa of intestine" EXACT [FMA:15696] xref: FMA:15696 is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001262 ! wall of intestine intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0000160 ! intestine [Term] id: UBERON:0009567 name: nail of pedal digit namespace: uberon def: "A nail that is part of a pedal digit." [OBOL:automatic] synonym: "nail of toe" EXACT [FMA:54328] synonym: "nail plate of toe" RELATED [FMA:54328] synonym: "toe nail" EXACT [FMA:54328] synonym: "toenail" EXACT [FMA:54328] xref: FMA:54328 xref: SCTID:244198006 xref: UMLS:C0222007 xref: ncithesaurus:Toe_Nail is_a: UBERON:0004709 ! pelvic appendage relationship: part_of UBERON:0005277 ! dorsal skin of toe relationship: part_of UBERON:0009553 ! distal segment of pedal digit intersection_of: UBERON:0001705 ! nail intersection_of: part_of UBERON:0001466 ! pedal digit [Term] id: UBERON:0009568 name: trunk region of vertebral column namespace: uberon def: "Subdivision of vertebral column that corresponds to the trunk of the body, containing the trunk/presacral vertebrae." [UBERONREF:0000006] synonym: "presacral region" RELATED [AAO:0000612] synonym: "thoracolumbar region" RELATED [AAO:0000612] synonym: "trunk region" RELATED [AAO:0000612] xref: AAO:0000612 xref: SCTID:281699004 xref: ncithesaurus:Thoracolumbar_Region intersection_of: UBERON:0006077 ! subdivision of vertebral column intersection_of: part_of UBERON:0002100 ! trunk intersection_of: subdivision_of UBERON:0002100 ! trunk property_value: external_definition "Region of the vertebral column between the atlas and the sacrum consisting of seven to 285 vertebrae.[AAO]" xsd:string [Term] id: UBERON:0009569 name: subdivision of trunk namespace: uberon subset: non_informative ! abstract class brought in to group ontology classes but not informative synonym: "region of trunk" EXACT [FMA:25054] synonym: "trunk subdivision" EXACT [FMA:25054] xref: FMA:25054 xref: SCTID:22943007 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0009570 name: spinal cord sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future spinal cord." [OBOL:automatic] synonym: "spinal cord lateral wall sulcus limitans" EXACT [EHDAA2:0001265] xref: EHDAA2:0001265 xref: EMAPA:17584 xref: VHOG:0001548 intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0009571 name: ventral midline namespace: uberon def: "In protostomes (such as insects, snails and worms) as well as deuterostomes (vertebrates), the midline is an embryonic region that functions in patterning of the adjacent nervous tissue. The ventral midline in insects is a cell population extending along the ventral surface of the embryo and is the region from which cells detach to form the ventrally located nerve cords. In vertebrates, the midline is originally located dorsally. During development, it folds inwards and becomes the ventral part of the dorsally located neural tube and is then called the ventral midline, or floor plate." [GOC:bf, GOC:go_curators, PMID:12075342] xref: FBbt:00000093 is_a: UBERON:0002050 ! embryonic structure [Term] id: UBERON:0009572 name: lumen of central canal of spinal cord namespace: uberon def: "A cerebrospinal fluid-filled space that runs longitudinally through the length of the entire spinal cord. The central canal is contiguous with the ventricular system of the brain. The central canal represents the adult remainder of the neural tube." [Wikipedia:Central_canal] synonym: "cavity of central canal of spinal cord" EXACT [FMA:242845] synonym: "central canal lumen" EXACT [UBERON:cjm] xref: FMA:242845 relationship: part_of UBERON:0002291 ! central canal relationship: part_of UBERON:0005281 ! ventricular system of central nervous system relationship: surrounds UBERON:0001359 ! cerebrospinal fluid intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0002291 ! central canal [Term] id: UBERON:0009573 name: sulcus limitans of fourth ventricle namespace: uberon def: "In the floor of the fourth ventricle, the sulcus limitans separates the cranial nerve motor nuclei (medial) from the sensory nuclei (lateral). In the superior part of the rhomboid fossa, it corresponds with the lateral limit of the fossa and presents a bluish-gray area, the locus ceruleus (which owes its color to an underlying patch of deeply pigmented nerve cells, termed the substantia ferruginea). [WP]" [Wikipedia:Sulcus_limitans] synonym: "s. limitans fossae rhomboideae" RELATED LATIN [Wikipedia:Sulcus_limitans] synonym: "sulcus limitans" BROAD [FMA:78496] xref: FMA:78496 xref: UMLS:C0262332 xref: http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png xref: ncithesaurus:Sulcus_Limitans is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0002422 ! fourth ventricle [Term] id: UBERON:0009576 name: medulla oblongata sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future medulla oblongata." [OBOL:automatic] xref: EHDAA2:0001100 xref: EMAPA:17561 intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0010288 ! future medulla oblongata [Term] id: UBERON:0009577 name: metencephalon sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future metencephalon." [OBOL:automatic] xref: EHDAA2:0001161 xref: EMAPA:17567 intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0010092 ! future metencephalon [Term] id: UBERON:0009578 name: myelencephalon sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future myelencephalon." [OBOL:automatic] xref: EHDAA2:0001945 intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0010096 ! future myelencephalon [Term] id: UBERON:0009579 name: myelencephalon basal plate namespace: uberon comment: todo - check EHDAA2 post-CNS-revision synonym: "basal plate myelencephalon" EXACT [VHOG:0000322] synonym: "future myelencephalon basal plate" EXACT [EHDAA2:0000646] xref: EHDAA2:0000646 xref: EMAPA:17088 xref: VHOG:0000322 is_a: UBERON:0004064 ! neural tube basal plate property_value: external_definition "The ventral half of the developing neural tube that is the myelencephalon. [Chordate_evolution_and_the_origin_of_craniates:_An_old_brain_in_a_new_head._AnaT_Rec_(New_Anat)_(2000)_261(3):_111-125, See_Butler_AB][VHOG]" xsd:string [Term] id: UBERON:0009580 name: diencephalon mantle layer namespace: uberon synonym: "diencephalon lateral wall mantle layer" EXACT [] synonym: "mantle layer lateral wall diencephalon" EXACT [VHOG:0000912] xref: EHDAA2:0000397 xref: EMAPA:16906 xref: VHOG:0000912 is_a: UBERON:0005883 ! neural tube lateral wall mantle layer relationship: part_of UBERON:0005591 ! diencephalon lateral wall [Term] id: UBERON:0009581 name: midbrain mantle layer namespace: uberon synonym: "mantle layer lateral wall mesencephalon" RELATED [VHOG:0000910] synonym: "mantle layer lateral wall midbrain" EXACT [VHOG:0000910] synonym: "midbrain lateral wall mantle layer" EXACT [] xref: EHDAA2:0001172 xref: EMAPA:16977 xref: VHOG:0000910 is_a: UBERON:0005883 ! neural tube lateral wall mantle layer relationship: part_of UBERON:0005495 ! midbrain lateral wall [Term] id: UBERON:0009582 name: spinal cord lateral wall namespace: uberon synonym: "lateral wall spinal cord" EXACT [ZFA:0000996] xref: EFO:0003602 xref: EMAPA:17579 xref: TAO:0000996 xref: ZFA:0000996 is_a: UBERON:0005496 ! neural tube lateral wall relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0009583 name: spinal cord mantle layer namespace: uberon synonym: "mantle layer lateral wall spinal cord" EXACT [VHOG:0000911] synonym: "spinal cord lateral wall mantle layer" EXACT [] xref: EMAPA:17580 xref: VHOG:0000911 is_a: UBERON:0005883 ! neural tube lateral wall mantle layer relationship: part_of UBERON:0009582 ! spinal cord lateral wall [Term] id: UBERON:0009584 name: 1st arch mandibular mesenchyme namespace: uberon alt_id: UBERON:0010043 def: "Mesenchyme that is part of a 1st arch mandibular component." [OBOL:automatic] synonym: "mandibular component mesenchyme" RELATED [] synonym: "mandibular mesenchyme" RELATED [] synonym: "mesenchymal region of mandibular component of first pharyngeal arch" EXACT [UBERON:cjm] synonym: "mesenchyme of mandibular component" EXACT [EMAPA:16385] xref: EHDAA2:0000034 xref: EMAPA:16385 is_a: UBERON:0010042 ! 1st arch mesenchyme relationship: part_of UBERON:0007237 ! 1st arch mandibular component intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0007237 ! 1st arch mandibular component [Term] id: UBERON:0009585 name: interdigital region mesenchyme namespace: uberon def: "Mesenchyme that is part of a interdigital region." [OBOL:automatic] comment: influences identity of anterior digit[Dahn and Fallon 2000], likely via BMP4 synonym: "interdigit mesenchyme" RELATED [] synonym: "interdigital mesenchyme" EXACT [] synonym: "mesenchyme of interdigital region" EXACT [] is_a: UBERON:0009749 ! limb mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0006012 ! interdigital region [Term] id: UBERON:0009586 name: mesenchyme of interdigital region between manual digits 1 and 2 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between manual digits 1 and 2." [OBOL:automatic] synonym: "interdigital region between fingers 1 and 2 mesenchyme" EXACT [EHDAA2:0000846] xref: EHDAA2:0000846 xref: EMAPA:17447 is_a: UBERON:0009596 ! mesenchyme of interdigital region between digits 1 and 2 is_a: UBERON:0009600 ! mesenchyme of interdigital region of manus relationship: part_of UBERON:0006026 ! interdigital region between manual digits 1 and 2 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006026 ! interdigital region between manual digits 1 and 2 [Term] id: UBERON:0009587 name: mesenchyme of interdigital region between manual digits 2 and 3 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between manual digits 2 and 3." [OBOL:automatic] synonym: "interdigital region between fingers 2 and 3 mesenchyme" EXACT [EHDAA2:0000849] xref: EHDAA2:0000849 xref: EMAPA:17450 is_a: UBERON:0009597 ! mesenchyme of interdigital region between digits 2 and 3 is_a: UBERON:0009600 ! mesenchyme of interdigital region of manus relationship: part_of UBERON:0006029 ! interdigital region between manual digits 2 and 3 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006029 ! interdigital region between manual digits 2 and 3 [Term] id: UBERON:0009588 name: mesenchyme of interdigital region between manual digits 3 and 4 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between manual digits 3 and 4." [OBOL:automatic] synonym: "interdigital region between fingers 3 and 4 mesenchyme" EXACT [EHDAA2:0000852] xref: EHDAA2:0000852 xref: EMAPA:17453 is_a: UBERON:0009598 ! mesenchyme of interdigital region between digits 3 and 4 is_a: UBERON:0009600 ! mesenchyme of interdigital region of manus relationship: part_of UBERON:0006032 ! interdigital region between manual digits 3 and 4 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006032 ! interdigital region between manual digits 3 and 4 [Term] id: UBERON:0009589 name: mesenchyme of interdigital region between manual digits 4 and 5 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between manual digits 4 and 5." [OBOL:automatic] synonym: "interdigital region between fingers 4 and 5 mesenchyme" EXACT [EHDAA2:0000855] xref: EHDAA2:0000855 xref: EMAPA:17456 is_a: UBERON:0009599 ! mesenchyme of interdigital region between digits 4 and 5 is_a: UBERON:0009600 ! mesenchyme of interdigital region of manus relationship: part_of UBERON:0006035 ! interdigital region between manual digits 4 and 5 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006035 ! interdigital region between manual digits 4 and 5 [Term] id: UBERON:0009590 name: mesenchyme of interdigital region between pedal digits 1 and 2 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between pedal digits 1 and 2." [OBOL:automatic] synonym: "interdigital region between toes 1 and 2 mesenchyme" EXACT [EHDAA2:0000858] xref: EHDAA2:0000858 xref: EMAPA:17478 is_a: UBERON:0009596 ! mesenchyme of interdigital region between digits 1 and 2 is_a: UBERON:0009601 ! mesenchyme of interdigital region of pes relationship: part_of UBERON:0006038 ! interdigital region between pedal digits 1 and 2 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006038 ! interdigital region between pedal digits 1 and 2 [Term] id: UBERON:0009591 name: mesenchyme of interdigital region between pedal digits 2 and 3 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between pedal digits 2 and 3." [OBOL:automatic] synonym: "interdigital region between toes 2 and 3 mesenchyme" EXACT [EHDAA2:0000861] xref: EHDAA2:0000861 xref: EMAPA:17481 is_a: UBERON:0009597 ! mesenchyme of interdigital region between digits 2 and 3 is_a: UBERON:0009601 ! mesenchyme of interdigital region of pes relationship: part_of UBERON:0006041 ! interdigital region between pedal digits 2 and 3 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006041 ! interdigital region between pedal digits 2 and 3 [Term] id: UBERON:0009592 name: mesenchyme of interdigital region between pedal digits 3 and 4 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between pedal digits 3 and 4." [OBOL:automatic] synonym: "interdigital region between toes 3 and 4 mesenchyme" EXACT [EHDAA2:0000864] xref: EHDAA2:0000864 xref: EMAPA:17484 is_a: UBERON:0009598 ! mesenchyme of interdigital region between digits 3 and 4 is_a: UBERON:0009601 ! mesenchyme of interdigital region of pes relationship: part_of UBERON:0006044 ! interdigital region between pedal digits 3 and 4 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006044 ! interdigital region between pedal digits 3 and 4 [Term] id: UBERON:0009593 name: mesenchyme of interdigital region between pedal digits 4 and 5 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between pedal digits 4 and 5." [OBOL:automatic] synonym: "interdigital region between toes 4 and 5 mesenchyme" EXACT [EHDAA2:0000867] xref: EHDAA2:0000867 xref: EMAPA:17487 is_a: UBERON:0009599 ! mesenchyme of interdigital region between digits 4 and 5 is_a: UBERON:0009601 ! mesenchyme of interdigital region of pes relationship: part_of UBERON:0006047 ! interdigital region between pedal digits 4 and 5 intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006047 ! interdigital region between pedal digits 4 and 5 [Term] id: UBERON:0009596 name: mesenchyme of interdigital region between digits 1 and 2 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between digits 1 and 2." [OBOL:automatic] intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006016 ! interdigital region between digits 1 and 2 [Term] id: UBERON:0009597 name: mesenchyme of interdigital region between digits 2 and 3 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between digits 2 and 3." [OBOL:automatic] intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006019 ! interdigital region between digits 2 and 3 [Term] id: UBERON:0009598 name: mesenchyme of interdigital region between digits 3 and 4 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between digits 3 and 4." [OBOL:automatic] intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006022 ! interdigital region between digits 3 and 4 [Term] id: UBERON:0009599 name: mesenchyme of interdigital region between digits 4 and 5 namespace: uberon def: "An interdigital region mesenchyme that is part of a interdigital region between digits 4 and 5." [OBOL:automatic] intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0006025 ! interdigital region between digits 4 and 5 [Term] id: UBERON:0009600 name: mesenchyme of interdigital region of manus namespace: uberon def: "An interdigital region mesenchyme that is part of a manus." [OBOL:automatic] synonym: "mesenchyme of interdigital region of forelimb" EXACT [] is_a: UBERON:0003859 ! forelimb mesenchyme relationship: part_of UBERON:0006013 ! interdigital region between manual digits intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0002398 ! manus [Term] id: UBERON:0009601 name: mesenchyme of interdigital region of pes namespace: uberon def: "An interdigital region mesenchyme that is part of a pes." [OBOL:automatic] synonym: "mesenchyme of interdigital region of hindlimb" EXACT [] is_a: UBERON:0003860 ! hindlimb mesenchyme relationship: part_of UBERON:0006014 ! interdigital region between pedal digits intersection_of: UBERON:0009585 ! interdigital region mesenchyme intersection_of: part_of UBERON:0002387 ! pes [Term] id: UBERON:0009602 name: left lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a left lung." [OBOL:automatic] xref: EHDAA2:0000944 xref: EMAPA:16730 xref: EMAPA:17654 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0009603 name: right lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a right lung." [OBOL:automatic] xref: EHDAA2:0001739 xref: EMAPA:17662 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0009610 name: forebrain neural plate namespace: uberon def: "A neural plate that develops_from a future forebrain." [OBOL:automatic] xref: TAO:0007018 xref: ZFA:0007018 relationship: part_of UBERON:0003056 ! pre-chordal neural plate intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0006240 ! future forebrain [Term] id: UBERON:0009611 name: midbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive midbrain." [OBOL:automatic] xref: TAO:0007019 xref: ZFA:0007019 relationship: part_of UBERON:0003056 ! pre-chordal neural plate intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0009616 ! presumptive midbrain [Term] id: UBERON:0009612 name: forebrain midbrain boundary neural plate namespace: uberon xref: TAO:0007020 xref: ZFA:0007020 is_a: UBERON:0006800 ! anatomical line relationship: develops_from UBERON:0007288 ! presumptive forebrain midbrain boundary relationship: part_of UBERON:0003056 ! pre-chordal neural plate [Term] id: UBERON:0009614 name: hindbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive hindbrain." [OBOL:automatic] xref: TAO:0007022 xref: ZFA:0007022 relationship: part_of UBERON:0003057 ! chordal neural plate intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0007277 ! presumptive hindbrain [Term] id: UBERON:0009615 name: midbrain hindbrain boundary neural plate namespace: uberon def: "An embryonic midbrain hindbrain boundary that is part of a neural plate." [OBOL:automatic] comment: todo: developmental relationships for lines synonym: "MHB neural plate" EXACT [UBERON:cjm] synonym: "midbrain-hindbrain boundary neural plate" EXACT [ZFA:0007044] xref: TAO:0007044 xref: ZFA:0007044 is_a: UBERON:0007281 ! presumptive midbrain hindbrain boundary relationship: develops_from UBERON:0007281 ! presumptive midbrain hindbrain boundary relationship: part_of UBERON:0003075 ! neural plate intersection_of: UBERON:0009774 ! embryonic midbrain hindbrain boundary intersection_of: part_of UBERON:0003075 ! neural plate [Term] id: UBERON:0009616 name: presumptive midbrain namespace: uberon def: "A presumptive structure that develops_into a midbrain." [OBOL:automatic] comment: TODO - unify naming conventions synonym: "early midbrain" RELATED [UBERON:cjm] synonym: "future midbrain" RELATED [UBERON:cjm] synonym: "mesencephalon" RELATED [EHDAA2:0000615] synonym: "presumptive mesencephalon" EXACT [ZFA:0000148] xref: EFO:0003432 xref: EHDAA2:0000615 xref: TAO:0000148 xref: ZFA:0000148 relationship: develops_from UBERON:0003080 ! anterior neural tube relationship: develops_from UBERON:0010286 ! midbrain neural tube relationship: part_of UBERON:0006238 ! future brain intersection_of: UBERON:0006598 ! presumptive structure intersection_of: develops_into UBERON:0001891 ! midbrain [Term] id: UBERON:0009617 name: head paraxial mesoderm namespace: uberon def: "Bilateral mesenchymal mesoderm parallel and immediately adjacent to the neural tube/notochord; it generates a subset of extra-ocular, and other head, muscles." [PMID:21610022] synonym: "cephalic paraxial mesoderm" EXACT [UBERON:cjm] synonym: "head paraxial mesenchyme" EXACT [EHDAA2:0000736] xref: EHDAA2:0000736 xref: EHDAA:364 xref: EMAPA:16171 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0005253 ! head mesenchyme [Term] id: UBERON:0009618 name: trunk paraxial mesoderm namespace: uberon synonym: "trunk and cervical paraxial mesenchyme" EXACT [EHDAA2:0002094] synonym: "trunk paraxial mesenchyme" RELATED [] xref: EHDAA2:0002094 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0000926 ! mesoderm relationship: part_of UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0005256 ! trunk mesenchyme [Term] id: UBERON:0009620 name: tail bud paraxial mesoderm namespace: uberon xref: EHDAA2:0003239 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: develops_from UBERON:0009618 ! trunk paraxial mesoderm relationship: part_of UBERON:0002533 ! tail bud relationship: part_of UBERON:0003077 ! paraxial mesoderm [Term] id: UBERON:0009621 name: tail somite namespace: uberon def: "A somite that is part of a tail." [OBOL:automatic] xref: AAO:0010383 xref: EMAPA:16860 xref: XAO:0003143 intersection_of: UBERON:0002329 ! somite intersection_of: part_of UBERON:0002415 ! tail [Term] id: UBERON:0009622 name: pronephric proximal straight tubule namespace: uberon def: "A proximal straight tubule that is part of a pronephros." [ZFIN:ZDB-PUB-071029-9] synonym: "proximal straight tubules" RELATED PLURAL [TAO:0002239] xref: TAO:0002239 xref: ZFA:0001621 is_a: UBERON:0005310 ! pronephric nephron tubule relationship: part_of UBERON:0005309 ! pronephric nephron relationship: part_of UBERON:0006173 ! pronephric proximal tubule intersection_of: UBERON:0001290 ! proximal straight tubule intersection_of: part_of UBERON:0002120 ! pronephros [Term] id: UBERON:0009623 name: spinal nerve root namespace: uberon def: "The paired bundles of nerve fibers entering and leaving the spinal cord at each segment. The dorsal and ventral nerve roots join to form the mixed segmental spinal nerves. The dorsal roots are generally afferent, formed by the central projections of the spinal (dorsal root) ganglia sensory cells, and the ventral roots efferent, comprising the axons of spinal motor and autonomic preganglionic neurons. There are, however, some exceptions to this afferent/efferent rule." [MESH:A08.800.800.720.725] comment: ZFA has part_of to spinal cord but this causes spatial disjointness violations (CNS/PNS) synonym: "root of spinal nerve" EXACT [FMA:14060] synonym: "spinal neural root" EXACT [FMA:14060] xref: FMA:14060 xref: GAID:717 xref: MESH:A08.800.800.720.725 xref: SCTID:362436008 xref: UMLS:C0037940 xref: ZFA:0005578 xref: ncithesaurus:Spinal_Nerve_Root is_a: UBERON:0002211 ! nerve root is_a: UBERON:0004732 ! segmental subdivision of nervous system relationship: part_of UBERON:0001780 ! spinal nerve intersection_of: UBERON:0002211 ! nerve root intersection_of: part_of UBERON:0001780 ! spinal nerve [Term] id: UBERON:0009624 name: lumbar nerve namespace: uberon def: "The lumbar nerves are the five spinal nerves emerging from the lumbar vertebrae. They are divided into posterior and anterior divisions." [Wikipedia:Lumbar_nerves] synonym: "lumbar spinal nerve" EXACT [FMA:5861] synonym: "nervi lumbales" RELATED LATIN [Wikipedia:Lumbar_nerves] xref: FMA:5861 xref: SCTID:361600002 xref: UMLS:C0228897 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray802.png xref: ncithesaurus:Lumbar_Nerve is_a: UBERON:0001780 ! spinal nerve [Term] id: UBERON:0009625 name: sacral nerve namespace: uberon def: "The five sacral nerves emerge from the sacrum. Although the vertebral components of the sacrum are fused into a single bone, the sacral vertebrae are still used to number the sacral nerves. Posteriorly, they emerge from the posterior sacral foramina, and form the posterior branches of sacral nerves. Anteriorly, they emerge from the anterior sacral foramina, and contribute to the sacral plexus (S1-S4) and coccygeal plexus." [Wikipedia:Sacral_nerves] synonym: "nervi sacrales" RELATED LATIN [Wikipedia:Sacral_nerves] synonym: "sacral spinal nerve" EXACT [FMA:5862] xref: FMA:5862 xref: SCTID:361601003 xref: UMLS:C0228922 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray802.png xref: ncithesaurus:Sacral_Nerve is_a: UBERON:0001780 ! spinal nerve [Term] id: UBERON:0009629 name: coccygeal nerve namespace: uberon def: "The coccygeal nerve is the spinal nerve that corresponds to the coccyx bone." [Wikipedia:Coccygeal_nerve] synonym: "coccygeal spinal nerve" EXACT [FMA:5863] synonym: "nervus coccygeus" RELATED LATIN [Wikipedia:Coccygeal_nerve] xref: FMA:5863 xref: SCTID:287477006 xref: UMLS:C0228967 xref: http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray802.png xref: ncithesaurus:Coccygeal_Nerve is_a: UBERON:0001780 ! spinal nerve relationship: in_lateral_side_of UBERON:0000010 ! peripheral nervous system [Term] id: UBERON:0009630 name: root of thoracic nerve namespace: uberon def: "A spinal nerve root that is part of a thoracic nerve." [OBOL:automatic] synonym: "nerve root part of thoracic spinal cord" EXACT [NIF:NIF] synonym: "thoracic nerve root" EXACT [FMA:14064] synonym: "thoracic neural root" EXACT [FMA:14064] xref: FMA:14064 xref: NIF_GrossAnatomy:birnlex_836 intersection_of: UBERON:0009623 ! spinal nerve root intersection_of: part_of UBERON:0003726 ! thoracic nerve [Term] id: UBERON:0009631 name: root of lumbar spinal nerve namespace: uberon def: "A spinal nerve root that is part of a lumbar nerve." [OBOL:automatic] synonym: "lumbar spinal nerve root" EXACT [FMA:16421] synonym: "lumbar spinal neural root" EXACT [FMA:16421] synonym: "nerve root part of lumbar spinal cord" EXACT [NIF:NIF] xref: FMA:16421 xref: NIF_GrossAnatomy:birnlex_1613 xref: SCTID:180968005 xref: UMLS:C0581666 xref: ncithesaurus:Lumbar_Spinal_Nerve_Root intersection_of: UBERON:0009623 ! spinal nerve root intersection_of: part_of UBERON:0009624 ! lumbar nerve [Term] id: UBERON:0009632 name: root of cervical nerve namespace: uberon synonym: "cervical neural root" EXACT [FMA:16422] synonym: "cervical spinal root" EXACT [FMA:16422] synonym: "nerve root part of cervical spinal cord" EXACT [NIF:NIF] synonym: "root of cervical spinal nerve" EXACT [FMA:16422] xref: FMA:16422 xref: NIF_GrossAnatomy:birnlex_955 xref: SCTID:180966009 xref: UMLS:C0581631 xref: ncithesaurus:Cervical_Spinal_Nerve_Root is_a: UBERON:0009623 ! spinal nerve root relationship: part_of UBERON:0000962 ! nerve of cervical vertebra [Term] id: UBERON:0009633 name: root of sacral nerve namespace: uberon def: "A spinal nerve root that is part of a sacral nerve." [OBOL:automatic] synonym: "nerve root part of sacral spinal cord" EXACT [NIF:NIF] synonym: "root of sacral spinal nerve" EXACT [FMA:18028] synonym: "sacral neural root" EXACT [FMA:18028] xref: FMA:18028 xref: NIF_GrossAnatomy:birnlex_1518 xref: SCTID:244454000 xref: UMLS:C0581672 xref: ncithesaurus:Sacral_Spinal_Nerve_Root intersection_of: UBERON:0009623 ! spinal nerve root intersection_of: part_of UBERON:0009625 ! sacral nerve [Term] id: UBERON:0009634 name: root of coccygeal nerve namespace: uberon def: "A spinal nerve root that is part of a coccygeal nerve." [OBOL:automatic] synonym: "coccygeal neural root" EXACT [FMA:18131] synonym: "coccygeal spinal nerve root" EXACT [FMA:18131] synonym: "root of coccygeal spinal nerve" EXACT [FMA:18131] xref: FMA:18131 intersection_of: UBERON:0009623 ! spinal nerve root intersection_of: part_of UBERON:0009629 ! coccygeal nerve [Term] id: UBERON:0009635 name: parachordal cartilage namespace: uberon def: "Chondrocranium chondrification center that fuses with cartilages derived from sclerotome region of occipital somites forming occipital bone, hypoglossal canals and foramen magnum." [ISBN10:1588903958, UBERON:cjm] synonym: "parachordal cartilages" EXACT PLURAL [ZFA:0001423] xref: TAO:0001423 xref: UMLS:C1518887 xref: ZFA:0001423 xref: ncithesaurus:Parachordal_Cartilage is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: overlaps UBERON:0003110 ! otic region relationship: overlaps UBERON:0005902 ! occipital region property_value: external_definition "Rod-shaped paired cartilages on either side of the notochord. They unite, forming the base of the chondrocranium and are replaced by the prootic bones.[TAO]" xsd:string [Term] id: UBERON:0009636 name: prechordal cartilage namespace: uberon def: "Chondrocranium chondrification center that that forms anterior body of sphenoid, containing the sella turcica and posterior body of sphenoid." [ISBN10:1588903958, UBERON:cjm] comment: classified as part of chondrocranium based on developmental relationships is_a: UBERON:0003932 ! cartilage element of chondrocranium [Term] id: UBERON:0009637 name: alisphenoid ossification center namespace: uberon synonym: "alisphenoid center" RELATED [] is_a: UBERON:0010355 ! ossification center [Term] id: UBERON:0009638 name: orbitosphenoid ossification center namespace: uberon comment: merge with sphenoid lesser wing cartilage condensation? synonym: "orbitosphenoid center" RELATED [] is_a: UBERON:0010355 ! ossification center [Term] id: UBERON:0009639 name: body of sphenoid namespace: uberon def: "The body of the sphenoid bone, more or less cubical in shape, is hollowed out in its interior to form two large cavities, the sphenoidal air sinuses, which are separated from each other by a septum." [Wikipedia:Body_of_sphenoid_bone] synonym: "Entire body of sphenoid bone" EXACT [] synonym: "body of sphenoidal bone" EXACT [FMA:52867] synonym: "central body of sphenoid" EXACT [FMA:52867] synonym: "corpus (os sphenoidale)" EXACT [FMA:52867] synonym: "corpus ossis sphenoidalis" RELATED LATIN [Wikipedia:Body_of_sphenoid_bone] synonym: "sphenoid body" EXACT [FMA:52867] xref: FMA:52867 xref: SCTID:140491003 xref: http://upload.wikimedia.org/wikipedia/commons/d/d5/Gray146.png is_a: UBERON:0001474 ! bone element is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0009636 ! prechordal cartilage relationship: develops_from UBERON:0009640 ! hypophyseal cartilage relationship: part_of UBERON:0001677 ! sphenoid bone relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0002517 ! basicranium [Term] id: UBERON:0009640 name: hypophyseal cartilage namespace: uberon def: "forms around the developing pituitary, and together with prechordal cartilages creates body of sphenoid bone" [ISBN10:1588903958] comment: classified as part of chondrocranium based on developmental relationships is_a: UBERON:0003932 ! cartilage element of chondrocranium [Term] id: UBERON:0009641 name: ansa lenticularis namespace: uberon def: "The ansa lenticularis (ansa lentiformis in older texts) is a part of the brain, making up the superior layer of the substantia innominata of Meynert. Its fibers, derived from the medullary lamina of the lentiform nucleus, pass medially to end in the thalamus and subthalamic region, while others are said to end in the tegmentum and red nucleus. It is classified by NeuroNames as part of the subthalamus." [Wikipedia:Ansa_lenticularis] synonym: "ansa lenticularis in thalamo" EXACT LATIN [FMA:TA] synonym: "ansa lenticularis in thalamus" EXACT [FMA:62070] synonym: "ventral peduncle of lateral forebrain bundle" EXACT [FMA:62070] xref: FMA:62070 xref: NIF_GrossAnatomy:nlx_anat_1010011 xref: SCTID:37467007 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/DA-loops_in_PD.jpg is_a: UBERON:0002730 ! regional part of thalamus is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0001900 ! subthalamus [Term] id: UBERON:0009643 name: central tegmental tract namespace: uberon def: "The central tegmental tract is a structure in the midbrain and pons. The central tegmental tract includes ascending axonal fibers which arise from the rostral nucleus solitarius and terminate in the ventral posteromedial nucleus (VPM) of thalamus. Information from the thalamus will go to cortical taste area, namely the insula and frontal operculum. It also contains descending axonal fibers from the parvocellular red nucleus. The descending axons will project to the inferior olivary nucleus. This latter pathway will be used to connect the contralateral cerebellum." [Wikipedia:Central_tegmental_tract] xref: FMA:83850 xref: NIF_GrossAnatomy:nlx_anat_1010012 xref: SCTID:369034000 xref: http://upload.wikimedia.org/wikipedia/commons/f/f7/Midbrainsuperiorcolliculus.png is_a: UBERON:0007702 ! tract of brain [Term] id: UBERON:0009644 name: trachea non-cartilage connective tissue namespace: uberon xref: MA:0001859 is_a: UBERON:0003571 ! trachea connective tissue [Term] id: UBERON:0009645 name: ampullary gland namespace: uberon def: "fusiform enlargement of the deferent duct, as it passes across the bladder wall, due to proliferation of glandular tissue in the regionally folded mucosa." [http://medical-dictionary.thefreedictionary.com/ampullary+gland] comment: Ampullary glands are situated in an ampulla-like enlargement of the seminal duct, or embedded in the latter; they are present, eg in the Shrew, Ruminants, and certain Carnivores and Rodents. (Wiedersheim et al., 1907)[MorphoBank] synonym: "ampullary gland of seminal duct" EXACT [] xref: MA:0000400 xref: UMLS:C2698103 xref: ncithesaurus:Ampullary_Gland is_a: UBERON:0005399 ! male reproductive gland relationship: part_of UBERON:0006946 ! efferent duct [Term] id: UBERON:0009646 name: lumbar sympathetic nerve trunk namespace: uberon def: "A sympathetic nerve trunk that is part of a lower back." [OBOL:automatic] xref: MA:0001163 xref: UMLS:C1708762 xref: ncithesaurus:Lumbar_Sympathetic_Nerve_Trunk intersection_of: UBERON:0004295 ! sympathetic nerve trunk intersection_of: part_of UBERON:0005462 ! lower back [Term] id: UBERON:0009647 name: tympanic membrane epithelium namespace: uberon def: "One of the two epithelia which make up the tympanic membrane (along with the fibrous layer)" [PMID:11237469, UBERON:cjm] synonym: "tympanic epithelium" EXACT [MA:0001224] synonym: "tympanic membrane epithelial layer" EXACT [] xref: MA:0001224 xref: SCTID:70839004 xref: UMLS:C1711401 xref: ncithesaurus:Tympanic_Epithelium is_a: UBERON:0010071 ! layer of tympanic membrane intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002364 ! tympanic membrane disjoint_from: UBERON:0010070 ! intermediate layer of tympanic membrane [Term] id: UBERON:0009648 name: eyelid subcutaneous connective tissue namespace: uberon synonym: "superficial fascia of eyelid" RELATED [FMA:63975] xref: FMA:63975 xref: MA:0001252 xref: UMLS:C1707991 xref: ncithesaurus:Eyelid_Subcutaneous_Connective_Tissue is_a: UBERON:0004120 ! mesoderm-derived structure relationship: adjacent_to UBERON:0001457 ! skin of eyelid intersection_of: UBERON:0003581 ! eyelid connective tissue intersection_of: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0009650 name: cortical arch of kidney namespace: uberon def: "The portions of renal substance (cortex) intervening between the bases of the pyramids and the capsule of the kidney." [http://www.medilexicon.com/medicaldictionary.php?t=5968] synonym: "cortical arches of kidney" RELATED PLURAL [] xref: MA:0001650 xref: UMLS:C1511525 xref: ncithesaurus:Cortical_Arch is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0002189 ! outer cortex of kidney [Term] id: UBERON:0009651 name: nephron tubule basement membrane namespace: uberon def: "A basement membrane that is part of a nephron tubule." [OBOL:automatic] synonym: "kidney tubule basement membrane" EXACT [MA:0001680] synonym: "renal tubule basement membrane" EXACT [MA:0001680] xref: MA:0001680 xref: UMLS:C1709901 xref: ncithesaurus:Renal_Tubule_Basement_Membrane is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0004810 ! nephron tubule epithelium intersection_of: UBERON:0005769 ! basement membrane intersection_of: part_of UBERON:0001231 ! nephron tubule [Term] id: UBERON:0009652 name: bronchus basement membrane namespace: uberon def: "A basement membrane that is part of a bronchus." [OBOL:automatic] xref: MA:0001832 xref: UMLS:C1707051 xref: ncithesaurus:Bronchus_Basement_Membrane is_a: UBERON:0003592 ! bronchus connective tissue relationship: part_of UBERON:0002031 ! epithelium of bronchus intersection_of: UBERON:0005769 ! basement membrane intersection_of: part_of UBERON:0002185 ! bronchus [Term] id: UBERON:0009653 name: trachea basement membrane namespace: uberon def: "A basement membrane that is part of a trachea." [OBOL:automatic] xref: MA:0001854 xref: UMLS:C1710455 xref: ncithesaurus:Trachea_Basement_Membrane is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001901 ! epithelium of trachea relationship: part_of UBERON:0009644 ! trachea non-cartilage connective tissue intersection_of: UBERON:0005769 ! basement membrane intersection_of: part_of UBERON:0003126 ! trachea [Term] id: UBERON:0009654 name: alveolar artery namespace: uberon comment: add child terms xref: MA:0001913 xref: UMLS:C1706783 xref: ncithesaurus:Alveolar_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009655 name: auricular artery namespace: uberon comment: add child terms xref: MA:0001918 xref: UMLS:C1706858 xref: ncithesaurus:Auricular_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009656 name: obsolete frontal artery namespace: uberon is_obsolete: true consider: MA:0001960 ! frontal artery comment: insufficiently defined [Term] id: UBERON:0009657 name: labial artery namespace: uberon comment: add child terms xref: MA:0001987 xref: UMLS:C1708633 xref: ncithesaurus:Labial_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009658 name: pancreaticoduodenal artery namespace: uberon def: "." [Wikipedia:Pancreaticoduodenal_artery] synonym: "arteriae pancreaticoduodenales" EXACT LATIN [] synonym: "pancreatico-duodenal artery" EXACT [MA:0002013] xref: MA:0002013 xref: UMLS:C1709455 xref: ncithesaurus:Pancreatico-Duodenal_Artery is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009659 name: spermatic artery namespace: uberon comment: add child terms xref: MA:0002040 xref: UMLS:C0226409 xref: ncithesaurus:Spermatic_Artery is_a: UBERON:0010192 ! genital artery [Term] id: UBERON:0009660 name: adrenal vein namespace: uberon xref: MA:0002081 xref: ncithesaurus:Adrenal_Vein is_a: UBERON:0001638 ! vein [Term] id: UBERON:0009661 name: midbrain nucleus namespace: uberon def: "Nucleus located in the midbrain." [ZFIN:curator] xref: SCTID:279285003 xref: TAO:0002209 xref: ZFA:0001665 is_a: UBERON:0002950 ! regional part of midbrain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0009662 name: hindbrain nucleus namespace: uberon def: "Nucleus located within the hindbrain." [ZFIN:curator] xref: TAO:0002177 xref: ZFA:0001658 intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0009663 name: telencephalic nucleus namespace: uberon def: "A nucleus of brain that is part of a telencephalon." [OBOL:automatic] xref: TAO:0002178 xref: ZFA:0001660 is_a: UBERON:0002791 ! regional part of telencephalon intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0001893 ! telencephalon [Term] id: UBERON:0009664 name: gut mesentery namespace: uberon xref: EHDAA2:0004566 is_a: UBERON:0000477 ! anatomical cluster relationship: located_in UBERON:0001179 ! peritoneal cavity [Term] id: UBERON:0009668 name: ventral mesentery namespace: uberon xref: EHDAA2:0004569 xref: SCTID:361430000 is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0009664 ! gut mesentery [Term] id: UBERON:0009669 name: embryonic cloacal lumen namespace: uberon def: "An anatomical space that surrounded_by a embryonic cloaca." [OBOL:automatic] xref: EHDAA2:0004586 is_a: UBERON:0012463 ! cloacal lumen relationship: part_of UBERON:0000163 ! embryonic cloaca relationship: surrounded_by UBERON:0009846 ! embryonic cloacal epithelium intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0000163 ! embryonic cloaca [Term] id: UBERON:0009670 name: rectal lumen namespace: uberon def: "An anatomical space that surrounded_by a rectum." [OBOL:automatic] synonym: "lumen of rectum" EXACT [FMA:14598] xref: EHDAA2:0004587 xref: FMA:14598 xref: SCTID:259740004 relationship: develops_in UBERON:0009669 ! embryonic cloacal lumen relationship: part_of UBERON:0001052 ! rectum relationship: part_of UBERON:0012465 ! lumen of terminal part of digestive tract intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0001052 ! rectum [Term] id: UBERON:0009671 name: nasal fin namespace: uberon def: "The nasal fin is an epithelial seam that develops by fusion between the epithelial linings of the medial and lateral nasal swellings. Shortly after its formation the nasal fin regresses and is replaced by mesenchyme, with exception of its most posterior portion which remains as the bucconasal membrane." [DOI:10.1002/aja.1001500308] xref: EHDAA2:0004548 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004906 ! ectodermal gut relationship: part_of UBERON:0002424 ! oral epithelium relationship: part_of UBERON:0005384 ! nasal cavity epithelium [Term] id: UBERON:0009672 name: oronasal membrane namespace: uberon def: "The oronasal membrane separates the oral cavity and nasal cavity. In humans, the oronasal membrane ruptures during the seventh week, producing a single, large oronasal cavity" [http://cwx.prenhall.com/bookbind/pubbooks/martini10/chapter24/custom3/deluxe-content.html] comment: split into two? synonym: "bucconasal membrane" EXACT [EHDAA:7840] xref: EHDAA2:0000188 xref: EHDAA:7840 xref: EHDAA:7984 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004906 ! ectodermal gut relationship: develops_from UBERON:0009671 ! nasal fin relationship: part_of UBERON:0000166 ! oral opening relationship: part_of UBERON:0005384 ! nasal cavity epithelium [Term] id: UBERON:0009673 name: accessory XI nerve cranial component namespace: uberon comment: Editors/usage notes: May be obsoleted in future. WP states: Traditional descriptions of the accessory nerve divide it into two parts: a spinal part and a cranial part.[1] But because the cranial component rapidly joins the vagus nerve and serves the same function as other vagal nerve fibers, modern descriptions often consider the cranial component part of the vagus nerve and not part of the accessory nerve proper.[2] Thus in contemporary discussions of the accessory nerve, the common practice is to dismiss the cranial part altogether, referring to the accessory nerve specifically as the spinal accessory nerve. xref: EHDAA2:0000107 xref: EHDAA:5574 xref: EMAPA:17266 xref: MA:0001089 xref: VHOG:0001174 is_a: UBERON:0001785 ! cranial nerve relationship: part_of UBERON:0002019 ! accessory XI nerve property_value: homology_notes "Cranial nerves XI and XII evolved in the common ancestor to amniotes (non-amphibian tetrapods) thus totalling twelve pairs.[well established][VHOG]" xsd:string [Term] id: UBERON:0009674 name: accessory XI nerve spinal component namespace: uberon xref: EHDAA2:0000108 xref: EHDAA:5576 xref: EMAPA:17160 xref: MA:0001090 xref: VHOG:0001115 is_a: UBERON:0001780 ! spinal nerve relationship: part_of UBERON:0002019 ! accessory XI nerve property_value: homology_notes "Cranial nerves XI and XII evolved in the common ancestor to amniotes (non-amphibian tetrapods) thus totalling twelve pairs.[well established][VHOG]" xsd:string [Term] id: UBERON:0009675 name: facial VII nerve chorda tympani branch namespace: uberon xref: EHDAA2:0000490 xref: EHDAA:3719 xref: EMAPA:18217 xref: MA:0001092 xref: VHOG:0001343 is_a: UBERON:0001647 ! facial nerve is_a: UBERON:0001785 ! cranial nerve relationship: part_of UBERON:0001647 ! facial nerve [Term] id: UBERON:0009676 name: early telencephalic vesicle namespace: uberon synonym: "early telencephalic ventricle" RELATED [] synonym: "early telencephalic vesicle" EXACT [EHDAA2:0001981] xref: EFO:0003562 xref: EHDAA2:0001981 xref: EHDAA:1993 xref: EHDAA:2671 xref: EMAPA:16914 is_a: UBERON:0013150 ! future brain vesicle relationship: develops_from UBERON:0006284 ! early prosencephalic vesicle relationship: located_in UBERON:0001893 ! telencephalon [Term] id: UBERON:0009678 name: tooth row namespace: uberon def: "Anatomical cluster consisting of adjacent teeth constituting a row." [ZFIN:curator] synonym: "dental arcade" EXACT [FMA:59415] synonym: "row of teeth" EXACT [UBERON:cjm] synonym: "tooth rows" EXACT PLURAL [ZFA:0001642] xref: FMA:59415 xref: TAO:0001667 xref: ZFA:0001642 is_a: UBERON:0003672 ! dentition [Term] id: UBERON:0009679 name: set of lower jaw teeth namespace: uberon def: "A tooth row that is part of a skeleton of lower jaw." [OBOL:automatic] synonym: "arcus dentalis inferior" EXACT LATIN [FMA:TA] synonym: "lower dental arcade" EXACT [FMA:55635] synonym: "lower jaw teeth" EXACT [EHDAA2:0001029] synonym: "mandibular dental arcade" RELATED [FMA:55635] synonym: "set of all lower teeth" EXACT [FMA:55635] xref: EHDAA2:0001029 xref: FMA:55635 is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0009678 ! tooth row intersection_of: part_of UBERON:0003278 ! skeleton of lower jaw [Term] id: UBERON:0009680 name: set of upper jaw teeth namespace: uberon def: "A tooth row that is part of a skeleton of upper jaw." [OBOL:automatic] synonym: "arcus dentalis superior" EXACT LATIN [FMA:TA] synonym: "maxillary dental arcade" RELATED [FMA:55634] synonym: "set of all upper teeth" EXACT [FMA:55634] synonym: "upper dental arcade" EXACT [FMA:55634] synonym: "upper jaw teeth" EXACT [EHDAA2:0002129] xref: EHDAA2:0002129 xref: FMA:55634 intersection_of: UBERON:0009678 ! tooth row intersection_of: part_of UBERON:0003277 ! skeleton of upper jaw [Term] id: UBERON:0009687 name: middle cardiac vein namespace: uberon def: "The middle cardiac vein commences at the apex of the heart, ascends in the posterior longitudinal sulcus, and ends in the coronary sinus near its right extremity." [Wikipedia:Middle_cardiac_vein] synonym: "lesser cardiac vein" EXACT [FMA:4713] synonym: "posterior interventricular vein" EXACT [FMA:4713] synonym: "vena cardiaca media" RELATED LATIN [Wikipedia:Middle_cardiac_vein] xref: EHDAA2:0004509 xref: FMA:4713 xref: SCTID:277729002 xref: UMLS:C0226660 xref: ncithesaurus:Middle_Cardiac_Vein is_a: UBERON:0004148 ! cardiac vein [Term] id: UBERON:0009688 name: posterior inferior cerebellar artery namespace: uberon synonym: "posterior inferior cerebellar artery" EXACT [EHDAA2:0000660] xref: EHDAA2:0000660 xref: FMA:50518 xref: SCTID:244212001 xref: UMLS:C0149573 xref: ncithesaurus:Posterior_Inferior_Cerebellar_Artery is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0001535 ! vertebral artery relationship: develops_from UBERON:0001535 ! vertebral artery relationship: part_of UBERON:0001535 ! vertebral artery [Term] id: UBERON:0009689 name: anterior inferior cerebellar artery namespace: uberon xref: EHDAA2:0000587 xref: FMA:50544 xref: SCTID:244213006 xref: UMLS:C0226245 xref: ncithesaurus:Anterior_Inferior_Cerebellar_Artery is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001637 ! artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0001633 ! basilar artery relationship: develops_from UBERON:0001532 ! internal carotid artery relationship: develops_from UBERON:0001633 ! basilar artery relationship: part_of UBERON:0001633 ! basilar artery relationship: part_of UBERON:0003472 ! cerebellar artery [Term] id: UBERON:0009692 name: lumen of pharyngotympanic tube namespace: uberon comment: Editors note: Check relationships for conformance with AAO and XAO synonym: "auditory tube lumen" EXACT [EHDAA2:0004118] synonym: "lumen of auditory tube" EXACT [FMA:60079] synonym: "lumen of eustachian tube" EXACT [FMA:60079] synonym: "pharyngotympanic tube lumen" EXACT [FMA:60079] xref: EHDAA2:0004118 xref: FMA:60079 is_a: UBERON:0005082 ! tube lumen relationship: continuous_with UBERON:0010060 ! pharyngeal opening of pharyngotympanic tube relationship: developmentally_replaces UBERON:0005625 ! tubotympanic recess relationship: surrounded_by UBERON:0010062 ! pharyngotympanic tube epithelium intersection_of: UBERON:0002558 ! organ cavity intersection_of: part_of UBERON:0002393 ! pharyngotympanic tube [Term] id: UBERON:0009695 name: epithelium of laryngopharynx namespace: uberon synonym: "epithelium of laryngeal pharynx" EXACT [FMA:62454] synonym: "laryngopharynx epithelium" EXACT [FMA:62454] xref: EHDAA2:0004575 xref: FMA:62454 is_a: UBERON:0003351 ! pharyngeal epithelium relationship: develops_from UBERON:0007690 ! early pharyngeal endoderm relationship: part_of UBERON:0001051 ! hypopharynx relationship: part_of UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001051 ! hypopharynx [Term] id: UBERON:0009697 name: epithelium of appendix namespace: uberon synonym: "appendix epithelium" EXACT [FMA:63581] synonym: "epithelium of vermiform appendix" EXACT [FMA:63581] xref: EHDAA2:0004561 xref: FMA:63581 is_a: UBERON:0005636 ! caecum epithelium relationship: develops_from UBERON:0005636 ! caecum epithelium relationship: part_of UBERON:0003929 ! gut epithelium relationship: part_of UBERON:0004989 ! mucosa of appendix intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001154 ! vermiform appendix [Term] id: UBERON:0009708 name: dorsal pancreas namespace: uberon subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "pancreatis dorsalis" RELATED [] xref: EHDAA2:0001371 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005177 ! trunk organ relationship: develops_from UBERON:0010375 ! pancreas dorsal primordium relationship: has_developmental_contribution_from UBERON:0003923 ! dorsal pancreatic bud relationship: part_of UBERON:0001264 ! pancreas [Term] id: UBERON:0009709 name: ventral pancreas namespace: uberon subset: organ_slim ! organs, excluding individual muscles and skeletal elements synonym: "pancreatis ventralis" RELATED [] xref: EHDAA2:0001393 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005177 ! trunk organ relationship: develops_from UBERON:0010376 ! pancreas ventral primordium relationship: has_developmental_contribution_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0001264 ! pancreas [Term] id: UBERON:0009712 name: endocardium of right ventricle namespace: uberon def: "Endocardium of ventricle which is continuous tricuspid valve, pulmonary valve and with the tunica intima of the pulmonary trunk." [FMA:9536] synonym: "endocardial lining of right ventricle" RELATED [EMAPA:17341] synonym: "right ventricle endocardial tissue" RELATED [VHOG:0001235] synonym: "right ventricle endocardium" EXACT [VHOG:0001235] synonym: "right ventricular endocardium" EXACT [FMA:9536] xref: EHDAA2:0002188 xref: EMAPA:17341 xref: FMA:9536 xref: SCTID:8911002 xref: VHOG:0001235 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: attaches_to UBERON:0006567 ! right ventricle myocardium relationship: develops_from UBERON:0004706 ! bulbus cordis intersection_of: UBERON:0001081 ! endocardium of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0009713 name: endocardium of left ventricle namespace: uberon def: "Endocardium of ventricle which is continuous with mitral valve , aortic valve, atrioventricular septum and the tunica intima of the aorta." [FMA:9559] synonym: "endocardial lining of left ventricle" RELATED [EMAPA:17338] synonym: "left ventricle endocardial tissue" RELATED [VHOG:0001233] synonym: "left ventricle endocardium" EXACT [VHOG:0001233] synonym: "left ventricular endocardium" EXACT [FMA:9559] xref: EHDAA2:0002182 xref: EMAPA:17338 xref: FMA:9559 xref: SCTID:191004004 xref: VHOG:0001233 relationship: attaches_to UBERON:0006566 ! left ventricle myocardium relationship: develops_from UBERON:0006283 ! primitive ventricle of heart intersection_of: UBERON:0001081 ! endocardium of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0009714 name: intermaxillary process namespace: uberon def: "the primordial mass of tissue formed by the merging of the medial nasal prominences of the embryo; it contributes to the intermaxillary portion of the upper jaw, the prolabial portion of the upper lip, and the primary palate." [http://www.medilexicon.com/medicaldictionary.php?s=intermaxillary+segment] comment: Editors note: requires verification. Note EHDAA2 has this as coming from both lateral and medial prominences. See also: median cleft lip synonym: "globular process" RELATED DEPRECATED [Wikipedia:Intermaxillary_segment] synonym: "globular processes of his" RELATED DEPRECATED [Wikipedia:Intermaxillary_segment] synonym: "intermaxillary segment" RELATED [Wikipedia:Intermaxillary_segment] xref: EHDAA2:0000868 xref: EHDAA:7856 is_a: UBERON:0009292 ! embryonic nasal process relationship: develops_from UBERON:0004067 ! lateral nasal prominence relationship: develops_from UBERON:0004068 ! medial nasal prominence [Term] id: UBERON:0009715 name: stomodeal cavity namespace: uberon def: "An anatomical cavity that surrounded_by a stomodeum." [OBOL:automatic] intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: part_of UBERON:0000930 ! stomodeum [Term] id: UBERON:0009716 name: cupular organ namespace: uberon def: "Epithelial sense organ containing the cupula housing a gelatinous material elongated from the basement of the organ toward the atrial cavity. The basement of the cupular organ consists of two cell types: sensory cells and support cell" [DOI:10.2108/zsj.27.842] comment: Homology: possible homologues of neuromasts in the inner ear (Bone & Ryan, 1978; Wada et al 1998). In the tunicate cupular organ, the sensory cell is a primary neuron sending an axon to the CNS. The sensory cilium is within a deep indentation of the cell and is surrounded by a collar of short microvilli. is_a: UBERON:0000020 ! sense organ [Term] id: UBERON:0009717 name: coronal organ namespace: uberon def: "Mechanoreceptor organ found in oral siphon of botryllid ascidians, made of hair cells, similar to the vertebrate octavolateralis system. A possible candidate of the vertebrate lateral line." [DOI:10.1002/jez.b.21013] subset: organ_slim ! organs, excluding individual muscles and skeletal elements is_a: UBERON:0000020 ! sense organ relationship: part_of UBERON:0009720 ! oral siphon [Term] id: UBERON:0009718 name: neurohypophyseal duct namespace: uberon def: "Embryonic duct that is the rudiment of cerebral ganglion and and neural gland of adult in the ascidians." [DOI:10.1002/jez.b.21013] comment: Homology: candidate homolog for both neural crest and for the combined olfactory and adenohypophyseal placodes (Burighel et al., 2003; Manni et al., 2004a). Development: During formation of the adult ascidian, the ectodermal neurohypophyseal duct fuses with an evagination of the pharynx to form the neural gland rudiment is_a: UBERON:0000058 ! duct relationship: homologous_to UBERON:0002196 ! adenohypophysis relationship: homologous_to UBERON:0009122 ! adenohypophyseal placode [Term] id: UBERON:0009719 name: siphon namespace: uberon def: "tubular appendage for drawing or ejecting fluids" [] xref: BTO:0002056 is_a: UBERON:0000026 ! appendage relationship: develops_from UBERON:0009894 ! siphon primordium [Term] id: UBERON:0009720 name: oral siphon namespace: uberon synonym: "anterior buccal siphon" EXACT [ISBN:0030229073] synonym: "branchial siphon" RELATED [] synonym: "buccal siphon" EXACT [ISBN:0030229073] synonym: "pharyngeal siphon" RELATED [] is_a: UBERON:0009719 ! siphon relationship: develops_from UBERON:0009896 ! oral siphon primordia property_value: foaf-depicted_by 32371:orig.jpg [Term] id: UBERON:0009721 name: atrial siphon namespace: uberon is_a: UBERON:0009719 ! siphon relationship: develops_from UBERON:0009895 ! atrial siphon primordia [Term] id: UBERON:0009722 name: entire pharyngeal arch endoderm namespace: uberon synonym: "pharyngeal arch endoderm" RELATED [EHDAA2:0004621] xref: EHDAA2:0004621 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0003929 ! gut epithelium [Term] id: UBERON:0009731 name: sublaminar layers S3 or S4 namespace: uberon def: "One of sublaminar layers S3 or S4." [GOC:plr] xref: CP:0001040 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008924 ! sublaminar layer S3 union_of: UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0009732 name: sublaminar layers S1 or S2 or S5 namespace: uberon def: "One of sublaminar layers S1, S2, or S5." [GOC:plr] xref: CP:0001041 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008922 ! sublaminar layer S1 union_of: UBERON:0008923 ! sublaminar layer S2 union_of: UBERON:0008926 ! sublaminar layer S5 [Term] id: UBERON:0009733 name: sublaminar layers S1 or S2 or S3 namespace: uberon def: "One of sublaminar layers S1, S2, or S3." [GOC:plr] xref: CP:0001042 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008922 ! sublaminar layer S1 union_of: UBERON:0008923 ! sublaminar layer S2 union_of: UBERON:0008924 ! sublaminar layer S3 [Term] id: UBERON:0009734 name: sublaminar layers S2 or S3 or S4 namespace: uberon def: "One of sublaminar layers S2, S3, or S4." [GOC:plr] xref: CP:0001043 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008923 ! sublaminar layer S2 union_of: UBERON:0008924 ! sublaminar layer S3 union_of: UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0009735 name: sublaminar layers S1 or S3 or S4 namespace: uberon def: "One of sublaminar layers S1, S3, or S4." [GOC:plr] xref: CP:0001044 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008922 ! sublaminar layer S1 union_of: UBERON:0008924 ! sublaminar layer S3 union_of: UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0009736 name: sublaminar layers S3 or S4 or S5 namespace: uberon def: "One of sublaminar layers S3, S4, or S5." [GOC:plr] xref: CP:0001045 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008924 ! sublaminar layer S3 union_of: UBERON:0008925 ! sublaminar layer S4 union_of: UBERON:0008926 ! sublaminar layer S5 [Term] id: UBERON:0009737 name: sublaminar layers S1 or S2 or S3 or S4 namespace: uberon def: "One of sublaminar layers S1, S2, S3, or S4." [GOC:plr] xref: CP:0001046 is_a: UBERON:0008921 ! substratum of layer of retina union_of: UBERON:0008922 ! sublaminar layer S1 union_of: UBERON:0008923 ! sublaminar layer S2 union_of: UBERON:0008924 ! sublaminar layer S3 union_of: UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0009738 name: border of sublaminar layers S1 and S2 namespace: uberon def: "The region extending out from the boundary between layers S1 and S2." [GOC:plr, UBERON:cjm] xref: CP:0001038 relationship: part_of UBERON:0008927 ! sublaminar layers S1 or S2 intersection_of: UBERON:0009740 ! border between sublaminar layers intersection_of: overlaps UBERON:0008922 ! sublaminar layer S1 intersection_of: overlaps UBERON:0008923 ! sublaminar layer S2 [Term] id: UBERON:0009739 name: border of sublaminar layers S3 and S4 namespace: uberon def: "The region extending out from the boundary between sublaminar layers S3 and S4." [GOC:plr, UBERON:cjm] xref: CP:0001039 relationship: part_of UBERON:0009731 ! sublaminar layers S3 or S4 intersection_of: UBERON:0009740 ! border between sublaminar layers intersection_of: overlaps UBERON:0008924 ! sublaminar layer S3 intersection_of: overlaps UBERON:0008925 ! sublaminar layer S4 [Term] id: UBERON:0009740 name: border between sublaminar layers namespace: uberon def: "A region of the retina corresponding to a portion of two adjacent substratum layers." [UBERON:cjm] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 ! organ component layer relationship: overlaps UBERON:0008921 ! substratum of layer of retina relationship: part_of UBERON:0000966 ! retina [Term] id: UBERON:0009741 name: tailbud stage namespace: uberon def: "Any of the developmental stages from Nieuwkoop and Faber stage 20 to stage 44 (feeding), including the beginning of hatching (NF stage 35/36)." [ISBN:0815318960] xref: XAO:1000007 is_a: UBERON:0000068 ! embryo stage [Term] id: UBERON:0009742 name: proamniotic cavity namespace: uberon def: "the cavity of the developing embryo that is formed within the epiblast tissue prior to the closing of the proamniotic canal by the amniotic folds" [MP:0011197] is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0009743 name: visceral yolk sac cavity namespace: uberon def: "the closed space containing the yolk, formed by the fusion of the edges of the embryonic epiblast (hypoblast) and later surrounded by the visceral yolk sac (hypoblast and visceral yolk sac mesoderm)" [MP:0011201] is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0008852 ! visceral yolk sac intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0008852 ! visceral yolk sac [Term] id: UBERON:0009744 name: lymph node medullary sinus namespace: uberon def: "the channels in the lymph node medulla that separate the medullary cords and are crossed by a reticulum of cells and fibers and bounded by littoral cells; lymph flows through the medullary sinus from the cortical sinuses and into the efferent lymphatic vessels" [MP:0011222] is_a: UBERON:0004111 ! anatomical conduit relationship: part_of UBERON:0002007 ! medulla of lymph node [Term] id: UBERON:0009745 name: lymph node medullary cord namespace: uberon def: "the dense rope-like structures of lymphatic tissue located between the medullary sinuses in the medulla of a lymph node" [MP:0011224] is_a: UBERON:0000061 ! anatomical structure relationship: adjacent_to UBERON:0009744 ! lymph node medullary sinus relationship: part_of UBERON:0002007 ! medulla of lymph node [Term] id: UBERON:0009746 name: head fold of embryonic disc namespace: uberon def: "the crescent-shaped, ventrally located fold of the embryonic disc at the future cephalic end of the developing embryo" [MP:0011257] synonym: "head fold" EXACT [] xref: SCTID:361453004 is_a: UBERON:0005291 ! embryonic tissue [Term] id: UBERON:0009747 name: tail fold of embryonic disc namespace: uberon def: "the crescent-shaped, ventrally located fold of the embryonic disc at the future caudal end of the developing embryo" [MP:0011258] synonym: "tail fold" EXACT [] xref: SCTID:361439004 is_a: UBERON:0005291 ! embryonic tissue [Term] id: UBERON:0009748 name: cephalic neural fold namespace: uberon def: "the elevated margins of the neural groove that are located in the future cephalic region of the embryo" [MP:0011259] xref: EMAPA:16090 is_a: UBERON:0005062 ! neural fold [Term] id: UBERON:0009749 name: limb mesenchyme namespace: uberon def: "the primordial embryonic connective tissue of the developing limbs, autopods and digits, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to limb connective tissue, bone and musculature in conjunction with myotome cells." [MP:0011261] comment: AO notes: EMAPA mapping from TH synonym: "limb mesoderm" RELATED [Geisha:syn, NCBITaxon:8782] xref: EMAPA:32705 intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002101 ! limb [Term] id: UBERON:0009751 name: cardiac mesenchyme namespace: uberon def: "the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing cardiac structures" [MP:0011264] comment: Editor note: decide whether to merge with cardiac mesoderm. Check start/end stages xref: EHDAA2:0004162 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0009752 name: pancreas mesenchyme namespace: uberon def: "the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing pancreas" [MP:0011265] xref: EFO:0002557 is_a: UBERON:0005256 ! trunk mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001264 ! pancreas [Term] id: UBERON:0009753 name: adrenal gland cortex zone namespace: uberon synonym: "adrenal cortical region" EXACT [FMA:69086] synonym: "region of adrenal cortex" RELATED [FMA:69086] xref: FMA:69086 xref: MA:0001887 xref: SCTID:68594002 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0001235 ! adrenal cortex [Term] id: UBERON:0009754 name: blubber namespace: uberon def: "a thick layer of vascularized adipose tissue found under the skin of all cetaceans, pinnipeds and sirenians." [Wikipedia:Blubber] comment: Lipid-rich, collagen fiberblaced blubber comprises the hypodermis and covers the whole body, except for parts of the appendages, strongly attached to the musculature and skeleton by highly organized, fan-shaped networks of tendons and ligaments. It can comprise up to 50% of the body mass of some marine mammals during some points in their lives, and can range from two inches (5 cm) thick in dolphins and smaller whales, to more than 12 inches (30 cm)thick in some bigger whales, such as right and bowhead whales xref: SCTID:83953006 is_a: UBERON:0002190 ! subcutaneous adipose tissue [Term] id: UBERON:0009755 name: spermaceti namespace: uberon def: "wax present in the head cavities of the sperm whale." [Wikipedia:Spermaceti] is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0009756 name: spermaceti organ namespace: uberon def: "An organ that secretes a spermaceti." [OBOL:automatic] subset: organ_slim ! organs, excluding individual muscles and skeletal elements xref: http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Sperm_whale_head_anatomy.svg/1000px-Sperm_whale_head_anatomy.svg.png relationship: part_of UBERON:0000033 ! head intersection_of: UBERON:0000062 ! organ intersection_of: secretes UBERON:0009755 ! spermaceti [Term] id: UBERON:0009757 name: ambergris namespace: uberon def: "a biliary secretion of the intestines of the sperm whale." [Wikipedia:Ambergris] is_a: UBERON:0000463 ! portion of organism substance [Term] id: UBERON:0009758 name: abdominal ganglion namespace: uberon def: "A ganglion that is part of a abdominal segment of trunk." [OBOL:automatic] xref: SCTID:280508003 is_a: UBERON:0007134 ! trunk ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0009767 name: proximal interphalangeal joint namespace: uberon def: "An inter-phalangeal joint that connects a proximal phalanx." [OBOL:automatic] synonym: "PIJ joint" NARROW [Wikipedia:Interphalangeal_articulations_of_the_hand] synonym: "PIP joint" NARROW [Wikipedia:Interphalangeal_articulations_of_the_hand] xref: FMA:65022 relationship: connects UBERON:0004301 ! middle phalanx intersection_of: UBERON:0006658 ! inter-phalangeal joint intersection_of: connects UBERON:0004302 ! proximal phalanx [Term] id: UBERON:0009768 name: distal interphalangeal joint namespace: uberon def: "An inter-phalangeal joint that connects a distal phalanx." [OBOL:automatic] synonym: "DIJ joint" NARROW [Wikipedia:Interphalangeal_articulations_of_the_hand] synonym: "DIP joint" NARROW [Wikipedia:Interphalangeal_articulations_of_the_hand] xref: FMA:65024 relationship: connects UBERON:0004301 ! middle phalanx intersection_of: UBERON:0006658 ! inter-phalangeal joint intersection_of: connects UBERON:0004300 ! distal phalanx [Term] id: UBERON:0009769 name: left common cardinal vein namespace: uberon comment: Taxon notes: the left duct atrophies at metamorphosis in the lamprey (22)[PMID:20959416, S1] synonym: "common cardinal vein left " EXACT [EHDAA2:0000304] xref: EHDAA2:0000304 xref: FMA:70311 xref: SCTID:361506000 is_a: UBERON:0002064 ! common cardinal vein relationship: part_of UBERON:0004344 ! cardinal vein [Term] id: UBERON:0009771 name: left anterior cardinal vein namespace: uberon synonym: "left precardinal vein" EXACT [FMA:70313] synonym: "precardinal vein left" EXACT [EHDAA2:0000127] xref: EHDAA2:0000127 xref: FMA:70313 xref: SCTID:361502003 intersection_of: UBERON:0003087 ! anterior cardinal vein intersection_of: in_left_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009772 name: right anterior cardinal vein namespace: uberon synonym: "precardinal vein right" EXACT [EHDAA2:0004537] synonym: "right precardinal vein" EXACT [FMA:70312] xref: EHDAA2:0004537 xref: FMA:70312 xref: SCTID:361503008 intersection_of: UBERON:0003087 ! anterior cardinal vein intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009773 name: renal tubule namespace: uberon def: "A renal tubule is a tube that filters, re-absorbs and secretes substances to rid an organism of waste and to play a role in fluid homeostasis." [GO:0061333, GOC:dph, GOC:mtg_kidney_jan10] subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "renal tubule (generic)" EXACT [UBERON:cjm] synonym: "tubule of excretory system" EXACT [OBOL:automatic, UBERON:cjm] is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0006555 ! excretory tube relationship: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0009774 name: embryonic midbrain hindbrain boundary namespace: uberon comment: merge with presumptive midbrain hindbrain boundary? is_a: UBERON:0006800 ! anatomical line relationship: part_of UBERON:0006238 ! future brain [Term] id: UBERON:0009775 name: lateral medullary reticular complex namespace: uberon synonym: "lateral group of medullary reticular formation" EXACT [FMA:72573] synonym: "lateral medullary reticular group" EXACT [FMA:72573] synonym: "lateral reticular formation of the medulla oblongata" EXACT [FMA:72573] xref: FMA:72573 is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007245 ! nuclear complex of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002559 ! medullary reticular formation [Term] id: UBERON:0009776 name: intermediate reticular formation namespace: uberon def: "." [https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3413098&group_id=36855] xref: TAO:0000219 xref: ZFA:0000219 is_a: UBERON:0003528 ! brain grey matter is_a: UBERON:0007245 ! nuclear complex of neuraxis is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002559 ! medullary reticular formation [Term] id: UBERON:0009777 name: intermediate reticular nucleus namespace: uberon def: "A nucleus of brain that is part of a intermediate reticular formation." [OBOL:automatic] xref: ABA:IRN xref: FMA:84336 is_a: UBERON:0002579 ! regional part of medullary reticular formation is_a: UBERON:0007635 ! nucleus of medulla oblongata intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0009776 ! intermediate reticular formation [Term] id: UBERON:0009778 name: pleural sac namespace: uberon def: "Serous sac, which has as parts the pleura and the pleural cavity. Examples: There are only two canonical instances, right and left pleural sacs." [FMA:9690] xref: FMA:9690 xref: SCTID:361996004 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005906 ! serous sac relationship: in_lateral_side_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0009779 name: cardiac muscle tissue of right auricle namespace: uberon def: "A cardiac muscle tissue that is part of a right atrium auricular region." [OBOL:automatic] synonym: "cardiac muscle of right auricular region" EXACT [EMAPA:16826] synonym: "left atrium auricular region heart muscle" EXACT [EHDAA2:0004168] synonym: "right auricular region cardiac muscle" RELATED [VHOG:0000611] synonym: "right auricular region myocardium" EXACT [VHOG:0000611] xref: EHDAA2:0004168 xref: EMAPA:16826 xref: EMAPA:17324 xref: FMA:84280 xref: VHOG:0000611 is_a: UBERON:0003378 ! cardiac muscle of auricular region is_a: UBERON:0003379 ! cardiac muscle of right atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0006631 ! right atrium auricular region [Term] id: UBERON:0009780 name: cardiac muscle tissue of left auricle namespace: uberon def: "A cardiac muscle tissue that is part of a left atrium auricular region." [OBOL:automatic] synonym: "cardiac muscle of left auricular region" EXACT [EMAPA:16818] synonym: "right atrium auricular region heart muscle" EXACT [EHDAA2:0004169] xref: EHDAA2:0004169 xref: EMAPA:16818 xref: EMAPA:17318 xref: FMA:84281 is_a: UBERON:0003378 ! cardiac muscle of auricular region is_a: UBERON:0003380 ! cardiac muscle of left atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0006630 ! left atrium auricular region [Term] id: UBERON:0009834 name: dorsolateral prefrontal cortex namespace: uberon def: "The dorsolateral prefrontal cortex (DL-PFC or DLPFC), according to a more restricted definition, is roughly equivalent to Brodmann areas 9 and 46.[1] According to a broader definition DL-PFC consists of the lateral portions of Brodmann areas 9 b 12, of areas 45, 46, and the superior part of area 47.[2] These regions mainly receive their blood supply from the middle cerebral artery. With respect to neurotransmitter systems, there is evidence that dopamine plays a particularly important role in DL-PFC.[2]DL-PFC is connected to the orbitofrontal cortex, and to a variety of brain areas, which include the thalamus, parts of the basal ganglia (the dorsal caudate nucleus), the hippocampus, and primary and secondary association areas of neocortex, including posterior temporal, parietal, and occipital areas" [Wikipedia:Dorsolateral_prefrontal_cortex] comment: check dorsolateral prefrontal neocortex is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: overlaps UBERON:0006483 ! brodmann (1909) area 46 relationship: part_of UBERON:0000956 ! cerebral cortex [Term] id: UBERON:0009835 name: anterior cingulate cortex namespace: uberon def: "the frontal part of the cingulate cortex, that resembles a 'collar' form around the corpus callosum, the fibrous bundle that relays neural signals between the right and left cerebral hemispheres of the brain. It includes both the ventral and dorsal areas of the cingulate cortex, and appears to play a role in a wide variety of autonomic functions, such as regulating blood pressure and heart rate, as well as rational cognitive functions, such as reward anticipation, decision-making, empathy[1] and emotion." [Wikipedia:Anterior_cingulate_cortex] xref: BTO:0004249 xref: NIF_GrossAnatomy:birnlex_936 xref: http://upload.wikimedia.org/wikipedia/commons/2/22/Gray727_anterior_cingulate_cortex.png is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002619 ! regional part of cerebral cortex relationship: has_function_in GO:0002027 ! regulation of heart rate relationship: part_of UBERON:0003027 ! cingulate cortex [Term] id: UBERON:0009836 name: fronto-orbital gyrus namespace: uberon synonym: "fronto-orbital gyrus" EXACT [NIF_GrossAnatomy:birnlex_1243] synonym: "orbito-frontal gyrus" EXACT [] synonym: "orbitofrontal gyrus" EXACT [] xref: NIF_GrossAnatomy:birnlex_1243 is_a: UBERON:0007193 ! orbital gyrus relationship: part_of UBERON:0004167 ! orbitofrontal cortex [Term] id: UBERON:0009840 name: lower rhombic lip namespace: uberon def: "Posterior portion of the rhombic lip contained within rhombomeres 2-8. Gives rise to several brainstem nuclei and choroid plexus." [ZFIN:curator] synonym: "caudal rhombic lip" EXACT [UBERON:cjm] xref: TAO:0001441 xref: ZFA:0001441 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain relationship: overlaps UBERON:0005507 ! rhombomere 3 relationship: overlaps UBERON:0005511 ! rhombomere 4 relationship: overlaps UBERON:0005515 ! rhombomere 5 relationship: overlaps UBERON:0005519 ! rhombomere 6 relationship: overlaps UBERON:0005523 ! rhombomere 7 relationship: overlaps UBERON:0005527 ! rhombomere 8 relationship: overlaps UBERON:0005569 ! rhombomere 2 relationship: part_of UBERON:0006215 ! rhombic lip [Term] id: UBERON:0009841 name: upper rhombic lip namespace: uberon def: "Anterior-most region of dorsal hindbrain within rhombomere 1, adjacent the midbrain-hindbrain boundary." [ZFIN:curator] synonym: "cerebellar anlage" EXACT [ZFA:0001442] synonym: "presumptive cerebellum" EXACT [ZFA:0001442] synonym: "rostral rhombic lip" EXACT [DHB:URL] xref: TAO:0001442 xref: ZFA:0001442 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002616 ! regional part of brain relationship: adjacent_to UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of UBERON:0005499 ! rhombomere 1 relationship: part_of UBERON:0006215 ! rhombic lip [Term] id: UBERON:0009842 name: acinus namespace: uberon def: "An acinus refers to any cluster of cells that resembles a many-lobed \"berry,\" such as a raspberry (acinus is Latin for berry). The berry-shaped termination of an exocrine gland, where the secretion is produced is acinar in form, as is the alveolar sac containing multiple alveoli in the lungs." [Wikipedia:Acinus] synonym: "acini" RELATED PLURAL [Wikipedia:Acinus] synonym: "glandular acinus" RELATED [] xref: FMA:55588 xref: http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png is_a: UBERON:0000064 ! organ part property_value: has_relational_adjective "acinar" xsd:string [Term] id: UBERON:0009843 name: prostate epithelial cord namespace: uberon def: "A solid cord of prostate epithelium." [GO:0060527, OBOL:automatic, PMID:18977204] comment: Complexity is conferred on the prostate during a postnatal development phase known as branching morphogenesis. Solid cords of prostate epithelium formed in utero elongate postnatally and their tips are bifurcated into primary, secondary, and tertiary branches in a pattern that is unique for each prostate lobe. Branching morphogenesis proceeds differentially for each of the three mouse prostate lobes (ventral, dorsolateral, and anterior) and is completed by about postnatal day 20 in mice, providing each lobe with unique glandular architecture [5]. It is important to note that the developing human prostate undergoes a similar series of morphogenetic events especially during prostatic bud formation, but gives rise to a mature glandular prostate that is unique from the rodent and features peripheral, central, and transitional zones[PMID:18977204] synonym: "cord of prostate epithelium" EXACT [PMID:18977204] synonym: "epithelial cord of prostate" EXACT [] is_a: UBERON:0000428 ! prostate epithelium intersection_of: UBERON:0005154 ! epithelial cord intersection_of: part_of UBERON:0002367 ! prostate gland [Term] id: UBERON:0009844 name: urogenital sinus lumen namespace: uberon def: "An anatomical space that surrounded_by a primitive urogenital sinus." [OBOL:automatic] xref: EHDAA2:0002142 relationship: develops_in UBERON:0009669 ! embryonic cloacal lumen relationship: surrounded_by UBERON:0004902 ! urogenital sinus epithelium intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0000164 ! primitive urogenital sinus [Term] id: UBERON:0009845 name: urogenital sinus mesenchyme namespace: uberon def: "Mesenchyme that surrounds primitive urogenital sinus." [OBOL:automatic] comment: Androgen receptor (AR) activation releases instructive signals from UGM that acts on UGS epithelium (UGE) to stimulate cell proliferation, form prostate ductal progenitors (prostatic buds), and regulate cell adhesion dynamics to permit prostatic bud outgrowth synonym: "UGM" EXACT ABBREVIATION [PMID:18977204] intersection_of: UBERON:0003104 ! mesenchyme intersection_of: surrounds UBERON:0000164 ! primitive urogenital sinus [Term] id: UBERON:0009846 name: embryonic cloacal epithelium namespace: uberon def: "An epithelium that is part of a embryonic cloaca." [OBOL:automatic] synonym: "cloacal epithelium" BROAD [EHDAA2:0004585] xref: EHDAA2:0004585 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0006554 ! urinary system structure is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0012481 ! cloacal epithelium relationship: develops_from UBERON:0003353 ! epithelium of hindgut relationship: part_of UBERON:0003929 ! gut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000163 ! embryonic cloaca [Term] id: UBERON:0009847 name: prostate field namespace: uberon def: "a specific region of the urogenital sinus epithelium into the area in which the prostate gland will develop." [GO:0060515, GOC:dph, PMID:18977204] synonym: "prostate primordium" EXACT [] is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004902 ! urogenital sinus epithelium is_a: UBERON:0005423 ! developing anatomical structure relationship: induced_by UBERON:0009845 ! urogenital sinus mesenchyme relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0004902 ! urogenital sinus epithelium [Term] id: UBERON:0009848 name: zona limitans intrathalamica namespace: uberon def: "A narrow stripe of cells that lies between the prospective dorsal and ventral thalami. This boundary contains signals that pattern the prethalamic and thalamic territories of the future mid-diencephalon." [GO:0022006, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, GOC:mtg_15jun06, GO_REF:0000021, PMID:11425897, PMID:16452095, Wikipedia:Zona_limitans_intrathalamica] synonym: "ZLI" EXACT [GO:0022006] xref: TAO:0001344 xref: ZFA:0001344 intersection_of: UBERON:0006800 ! anatomical line intersection_of: adjacent_to UBERON:0001900 ! subthalamus intersection_of: adjacent_to UBERON:0004703 ! dorsal thalamus property_value: external_definition "The border between the dorsal and ventral thalamus.[TAO]" xsd:string [Term] id: UBERON:0009849 name: tadpole stage namespace: uberon def: "wholly aquatic larval stage in the life cycle of an amphibian, particularly of a frog or toad[WP]. XAO: The stages from feeding to the end of metamorphosis. Encompasses Weisz's first-form tadpole (equivalent to NF stages 45 to 49), second-form tadpole (NF 49 to 56) and third-form tadpole (NF 56 to 60-plus) stages." [ISBN:0471209627, ISSN:0003-276X, Wikipedia:Tadpole] xref: XAO:1000008 is_a: UBERON:0000069 ! larval stage [Term] id: UBERON:0009850 name: nematode larva namespace: uberon def: "A multi-cellular organism that existence_starts_and_ends_during a nematode larval stage." [OBOL:automatic] is_a: UBERON:0002548 ! larva intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_and_ends_during UBERON:0004729 ! nematode larval stage [Term] id: UBERON:0009851 name: border of sublaminar layers S4 and S5 namespace: uberon def: "The intersection of sublaminar layers S4 and S5." [GOC:tfm] relationship: part_of UBERON:0008929 ! sublaminar layers S4 or S5 intersection_of: UBERON:0009740 ! border between sublaminar layers intersection_of: overlaps UBERON:0008925 ! sublaminar layer S4 intersection_of: overlaps UBERON:0008926 ! sublaminar layer S5 [Term] id: UBERON:0009852 name: border of sublaminar layers S2 and S3 namespace: uberon def: "The intersection of sublaminar layers S2 and S3." [GOC:tfm] relationship: part_of UBERON:0008928 ! sublaminar layers S2 or S3 intersection_of: UBERON:0009740 ! border between sublaminar layers intersection_of: overlaps UBERON:0008923 ! sublaminar layer S2 intersection_of: overlaps UBERON:0008924 ! sublaminar layer S3 [Term] id: UBERON:0009853 name: body of uterus namespace: uberon def: "that part of the uterus above the isthmus and below the orifices of the uterine tubes." [http://medical-dictionary.thefreedictionary.com/corpus+uteri] synonym: "corpus uteri" EXACT [UBERON:cjm] synonym: "uterine body" EXACT [FMA:17739] synonym: "uterine corpus" EXACT [FMA:17739] xref: EFO:0000382 xref: FMA:17739 xref: SCTID:279878007 xref: UMLS:C0227813 xref: ncithesaurus:Corpus_Uteri is_a: UBERON:0000064 ! organ part is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0000995 ! uterus [Term] id: UBERON:0009854 name: digestive tract diverticulum namespace: uberon def: "Branch or outpocketing of the digestive tract." [UBERON:cjm] synonym: "diverticulum of gut" RELATED [FBbt:00100316] synonym: "intestinal pouch" RELATED [] xref: FBbt:00100316 is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0009856 ! sac intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0009855 name: echinoderm gastric caecum namespace: uberon def: "non-contractile pouch that is connected to the anterior stomach through a slit-like opening. This pouch is also well-connected to the haemal system through numerous haemal ducts within its connective tissue layer." [PMID:20955602] comment: The digestive tract of many metazoan invertebrates is characterized by the presence of caeca or diverticula that serve secretory and/or absorptive functions. With the development of various feeding habits, distinctive digestive organs may be present in certain taxa. This also holds true for sea urchins (Echinodermata: Echinoidea), in which a highly specialized gastric caecum can be found in members of a derived subgroup, the Irregularia (cake urchins, sea biscuits, sand dollars, heart urchins, and related forms)... Homologous with the more or less pronounced dilation of the anterior stomach that is observed in most \"regular\" sea urchin taxa[PMID:20955602] is_a: UBERON:0009854 ! digestive tract diverticulum [Term] id: UBERON:0009856 name: sac namespace: uberon synonym: "diverticulum" RELATED [] synonym: "pouch" EXACT [] xref: galen:Diverticulum intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_quality PATO:0001987 ! saccular [Term] id: UBERON:0009857 name: cavum septum pellucidum namespace: uberon def: "Space enclosed within the laminae of the septum pelludicum, the membranous partition that seperates the frontal horns of the ventricle. contains cerebrospinal fluid (CSF) that filters from the ventricles through the septal laminae. bounded anteriorly by the genu of the corpus callosum; superiorly by the body of the corpus callosum; posteriorly by the anterior limb and pillars of the fornix; inferiorly by the anterior commissure and the rostrum of the corpus callosum; and laterally by the leaflets of the septum pellucidum. In humans, present in 100% of fetuses, but over 85% of them fuse by 3b6 months after birth." [BTO:0003447, Wikipedia:Cave_of_septum_pellucidum] synonym: "cave of septum pellucidum" EXACT [FMA:61874] synonym: "cavum of septum pellucidum" EXACT [FMA:61874] synonym: "cavum septi pellucidi" RELATED LATIN [Wikipedia:Cave_of_septum_pellucidum] synonym: "fifth ventricle" RELATED [FMA:61874, Wikipedia:Cave_of_septum_pellucidum] synonym: "septum pellucidum cave" EXACT [FMA:61874] synonym: "ventriculus septi pellucidi" EXACT [FMA:61874] xref: BTO:0003447 xref: FMA:61874 xref: SCTID:180933005 xref: UMLS:C0228158 xref: http://upload.wikimedia.org/wikipedia/commons/7/7d/CavumSeptumPellucidumDiagram.jpg xref: ncithesaurus:Fifth_Ventricle relationship: part_of UBERON:0004714 ! septum pellucidum intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0004714 ! septum pellucidum [Term] id: UBERON:0009858 name: outer fibrous layer of periosteum namespace: uberon synonym: "capsular layer of periosteum" EXACT [FMA:234354] synonym: "external layer of periosteum" EXACT [] synonym: "external periosteum" EXACT [] synonym: "fibrous layer of periosteum" EXACT [FMA:234354] synonym: "outer fibrous layer of periosteum" EXACT [FMA:234354] xref: FMA:234354 is_a: UBERON:0000158 ! membranous layer relationship: composed_primarily_of UBERON:0011822 ! dense irregular connective tissue relationship: has_part CL:0000057 ! fibroblast relationship: part_of UBERON:0002515 ! periosteum [Term] id: UBERON:0009859 name: endosteum namespace: uberon def: "a thin layer of connective tissue that lines the surface of the bony tissue that forms the medullary cavity of long bones" [Wikipedia:Endosteum] xref: FMA:32692 xref: SCTID:57487002 xref: UMLS:C0222658 xref: http://upload.wikimedia.org/wikipedia/commons/9/94/Illu_long_bone.jpg xref: ncithesaurus:Endosteum is_a: UBERON:0000158 ! membranous layer relationship: adjacent_to UBERON:0002484 ! bone marrow cavity relationship: composed_primarily_of UBERON:0011825 ! loose connective tissue relationship: part_of UBERON:0002495 ! long bone property_value: has_relational_adjective "endosteal" xsd:string [Term] id: UBERON:0009860 name: ascidian digestive gland namespace: uberon xref: ANISEED:1239655 is_a: UBERON:0006925 ! digestive gland property_value: foaf-depicted_by 32371:orig.jpg [Term] id: UBERON:0009861 name: ascidian neural complex namespace: uberon def: "." [PMID:21558186] is_a: UBERON:0002530 ! gland [Term] id: UBERON:0009862 name: ascidian cerebral ganglion namespace: uberon def: "." [PMID:21558186] comment: the CG appears to be a diencephalic brain. It originates mainly from the posterior sensory vesicle (Takamura 2002; Dufour et al. 2006) and shows endocrine activity. For examples, ascidian genes orthologous to GnRH and OT/VP, which are secreted from the hypothalamus and the NH, respectively, in vertebrates, are expressed in the cortex of the CG, suggesting that the NC is not distinctly compartmentalized as are vertebrate brains (Tsutsui et al. 1998; Kavanaugh et al. 2005; Kawada et al. 2008; Ukena et al. 2008; Kawada et al. 2009). Moreover, PC2 expression in the cortex of the CG supports possible endocrine activity (Sekiguchi et al. 2007). is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0009861 ! ascidian neural complex [Term] id: UBERON:0009863 name: ascidian ciliated funnel namespace: uberon def: "." [PMID:21558186] is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0009861 ! ascidian neural complex [Term] id: UBERON:0009864 name: ascidian neural gland namespace: uberon def: "." [PMID:21558186] comment: assumed to be a pituitary homolog. Current data from the Ciona genome suggests that the ascidian NC, including the CF, is unlikely to be a pituitary-like endocrine gland, while it is necessary to examine other ascidians before drawing a final conclusion [PMID:21558186] is_a: UBERON:0000064 ! organ part relationship: develops_from UBERON:0009718 ! neurohypophyseal duct relationship: homologous_to UBERON:0002196 ! adenohypophysis relationship: part_of UBERON:0009861 ! ascidian neural complex [Term] id: UBERON:0009865 name: Hatschek's pit namespace: uberon def: "a deep ciliated fossa on the dorsal midline of the buccal cavity (the region of the gut behind the mouth). Among other things, it secrets mucus which entraps food particles from the water[WP]." [Wikipedia:Hatschek's_pit] is_a: UBERON:0006846 ! groove relationship: capable_of GO:0070254 ! mucus secretion relationship: develops_from UBERON:0009868 ! Hatschek's left diverticulum relationship: develops_from UBERON:0009957 ! ciliated pit relationship: homologous_to UBERON:0002196 ! adenohypophysis [Term] id: UBERON:0009866 name: Hatschek's nephridium namespace: uberon def: "an unpaired kidney whose duct opens into the anterior pharynx. It can be seen as a deep ciliated fossa on the dorsal midline of the buccal cavity (mouth). Among other things, it secrets mucus which entraps food particles from the water[WP]." [] subset: organ_slim ! organs, excluding individual muscles and skeletal elements is_a: UBERON:0000062 ! organ is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0009867 name: Hatschek's diverticulum namespace: uberon is_a: UBERON:0001048 ! primordium relationship: part_of UBERON:0008814 ! pharyngeal system [Term] id: UBERON:0009868 name: Hatschek's left diverticulum namespace: uberon def: "A Hatschek's diverticulum that is in the left side of a multi-cellular organism." [OBOL:automatic] intersection_of: UBERON:0009867 ! Hatschek's diverticulum intersection_of: in_left_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009869 name: Hatschek's right diverticulum namespace: uberon def: "A Hatschek's diverticulum that is in the right side of a multi-cellular organism." [OBOL:automatic] intersection_of: UBERON:0009867 ! Hatschek's diverticulum intersection_of: in_right_side_of UBERON:0000468 ! multi-cellular organism [Term] id: UBERON:0009870 name: zone of stomach namespace: uberon def: "A division of the stomach. The stomach can be divided based on mucosal histology (glandular epithelium and gastric glands) and the relative position and type of gastric gland." [ISBN10:0073040584, Wikipedia:Stomach#Sections] comment: Editor notes: We follow Kardong in defining stomach regions by gland, but we also include 'body of stomach'. In future we may want to have different partitions of the stomach synonym: "gastric zone" EXACT [FMA:14558] synonym: "region of stomach" EXACT [] synonym: "section of stomach" EXACT [] xref: FMA:14558 xref: SCTID:245415005 xref: http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/Regions_of_stomach.svg/500px-Regions_of_stomach.svg.png is_a: UBERON:0000064 ! organ part is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0009871 name: nephrogenic zone namespace: uberon def: "outer portion of the renal cortex. Site of formation of medullary and cortical elements." [] comment: Taxon notes: see PMID:12761251 for description of nephrogenic zone in dogfish. synonym: "nephrogenic tissue" RELATED [] xref: EMAPA:27721 xref: MA:0002996 xref: http://www.gudmap.org/Images/Organ_Summaries/Metanephros/NZ.png is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0001225 ! cortex of kidney [Term] id: UBERON:0009877 name: metapodium region namespace: uberon def: "Intermediate segment of the autopod, between the mesopodial region and and acropodial region. Examples: metacarpal region, metatarsal region" [MA:th, UBERON:cjm] comment: Naming conventions for pod terms under discussion within phenoscape group. Editors note: considering adding 'acropodial region' synonym: "metacarpal or metatarsal part of limb" EXACT [] synonym: "metacarpus/metatarsus" RELATED [] synonym: "metacarpus/metatarsus region" EXACT [] synonym: "metapodial segment" EXACT [] synonym: "metapodium" RELATED [] is_a: UBERON:0002529 ! limb segment relationship: part_of UBERON:0002470 ! autopod region relationship: part_of UBERON:0012140 ! digitopodium region relationship: proximally_connected_to UBERON:0006716 ! mesopodium region [Term] id: UBERON:0009878 name: mesopodial skeleton namespace: uberon def: "The collection of all skeletal elements in a mesopodium. Examples: the tarsal skeleton, the carpal skeleton" [UBERON:cjm] synonym: "basipodium" RELATED [VSAO:0005022, VSAO:NI] synonym: "basipodium skeleton" EXACT [VSAO:0005022, VSAO:NI] synonym: "carpal/tarsal skeleton" EXACT [] synonym: "mesopodial skeleton" EXACT [VSAO:0005022] synonym: "mesopodium" RELATED [VSAO:0005022, VSAO:NI] synonym: "mesopodium skeleton" EXACT [UBERON:cjm] synonym: "skeletal parts of mesopodium" EXACT [UBERON:cjm] xref: VSAO:0005022 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010712 ! limb skeleton subdivision relationship: distally_connected_to UBERON:0010546 ! metapodial skeleton relationship: part_of UBERON:0006716 ! mesopodium region relationship: part_of UBERON:0006717 ! autopodial skeleton relationship: proximally_connected_to UBERON:0011584 ! zeugopodial skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0006716 ! mesopodium region property_value: axiom_lost_from_external_ontology "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: transitively_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" xsd:string property_value: axiom_lost_from_external_ontology "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: transitively_distally_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" xsd:string property_value: external_definition "Limb skeleton subdivision consisting of endochondral bones increasing the freedom of movement of the autopodia, and located between zeugopodia and autopodia.[VSAO]" xsd:string [Term] id: UBERON:0009879 name: tarsal skeleton namespace: uberon def: "Subdivision of skeleton that consists of endochondral elements distal to the zeugopodial skeletal elements which constitute the proximal region of the posterior autopod skeleton[PHENOSCAPE:ad]." [PHENOSCAPE:ad, VSAO:0005024, Wikipedia:Tarsus_(skeleton)] comment: Taxon notes: Not always associated with digits, in sarcopterygians the ulnare is present without true digits being formed, though their homologous radial elements are present[PHENOSCAPE:ad]. AO notes: we assume MA:tarsus belongs here, as there is a distinct class MA:ankle, with the tarsal bone being part of the former. XAO:tarsus is part of the hindlimb skeleton. FMA set-of class lacks definition but we assume this to be equivalent. synonym: "basipodium" RELATED [VSAO:0005024] synonym: "hind mesopodial skeleton" EXACT [] synonym: "hind mesopodium" EXACT [] synonym: "hind mesopodium skeleton" EXACT [] synonym: "mesopodium" RELATED [VSAO:0005024] synonym: "set of tarsal bones" EXACT [FMA:71339] synonym: "skeletal parts of hind mesopodium" EXACT [] synonym: "tarsal bones" RELATED [] synonym: "tarsal bones set" EXACT [FMA:71339] synonym: "tarsus" RELATED [XAO:0003211] xref: AAO:0000220 xref: EMAPA:25072 xref: FMA:71339 xref: GAID:1223 xref: MA:0000050 xref: SCTID:264228001 xref: SCTID:361796005 xref: VHOG:0001160 xref: VSAO:0005024 xref: XAO:0003211 is_a: UBERON:0009878 ! mesopodial skeleton relationship: distally_connected_to UBERON:0010545 ! metatarsus skeleton relationship: part_of UBERON:0001445 ! skeleton of pes relationship: part_of UBERON:0004454 ! tarsal region relationship: proximally_connected_to UBERON:0010720 ! hindlimb zeugopod skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0004454 ! tarsal region property_value: external_definition "Segment of the leg corresponding to the tarsus. It consists of several elements that articulate with the tibia and fibula at one end and the metatarsals at the other end.[AAO]" xsd:string property_value: homology_notes "The three main outgroup taxa of tetrapods, panderichthyids, osteolepiforms, and rhizodontids, have endoskeletal elements corresponding to the stylo- and zeugopodial elements in a tetrapod limb. In addition, there are elements that share the position and possibly the developmental derivation of the ulnare and the intermedium. From these observations, most authors have concluded that the stylo- and zeugopodial elements as well as the proximal mesopodial elements have counterparts in the fins of tetrapod ancestors, but there are no indications of wrist or ankle joints.[well established][VHOG]" xsd:string [Term] id: UBERON:0009880 name: carpal skeleton namespace: uberon def: "Subdivision of skeleton that consists of the endochondral elements distal to the anterior limb/fin zeugopodial skeletal elements which constitute the proximal region of the anterior autopod skeleton[PHENOSCAPE:ad]." [PHENOSCAPE:ad, Wikipedia:Carpus] comment: Taxon notes: Not always associated with digits, in sarcopterygians the ulnare is present without true digits being formed, though their homologous radial elements are present[PHENOSCAPE:ad]. AO notes: we assume MA:carpus belongs here, as there is a distinct class MA:wrist, with the carpal bone being part of the former. XAO:carpus is part of the forelimb skeleton. FMA set-of class lacks definition but we assume this to be equivalent. Taxon notes: The structure of the carpus varies widely between different groups of tetrapods, even among those that retain the full set of five digits. In primitive fossil amphibians, such as Eryops, the carpus consists of three rows of bones; a proximal row of three carpals, a second row of four bones, and a distal row of five bones. The proximal carpals are referred to as the radiale, intermediale, and ulnare, after their proximal articulations, and are homologous with the scaphoid, lunate, and triquetal bones respectively. The remaining bones are simply numbered, as the first to fourth centralia (singular: centrale), and the first to fifth distal carpals. Primitively, each of the distal bones appears to have articulated with a single metacarpal. However, the vast majority of later vertebrates, including modern amphibians, have undergone varying degrees of loss and fusion of these primitive bones, resulting in a smaller number of carpals. Almost all mammals and reptiles, for example, have lost the fifth distal carpal, and have only a single centrale - and even this is missing in humans. The pisiform bone is somewhat unusual, in that it first appears in primitive reptiles, and is never found in amphibians. Because many tetrapods have less than five digits on the forelimb, even greater degrees of fusion are common, and a huge array of different possible combinations are found. The wing of a modern bird, for example, has only two remaining carpals; the radiale (the scaphoid of mammals) and a bone formed from the fusion of four of the distal carpals. In some macropods, the scaphoid and lunar bones are fused into the scaphollunar bone[14] [Wikipedia:Carpus#Evolutionary_variations] synonym: "carpal bones" EXACT [EMAPA:25056, FMA:71335] synonym: "carpal bones set" EXACT [FMA:71335] synonym: "carpus" RELATED [MA:0000040, XAO:0003207] synonym: "fore mesopodial skeleton" EXACT [] synonym: "fore mesopodium" RELATED [AAO:0000201] synonym: "fore mesopodium skeleton" EXACT [] synonym: "ossa carpi" EXACT LATIN [Wikipedia:Carpus] synonym: "set of carpal bones" RELATED [FMA:71335] synonym: "skeletal parts of fore mesopodium" EXACT [] synonym: "skeleton of carpus" EXACT [] xref: AAO:0000201 xref: EMAPA:25056 xref: FMA:71335 xref: MA:0000040 xref: VHOG:0001161 xref: VSAO:0005023 xref: XAO:0003207 xref: http://palaeos.com/vertebrates/glossary/images/382x366xUnciform1.jpg.pagespeed.ic.NirdxtwNVu.jpg xref: http://upload.wikimedia.org/wikipedia/commons/thumb/5/58/Carpus.svg/200px-Carpus.svg.png is_a: UBERON:0009878 ! mesopodial skeleton relationship: distally_connected_to UBERON:0010544 ! metacarpus skeleton relationship: part_of UBERON:0001442 ! skeleton of manus relationship: part_of UBERON:0004452 ! carpal region relationship: proximally_connected_to UBERON:0010703 ! forelimb zeugopod skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: subdivision_of UBERON:0004452 ! carpal region property_value: external_definition "Segment of the forearm corresponding to the carpus. It consists of several elements that articulate with the radius and ulna at one end and the metacarpals at the other end.[AAO]" xsd:string property_value: homology_notes "The three main outgroup taxa of tetrapods, panderichthyids, osteolepiforms, and rhizodontids, have endoskeletal elements corresponding to the stylo- and zeugopodial elements in a tetrapod limb. In addition, there are elements that share the position and possibly the developmental derivation of the ulnare and the intermedium. From these observations, most authors have concluded that the stylo- and zeugopodial elements as well as the proximal mesopodial elements have counterparts in the fins of tetrapod ancestors, but there are no indications of wrist or ankle joints.[well established][VHOG]" xsd:string [Term] id: UBERON:0009881 name: anterior lateral plate mesoderm namespace: uberon synonym: "ALPM" EXACT [ZFA:0005041] xref: EFO:0003704 xref: TAO:0005041 xref: ZFA:0005041 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003081 ! lateral plate mesoderm [Term] id: UBERON:0009882 name: anal column namespace: uberon def: "One of a number of vertical folds, produced by an infolding of the mucous membrane and some of the muscular tissue in the upper half of the lumen of the anal canal. They are named after Giovanni Battista Morgagni who also has several other eponyms named after himself[WP]" [Wikipedia:Anal_columns] synonym: "column of Morgagni" EXACT [FMA:15713] synonym: "columnae anales" RELATED LATIN [Wikipedia:Anal_columns] xref: FMA:15713 xref: SCTID:245444007 xref: UMLS:C0227428 xref: http://upload.wikimedia.org/wikipedia/commons/1/17/Gray1078.png xref: ncithesaurus:Anal_Column is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000159 ! anal canal [Term] id: UBERON:0009883 name: medullary ray namespace: uberon def: "A renal, cortical lobule, consisting of the ascending or descending limbs of the loop of Henle or of the collecting tubules; medullary rays are regions where parallel arrays of straight tubules travel perpendicular to the capsule and extend from the cortex to the medulla." [MP:0011347, Wikipedia:Bone_marrow_of_ovaryry_ray_(anatomy)] comment: Termonology notes: Their name is potentially misleading -- the \"medullary\" refers to their destination, not their location. They are located only in the renal cortex, and not in the renal medulla. AO notes: FMA says parenchyma, MP says cortex synonym: "Ferrein's pyramid" EXACT [MP:0011347] synonym: "kidney medullary ray" EXACT [MP:0011347] synonym: "renal medullary ray" EXACT [MP:0011347] xref: BTO:0001155 xref: FMA:74299 is_a: UBERON:0000064 ! organ part is_a: UBERON:0006554 ! urinary system structure relationship: overlaps UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0001225 ! cortex of kidney [Term] id: UBERON:0009885 name: interlobar artery namespace: uberon def: "One of a set of curved arteries at the corticomedullary border of the kidney that arise from the interlobar arteries and give rise to the interlobular arteries." [MP:0011315, Wikipedia:Interlobar_arteries] comment: FMA only has the set term synonym: "arteriae interlobares renis" EXACT PLURAL [FMA:TA, Wikipedia:Interlobar_arteries] synonym: "interlobar arteries of kidney" RELATED [FMA:71637] synonym: "interlobar artery of kidney" EXACT [FMA:71637] synonym: "kidney interlobar artery" EXACT [] synonym: "renal interlobar artery" EXACT [MP:0011355] synonym: "set of interlobar arteries of kidney" RELATED [FMA:71637] xref: FMA:71637 xref: SCTID:62802007 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png is_a: UBERON:0001637 ! artery [Term] id: UBERON:0009887 name: interlobar vein namespace: uberon def: "The interlobar veins are veins of the renal circulation which drain the renal lobes." [Wikipedia:Interlobar_veins] comment: FMA only has the set term synonym: "interlobar vein of kidney" EXACT [FMA:71631] synonym: "interlobar veins of kidney" RELATED [FMA:71631] synonym: "set of interlobar veins of kidney" RELATED [FMA:71631] synonym: "venae interlobares renis" EXACT PLURAL [FMA:TA, Wikipedia:Interlobar_veins] xref: FMA:71631 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png is_a: UBERON:0001638 ! vein [Term] id: UBERON:0009888 name: Koller's sickle namespace: uberon def: "a local thickening of cells that acts as a margin separating sheets of cells from posterior margin of avian blastoderms from hypoblasts as they migrate anteriorly to push primary hypoblast cells anteriorly to form a secondary hypoblast known as the endoblast" [PMID:9693154, Wikipedia:Koller's_sickle] subset: early_development ! A class that represents an early developmental structure, like a blastocyst. This part of the ontology is undergoing review to remove inappropriate grouping classes. synonym: "Kohler's sickle" EXACT [] is_a: UBERON:0002050 ! embryonic structure [Term] id: UBERON:0009889 name: secondary heart field namespace: uberon def: "extra-cardiac population of mesodermal progenitors that gives rise to the right ventricle and outflow tract." [PMID:17276708] comment: Taxon notes: \"In general, the two studies in chick concluded that the contribution of the SHF was to the outflow tract, whereas the mouse work suggested that the second lineage contributed more broadly to the heart, including the outflow tract and much or all of the right ventricle [11b14]. These different conclusions may represent differences in the experimental approaches used or may represent bona fide differences in the contribution of the second lineage to the hearts of birds compared to mammals [11]. Alternatively, the secondary/anterior heart fields described in the chick may represent a subset of a broader field that makes a more substantial contribution to the heart, as the mouse studies suggested\" [PMID:17276708] synonym: "SHF" RELATED [XAO:0004186] synonym: "anterior heart field" EXACT [PMID:17276708] synonym: "anterior/second heart field" EXACT [Geisha:syn, NCBITaxon:8782] synonym: "second heart field" EXACT [XAO:0004186] xref: XAO:0004186 is_a: UBERON:0000479 ! tissue is_a: UBERON:0005291 ! embryonic tissue relationship: anterior_to UBERON:0004140 ! heart field relationship: dorsal_to UBERON:0004140 ! heart field relationship: part_of UBERON:0000926 ! mesoderm [Term] id: UBERON:0009890 name: anterior intestinal portal namespace: uberon def: "opening of the foregut into the midgut" [http://www.drugs.com/dict/fovea-cardiaca.html] synonym: "fovea cardiaca" EXACT [http://www.drugs.com/dict/fovea-cardiaca.html] is_a: UBERON:0004111 ! anatomical conduit relationship: adjacent_to UBERON:0001041 ! foregut relationship: adjacent_to UBERON:0001046 ! hindgut [Term] id: UBERON:0009891 name: facial mesenchyme namespace: uberon def: "Mesenchyme that is part of a face." [OBOL:automatic] synonym: "face mesenchyme" EXACT [] synonym: "mesenchyme of face" EXACT [] intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001456 ! face [Term] id: UBERON:0009892 name: ascidian anterior sensory vesicle namespace: uberon xref: ANISEED:777309 is_a: UBERON:0000020 ! sense organ [Term] id: UBERON:0009893 name: ascidian ocellus namespace: uberon xref: ANISEED:874489 is_a: UBERON:0000020 ! sense organ relationship: part_of UBERON:0009892 ! ascidian anterior sensory vesicle [Term] id: UBERON:0009894 name: siphon primordium namespace: uberon xref: ANISEED:1210451 is_a: UBERON:0005423 ! developing anatomical structure [Term] id: UBERON:0009895 name: atrial siphon primordia namespace: uberon xref: ANISEED:1210456 is_a: UBERON:0009894 ! siphon primordium [Term] id: UBERON:0009896 name: oral siphon primordia namespace: uberon xref: ANISEED:1225922 is_a: UBERON:0009894 ! siphon primordium [Term] id: UBERON:0009897 name: right auditory cortex namespace: uberon def: "An auditory cortex that is in the left side of a brain." [OBOL:automatic] xref: FMA:242654 intersection_of: UBERON:0001393 ! auditory cortex intersection_of: in_left_side_of UBERON:0000955 ! brain [Term] id: UBERON:0009898 name: left auditory cortex namespace: uberon def: "An auditory cortex that is in the right side of a brain." [OBOL:automatic] xref: FMA:242656 intersection_of: UBERON:0001393 ! auditory cortex intersection_of: in_right_side_of UBERON:0000955 ! brain [Term] id: UBERON:0009899 name: pole of cerebral hemisphere namespace: uberon def: "The anterior end of the hemisphere is named the frontal pole. The posterior end is named the occipital pole. The anterior end of the temporal lobe, the temporal pole." [Wikipedia:Poles_of_cerebral_hemispheres] synonym: "polus frontalis, polus occipitalis, polus temporalis" RELATED LATIN [Wikipedia:Poles_of_cerebral_hemispheres] xref: http://upload.wikimedia.org/wikipedia/commons/e/e3/Human_brain_lateral_view_description.JPG is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001869 ! cerebral hemisphere [Term] id: UBERON:0009906 name: root of optic nerve namespace: uberon def: "A nerve root that continuous_with a nerve connecting eye with brain." [OBOL:automatic] comment: TODO - check. See comments for optic tract. FMA also has medial root. synonym: "optic nerve root" EXACT [NIF_GrossAnatomy:birnlex_1328] synonym: "optic tract root" EXACT [FMA:84573] synonym: "root of optic tract" EXACT [FMA:84573] xref: FMA:84573 xref: NIF_GrossAnatomy:birnlex_1328 is_a: UBERON:0006843 ! root of cranial nerve intersection_of: UBERON:0002211 ! nerve root intersection_of: continuous_with UBERON:0004904 ! nerve connecting eye with brain [Term] id: UBERON:0009907 name: sensory root of trigeminal nerve namespace: uberon synonym: "radix sensoria (nervus trigeminus [v])" EXACT [FMA:52611] xref: FMA:52611 xref: SCTID:280188009 is_a: UBERON:0004673 ! trigeminal nerve root is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest [Term] id: UBERON:0009908 name: caudal root of abducens nerve namespace: uberon synonym: "radix caudalis nervi abducentis" EXACT [ZFA:0000179] xref: TAO:0000179 xref: ZFA:0000179 is_a: UBERON:0002786 ! abducens nerve fibers is_a: UBERON:0004732 ! segmental subdivision of nervous system relationship: part_of UBERON:0001646 ! abducens nerve [Term] id: UBERON:0009909 name: rostral root of abducens nerve namespace: uberon xref: TAO:0000665 xref: ZFA:0000665 is_a: UBERON:0002786 ! abducens nerve fibers is_a: UBERON:0004732 ! segmental subdivision of nervous system relationship: part_of UBERON:0001646 ! abducens nerve [Term] id: UBERON:0009910 name: posterior lateral plate mesoderm namespace: uberon synonym: "PLPM" EXACT [ZFA:0005042] xref: EFO:0003705 xref: TAO:0005042 xref: ZFA:0005042 is_a: UBERON:0000926 ! mesoderm is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0003081 ! lateral plate mesoderm [Term] id: UBERON:0009911 name: lobule namespace: uberon subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: FMA:45737 xref: UMLS:C0921005 xref: ncithesaurus:Lobule is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0009912 name: anatomical lobe namespace: uberon subset: upper_level ! abstract upper-level terms not directly useful for analysis xref: FMA:45728 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0009913 name: renal lobe namespace: uberon def: "the portion of a kidney consisting of a renal medullary pyramid and the renal cortex above it[MP]. It is composed of many renal lobules[WP]." [MP:0011381, Wikipedia:Renal_lobe] comment: Edtor note: todo - add has_part relationships. Taxon notes: human kidneys have multilobar (multipyramidal) architecture while mice and rats have unilobar (unipyramidal) kidneys[MP] synonym: "kidney lobe" EXACT [MP:0011381] synonym: "lobi renales" RELATED LATIN [Wikipedia:Renal_lobe] synonym: "lobi renalis" EXACT PLURAL [Wikipedia:Renal_lobe] synonym: "lobus renalis" EXACT [http://www.mondofacto.com/facts/dictionary?lobus+renalis] xref: FMA:17881 xref: UMLS:C0736382 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Kidney_PioM.png xref: ncithesaurus:Kidney_Lower_Lobe is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0009912 ! anatomical lobe intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0009914 name: renal lobule namespace: uberon def: "the portion of a renal lobe consisting of nephrons grouped around a single medullary ray and draining into a single collecting duct; human kidneys have multilobular, multipapillary architecture while mice and rats have unilobular, unipapillary kidneys" [MP:0011382, Wikipedia:Cortical_lobule] comment: Alternate definition: One of the subdivisions of the kidney, consisting of a medullary ray and that portion of the convoluted port (renal corpuscles and convoluted tubules) associated with its collecting duct. -http://www.mondofacto.com/facts/dictionary?lobulus+corticalis+renalis synonym: "cortical lobule" RELATED [MP:0011382, Wikipedia:Cortical_lobule] synonym: "cortical lobule of kidney" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] synonym: "kidney lobule" EXACT [MP:0011382] synonym: "lobuli corticales renis" RELATED LATIN [Wikipedia:Cortical_lobule] synonym: "lobulus corticalis renalis" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] synonym: "lobulus renalis" EXACT [] synonym: "renal cortical lobule" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] synonym: "renculus" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] synonym: "reniculus" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] synonym: "renunculus" RELATED [http://www.mondofacto.com/facts/dictionary?lobus+renalis] xref: FMA:17670 xref: SCTID:361330004 is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0009913 ! renal lobe intersection_of: UBERON:0009911 ! lobule intersection_of: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0009916 name: wall of ureter namespace: uberon def: "An anatomical wall that is part of a ureter." [OBOL:automatic] synonym: "ureteral wall" EXACT [FMA:15888] xref: FMA:15888 xref: SCTID:279397004 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0009917 name: kidney corticomedullary boundary namespace: uberon def: "the region demarcating the renal medulla from the surrounding cortex; end-stage renal failure may be associated with loss of the normal corticomedullary boundary" [MP:0011376] relationship: part_of UBERON:0002113 ! kidney intersection_of: UBERON:0000015 ! anatomical boundary intersection_of: adjacent_to UBERON:0000362 ! renal medulla intersection_of: adjacent_to UBERON:0001225 ! cortex of kidney [Term] id: UBERON:0009918 name: retrotrapezoid nucleus namespace: uberon def: "the loose collection of neurons that reside in the rostral medulla close to the medullary surface, ventral and immediately caudal of nVII, that are crucial for CO2 sensing in the brain" [MP:0011406] is_a: UBERON:0000125 ! neural nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0009919 name: ureter smooth muscle namespace: uberon def: "the smooth muscle tissue surrounding the epithelium of the ureter" [MP:0011426] synonym: "ureteral smooth muscle" EXACT [MP:0011426] synonym: "ureteral smooth muscle layer" EXACT [EMAPA:28844] xref: EMAPA:28844 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0006855 ! ureter muscle layer intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000056 ! ureter [Term] id: UBERON:0009920 name: optic neural crest namespace: uberon xref: EHDAA2:0001315 xref: EHDAA:1122 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0007530 ! migrating mesenchyme population relationship: part_of UBERON:0007213 ! mesenchyme derived from head neural crest [Term] id: UBERON:0009921 name: hypophyseal tube namespace: uberon is_a: UBERON:0000025 ! tube [Term] id: UBERON:0009948 name: clavicular air sac namespace: uberon xref: SCTID:2574004 is_a: UBERON:0009060 ! air sac [Term] id: UBERON:0009949 name: humeral diverticulum of clavicular air sac namespace: uberon is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: continuous_with UBERON:0009948 ! clavicular air sac relationship: part_of UBERON:0000976 ! humerus [Term] id: UBERON:0009950 name: olfactory bulb plexiform layer namespace: uberon comment: check if the NIF class is actually a grouping class synonym: "plexiform layer" BROAD [NIF_GrossAnatomy:nlx_anat_20090405] xref: NIF_GrossAnatomy:nlx_anat_20090405 is_a: UBERON:0004001 ! olfactory bulb layer [Term] id: UBERON:0009951 name: main olfactory bulb namespace: uberon def: "The main olfactory bulb has a multi-layered cellular architecture. In order from surface to the center the layers are: Glomerular layer, External plexiform layer, Mitral cell layer, Internal plexiform layer, Granule cell layer[WP]." [Wikipedia:Olfactory_bulb#Main_olfactory_bulb] comment: Note that the structure in many ontologies called simply 'olfactory bulb' may in fact belong here xref: ABA:MOB is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002791 ! regional part of telencephalon relationship: part_of UBERON:0002264 ! olfactory bulb property_value: spatially_disjoint_from UBERON:0002266 property_value: spatially_disjoint_from UBERON:0002590 property_value: spatially_disjoint_from UBERON:0002893 property_value: spatially_disjoint_from UBERON:0004069 [Term] id: UBERON:0009952 name: subgranular zone namespace: uberon def: "a narrow layer of cells located between the granule cell layer and hilus of the dentate gyrus, where adult neurogenesis occurs. " [Wikipedia:Subgranular_zone] synonym: "subgranular zone of dentate gyrus" EXACT [] xref: http://upload.wikimedia.org/wikipedia/commons/thumb/9/99/Doublecortin_expression-2.png/600px-Doublecortin_expression-2.png is_a: UBERON:0000119 ! cell layer is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001885 ! dentate gyrus of hippocampal formation relationship: site_of GO:0022008 ! neurogenesis [Term] id: UBERON:0009953 name: post-embryonic organism namespace: uberon def: "A multi-cellular organism that existence_starts_with a post-embryonic stage." [OBOL:automatic] synonym: "TS28 mouse" NARROW [MA:0002405] synonym: "post-hatching organism" NARROW [UBERON:cjm] synonym: "post-natal organism" NARROW [UBERON:cjm] synonym: "postnatal mouse" NARROW [MA:0002405] xref: MA:0002405 intersection_of: UBERON:0000468 ! multi-cellular organism intersection_of: existence_starts_with UBERON:0000092 ! post-embryonic stage [Term] id: UBERON:0009954 name: vomeronasal system namespace: uberon def: "a vertebrate nasal chemosensory system that is responsible for detecting intraspecific pheromonal cues as well as environmental odorants" [] comment: Editor note: check relationship to olfactory system. Evolution: The morphological components of the VNS are found only in tetrapods, but the genetic components of the system have been found in teleost fish, in addition to tetrapods. In tetrapods, the VNS was thought to be the olfactory system for detecting pheromones, while the main olfactory system detected general odorants (Scalia and Winans 1975). However, experimental evidence suggests that there is not such a clear functional distinction (Restrepo et al. 2004; Baxi, Dorries, and Eisthen 2006; Spehr et al. 2006; Kelliher 2007). Sea lampreys produce unique bile acids which act as pheromones both in migration and mate finding (Li, Sorensen, and Gallaher 1995; Li et al. 2002; Siefkes and Li 2004). However, bile acids in teleost fish are known to require components of the main olfactory signal transduction pathway (Hansen et al. 2003), and interruption of the VNS signal transduction pathway had no effect on bile acid olfactory response (Hansen et al. 2003)[Grus - EVOLUTION OF THE VOMERONASAL SYSTEM VIEWED THROUGH SYSTEM-SPECIFIC GENES] is_a: UBERON:0001032 ! sensory system relationship: capable_of GO:0043695 ! detection of pheromone relationship: part_of UBERON:0005725 ! olfactory system [Term] id: UBERON:0009955 name: neurogenic placode namespace: uberon def: "Cranial placode with neurogenic potential[cjm]. Neurogenic placodes are transient ectodermal thickenings that form at the border of the neural plate and epidermis and give rise to sensory neurons of the cranial ganglia[ZFA]. The neurogenic placodes give rise to parts of various nerves and ganglia, the olfactory organ, parietal eye, parts of the inner ear, and the lateral line. There are 2 major series of neurogenic placodes, the dorsolateral and ventrolateral or epibranchial[PMID]" [PMID:11523831, Wikipedia:Neurogenic_placodes, ZFA:0001309] comment: Includes: trigeminal, otic, lateral line and epibranchial placodes. Taxon notes: While some sensory placodes (otic and olfactory) may have homologues in basal chordates (Wada et al., 1998), the so-called neurogenenic placodes (trigeminal, otic, lateral line and epibranchial placodes) appear to have emerged at a later time (Shimeld and Holland, 2000)[NBK53171] synonym: "neurogenic placodes" EXACT PLURAL [ZFA:0001309] synonym: "placodae neurogenicae" RELATED LATIN [Wikipedia:Neurogenic_placodes] xref: EFO:0003460 xref: TAO:0001309 xref: ZFA:0001309 is_a: UBERON:0002546 ! cranial placode disjoint_from: UBERON:0011814 ! non-neurogenic ectodermal placode [Term] id: UBERON:0009956 name: corpuscle of de Quatrefage namespace: uberon def: "A specialised sensory organ located in the subepidermal connective tissue at the rostral end of late larval and adult amphioxus. They consist of between 1 and 4 nerve cells with axons, each with 2 cilia, surrounded by up to 7 sheath cells. The cilia extend into a protrusion of the basal lamina which surrounds each corpuscle. The axonal process contributes to the rostral nerve." [PMID:11523831] synonym: "organ of de Quatrefage" EXACT [] is_a: UBERON:0000020 ! sense organ [Term] id: UBERON:0009957 name: ciliated pit namespace: uberon comment: Development: joins with Hatschekbs diverticulum to form Hatschekbs pit in the adult. Location: anterior to the mouth. synonym: "pre-oral pit" RELATED [] is_a: UBERON:0006846 ! groove [Term] id: UBERON:0009958 name: bladder lumen namespace: uberon synonym: "bladder cavity" EXACT [FMA:15924] synonym: "cavity of urinary bladder" EXACT [FMA:15924] synonym: "lumen of urinary bladder" EXACT [FMA:15924] synonym: "urinary bladder lumen" EXACT [FMA:15924] xref: EHDAA2:0004058 xref: FMA:15924 xref: SCTID:279405003 xref: galen:UrinaryBladderCavity relationship: develops_from UBERON:0009844 ! urogenital sinus lumen relationship: part_of UBERON:0001255 ! urinary bladder intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0001255 ! urinary bladder [Term] id: UBERON:0009959 name: lumen of oropharynx namespace: uberon synonym: "oropharyngeal cavity" EXACT [EHDAA2:0004556] synonym: "oropharynx lumen" EXACT [FMA:55095] xref: EHDAA2:0004556 xref: FMA:55095 relationship: develops_from UBERON:0006272 ! oronasal cavity relationship: part_of UBERON:0001729 ! oropharynx relationship: part_of UBERON:0001731 ! cavity of pharynx intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0001729 ! oropharynx [Term] id: UBERON:0009960 name: esophagus smooth muscle circular layer namespace: uberon synonym: "circular muscle layer of esophagus" EXACT [FMA:67605] synonym: "esophagus smooth muscle circular layer" RELATED [MA:0001574] synonym: "inner circular muscle layer of esophagus" EXACT [FMA:67605] xref: FMA:67605 xref: MA:0001574 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0002112 ! smooth muscle of esophagus intersection_of: UBERON:0012368 ! circular muscle layer intersection_of: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0009961 name: esophagus smooth muscle longitudinal layer namespace: uberon synonym: "esophagus smooth muscle longitudinal layer" RELATED [MA:0001575] synonym: "longitudinal muscle layer of esophagus" EXACT [FMA:63573] synonym: "outer longitudinal muscle layer of esophagus" EXACT [FMA:63573] xref: FMA:63573 xref: MA:0001575 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0012369 ! longitudinal muscle layer relationship: part_of UBERON:0002112 ! smooth muscle of esophagus relationship: part_of UBERON:0003832 ! esophagus muscle [Term] id: UBERON:0009962 name: excretory gland namespace: uberon def: "A gland that discharges its secretion through a duct opening on an internal or external surface of the body, as a lacrimal gland." [Dorlands_Medical_Dictionary:MerckSource] comment: todo - child terms xref: BTO:0000431 is_a: UBERON:0002530 ! gland is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system [Term] id: UBERON:0009963 name: antennal gland namespace: uberon def: "Excretory gland situated in the basal article of the antennal peduncle. It functions to rehulate ionic balance" [BTO:0000075, UBERON:cjm] comment: Editor note: consider also classifying this as a renal tubule - or separate terms for coiled/nephridial canal. Editor note: cede this term to Arthropod AO synonym: "green gland" EXACT [] xref: BTO:0000075 is_a: UBERON:0009962 ! excretory gland relationship: part_of UBERON:0000972 ! antenna [Term] id: UBERON:0009964 name: crustacean maxillary gland namespace: uberon def: "Excretory organ in maxillary segment with duct opening on maxilla." [http://crustacea.nhm.org/glossary/define.html] comment: Taxon notes: consider generalizing to include millipedes, centipedes. Function: Two different excretory organs are found among crustaceans: the antennal gland and the maxillary gland. Both have the same basic structure: an end sac and a convoluted duct that may expand into a bladder before opening to the outside. In most adult crustaceans only one or the other gland functions. The functional gland may change during the life cycle. Terminology note: http://crustacea.nhm.org/glossary/define.html?termID=327 suggests green gland as the generic term and antennal as the decapoda term. Editor note: cede this term to Arthropod AO is_a: UBERON:0009962 ! excretory gland [Term] id: UBERON:0009965 name: coxal gland namespace: uberon def: "a gland found in some arthropods, for collecting and excreting urine. The gland comprises an end sac (saccule), a long duct (labyrinth) and a terminal bladder (reservoir). There is generally only one pair (two in some spiders), and they open on the coxae of the walking legs[WP]." [Wikipedia:Coxal_gland] comment: Taxon notes: They are found in all arachnids (with the exception of some Acari), and in other chelicerates, such as horseshoe crabs. Homology: The coxal gland is thought to be homologous with the antennal gland of crustaceans. Editor note: cede this term to Arthropod AO xref: SPD:0000116 xref: TADS:0000080 is_a: UBERON:0009962 ! excretory gland relationship: homologous_to UBERON:0009963 ! antennal gland [Term] id: UBERON:0009966 name: internodal tract namespace: uberon def: "Subdivision of conducting system of heart which consists of the anterior, middle and posterior internodal tracts beneath the endocardium of interatrial septum and above the attachment of the septal leaflet of tricuspid valve." [FMA:9479] comment: evidence is sparse [http://www.gpnotebook.co.uk/simplepage.cfm?ID=-483065798] There is some functional evidence for the existence of specialized conducting pathways within the atria (termed internodal tracts), although this is controversial[http://www.cvphysiology.com/Arrhythmias/A003.htm]. Editor note: include 3 subtypes? synonym: "interatrial conduction tract" EXACT [] synonym: "internodal conduction tract" EXACT [] synonym: "internodal fasciculus" EXACT [FMA:9479] synonym: "internodal tract muscle tissue" EXACT [FMA:9479] xref: FMA:9479 is_a: UBERON:0002385 ! muscle tissue relationship: part_of UBERON:0002350 ! conducting system of heart [Term] id: UBERON:0009967 name: spleen venous sinus namespace: uberon comment: See comments for UBERON:0003910 synonym: "sinus lienalis" EXACT LATIN [FMA:TA] synonym: "sinus splenicus" EXACT LATIN [FMA:TA] synonym: "splenic sinus" EXACT [FMA:62815] synonym: "venous sinus of red pulp of spleen" EXACT [FMA:62815] xref: FMA:62815 xref: MA:0000761 xref: UMLS:C1179415 xref: ncithesaurus:Splenic_Sinus is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003497 ! abdomen blood vessel is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0006615 ! venous sinus relationship: part_of UBERON:0001250 ! red pulp of spleen [Term] id: UBERON:0009968 name: primitive superior sagittal sinus namespace: uberon xref: EHDAA2:0001527 xref: EHDAA:9876 xref: EMAPA:18636 is_a: UBERON:0001638 ! vein is_a: UBERON:0003499 ! brain blood vessel relationship: part_of UBERON:0005486 ! venous dural sinus [Term] id: UBERON:0009969 name: stato-acoustic epithelium namespace: uberon comment: Editor note: required by CL xref: FMA:64804 is_a: UBERON:0006934 ! sensory epithelium [Term] id: UBERON:0009970 name: epithelium of pancreatic duct namespace: uberon def: "An epithelium that is part of a pancreatic duct." [OBOL:automatic] comment: Editor note: in EHDAA2, the embryonic pancreatic ducts (dorsal, ventral) are classified as eithelial sacs, which would render them subclasses this synonym: "pancreatic duct epithelium" EXACT [FMA:67681] synonym: "pancreatic ductal epithelium" EXACT [FMA:67681] xref: EFO:0002556 xref: FMA:67681 is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000924 ! ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0007329 ! pancreatic duct [Term] id: UBERON:0009971 name: principal gastric gland namespace: uberon def: "one of the gastric glands that secretes the hydrochloric acid of the gastric juice[Stedman's]." [MP:0003892, http://www.drugs.com/dict/acid-gland.html] comment: AO notes: FMA has this as part of both the fundus and the body, but these are largely spatially disjoint. synonym: "Wassman gland" RELATED [MP:0003892] synonym: "acid gland" EXACT [http://www.drugs.com/dict/acid-gland.html] synonym: "gastric follicle" RELATED [MP:0003892] synonym: "gastric gland" BROAD [MP:0003892] synonym: "glandula gastrica propria" EXACT [FMA:14921] synonym: "main gastric gland" EXACT [FMA:14921] synonym: "oxyntic gland" EXACT [FMA:14921] synonym: "principal gland of fundus of stomach" EXACT [FMA:14923] xref: FMA:14921 xref: FMA:14923 is_a: UBERON:0000325 ! gastric gland [Term] id: UBERON:0009972 name: ureteropelvic junction namespace: uberon def: "the junction between the ureter and the renal pelvis of the kidney" [MP:0011487] synonym: "pelviureteric junction" EXACT [FMA:15898] synonym: "pelvoureteric junction" EXACT [] xref: FMA:15898 xref: MA:0003021 xref: SCTID:264130006 is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0000056 ! ureter intersection_of: connects UBERON:0001224 ! renal pelvis [Term] id: UBERON:0009973 name: ureterovesical junction namespace: uberon def: "the valve-like structure found at the site of entry of the ureter into the urinary bladder, normally displays an oblique angulation through the detrusor to avoid reflux of urine up the ureters and the kidney" [MP:0011488] synonym: "vesico-ureteral junction" EXACT [MA:0003020] synonym: "vesico-ureteric junction" EXACT [] synonym: "vesicoureteric junction" EXACT [] xref: FMA:15899 xref: MA:0003020 xref: SCTID:261187001 is_a: UBERON:0003978 ! valve is_a: UBERON:0006554 ! urinary system structure relationship: part_of UBERON:0001008 ! excretory system intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0000056 ! ureter intersection_of: connects UBERON:0001255 ! urinary bladder [Term] id: UBERON:0009974 name: lumen of Rathke's pouch namespace: uberon def: "An anatomical cavity that surrounded_by a Rathke's pouch." [OBOL:automatic] synonym: "Rathkes pouch invagination" NARROW [EHDAA2:0004138] xref: EHDAA2:0004138 xref: EMAPA:25037 is_a: UBERON:0005082 ! tube lumen is_a: UBERON:0007473 ! lumen of epithelial sac relationship: part_of UBERON:0005356 ! Rathke's pouch relationship: surrounded_by UBERON:0012287 ! Rathkes pouch epithelium intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0005356 ! Rathke's pouch [Term] id: UBERON:0009975 name: remnant of lumen of Rathke's pouch namespace: uberon comment: Editors note: requires review synonym: "adenohypophysis invagination" RELATED [EHDAA2:0004139] xref: EHDAA2:0004139 is_a: UBERON:0005082 ! tube lumen relationship: develops_from UBERON:0009974 ! lumen of Rathke's pouch relationship: part_of UBERON:0002196 ! adenohypophysis [Term] id: UBERON:0009976 name: hypothalamo-hypophyseal system namespace: uberon def: "An intrinsic circulatory network that transports hormones from the median eminence of the hypothalamus to the adenohypophysis." [ISBN10:0471888893, Wikipedia:Hypophyseal_portal_system] comment: Taxon notes: in lampreys and teleost hormones enter the adenohypophysis by diffusion. Editor notes: we represent this structure strictly as a system of blood vessels (presumably in line with the FMA). It could also be extended to include neurons and fiber tracts, as per the MESH definition. Function notes: One of the most important functions of the hypothalamus is to link the nervous system to the endocrine system via the pituitary gland (hypophysis). The hypothalamus is responsible for certain metabolic processes and other activities of the autonomic nervous system. It synthesizes and secretes certain neurohormones, often called hypothalamic-releasing hormones, and these in turn stimulate or inhibit the secretion of pituitary hormones. The hypothalamus controls body temperature, hunger, thirst, fatigue, sleep, and circadian cycles[WP] synonym: "hypophyseal portal system" EXACT [Wikipedia:Hypophyseal_portal_system] synonym: "hypothalamic hypophyseal portal system" EXACT [ISBN10:0471888893] synonym: "hypothalamo hypophyseal system" RELATED [MESH:A06.407.747.357] synonym: "hypothalamo-hypophyseal system" RELATED [MESH:A06.407.747.357] synonym: "hypothalamohypophyseal portal system" EXACT [] synonym: "portal veins of hypophysis" RELATED [FMA:70860] synonym: "set of portal veins of hypophysis" RELATED [FMA:70860] synonym: "venae portales hypophysiales" EXACT LATIN [Wikipedia:Hypophyseal_portal_system] xref: FMA:70860 xref: MESH:A06.407.747.357 xref: UMLS:C1512570 xref: ncithesaurus:Hypothalamohypophyseal_Portal_System is_a: UBERON:0005806 ! portal system relationship: connects UBERON:0001898 ! hypothalamus relationship: connects UBERON:0002196 ! adenohypophysis relationship: connects UBERON:0002197 ! median eminence of neurohypophysis relationship: part_of UBERON:0000949 ! endocrine system property_value: never_in_taxon NCBITaxon:32443 [Term] id: UBERON:0009977 name: natal tooth namespace: uberon def: "Predeciduous teeth present at birth. They may be well formed and normal or may represent hornified epithelial structures without roots. They are found on the gingivae over the crest of the ridge and arise from accessory buds of the dental lamina ahead of the deciduous buds or from buds of the accessory dental lamina. (From Jablonski, Dictionary of Dentistry, 1992)" [MESH:A14.254.860.700.500] synonym: "natal teeth" EXACT PLURAL [GAID:1267] synonym: "natal tooth" RELATED [GAID:1267] xref: GAID:1267 xref: MESH:A14.254.860.700.500 is_a: UBERON:0007115 ! deciduous tooth [Term] id: UBERON:0009978 name: epicondyle namespace: uberon def: "." [Wikipedia:Epicondyle] comment: grouping class that collected the ect- and ep- icondyles of humerus and femur subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "epicondylus" RELATED LATIN [Wikipedia:Epicondyle] xref: FMA:75435 xref: SCTID:333209006 xref: UMLS:C0222681 xref: galen:Epicondyle xref: ncithesaurus:Epicondyle is_a: UBERON:0005913 ! zone of bone organ property_value: has_relational_adjective "epicondylar" xsd:string [Term] id: UBERON:0009979 name: condyle namespace: uberon def: "the round prominence at the end of a bone, most often part of a joint - an articulation with another bone[WP]." [Wikipedia:Condyle_(anatomy)] xref: FMA:75434 xref: SCTID:91737009 xref: TAO:0002259 xref: UMLS:C0524414 xref: galen:Condyle xref: ncithesaurus:Condyle is_a: UBERON:0005913 ! zone of bone organ property_value: external_definition "Protuberance on a bone that participates in a joint with another bone.[TAO]" xsd:string property_value: has_relational_adjective "condylar" xsd:string [Term] id: UBERON:0009980 name: condyle of femur namespace: uberon def: "A condyle that is part of a distal epiphysis of femur." [OBOL:automatic] synonym: "condylus femoralis" EXACT [] synonym: "condylus femoris" EXACT [] synonym: "femoral condyle" EXACT [] synonym: "fibular condyle" RELATED [AAO:0000900] xref: AAO:0000900 xref: FMA:32855 xref: SCTID:304912006 xref: galen:FemoralCondyle is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone intersection_of: UBERON:0009979 ! condyle intersection_of: part_of UBERON:0004406 ! distal epiphysis of femur property_value: external_definition "Convex articular facet of the distal head of the femur that articulates with the proximal head of the fibula.[AAO]" xsd:string [Term] id: UBERON:0009984 name: medial condyle of femur namespace: uberon def: "The medial condyle is one of the two projections on the lower extremity of femur. The medial condyle is larger than the lateral (outer) condyle due to more weight bearing caused by the center of gravity being medial to the knee. On the posterior surface of the condyle the linea aspera (a ridge running down the posterior shaft of the femur) turns into the medial supracondylar ridge. The outermost protrusion on the medial surface of the medial condyle is referred to as the \"medial epicondyle\" and can be palpated by running fingers medially from the patella with the knee in flexion." [Wikipedia:Medial_condyle_of_femur] synonym: "c. medialis femoris" RELATED LATIN [Wikipedia:Medial_condyle_of_femur] synonym: "medial condyle of the femur" RELATED [Wikipedia:Medial_condyle_of_femur] xref: FMA:32858 xref: SCTID:182056007 xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray246.png is_a: UBERON:0009980 ! condyle of femur relationship: part_of UBERON:0004406 ! distal epiphysis of femur [Term] id: UBERON:0009985 name: lateral condyle of femur namespace: uberon def: "The lateral condyle is one of the two projections on the lower extremity of femur. It is the more prominent and is the broader both in its antero-posterior and transverse diameters" [Wikipedia:Lateral_condyle_of_femur] synonym: "c. lateralis femoris" RELATED LATIN [Wikipedia:Lateral_condyle_of_femur] synonym: "lateral condyle of the femur" RELATED [Wikipedia:Lateral_condyle_of_femur] xref: FMA:32859 xref: SCTID:182057003 xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray246.png is_a: UBERON:0009980 ! condyle of femur relationship: part_of UBERON:0004406 ! distal epiphysis of femur [Term] id: UBERON:0009986 name: lateral epicondyle of femur namespace: uberon def: "The lateral epicondyle of the femur, smaller and less prominent than the medial epicondyle, gives attachment to the fibular collateral ligament of the knee-joint. Directly below it is a small depression from which a smooth well-marked groove curves obliquely upward and backward to the posterior extremity of the condyle." [Wikipedia:Lateral_epicondyle_of_the_femur] synonym: "e. lateralis femoris" RELATED LATIN [Wikipedia:Lateral_epicondyle_of_the_femur] synonym: "epicondylus lateralis (femur)" EXACT [FMA:32867] synonym: "lateral femoral epicondyle" RELATED [Wikipedia:Lateral_epicondyle_of_the_femur] xref: FMA:32867 xref: SCTID:209275007 xref: galen:LateralFemoralEpicondyle xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray246.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0009978 ! epicondyle relationship: part_of UBERON:0004406 ! distal epiphysis of femur relationship: part_of UBERON:0009985 ! lateral condyle of femur [Term] id: UBERON:0009987 name: medial epicondyle of femur namespace: uberon def: "The medial epicondyle of the femur is a bony protrusion located on the medial side of the bone's distal end. Located above the medial condyle, it bears an elevation, the adductor tubercle, which serves for the attachment of the superficial part, or \"tendinous insertion\", of the adductor magnus. This tendinous part here forms an intermuscular septum which forms the medial separation between the thigh's flexors and extensors. Behind it, and proximally to the medial condyle is a rough impression which gives origin to the medial head of the Gastrocnemius." [Wikipedia:Medial_epicondyle_of_the_femur] synonym: "epicondylus medialis (femur)" EXACT [FMA:32864] synonym: "epicondylus medialis femoris" RELATED LATIN [Wikipedia:Medial_epicondyle_of_the_femur] synonym: "medial femoral epicondyle" RELATED [Wikipedia:Medial_epicondyle_of_the_femur] xref: FMA:32864 xref: SCTID:209172001 xref: galen:MedialFemoralEpicondyle xref: http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray345.png is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone is_a: UBERON:0009978 ! epicondyle relationship: part_of UBERON:0004406 ! distal epiphysis of femur relationship: part_of UBERON:0009984 ! medial condyle of femur [Term] id: UBERON:0009988 name: condyle of humerus namespace: uberon def: "the distal end of the humerus, including the trochlea, capitulum and the olecranon, coronoid and radial fossae" [http://www.medilexicon.com/medicaldictionary.php?t=19715] synonym: "condylus humeri" EXACT [] synonym: "humeral condyle" EXACT [FMA:23377] xref: FMA:23377 xref: SCTID:361778001 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone intersection_of: UBERON:0009979 ! condyle intersection_of: part_of UBERON:0004404 ! distal epiphysis of humerus [Term] id: UBERON:0009989 name: condyle of tibia namespace: uberon def: "One of the lateral or medial condyles of the tibia." [Wikipedia:Tibial_condyle] synonym: "tibial condyle" EXACT [AAO:0000899] xref: AAO:0000899 xref: SCTID:182062002 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005055 ! zone of long bone intersection_of: UBERON:0009979 ! condyle intersection_of: part_of UBERON:0008772 ! proximal epiphysis of tibia property_value: external_definition "Convex articular facet of the distal head of the femur that articulates with the proximal head of the tibia.[AAO]" xsd:string [Term] id: UBERON:0009990 name: medial condyle of tibia namespace: uberon def: "The medial condyle is the medial portion of the upper extremity of tibia. It is the site of insertion for the Semimembranosus muscle[WP]." [Wikipedia:Medial_condyle_of_tibia] synonym: "c. medialis tibiae" RELATED LATIN [Wikipedia:Medial_condyle_of_tibia] synonym: "condylus medialis (tibia)" EXACT [FMA:35445] synonym: "medial condyle of the tibia" RELATED [Wikipedia:Medial_condyle_of_tibia] synonym: "medial tibial condyle" RELATED [Wikipedia:Medial_condyle_of_tibia] xref: FMA:35445 xref: SCTID:182066004 xref: galen:MedialTibialCondyle xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray257.png is_a: UBERON:0009989 ! condyle of tibia [Term] id: UBERON:0009991 name: lateral condyle of tibia namespace: uberon def: "The lateral condyle is the lateral portion of the upper extremity of tibia. It serves as the insertion for the Biceps femoris muscle[WP]." [Wikipedia:Lateral_condyle_of_tibia] synonym: "c. lateralis tibiae" RELATED LATIN [Wikipedia:Lateral_condyle_of_tibia] synonym: "condylus lateralis (tibia)" EXACT [FMA:35448] xref: FMA:35448 xref: SCTID:182067008 xref: http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray257.png is_a: UBERON:0009989 ! condyle of tibia [Term] id: UBERON:0009992 name: cranial sensory ganglion namespace: uberon def: "the ganglion found on the root of each cranial nerve, containing the cell bodies of afferent (sensory) neurons. " [http://medical-dictionary.thefreedictionary.com/cranial+sensory+ganglion] comment: Editor note: check this - merge into cranial ganglion? WP: the geniculate, petrosal and nodose ganglia, appended respectively to cranial nerves VII, IX and X. Other ontology notes: has no subtypes in FMA synonym: "cranial nerve sensory ganglion" EXACT [FMA:5887] synonym: "ganglion sensorium cranialium" EXACT [FMA:5887] synonym: "sensory ganglion of cranial nerve" EXACT [FMA:5887] xref: FMA:5887 is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0001800 ! sensory ganglion [Term] id: UBERON:0009993 name: primary chorionic villus namespace: uberon def: "A chorionic villus that is a solid outgrowth of the cytotrophoblast that protrudes into the syncytiotrophoblast." [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/06placenta.htm] xref: UMLS:C1514421 xref: ncithesaurus:Primary_Chorionic_Villus is_a: UBERON:0007106 ! chorionic villus [Term] id: UBERON:0009994 name: secondary chorionic villus namespace: uberon def: "A chorionic villus that is has a core of loose connective tissue, which in humans grows into the primary villi about the third week of development." [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/06placenta.htm] xref: UMLS:C1519213 xref: ncithesaurus:Secondary_Chorionic_Villus is_a: UBERON:0007106 ! chorionic villus [Term] id: UBERON:0009995 name: tertiary chorionic villus namespace: uberon def: "Tertiary chorionic villi contain embryonic blood vessels that develop from mesenchymal cells in the loose connective tissue core. These blood vessels connect up with vessels that develop in the chorion and connecting stalk and begin to circulate embryonic blood about the third week of development in humans." [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/06placenta.htm] xref: UMLS:C1515280 xref: ncithesaurus:Tertiary_Chorionic_Villus is_a: UBERON:0007106 ! chorionic villus [Term] id: UBERON:0010002 name: pulmonary neuroendocrine body namespace: uberon def: "corpuscular, organoid structures composed of PNECs, found as distinctive innervated clusters only within intrapulmonary airways, where they appear concentrated at airway branch points; NEBs reach from the basement membrane to the airway lumen and are thought to function as oxygen sensors." [MP:0010921] synonym: "NEB" EXACT [MP:0010921] synonym: "pulmonary neuroepithelial body" EXACT [MP:0010921] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0004119 ! endoderm-derived structure relationship: has_part CL:0000165 ! neuroendocrine cell relationship: part_of UBERON:0000115 ! lung epithelium [Term] id: UBERON:0010005 name: placental labyrinth villi namespace: uberon def: "the vascularized and branched structures arising from the rodent trophoblast-derived epithelium that allow an increase its surface area for the efficient exchange of nutrients and wastes between the maternal and fetal circulation" [MP:0011522] is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0003946 ! placenta labyrinth [Term] id: UBERON:0010006 name: placenta intervillous maternal lacunae namespace: uberon def: "the spaces of the placenta occupied by maternal blood, into which the fetal labyrinth villi project" [MP:0011525] is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0003946 ! placenta labyrinth [Term] id: UBERON:0010007 name: placenta fetal blood space namespace: uberon def: "the spaces of the placenta occupied by fetal blood, primarily within the fetal labyrinth villi" [MP:0011526] is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0003946 ! placenta labyrinth [Term] id: UBERON:0010008 name: mammalian cotyledon namespace: uberon def: "Round structure consisting of chorionic villi[PMID]. A separations of the decidua basalis of the placenta, separated by placental septa. Each cotyledon consists of a main stem of a chorionic villus as well as its branches and subbranches. The cotyledons receive fetal blood from chorionic vessels, which branch off cotyledon vessels into the cotyledons, which, in turn, branch into capillaries. The cotyledons are surrounded by maternal blood, which can exchange oxygen and nutrients with the fetal blood in the capillaries[WP]." [PMID:19829370, Wikipedia:Placental_cotyledon] comment: Rodents have a single cotyledon (called a discoid placenta), whereas humans have multiple cotyledons, although they are consolidated into a cluster that resembles a single disc[PMID:19829370] synonym: "cotyledon" BROAD [] xref: UMLS:C0242769 xref: http://upload.wikimedia.org/wikipedia/commons/3/30/Placental_cotyledon.png xref: ncithesaurus:Cotyledon is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0005156 ! reproductive structure relationship: part_of UBERON:0002450 ! decidua [Term] id: UBERON:0010009 name: aggregate regional part of brain namespace: uberon def: "A regional part of brain consisting of multiple brain regions that are not related through a simple volummetric part of hierarchy, e.g., basal ganglia[NIF]." [NIF_GrossAnatomy:nlx_anat_20090509] synonym: "set of nuclei of neuraxis" EXACT [FMA:256381] xref: FMA:256381 xref: NIF_GrossAnatomy:nlx_anat_20090509 is_a: UBERON:0002616 ! regional part of brain [Term] id: UBERON:0010010 name: basal nucleus of telencephalon namespace: uberon def: "Subdivision of telencephalon which is actually several islands of neurons lying within the substantia innominata, located ventral to the basal ganglia and anterior to the hypothalamus." [FMA:61887, Wikipedia:Nucleus_basalis_of_Meynert] comment: AO notes: MA has basal nucleus as synonym for BG. Function notes: rich in acetylcholine and choline acetyltransferase[WP]. Location notes: The NBM is inferior to the globus pallidus and within an area known as the substantia innominata synonym: "Meynert's nucleus" EXACT [FMA:61887] synonym: "basal magnocellular nucleus (substantia innominata)" EXACT [FMA:61887] synonym: "basal nuclei of Meynert" EXACT [FMA:61887] synonym: "basal nucleus" EXACT [NIF_GrossAnatomy:birnlex_1107] synonym: "basal nucleus of Meynert" EXACT [FMA:61887] synonym: "basal substance of telencephalon" EXACT [FMA:61887] synonym: "ganglion of Meynert" EXACT [FMA:61887] synonym: "nucleus basalis" EXACT [NIF_GrossAnatomy:birnlex_1107] synonym: "nucleus basalis of Meynert" EXACT [NIF_GrossAnatomy:birnlex_1107] synonym: "nucleus basalis telencephali" RELATED LATIN [Wikipedia:Nucleus_basalis_of_Meynert] synonym: "substantia basalis telencephali" EXACT LATIN [FMA:TA] xref: FMA:61887 xref: NIF_GrossAnatomy:birnlex_1107 xref: SCTID:369109003 xref: http://upload.wikimedia.org/wikipedia/commons/3/36/Substantia_innominata_MRI.PNG is_a: UBERON:0002308 ! nucleus of brain is_a: UBERON:0009663 ! telencephalic nucleus is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0003017 ! substantia innominata [Term] id: UBERON:0010011 name: collection of basal ganglia namespace: uberon comment: Editor note: it is necessary to introduce two classes, one representing an individual basal ganglion, another representing the aggregate structure, in order to have consistent classification amongst AOs (e.g. in MA the aygdala is part of the BG, in FMA and BTO it is a subclass). Apart from achieving this consistency, the value of having two distinct classes is questionable, since the BG-plural is trivially the collection of all BGs-singular. it would be better for all AOs to decide on one single way of doing this. Do not merge until this is done. synonym: "basal ganglia" EXACT [FMA:84013] synonym: "basal ganglia set" EXACT [FMA:84013] synonym: "set of basal ganglia" EXACT [FMA:84013] xref: BM:Tel-BG xref: FMA:84013 xref: GAID:617 xref: MA:0000184 xref: MESH:A08.186.211.730.885.105 xref: NIF_GrossAnatomy:birnlex_826 xref: UMLS:C0004781 xref: VHOG:0001696 xref: ncithesaurus:Basal_Ganglia is_a: UBERON:0002791 ! regional part of telencephalon is_a: UBERON:0010009 ! aggregate regional part of brain relationship: part_of UBERON:0000454 ! cerebral subcortex relationship: part_of UBERON:0001893 ! telencephalon property_value: homology_notes "All nuclei of the mammalian basal ganglia are also present in the oldest vertebrates.[well established][VHOG]" xsd:string [Term] id: UBERON:0010012 name: upper beak namespace: uberon synonym: "maxillary beak" RELATED [] synonym: "rostrum maxillare" RELATED [] synonym: "upper mandible" RELATED SENSU [] is_a: UBERON:0003102 ! surface structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001709 ! upper jaw region relationship: part_of UBERON:0005094 ! beak [Term] id: UBERON:0010013 name: lower beak namespace: uberon synonym: "lower mandible" RELATED SENSU [] synonym: "mandibular beak" RELATED [] synonym: "rostrum mandibulare" RELATED [] is_a: UBERON:0003102 ! surface structure is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0005094 ! beak [Term] id: UBERON:0010014 name: epigonal organ namespace: uberon def: "An elongate paired tissue ventral to the kidneys and partialy enveloping the anterior gonads in Elasmobranchii. Apparently important to the immune system" [http://www.fishbase.org/glossary/Glossary.php?q=epigonal+organ] synonym: "subgonal organ" EXACT [] is_a: UBERON:0004177 ! hemopoietic organ is_a: UBERON:0005057 ! immune organ relationship: composed_primarily_of CL:0000738 ! leukocyte relationship: in_lateral_side_of UBERON:0000468 ! multi-cellular organism relationship: part_of UBERON:0002405 ! immune system property_value: never_in_taxon NCBITaxon:7863 [Term] id: UBERON:0010015 name: ventral patch of Leydig's organ namespace: uberon is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000040 ! Leydig's organ [Term] id: UBERON:0010016 name: spiral valve of intestine namespace: uberon def: "Coiled structure in the lumen of the small intestine that increases the length of the route through the diesgtive tract.[WP,cjm,Kardong]" [Wikipedia:Spiral_valve] synonym: "intestinal spiral valve" EXACT [] synonym: "spiral valve" BROAD [] is_a: UBERON:0003978 ! valve is_a: UBERON:0004119 ! endoderm-derived structure relationship: located_in UBERON:0006909 ! lumen of gut relationship: part_of UBERON:0002108 ! small intestine disjoint_from: UBERON:0010017 ! spiral valve of cystic duct disjoint_from: UBERON:0010018 ! spiral valve of conus arteriosus property_value: never_in_taxon NCBITaxon:32523 [Term] id: UBERON:0010017 name: spiral valve of cystic duct namespace: uberon def: "a series of crescentic folds of mucous membrane somewhat spirally arranged on the interior of the gallbladder and continuing into the cystic duct" [Wikipedia:Spiral_valves_of_Heister, http://dictionary.reference.com/browse/spiral+valve] synonym: "Heister's valve" EXACT [FMA:15855] synonym: "plica spiralis" EXACT LATIN [FMA:TA] synonym: "plica spiralis (ductus cysticus)" EXACT [FMA:15855] synonym: "spiral fold of cystic duct" EXACT [FMA:15855] synonym: "valve of Heister " EXACT [] xref: FMA:15855 xref: SCTID:270125000 is_a: UBERON:0003978 ! valve disjoint_from: UBERON:0010018 ! spiral valve of conus arteriosus [Term] id: UBERON:0010018 name: spiral valve of conus arteriosus namespace: uberon def: "The spiral valve alternately blocks & unblocks the entrances to the left and right pulmonary arches (sending unoxygenated blood to the skin & lungs)." [http://people.eku.edu/ritchisong/342notes9.html] comment: Taxon notes: many dipnoans and amphibians. Evolution notes: The spiral valve is considered to have evolved from the right member of the four embryonic endocardial ridges (Goodrich, 1930 - via Morris 1974) xref: AAO:0010251 xref: http://cwx.prenhall.com/bookbind/pubbooks/martini10/chapter21/medialib/Kardong_fig_12_29.html is_a: UBERON:0003978 ! valve is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0003983 ! conus arteriosus property_value: never_in_taxon NCBITaxon:32524 [Term] id: UBERON:0010019 name: spiracle namespace: uberon def: "a small hole behind each eye that opens to the mouth in some fish. In the primitive jawless fish the first gill opening immediately behind the mouth is essentially similar to the other gill openings." [ISBN10:0073040584, Wikipedia:Spiracle#Vertebrates] comment: Taxon notes: The spiracle is still found in all cartilaginous fish except chimaeras, and in bony fishes in the coelacanth, sturgeon, paddlefish and bichirs. It is also seen as an otic notch in the skull of the extinct labyrinthodonts, and is thought to be associated with the ear opening in amniotes and frogs[WP]. In elasmobranchs (sharks and rays), a spiracle is found behind each eye, and is often used to pump water through the gills while the animal is at rest (Fouts, 2003). A spiracle is also found in primitive bony fishes as the chirrups. TODO - check GO:0035277-spiracle morphogenesis, open tracheal system - taxon constraint in GO synonym: "vertebrate spiracle" EXACT [] is_a: UBERON:0003102 ! surface structure relationship: part_of UBERON:0001004 ! respiratory system property_value: never_in_taxon NCBITaxon:32523 [Term] id: UBERON:0010020 name: tubotympanic recess epithelium namespace: uberon def: "The dorsal portion of the embryonic first endodermal pharyngeal pouch; it develops into the middle ear cavity." [http://www.biology-online.org/dictionary/Tubotympanic_recess] xref: EHDAA2:0004115 is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac relationship: develops_from UBERON:0007122 ! pharyngeal pouch 1 relationship: part_of UBERON:0001756 ! middle ear [Term] id: UBERON:0010021 name: dorsal part of pharyngeal pouch 1 namespace: uberon comment: Development notes: in humans, dorsal diverticulum deepens as the tubotympanic recess to form the auditory tube[ISBN10:1607950324] synonym: "dorsal 1st branchial pouch" EXACT [] synonym: "dorsal branchial pouch 1 endoderm" RELATED [] synonym: "dorsal pharyngeal pouch 1" EXACT [] synonym: "dorsal pharyngeal pouch 1 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007122 ! pharyngeal pouch 1 [Term] id: UBERON:0010022 name: ventral part of pharyngeal pouch 1 namespace: uberon comment: Development notes: in humans, the ventral portion of pouches 1 and 2 are obliterated by the developing tongue[ISBN10:1607950324] synonym: "ventral 1st branchial pouch" EXACT [] synonym: "ventral branchial pouch 1 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 1" EXACT [] synonym: "ventral pharyngeal pouch 1 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007122 ! pharyngeal pouch 1 [Term] id: UBERON:0010023 name: dorsal part of pharyngeal pouch 2 namespace: uberon comment: Development notes: in humans, persists as the tonsillar fossa - the endodermal lining covers the mesodermal lymphatic tissue to form the palatine tonsil[ISBN10:1607950324] synonym: "dorsal 2nd branchial pouch" EXACT [] synonym: "dorsal branchial pouch 2 endoderm" RELATED [] synonym: "dorsal pharyngeal pouch 2" EXACT [] synonym: "dorsal pharyngeal pouch 2 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007123 ! pharyngeal pouch 2 [Term] id: UBERON:0010024 name: ventral part of pharyngeal pouch 2 namespace: uberon comment: Development notes: in humans, the ventral portion of pouches 1 and 2 are obliterated by the developing tongue[ISBN10:1607950324] synonym: "ventral 2nd branchial pouch" EXACT [] synonym: "ventral branchial pouch 2 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 2" EXACT [] synonym: "ventral pharyngeal pouch 2 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007123 ! pharyngeal pouch 2 [Term] id: UBERON:0010025 name: dorsal part of pharyngeal pouch 3 namespace: uberon synonym: "dorsal 3rd arch pharyngeal pouch endoderm" EXACT [EHDAA2:0000409] synonym: "dorsal 3rd branchial pouch" EXACT [] synonym: "dorsal branchial pouch 3 endoderm" RELATED [] synonym: "dorsal pharyngeal pouch 3" EXACT [] synonym: "dorsal pharyngeal pouch 3 endoderm" RELATED [] xref: EHDAA2:0000409 xref: EMAPA:16758 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007124 ! pharyngeal pouch 3 [Term] id: UBERON:0010026 name: ventral part of pharyngeal pouch 3 namespace: uberon synonym: "ventral 3rd arch pharyngeal pouch endoderm" EXACT [EHDAA2:0002173] synonym: "ventral 3rd branchial pouch" EXACT [] synonym: "ventral branchial pouch 3 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 3" EXACT [] synonym: "ventral pharyngeal pouch 3 endoderm" RELATED [] xref: EHDAA2:0002173 xref: EMAPA:16759 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007124 ! pharyngeal pouch 3 [Term] id: UBERON:0010027 name: dorsal part of pharyngeal pouch 4 namespace: uberon synonym: "dorsal 4th branchial pouch" EXACT [] synonym: "dorsal branchial pouch 4 endoderm" RELATED [] synonym: "dorsal pharyngeal pouch 4" EXACT [] synonym: "dorsal pharyngeal pouch 4 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007125 ! pharyngeal pouch 4 [Term] id: UBERON:0010028 name: ventral part of pharyngeal pouch 4 namespace: uberon synonym: "ventral 4th branchial pouch" EXACT [] synonym: "ventral branchial pouch 4 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 2 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 4" EXACT [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007125 ! pharyngeal pouch 4 [Term] id: UBERON:0010029 name: dorsal part of pharyngeal pouch 5 namespace: uberon synonym: "dorsal 5th branchial pouch" EXACT [] synonym: "dorsal branchial pouch 5 endoderm" RELATED [] synonym: "dorsal pharyngeal pouch 5" EXACT [] synonym: "dorsal pharyngeal pouch 5 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007126 ! pharyngeal pouch 5 [Term] id: UBERON:0010030 name: ventral part of pharyngeal pouch 5 namespace: uberon synonym: "ventral 5th branchial pouch" EXACT [] synonym: "ventral branchial pouch 5 endoderm" RELATED [] synonym: "ventral pharyngeal pouch 5" EXACT [] synonym: "ventral pharyngeal pouch 5 endoderm" RELATED [] is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium relationship: part_of UBERON:0007126 ! pharyngeal pouch 5 [Term] id: UBERON:0010031 name: 6th arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 6." [OBOL:automatic] synonym: "6th branchial arch mesenchyme" RELATED [] synonym: "6th pharyngeal arch mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme" RELATED [] xref: EHDAA2:0004076 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 [Term] id: UBERON:0010032 name: anterior part of tongue namespace: uberon def: "The portion of the tongue in front of the terminal sulcus. At the apex, thin and narrow, it is directed forward against the lingual surfaces of the lower incisor teeth. It is derived primarily from the first pharyngeal arch." [Wikipedia:Anterior_tongue] comment: AO notes: check NCIT. Development notes: The lateral lingual swellings grow and fuse with eachother, encompassing the tuberculum impar to provide the ectodermally derived mucosa of the anterior 2/3 of the tongue synonym: "anterior 2/3 of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "anterior 2/3 of tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "anterior two thirds of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "apex linguae" RELATED [Wikipedia:Anterior_tongue] synonym: "apex of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "buccal part of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "front of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "oral part of the tongue" RELATED [Wikipedia:Anterior_tongue] synonym: "pars anterior dorsi linguae" RELATED LATIN [Wikipedia:Anterior_tongue] xref: FMA:229084 xref: UMLS:C0226946 xref: http://upload.wikimedia.org/wikipedia/commons/4/4c/Illu04_tongue.jpg xref: ncithesaurus:Apex_of_the_Tongue is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000064 ! organ part intersection_of: develops_from UBERON:0006260 ! lingual swellings intersection_of: part_of UBERON:0001723 ! tongue [Term] id: UBERON:0010033 name: posterior part of tongue namespace: uberon def: "The Posterior tongue, or pharyngeal part, is the part of the tongue behind the terminal sulcus. At its root, it is directed backward, and connected with the hyoid bone by the Hyoglossi and Genioglossi muscles and the hyoglossal membrane; with the epiglottis by three folds (glossoepiglottic) of mucous membrane; with the soft palate by the glossopalatine arches; and with the pharynx by the Constrictores pharyngis superiores and the mucous membrane. It is derived primarily from the third pharyngeal arch. (The second arch has a substantial contribution during fetal development, but this later atrophies. The fourth arch may also contribute, depending upon how the boundaries of the tongue are defined.)" [Wikipedia:Posterior_tongue] synonym: "base of the tongue" RELATED [Wikipedia:Posterior_tongue] synonym: "base of tongue" EXACT [Wikipedia:Posterior_tongue] synonym: "pars posterior (dorsum linguae)" EXACT [FMA:54645] synonym: "pars posterior dorsi linguae" EXACT LATIN [Wikipedia:Posterior_tongue] synonym: "pars posterior linguae" EXACT LATIN [FMA:TA] synonym: "pars postsulcalis (dorsum linguae)" EXACT [FMA:54645] synonym: "pharyngeal part of the tongue" RELATED [Wikipedia:Posterior_tongue] synonym: "pharyngeal part of tongue" EXACT [FMA:54645] synonym: "pharyngeal portion of dorsum of tongue" EXACT [FMA:54645] synonym: "posterior 1/3 of the tongue" RELATED [Wikipedia:Posterior_tongue] synonym: "posterior part of dorsum of tongue" EXACT [FMA:54645] synonym: "posterior third of tongue" RELATED [Wikipedia:Posterior_tongue] synonym: "postsulcal part of dorsum of tongue" EXACT [FMA:54645] synonym: "radix linguae" RELATED [Wikipedia:Posterior_tongue] xref: FMA:54645 xref: SCTID:362094001 xref: UMLS:C0226958 xref: http://upload.wikimedia.org/wikipedia/commons/4/4c/Illu04_tongue.jpg xref: ncithesaurus:Base_of_the_Tongue is_a: UBERON:0000064 ! organ part is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003114 ! pharyngeal arch 3 relationship: part_of UBERON:0009471 ! dorsum of tongue [Term] id: UBERON:0010034 name: copula linguae namespace: uberon def: "A single midventral prominence deriving from the ventral bases of pharyngeal arches 2, 3 and 4 - provides the covering of the posterior of the tongue //The furcula is at first separated from the tuberculum impar by a depression, but later by a ridge, the copula, formed by the forward growth and fusion of the ventral ends of the second, third, and part of the fourth branchial arches[WP]." [Wikipedia:Copula_linguae] comment: add new term for Hypobranchial_eminence? synonym: "copula" EXACT [EHDAA2:0004611] synonym: "copula linguae" RELATED LATIN [Wikipedia:Copula_linguae] xref: EHDAA2:0004611 xref: SCTID:361424000 xref: http://upload.wikimedia.org/wikipedia/commons/8/85/Gray980.png is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010188 ! protuberance is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0010056 ! future tongue [Term] id: UBERON:0010036 name: anterior tegmental nucleus namespace: uberon def: "a group of cells located ventral to the decussation of the superior cerebellar peduncle in the mouse ( Paxinos-2001 ) and rat ( Swanson-1998 )" [http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1115] xref: ABA:AT xref: MA:0001055 is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009661 ! midbrain nucleus relationship: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0010038 name: fundic gastric gland namespace: uberon def: "The fundus glands (or fundic glands, or gastric glands) are found in the body and fundus of the stomach. They are simple tubes, two or more of which open into a single duct." [Wikipedia:Fundic_glands] comment: Editor notes: Consider FMA:14923 synonym: "fundal gland" EXACT [] synonym: "fundus gland" EXACT [] synonym: "gastric fundal gland" EXACT [] synonym: "gastric fundus gland" EXACT [] synonym: "gastric gland of fundus of stomach" EXACT [] synonym: "glandulae gastricae" RELATED LATIN [Wikipedia:Fundic_glands] xref: SCTID:268338004 xref: UMLS:C0017130 xref: http://upload.wikimedia.org/wikipedia/commons/d/d7/Fundic_gland_polyp_%281%29.jpg xref: ncithesaurus:Fundic_Gland relationship: has_part CL:0000155 ! peptic cell relationship: has_part CL:0000162 ! parietal cell relationship: has_part CL:0000319 ! mucus secreting cell relationship: part_of UBERON:0004994 ! mucosa of fundus of stomach intersection_of: UBERON:0000325 ! gastric gland intersection_of: part_of UBERON:0001160 ! fundus of stomach [Term] id: UBERON:0010039 name: food storage organ namespace: uberon def: "An organ of the digestive tract that is capable of retaining and storing food" [UBERON:cjm] comment: This is a very broad functionally defined grouping class that collects disparate structures from insects to vertebrates subset: functional_classification ! functional_classification subset: grouping_class ! Subset consisting of classes creating for grouping purposes xref: TADS:0000172 xref: TGMA:0001041 is_a: UBERON:0000062 ! organ is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0005409 ! gastrointestinal system [Term] id: UBERON:0010040 name: stomach non-glandular epithelium namespace: uberon def: "Am epithelium that lines the stomach which lacks glands. In addition to a glandular epithelium, the stomachs of some vertebrates also has a second region characterized by a nonglandular epithelium, devoid of gastric glands." [ISBN10:0073040584] comment: Editor notes: OWL definition to be added later. Taxon notes: this region may develop from the base of the esophagus (some herbivores) - in rodents, loss of the gastric glands in the mucosa leavea a nonglandular epithelial stomach in which smooth muscle contractions knead and mix digesta. This can be keratinized. synonym: "stomach aglandular epithelium" EXACT [] synonym: "stomach squamous epithelium" RELATED [ISBN10:0123813611] xref: http://upload.wikimedia.org/wikipedia/commons/thumb/b/b9/Mammalian_Stomachs_remake.png/650px-Mammalian_Stomachs_remake.png is_a: UBERON:0001276 ! epithelium of stomach intersection_of: UBERON:0011952 ! non-glandular epithelium intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0010041 name: median ovary namespace: uberon comment: Taxon notes: In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo[Wikipedia:Ovary#In_other_animals] is_a: UBERON:0000992 ! female gonad [Term] id: UBERON:0010042 name: 1st arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 1." [OBOL:automatic] synonym: "mesenchyme of 1st arch" EXACT [EMAPA:16128] xref: EMAPA:16128 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 [Term] id: UBERON:0010045 name: 1st arch maxillary mesenchyme namespace: uberon def: "Mesenchyme that is part of a 1st arch maxillary component." [OBOL:automatic] synonym: "maxillary component mesenchyme" RELATED [] synonym: "maxillary mesenchyme" RELATED [] synonym: "mesenchyme of maxillary component" EXACT [EMAPA:16391] xref: EHDAA2:0000041 xref: EMAPA:16391 is_a: UBERON:0010042 ! 1st arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0007238 ! 1st arch maxillary component [Term] id: UBERON:0010046 name: entire pharyngeal arch associated mesenchyme namespace: uberon def: "The sum total of mesenchymal tissue in the pharyngeal arch region." [UBERON:cjm] synonym: "associated mesenchyme of pharyngeal region" EXACT [EMAPA:16550] synonym: "entire branchial arch associated mesenchyme" EXACT [UBERON:cjm] synonym: "pharyngeal arch associated mesenchyme" EXACT [EHDAA2:0001459] xref: EHDAA2:0001459 xref: EMAPA:16550 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: has_developmental_contribution_from UBERON:0003099 ! cranial neural crest relationship: part_of UBERON:0008814 ! pharyngeal system [Term] id: UBERON:0010047 name: oral gland namespace: uberon alt_id: UBERON:0003293 def: "Gland of the epithelium lining the oral cavity. The most common are the salivary glands." [ISBN10:0073040584] comment: Note that Kardong classifies lacrimal glands here synonym: "buccal gland" EXACT [] synonym: "gland of oral opening" EXACT [OBOL:automatic] synonym: "gland of oral part of face" EXACT [OBOL:automatic] synonym: "gland of subdivision of mouth" EXACT [OBOL:automatic] synonym: "oral cavity gland" RELATED [OBOL:automatic] synonym: "oral opening gland" EXACT [OBOL:automatic] synonym: "oral part of face gland" EXACT [OBOL:automatic] synonym: "oral region gland" EXACT [OBOL:automatic] synonym: "subdivision of mouth gland" EXACT [OBOL:automatic] xref: EHDAA2:0001327 xref: EHDAA:2181 xref: EMAPA:16572 xref: EMAPA:16723 xref: SCTID:25421004 xref: VHOG:0000652 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003408 ! gland of gut is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000165 ! mouth [Term] id: UBERON:0010048 name: Duvernoy's gland namespace: uberon def: "A gland situated on the upper lip found in non-venomous snakes. Releases secretion via duct adjacent to posterior maxillary teeth." [ISBN10:0073040584, Wikipedia:Duvernoy's_gland] is_a: UBERON:0010047 ! oral gland relationship: homologous_to UBERON:0008976 ! snake venom gland [Term] id: UBERON:0010049 name: supralabial gland namespace: uberon def: "Glandular tissue present in lips of reptiles." [ISBN10:0073040584, Wikipedia:Duvernoy's_gland] is_a: UBERON:0010047 ! oral gland [Term] id: UBERON:0010050 name: infralabial gland namespace: uberon def: "Glandular tissue present in lips of reptiles." [ISBN10:0073040584, Wikipedia:Duvernoy's_gland] is_a: UBERON:0010047 ! oral gland [Term] id: UBERON:0010051 name: dorsal patch of Leydig's organ namespace: uberon is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000040 ! Leydig's organ [Term] id: UBERON:0010052 name: mucosa of dorsum of tongue namespace: uberon def: "A mucosa that is part of a dorsum of tongue." [OBOL:automatic] comment: Editor notes: check surface terms. Development notes: develops fungiform papillae by WNT induction at 11 weeks pc in human. Filiform papillae develop later. ISBN10:1607950324 synonym: "mucosa of dorsal surface of tongue" EXACT [] xref: FMA:74871 xref: SCTID:245835003 is_a: UBERON:0005020 ! mucosa of tongue intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0009471 ! dorsum of tongue [Term] id: UBERON:0010053 name: echolocation organ namespace: uberon intersection_of: UBERON:0000062 ! organ intersection_of: has_function_in GO:0050959 ! echolocation [Term] id: UBERON:0010054 name: malleus cartilage condensation namespace: uberon xref: EMAPA:18229 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0006262 ! malleus pre-cartilage condensation [Term] id: UBERON:0010055 name: stapes cartilage condensation namespace: uberon comment: Editor notes: TODO - check relationship to Recihert's. Taxon notes: The stapes is homologous to the hyomandibula. In this ontology, we use the class 'hyomandibular cartilage' generally to include the future stapes, the future hyomandibular bone of teleosts and the unossified cartilage in sharks. xref: EMAPA:18230 is_a: UBERON:0005689 ! 2nd arch mesenchyme is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009506 ! associated mesenchyme of middle ear is_a: UBERON:0009891 ! facial mesenchyme is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest is_a: UBERON:0011607 ! hyomandibular cartilage relationship: develops_from UBERON:0006294 ! stapes pre-cartilage condensation relationship: part_of UBERON:0001686 ! auditory ossicle [Term] id: UBERON:0010056 name: future tongue namespace: uberon def: "A compound organ that develops_into a tongue." [OBOL:automatic] xref: EHDAA2:0000696 xref: EHDAA:2951 is_a: UBERON:0003103 ! compound organ is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0000166 ! oral opening relationship: part_of UBERON:0001042 ! chordate pharynx intersection_of: UBERON:0003103 ! compound organ intersection_of: develops_into UBERON:0001723 ! tongue [Term] id: UBERON:0010057 name: hypopharyngeal eminence namespace: uberon synonym: "hypobranchial eminence" EXACT [EMAPA:17352, OBOL:automatic] xref: EHDAA2:0000799 xref: EMAPA:17352 xref: SCTID:361420009 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0010188 ! protuberance relationship: part_of UBERON:0010056 ! future tongue [Term] id: UBERON:0010059 name: hypoglossal cord namespace: uberon xref: EHDAA2:0004610 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0002036 ! striated muscle tissue relationship: part_of UBERON:0010056 ! future tongue [Term] id: UBERON:0010060 name: pharyngeal opening of pharyngotympanic tube namespace: uberon def: "On the lateral wall of the nasal part of the pharynx is the pharyngeal opening of auditory tube (pharyngeal ostium), somewhat triangular in shape, and bounded behind by a firm prominence, the torus or cushion, caused by the medial end of the cartilage of the tube which elevates the mucous membrane." [Wikipedia:Pharyngeal_opening_of_auditory_tube] synonym: "ostium pharyngeum tubae auditivae" EXACT LATIN [FMA:TA, Wikipedia:Pharyngeal_opening_of_auditory_tube] synonym: "ostium pharyngeum tubae auditoriae" EXACT LATIN [FMA:TA] synonym: "pharyngeal opening of auditory tube" EXACT [FMA:54979] synonym: "pharyngeal opening of eustachian tube" EXACT [FMA:54979] synonym: "pharyngeal orifice of auditory tube" EXACT [FMA:54979] synonym: "pharyngeal orifice of eustachian tube" EXACT [FMA:54979] synonym: "pharyngeal orifice of pharyngotympanic tube" EXACT [FMA:54979] synonym: "pharyngeal ostium" RELATED [Wikipedia:Pharyngeal_opening_of_auditory_tube] synonym: "pharyngeal ostium of auditory tube" EXACT [FMA:54979] synonym: "pharyngeal ostium of eustachian tube" EXACT [FMA:54979] synonym: "pharyngeal ostium of pharyngotympanic tube" EXACT [FMA:54979] synonym: "pharyngeal tubal ostium" EXACT [FMA:54979] xref: FMA:54979 xref: SCTID:368945008 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/Gray1029.png is_a: UBERON:0000464 ! anatomical space relationship: continuous_with UBERON:0010061 ! lumen of nasopharynx [Term] id: UBERON:0010061 name: lumen of nasopharynx namespace: uberon synonym: "nasopharyngeal luman" EXACT [] synonym: "nasopharynx cavity" EXACT [] synonym: "nasopharynx lumen" EXACT [FMA:55094] xref: FMA:55094 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001728 ! nasopharynx relationship: part_of UBERON:0001731 ! cavity of pharynx [Term] id: UBERON:0010062 name: pharyngotympanic tube epithelium namespace: uberon synonym: "auditory tube epithelium" EXACT [EHDAA2:0004117] synonym: "eustachian tube epithelium" EXACT [UBERON:cjm] xref: EHDAA2:0004117 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from_part_of UBERON:0010020 ! tubotympanic recess epithelium relationship: part_of UBERON:0002393 ! pharyngotympanic tube [Term] id: UBERON:0010063 name: tympanic cavity epithelium namespace: uberon xref: EHDAA2:0004116 is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from_part_of UBERON:0010020 ! tubotympanic recess epithelium relationship: located_in UBERON:0004114 ! tympanic cavity relationship: part_of UBERON:0001756 ! middle ear [Term] id: UBERON:0010064 name: open anatomical space namespace: uberon def: "An anatomical space with at least one opening to another space or the exterior." [AEO:0000221] xref: AEO:0000221 xref: EHDAA2:0004616 relationship: connected_to UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: has_quality PATO:0000610 ! open [Term] id: UBERON:0010065 name: auditory meatus epithelium namespace: uberon xref: EHDAA2:0004114 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0005872 ! 1st arch pharyngeal cleft relationship: part_of UBERON:0001691 ! external ear [Term] id: UBERON:0010066 name: tympanic plate namespace: uberon def: "The tympanic part of the temporal bone is a curved plate of bone lying below the squama and in front of the mastoid process." [Wikipedia:Tympanic_part_of_the_temporal_bone] comment: Consider merging with tympanic ring. See discussion page on wikipedia page for ectotympanic. todo: distinguish ecto- and ento- tympanics synonym: "ectotympanic" RELATED [Wikipedia:Ectotympanic] synonym: "ectotympanic bone" RELATED [Wikipedia:Ectotympanic] synonym: "pars tympanica" RELATED [Wikipedia:Tympanic_part_of_the_temporal_bone] synonym: "pars tympanica (os temporale)" EXACT [FMA:52880] synonym: "pars tympanica ossis temporalis" RELATED LATIN [Wikipedia:Tympanic_part_of_the_temporal_bone] synonym: "tympanic bone" RELATED [Wikipedia:Tympanic_part_of_the_temporal_bone] synonym: "tympanic part" RELATED [Wikipedia:Tympanic_part_of_the_temporal_bone] synonym: "tympanic part of temporal bone" EXACT [FMA:52880] xref: FMA:52880 xref: SCTID:138773005 xref: http://upload.wikimedia.org/wikipedia/commons/9/96/Gray137.png is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002218 ! tympanic ring relationship: homologous_to UBERON:0011079 ! angular bone relationship: part_of UBERON:0001678 ! temporal bone [Term] id: UBERON:0010069 name: outer epithelial layer of tympanic membrane namespace: uberon def: "A portion of the external acoustic meatus epithelium which makes up the outer (cuticular) layer of the tympanic membrane" [PMID:11237469, UBERON:cjm] synonym: "cuticular layer of tympanic membrane" EXACT [FMA:56819] synonym: "cuticular stratum of tympanic membrane" EXACT [FMA:56819] synonym: "outer cuticular layer of tympanic membrane" EXACT [FMA:56819] synonym: "outer layer of tympanic membrane" EXACT [] synonym: "tympanic membrane external acoustic meatus epithelial component" EXACT [UBERON:cjm] xref: FMA:56819 xref: SCTID:39725007 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0009647 ! tympanic membrane epithelium intersection_of: part_of UBERON:0001352 ! external acoustic meatus [Term] id: UBERON:0010070 name: intermediate layer of tympanic membrane namespace: uberon def: "The intermediate fibrous layer of the tympanic membrane." [PMID:11237469, https://sourceforge.net/tracker/?func=detail&aid=3468783&group_id=76834&atid=1205376] comment: AO notes: check MA synonym: "connective tissue layer of tympanic membrane" EXACT [FMA:56830] synonym: "fibrous layer of tympanic membrane" EXACT [FMA:56830] synonym: "fibrous stratum of tympanic membrane" EXACT [FMA:56830] synonym: "intermediate fibrous layer of tympanic membrane" EXACT [FMA:56830] synonym: "tympanic endothelium" EXACT [MA:0001223] xref: FMA:56830 xref: MA:0001223 xref: SCTID:44692008 is_a: UBERON:0010071 ! layer of tympanic membrane [Term] id: UBERON:0010071 name: layer of tympanic membrane namespace: uberon comment: In mammals, this class groups together the two epithelial layers plus the intermediate fibrous layer subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "tympanic membrane layer" EXACT [FMA:56732] xref: FMA:56732 is_a: UBERON:0000064 ! organ part is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0002364 ! tympanic membrane [Term] id: UBERON:0010074 name: chromaffin system namespace: uberon def: "The cells of the body which stain with chromium salts. They occur along the sympathetic nerves, in the adrenal gland, and in various other organs." [MESH:A06.224] comment: Taxon notes: in adult cylostomes and teleosts, the interrenal bodies are separate from chromaffin bodies synonym: "argentaffin system" RELATED [MESH:A06.224] synonym: "chromaffin tissue" RELATED [] xref: FMA:79645 xref: MESH:A06.224 is_a: UBERON:0000061 ! anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: composed_primarily_of CL:0000166 ! chromaffin cell relationship: develops_from UBERON:0002342 ! neural crest relationship: homologous_to UBERON:0001236 ! adrenal medulla relationship: part_of UBERON:0000949 ! endocrine system [Term] id: UBERON:0010075 name: sacral neural crest namespace: uberon def: "One of the 5 distinct and partially overlapping functional domains of the premigratory neural crest. The vagal and sacral neural crest cells develop into the ganglia of the enteric nervous system, also known as the parasympathetic ganglia." [XB:curator, http://www.ncbi.nlm.nih.gov/books/NBK10065/] xref: XAO:0004192 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0002342 ! neural crest [Term] id: UBERON:0010076 name: network of trabecular spaces in bone tissue namespace: uberon def: "Tissue cavity consisting of intercommunicating trabecular spaces in the cancellous bone." [FMA:259332] synonym: "trabecular network of bone tissue" EXACT [FMA:259332] xref: FMA:259332 relationship: part_of UBERON:0008867 ! trabecular network of bone intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0008867 ! trabecular network of bone [Term] id: UBERON:0010077 name: cuboidal epithelium namespace: uberon def: "An epithelium consisting of cuboidal epithelial cells." [Wikipedia:Cuboidal_epithelium] comment: AO notes: in NCIT this is glandular. Editor notes: TODO - coordinate with CL, add cuboidal cell xref: UMLS:C0682577 xref: ncithesaurus:Cuboidal_Epithelium is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0010078 name: optic choroid vascular plexus namespace: uberon alt_id: ZFA:0005228 comment: Editor notes: Consider merging with capillary layer. See https://sourceforge.net/tracker/?group_id=76834&atid=1127722. Consider choriocapillaris complex synonym: "CVP" EXACT ABBREVIATION [ZFA:0005094] synonym: "capillary lamina of choroid" RELATED [XAO:0004176] synonym: "choriocapillaris" RELATED [XAO:0004176] synonym: "choroid vascular plexus" RELATED [] synonym: "choroid vasculature" RELATED [ZFA:0005094] synonym: "choroidal vascular plexus" RELATED [TAO:0005094] synonym: "optic choroid vascular plexus" RELATED [XAO:0004176] xref: TAO:0005094 xref: XAO:0004176 xref: ZFA:0005094 is_a: UBERON:0002203 ! vasculature of eye is_a: UBERON:0005629 ! vascular plexus relationship: part_of UBERON:0001776 ! optic choroid relationship: part_of UBERON:0002200 ! vasculature of head property_value: external_definition "A plexus of capillaries that is visible anteromedial to the eye. The choroid is the vascular layer of the eye, containing connective tissue, and lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[XAO:0004176]." xsd:string property_value: external_definition "Is an ocular vasculature that develops adjacent to the pigment epithelium of the eye. The optic choroid vascular plexus develops from the primitive mesencephalic artery. Initially blood enters from the mesencephalic central artery, and the dorsal ciliary vein. The plexus drains via the ophthalmic vein. The plexus supplies blood to the retina[ZFA:0005094]." xsd:string property_value: taxon_notes "The choroid of teleosts is a connective tissue layer rich in blood vessels, and one or two choroidal glands." xsd:string [Term] id: UBERON:0010081 name: future common hepatic duct namespace: uberon def: "An extrahepatic bile duct that develops_into a common hepatic duct." [OBOL:automatic] xref: EHDAA2:0000595 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007497 ! developing epithelial placode relationship: develops_from UBERON:0005604 ! hepatic duct extrahepatic part intersection_of: UBERON:0003703 ! extrahepatic bile duct intersection_of: develops_into UBERON:0001175 ! common hepatic duct [Term] id: UBERON:0010082 name: future corpus striatum namespace: uberon def: "A multi-tissue structure that develops_into a corpus striatum." [OBOL:automatic] xref: EHDAA2:0000596 intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: develops_into UBERON:0000369 ! corpus striatum [Term] id: UBERON:0010083 name: future dermis namespace: uberon def: "Mesenchyme that develops_into a dermis." [OBOL:automatic] comment: Editor notes: check development xref: EHDAA2:0000598 is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0003089 ! sclerotome relationship: develops_from UBERON:0004016 ! dermatome relationship: part_of UBERON:0002199 ! integument intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_into UBERON:0002067 ! dermis [Term] id: UBERON:0010084 name: future diaphragm namespace: uberon def: "A skeletal muscle tissue that develops_into a diaphragm." [OBOL:automatic] xref: EHDAA2:0000599 is_a: UBERON:0000481 ! multi-tissue structure relationship: located_in UBERON:0002323 ! coelemic cavity lumen intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: develops_into UBERON:0001103 ! diaphragm [Term] id: UBERON:0010090 name: future falx cerebri namespace: uberon def: "A developing anatomical structure that develops_into a falx cerebri." [OBOL:automatic] xref: EHDAA2:0000608 is_a: UBERON:0007524 ! dense mesenchyme tissue intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: develops_into UBERON:0006059 ! falx cerebri [Term] id: UBERON:0010091 name: future hindbrain meninges namespace: uberon def: "A multi-tissue structure that develops_into a meninx of hindbrain." [OBOL:automatic] xref: EHDAA2:0000610 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: part_of UBERON:0002028 ! hindbrain intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: develops_into UBERON:0003291 ! meninx of hindbrain [Term] id: UBERON:0010092 name: future metencephalon namespace: uberon def: "A developing anatomical structure that develops_into a metencephalon." [OBOL:automatic] xref: EHDAA2:0000623 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain relationship: part_of UBERON:0002028 ! hindbrain intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: develops_into UBERON:0001895 ! metencephalon [Term] id: UBERON:0010096 name: future myelencephalon namespace: uberon def: "A developing anatomical structure that develops_into a myelencephalon." [OBOL:automatic] xref: EHDAA2:0000640 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002616 ! regional part of brain relationship: part_of UBERON:0002028 ! hindbrain intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: develops_into UBERON:0005290 ! myelencephalon [Term] id: UBERON:0010113 name: future membranous labyrinth namespace: uberon def: "A multi-tissue structure that develops_into a membranous labyrinth." [OBOL:automatic] xref: EHDAA2:0000899 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0005641 ! otocyst epithelium relationship: part_of UBERON:0001846 ! internal ear relationship: part_of UBERON:0004637 ! otic capsule intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: develops_into UBERON:0001849 ! membranous labyrinth [Term] id: UBERON:0010115 name: future dura mater namespace: uberon def: "A meninx that develops_into a dura mater." [OBOL:automatic] xref: EHDAA2:0004317 is_a: UBERON:0002360 ! meninx intersection_of: UBERON:0002360 ! meninx intersection_of: develops_into UBERON:0002363 ! dura mater [Term] id: UBERON:0010122 name: future caudate nucleus namespace: uberon def: "A nucleus of brain that develops_into a caudate nucleus." [OBOL:automatic] xref: EHDAA2:0004461 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0003528 ! brain grey matter relationship: develops_from UBERON:0010082 ! future corpus striatum intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: develops_into UBERON:0001873 ! caudate nucleus [Term] id: UBERON:0010123 name: future facial nucleus namespace: uberon def: "A gray matter of neuraxis that develops_into a facial nucleus." [OBOL:automatic] xref: EHDAA2:0004639 is_a: UBERON:0002020 ! gray matter of neuraxis intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: develops_into UBERON:0000127 ! facial nucleus [Term] id: UBERON:0010124 name: future inferior salivatory nucleus namespace: uberon def: "A gray matter of neuraxis that develops_into a inferior salivatory nucleus." [OBOL:automatic] comment: TODO - devfrom xref: EHDAA2:0004643 intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: develops_into UBERON:0002872 ! inferior salivatory nucleus [Term] id: UBERON:0010125 name: future superior salivatory nucleus namespace: uberon def: "A gray matter of neuraxis that develops_into a superior salivatory nucleus." [OBOL:automatic] xref: EHDAA2:0004644 is_a: UBERON:0002020 ! gray matter of neuraxis intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: develops_into UBERON:0002149 ! superior salivatory nucleus [Term] id: UBERON:0010126 name: future nucleus ambiguus namespace: uberon def: "A gray matter of neuraxis that develops_into a nucleus ambiguus." [OBOL:automatic] xref: EHDAA2:0004647 is_a: UBERON:0002020 ! gray matter of neuraxis intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: develops_into UBERON:0001719 ! nucleus ambiguus [Term] id: UBERON:0010127 name: future dorsal motor nucleus of vagus namespace: uberon def: "A gray matter of neuraxis that develops_into a dorsal motor nucleus of vagus nerve." [OBOL:automatic] xref: EHDAA2:0004650 is_a: UBERON:0000125 ! neural nucleus intersection_of: UBERON:0002020 ! gray matter of neuraxis intersection_of: develops_into UBERON:0002870 ! dorsal motor nucleus of vagus nerve [Term] id: UBERON:0010128 name: future pterygopalatine ganglion namespace: uberon def: "A ganglion that develops_into a pterygopalatine ganglion." [OBOL:automatic] synonym: "future Meckel ganglion" EXACT [MP:0008314, OBOL:automatic] synonym: "future Meckel's ganglion" EXACT [FMA:6965, OBOL:automatic] synonym: "future nasal ganglion" EXACT [MP:0008314, OBOL:automatic] synonym: "future palatine ganglion" EXACT [MP:0008314, OBOL:automatic] synonym: "future pterygopalatine ganglia" EXACT [MP:0008314, OBOL:automatic] synonym: "future sphenopalatine ganglion" EXACT [MP:0008314, OBOL:automatic] synonym: "future sphenopalatine parasympathetic ganglion" EXACT [EHDAA2:0000673, EHDAA2:0001889, OBOL:automatic] xref: EHDAA2:0000673 is_a: UBERON:0001808 ! parasympathetic ganglion relationship: part_of UBERON:0001808 ! parasympathetic ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: develops_into UBERON:0003962 ! pterygopalatine ganglion [Term] id: UBERON:0010129 name: femur cartilage condensation namespace: uberon comment: TODO - request EHDAA2 synonym: "femoral cartilage condensation" EXACT [EMAPA:17742] xref: EMAPA:17742 is_a: UBERON:0005254 ! upper leg mesenchyme is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010885 ! hindlimb bone cartilaginous condensation relationship: develops_from UBERON:0006234 ! femur pre-cartilage condensation relationship: develops_into UBERON:0000981 ! femur relationship: part_of UBERON:0005254 ! upper leg mesenchyme [Term] id: UBERON:0010130 name: autopod plate namespace: uberon def: "the distal elements of the developing limb of vertebrates that will give rise to the pedal appendages (e.g. manus, pes, paw)" [MP:0004576, http://sourceforge.net/tracker/?func=detail&aid=3519614&group_id=76834&atid=1109502] synonym: "limb plate" EXACT [] relationship: develops_from UBERON:0004347 ! limb bud intersection_of: UBERON:0002050 ! embryonic structure intersection_of: develops_into UBERON:0002470 ! autopod region [Term] id: UBERON:0010131 name: conducting tissue of heart namespace: uberon synonym: "specialized conducting tissue of heart" EXACT [FMA:83378] synonym: "specialized muscle tissue of heart" EXACT [FMA:83378] xref: EHDAA2:0004528 xref: FMA:83378 is_a: UBERON:0001133 ! cardiac muscle tissue [Term] id: UBERON:0010132 name: gastroduodenal artery namespace: uberon def: "a small blood vessel in the abdomen that supplies blood directly to the pylorus (distal part of the stomach) and proximal part of the duodenum, and indirectly to the pancreatic head (via the anterior and posterior superior pancreaticoduodenal arteries)." [Wikipedia:Gastroduodenal_artery] synonym: "arteria gastroduodenalis" RELATED LATIN [Wikipedia:Gastroduodenal_artery] xref: EHDAA2:0000310 xref: EHDAA:8574 xref: FMA:14775 xref: SCTID:244269002 xref: galen:GastroduodenalArtery xref: http://upload.wikimedia.org/wikipedia/commons/6/65/Gray532.png is_a: UBERON:0001637 ! artery is_a: UBERON:0004573 ! systemic artery relationship: branch_of UBERON:0005436 ! common hepatic artery relationship: develops_from UBERON:0005436 ! common hepatic artery [Term] id: UBERON:0010133 name: neuroendocrine gland namespace: uberon def: "An endocrine gland that is part of a nervous system." [OBOL:automatic] xref: MA:0000720 is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_part CL:0000165 ! neuroendocrine cell intersection_of: UBERON:0002368 ! endocrine gland intersection_of: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0010134 name: secretory circumventricular organ namespace: uberon xref: MA:0002943 is_a: UBERON:0005408 ! circumventricular organ is_a: UBERON:0010133 ! neuroendocrine gland [Term] id: UBERON:0010135 name: sensory circumventricular organ namespace: uberon xref: MA:0002944 is_a: UBERON:0005408 ! circumventricular organ relationship: part_of UBERON:0001032 ! sensory system [Term] id: UBERON:0010136 name: epithelial sheet namespace: uberon def: "An epithelial sheet is a flat surface consisting of closely packed epithelial cells." [GO:0002011] is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0010137 name: polarized epithelium namespace: uberon def: "A polarized epithelium is an epithelium where the epithelial sheet is oriented with respect to the planar axis." [GO:0001738] is_a: UBERON:0000483 ! epithelium property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000001 [Term] id: UBERON:0010141 name: primitive sex cord of indifferent gonad namespace: uberon def: "A sex cord that is part of a indifferent gonad." [OBOL:automatic] comment: Usage notes: note that this represents the indifferent structure. synonym: "indifferent sex cord" EXACT [] synonym: "primitive sex cords" EXACT [EHDAA2:0004051] xref: EHDAA2:0004051 is_a: UBERON:0004909 ! epithelium of gonad relationship: develops_from UBERON:0005891 ! coelomic epithelium intersection_of: UBERON:0005295 ! sex cord intersection_of: part_of UBERON:0009117 ! indifferent gonad [Term] id: UBERON:0010143 name: seminal vesicle fluid namespace: uberon def: "A bodily secretion that secreted_by a seminal vesicle." [OBOL:automatic] comment: AO notes: in ncit, seminal fluid is a subtype of seminal vesicle secretion synonym: "secretion of seminal vesicle" EXACT [FMA:62969] synonym: "seminal fluid" RELATED INCONSISTENT [] synonym: "seminal vesicle secretion" EXACT [FMA:62969] synonym: "vesicular fluid" BROAD [] xref: FMA:62969 xref: MA:0002526 xref: UMLS:C0036614 xref: UMLS:C0227987 xref: ncithesaurus:Seminal_Fluid xref: ncithesaurus:Seminal_Vesicle_Secretion is_a: UBERON:0006530 ! seminal fluid intersection_of: UBERON:0000456 ! bodily secretion intersection_of: secreted_by UBERON:0000998 ! seminal vesicle [Term] id: UBERON:0010145 name: paraurethral gland namespace: uberon def: "In human anatomy (female), the Skene's glands (also known as the lesser vestibular glands, periurethral glands, skene glands, paraurethral glands, U-spot, or female prostate) are glands located on the anterior wall of the vagina, around the lower end of the urethra. They drain into the urethra and near the urethral opening. These glands are surrounded with tissue, which includes the part of the clitoris that reaches up inside the vagina and swells with blood during sexual arousal." [Wikipedia:Skene%27s_gland] comment: AO notes: in MP female urethral gland, Skene gland and paraurethral gland are exact syns. Note that NCITA seems to use the term in a more generic way, as a parent for skene gland, cowper gland (which may be the same as the male bulbo-urethral gland) synonym: "Skene gland" EXACT [] synonym: "Skene's gland" EXACT [FMA:20083] synonym: "U-spot" RELATED [Wikipedia:Skene%27s_gland] synonym: "female prostate" EXACT [PMID:10668204, Wikipedia:Skene%27s_gland] synonym: "female urethral gland" RELATED INCONSISTENT [] synonym: "glandulae vestibulares minores" RELATED LATIN [Wikipedia:Skene%27s_gland] synonym: "para-urethral gland" EXACT [FMA:20083] synonym: "periurethral gland" EXACT [Wikipedia:Skene%27s_gland] xref: FMA:20083 xref: SCTID:264125007 xref: UMLS:C0221315 xref: http://upload.wikimedia.org/wikipedia/commons/b/b8/Skenes_gland.jpg xref: ncithesaurus:Paraurethral_Gland is_a: UBERON:0002530 ! gland is_a: UBERON:0005398 ! female reproductive gland relationship: part_of UBERON:0000474 ! female reproductive system property_value: sexually_homologous_to UBERON:0002367 [Term] id: UBERON:0010146 name: paraurethral duct namespace: uberon def: "The Skene's ducts are a pair of ducts leading from the Skene's glands to the surface of the vulva, to the left and right of the urethral opening. Like the Skene's glands, they are named after Alexander Skene." [Wikipedia:Skene%27s_ducts] comment: AO notes: FMA has separate class 'duct of paraurethral gland' (FMA:21860) synonym: "Skene's duct" EXACT [FMA:21445] synonym: "duct of Skene's gland" EXACT INCONSISTENT [FMA:21860] synonym: "duct of paraurethral gland" EXACT INCONSISTENT [FMA:21860] synonym: "ductus paraurethrales urethrae femininae" RELATED LATIN [Wikipedia:Skene%27s_ducts] synonym: "female prostate duct" EXACT [PMID:10668204] synonym: "paraurethral gland duct" EXACT INCONSISTENT [FMA:21860] synonym: "periurethral duct" EXACT [] xref: FMA:21445 xref: SCTID:279480006 xref: http://upload.wikimedia.org/wikipedia/commons/b/b8/Skenes_gland.jpg is_a: UBERON:0005156 ! reproductive structure relationship: homologous_to UBERON:0002485 ! prostate duct intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0010145 ! paraurethral gland [Term] id: UBERON:0010147 name: male accessory sex gland namespace: uberon def: "Any gland, other than the gonad, associated with the genital tract, such as the ampulla of the ductus deferens and the bulbourethral, prostate and vesicular glands of the male." [BTO:0004798] xref: BTO:0004798 is_a: UBERON:0005399 ! male reproductive gland relationship: part_of UBERON:0000079 ! male reproductive system [Term] id: UBERON:0010148 name: mating plug namespace: uberon def: "A gelatinous secretion used in the mating of some species. It is deposited by a male into a female genital tract and later hardens into a plug or glues the tract together." [Wikipedia:Mating_plug] synonym: "copulation plug" EXACT [Wikipedia:Mating_plug] synonym: "copulatory plug" EXACT [SPD:0000547] synonym: "sement" RELATED [Wikipedia:Mating_plug] synonym: "sperm plug" EXACT [Wikipedia:Mating_plug] synonym: "sphragis" RELATED [Wikipedia:Mating_plug] synonym: "vaginal plug" EXACT [Wikipedia:Mating_plug] xref: SPD:0000547 is_a: UBERON:0000463 ! portion of organism substance relationship: has_function_in GO:0046692 ! sperm competition property_value: present_in_taxon NCBITaxon:10088 property_value: present_in_taxon NCBITaxon:6656 property_value: present_in_taxon NCBITaxon:9397 property_value: present_in_taxon NCBITaxon:9443 [Term] id: UBERON:0010150 name: duct of major vestibular gland namespace: uberon def: "One of a pair of ducts leading from the Bartholin's glands to the surface of the vulva" [Wikipedia:Bartholin's_duct] synonym: "Bartholin's duct" RELATED INCONSISTENT [Wikipedia:Bartholin's_duct] synonym: "duct of greater vestibular gland" EXACT [FMA:20088] synonym: "greater vestibular gland duct" EXACT [FMA:20088] xref: FMA:20088 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0011831 ! duct of vestibular gland relationship: homologous_to UBERON:0010151 ! duct of bulbourethral gland intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0000460 ! major vestibular gland [Term] id: UBERON:0010151 name: duct of bulbourethral gland namespace: uberon def: "A duct that is part of a bulbo-urethral gland." [OBOL:automatic] synonym: "bulbourethral gland duct" EXACT [FMA:20091] synonym: "duct of bulbo-urethral gland" EXACT [FMA:20091] synonym: "ductus glandulae bulbourethralis" EXACT LATIN [FMA:TA] xref: FMA:20091 xref: SCTID:279709005 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0005904 ! duct of male reproductive system is_a: UBERON:0006554 ! urinary system structure intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0002366 ! bulbo-urethral gland [Term] id: UBERON:0010152 name: skin mucus namespace: uberon comment: Editor notes: Consider making a specific class e.g. mucus coating to represent the entire coating rather than an portion of secretion of a mucus gland in the skin. Candidate definition - \"The epidermal mucus of fish regulates swimming speed by controlling the hydrodynamic resistance of the skin surface. The mucus is also presumed to serve as a defence against pathogenic organisms and is intimately associated with osmoregulation.\" [BTO:0005082] synonym: "epidermal mucus" RELATED [BTO:0005082] xref: BTO:0005082 is_a: UBERON:0000456 ! bodily secretion relationship: develops_from UBERON:0000414 ! mucous gland [Term] id: UBERON:0010153 name: rumen papilla namespace: uberon synonym: "rumen papillae" EXACT PLURAL [] is_a: UBERON:0000064 ! organ part is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0008285 ! rumen epithelium [Term] id: UBERON:0010154 name: inner lining mucosa of the abomasum namespace: uberon def: "the inner mucosa of the fourth stomach chamber of a ruminant produces rennet." [Wikipedia:Rennet] synonym: "rennet" RELATED [BTO:0001168] xref: BTO:0001168 is_a: UBERON:0000344 ! mucosa is_a: UBERON:0006931 ! stomach glandular region mucosa relationship: part_of UBERON:0007358 ! abomasum [Term] id: UBERON:0010155 name: parietomastoid suture namespace: uberon def: "unites the mastoid process of the temporal with the region of the mastoid angle of the parietal[WP:Squamosal_suture]." [] synonym: "parieto-mastoid suture of skull" EXACT [] synonym: "parietomastoid suture of skull" EXACT [FMA:52947] xref: FMA:52947 xref: SCTID:136753005 is_a: UBERON:0003685 ! cranial suture relationship: connects UBERON:0000210 ! tetrapod parietal bone relationship: connects UBERON:0001678 ! temporal bone [Term] id: UBERON:0010156 name: sphenofrontal suture namespace: uberon def: "The Sphenofrontal suture is the cranial suture between the sphenoid bone and the frontal bone." [Wikipedia:Sphenofrontal_suture] synonym: "Sutura sphenofrontalis" RELATED LATIN [Wikipedia:Sphenofrontal_suture] synonym: "frontosphenoid suture" EXACT [FMA:52938] synonym: "spheno-frontal suture" RELATED [] synonym: "sphenofrontal" RELATED [Wikipedia:Sphenofrontal_suture] synonym: "sphenofrontal suture of skull" EXACT [FMA:52938] synonym: "sutura sphenofrontalis" RELATED [Wikipedia:Sphenofrontal_suture] xref: FMA:52938 xref: SCTID:136349005 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray164.png intersection_of: UBERON:0003685 ! cranial suture intersection_of: connects UBERON:0000209 ! tetrapod frontal bone intersection_of: connects UBERON:0001677 ! sphenoid bone [Term] id: UBERON:0010157 name: sphenoparietal suture namespace: uberon def: "The Sphenoparietal suture is the cranial suture between the sphenoid bone and the parietal bone." [Wikipedia:Sphenoparietal_suture] synonym: "Sutura sphenoparietalis" RELATED LATIN [Wikipedia:Sphenoparietal_suture] synonym: "spheno-parietal suture" EXACT [] synonym: "sphenoparietal suture of skull" EXACT [FMA:52945] xref: FMA:52945 xref: SCTID:136551005 xref: http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray164.png intersection_of: UBERON:0003685 ! cranial suture intersection_of: connects UBERON:0000210 ! tetrapod parietal bone intersection_of: connects UBERON:0001677 ! sphenoid bone [Term] id: UBERON:0010158 name: sphenozygomatic suture namespace: uberon def: "The Sphenozygomatic suture is the cranial suture between the sphenoid bone and the zygomatic bone." [Wikipedia:Sphenozygomatic_suture] synonym: "sphenozygomatica suture of skull" EXACT [FMA:52956] synonym: "sutura sphenozygomatica" RELATED LATIN [Wikipedia:Sphenozygomatic_suture] xref: FMA:52956 xref: SCTID:368980007 xref: http://upload.wikimedia.org/wikipedia/commons/a/a7/Gray189.png intersection_of: UBERON:0003685 ! cranial suture intersection_of: connects UBERON:0001677 ! sphenoid bone intersection_of: connects UBERON:0001683 ! jugal bone [Term] id: UBERON:0010159 name: occipitomastoid suture namespace: uberon def: "The occipitomastoid suture is the cranial suture between the occipital bone and the mastoid portion of the temporal bone. It is continuous with the lambdoidal suture." [Wikipedia:Occipitomastoid_suture] synonym: "occipito-mastoid suture" RELATED [Wikipedia:Occipitomastoid_suture] synonym: "occipitomastoid suture of skull" EXACT [FMA:52934] synonym: "sutura occipitomastoidea" RELATED LATIN [Wikipedia:Occipitomastoid_suture] xref: FMA:52934 xref: SCTID:134136005 xref: http://upload.wikimedia.org/wikipedia/commons/d/df/Occipitomastoideus.PNG is_a: UBERON:0003685 ! cranial suture relationship: connects UBERON:0001676 ! occipital bone relationship: connects UBERON:0001678 ! temporal bone [Term] id: UBERON:0010160 name: lumen of lymphatic vessel namespace: uberon def: "An anatomical cavity that surrounded_by a lymphatic vessel." [OBOL:automatic] synonym: "lumen of lymphatic duct" EXACT [FMA:59681] synonym: "lymphatic vessel lumen" EXACT [FMA:59681] xref: FMA:59681 relationship: part_of UBERON:0001473 ! lymphatic vessel intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0001473 ! lymphatic vessel [Term] id: UBERON:0010161 name: lumen of blood vessel namespace: uberon def: "An anatomical cavity that surrounded_by a blood vessel." [OBOL:automatic] synonym: "blood vessel lumen" EXACT [] xref: SCTID:91747007 relationship: part_of UBERON:0001981 ! blood vessel intersection_of: UBERON:0000464 ! anatomical space intersection_of: enclosed_by UBERON:0001981 ! blood vessel [Term] id: UBERON:0010162 name: tail tip namespace: uberon synonym: "end of tail" RELATED [MA:0002848] xref: MA:0002848 xref: XAO:0004057 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0010163 name: eyebrow namespace: uberon def: "The eyebrow is an area of thick, delicate hairs above the eye that follows the shape of the lower margin of the brow ridges. Their main function is to protect the eye, but they are also important to human communication and facial expression. It is not uncommon for people to modify their eyebrows by means of hair addition or removal, make up, or piercings." [Wikipedia:Eyebrow] comment: AO notes: in ncit, this is an \"eye appendage\" subset: phenotype_rcn ! A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA synonym: "supercilium" RELATED LATIN [Wikipedia:Eyebrow] xref: FMA:54237 xref: MESH:A01.456.505.420.338 xref: SCTID:265781000 xref: UMLS:C0015420 xref: http://upload.wikimedia.org/wikipedia/commons/2/29/Eyes_chris.jpg xref: ncithesaurus:Eyebrow is_a: UBERON:0010165 ! collection of hair on face relationship: part_of UBERON:0004088 ! ocular region [Term] id: UBERON:0010164 name: collection of hairs namespace: uberon def: "An anatomical cluster that composed_primarily_of a strand of hair." [OBOL:automatic] synonym: "hairs" EXACT [FMA:70752] synonym: "hairs set" EXACT [FMA:70752] synonym: "pili" EXACT LATIN [FMA:TA] synonym: "set of hairs" EXACT [FMA:70752] xref: FMA:70752 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000477 ! anatomical cluster intersection_of: composed_primarily_of UBERON:0001037 ! strand of hair [Term] id: UBERON:0010165 name: collection of hair on face namespace: uberon def: "A collection of hairs that is part of a face." [OBOL:automatic] subset: phenotype_rcn ! A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA synonym: "facial hair" RELATED [] synonym: "facial hairs set" EXACT [FMA:70741] synonym: "set of facial hairs" EXACT [FMA:70741] xref: FMA:70741 relationship: composed_primarily_of UBERON:0010171 ! strand of hair of face intersection_of: UBERON:0010164 ! collection of hairs intersection_of: part_of UBERON:0001456 ! face [Term] id: UBERON:0010166 name: coat of hair namespace: uberon def: "." [Wikipedia:Coat_(animal)] subset: phenotype_rcn ! A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA synonym: "coat" BROAD [] synonym: "coat pelt" RELATED [] synonym: "fur coat" NARROW [] synonym: "hair coat" EXACT [] synonym: "pelage" RELATED [] synonym: "pelt" RELATED [] synonym: "set of coat hairs" EXACT [] synonym: "wooly coat" NARROW [] xref: ncithesaurus:Coat_Pelt is_a: UBERON:0010164 ! collection of hairs [Term] id: UBERON:0010167 name: beard namespace: uberon def: "the collection of hair that grows on the chin, cheeks and neck of human beings. Usually, only pubescent or adult males are able to grow beards. However, women with hirsutism may develop a beard. When differentiating between upper and lower facial hair, a beard specifically includes the moustache, which refers to hair above the upper lip and around it." [Wikipedia:Beard] subset: phenotype_rcn ! A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA xref: FMA:54240 xref: SCTID:256924005 is_a: UBERON:0010165 ! collection of hair on face [Term] id: UBERON:0010168 name: collection of eyelashes namespace: uberon def: "A collection of hair on face that is part of a eyelash." [OBOL:automatic] synonym: "cilia" EXACT LATIN [FMA:TA] synonym: "eyelashes" EXACT [FMA:70742] synonym: "eyelashes set" EXACT [FMA:70742] synonym: "set of eyelashes" EXACT [FMA:70742] xref: FMA:70742 xref: SCTID:367575006 is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0010165 ! collection of hair on face intersection_of: part_of UBERON:0001702 ! eyelash [Term] id: UBERON:0010169 name: moustache namespace: uberon def: "facial hair grown on the outer surface of the upper lip. It may or may not be accompanied by a type of beard, a facial hair style grown and cropped to cover most of the lower half of the face." [Wikipedia:Moustache] subset: phenotype_rcn ! A subset specifically created for the 2012 Phenotype RCN meeting. Includes some human-specific terms that may eventually be removed when they are adequately represented with part of relationships in FMA synonym: "mustache" EXACT [] xref: FMA:59652 xref: SCTID:256925006 is_a: UBERON:0010165 ! collection of hair on face relationship: part_of UBERON:0004089 ! midface [Term] id: UBERON:0010170 name: region of neural crest namespace: uberon xref: TAO:0000045 xref: ZFA:0000045 is_a: UBERON:0000480 ! anatomical group is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0002342 ! neural crest property_value: external_definition "A cell population arising from the dorsolateral aspect of the central nervous system primordium during the segmentation period, and later migrating along stereotyped pathways to give rise to a diverse and well-defined set of cell types including pigment cells, peripheral neurons and glia, and head cartilage. Kimmel et al, 1995.[TAO]" xsd:string [Term] id: UBERON:0010171 name: strand of hair of face namespace: uberon def: "A strand of hair that is part of a face." [OBOL:automatic] synonym: "face hair" EXACT [FMA:54360] synonym: "face hair strand" EXACT [] synonym: "facial hair" RELATED [FMA:54360] synonym: "hair of face" EXACT [FMA:54360] xref: FMA:54360 xref: SCTID:368910000 intersection_of: UBERON:0001037 ! strand of hair intersection_of: part_of UBERON:0001456 ! face [Term] id: UBERON:0010172 name: bulb of aorta namespace: uberon def: "the portion of the left ventricular outflow tract delineated by the sinotubular ridge superiorly and the bases of the valve leaflets inferiorly; it comprises the aortic sinuses, the aortic valve leaflets, the commissures, and the interleaflet triangles" [MP:0011572] synonym: "aorta bulb" EXACT [MP:0011575] synonym: "aortic bulb" EXACT [FMA:3740] synonym: "aortic root" EXACT [MP:0011572] synonym: "bulb of ascending aorta" EXACT [FMA:3740] synonym: "bulbus aortae" EXACT LATIN [FMA:TA] synonym: "root of aorta" EXACT [FMA:3740] synonym: "supraaortic valve area" EXACT [FMA:3740] xref: FMA:3740 xref: SCTID:362032000 is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001496 ! ascending aorta property_value: external_definition "The dilated first part of the aorta containing the aortic semilunar valves and the aortic sinuses." xsd:string [Term] id: UBERON:0010173 name: sinotubular junction namespace: uberon def: "the point in the ascending aorta where the aortic sinuses end and the aorta becomes a tubular structure" [MP:0011572] synonym: "sinotubular ridge" EXACT [MP:0011572] is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001496 ! ascending aorta [Term] id: UBERON:0010174 name: Schweigger-Seidel sheath namespace: uberon def: "a phagocytic sleeve that is part of a sheathed arteriole of the spleen, and is sometimes referred to as a splenic ellipsoid. It is a spindle-shaped thickening in the walls of the second part of the arterial branches forming the penicilli in the spleen" [PMC:PMC3204613, Wikipedia:Schweigger-Seidel_sheath] is_a: UBERON:0000064 ! organ part is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure relationship: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0002106 ! spleen [Term] id: UBERON:0010175 name: nutrient foramen vein namespace: uberon def: "a vein or veins draining a bone and emerging from a nutrient foramen." [http://www.medilexicon.com/medicaldictionary.php?t=97392] synonym: "nutrient vein" EXACT [FMA:50780] synonym: "vena nutricia" RELATED LATIN [] xref: FMA:50780 is_a: UBERON:0001638 ! vein relationship: overlaps UBERON:0001474 ! bone element [Term] id: UBERON:0010176 name: nutrient foramen artery namespace: uberon def: "The medullary or nutrient artery, usually accompanied by one or two veins, sends branches upward and downward to the bone marrow, which ramify in the medullary membrane, and give twigs to the adjoining canals." [Wikipedia:Nutrient_artery] synonym: "a. nutricia" RELATED LATIN [Wikipedia:Nutrient_artery] synonym: "a. nutriens" RELATED LATIN [Wikipedia:Nutrient_artery] synonym: "aretria nutricia" RELATED LATIN [] synonym: "nutrient artery" EXACT [FMA:50779] xref: FMA:50779 xref: SCTID:337318006 xref: UMLS:C0278431 xref: ncithesaurus:Nutrient_Artery is_a: UBERON:0004573 ! systemic artery relationship: overlaps UBERON:0001474 ! bone element [Term] id: UBERON:0010181 name: straight venules of kidney namespace: uberon def: "The straight venules of kidney are branches from the plexuses at the apices of the medullary pyramids, formed by the terminations of the arteriae rectae. They run outward in a straight course between the tubes of the medullary substance, and joining, as above stated, the interlobular veins, form venous arcades; these in turn unite and form veins which pass along the sides of the pyramids. Contains fenestrated capillaries." [Wikipedia:Straight_venules_of_kidney] synonym: "set of straight venules of kidney" EXACT [FMA:72007] synonym: "venae rectae" RELATED [Wikipedia:Straight_venules_of_kidney] synonym: "venulae rectae" RELATED [Wikipedia:Straight_venules_of_kidney] synonym: "venulae rectae of kidney" EXACT [FMA:72007] synonym: "venulae rectae renis" EXACT LATIN [FMA:TA, Wikipedia:Straight_venules_of_kidney] synonym: "venulae recti" RELATED [Wikipedia:Straight_venules_of_kidney] xref: FMA:72007 xref: SCTID:245983001 xref: Wikipedia:Straight_venules_of_kidney is_a: UBERON:0005629 ! vascular plexus is_a: UBERON:0006544 ! kidney vasculature relationship: part_of UBERON:0002113 ! kidney [Term] id: UBERON:0010183 name: liver trabecula namespace: uberon def: "A trabecula that is part of a liver" [GO:0060344, OBOL:automatic] synonym: "hepatic trabecula" RELATED [] is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000440 ! trabecula intersection_of: part_of UBERON:0002107 ! liver [Term] id: UBERON:0010185 name: rete ovarii namespace: uberon comment: Editor note: todo xref: EMAPA:17966 xref: SCTID:259261007 xref: UMLS:C0227880 xref: ncithesaurus:Rete_Ovarii is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0005156 ! reproductive structure relationship: develops_from UBERON:0005296 ! ovary sex cord relationship: part_of UBERON:0000992 ! female gonad [Term] id: UBERON:0010186 name: male urethral gland namespace: uberon def: "Any of the many glands that branch off the wall of the urethra of male mammals. The glands secrete mucus, which is incorporated into the semen, and are most numerous in the section of the urethra that runs through the penis. [WP,unvetted]." [Wikipedia:Urethral_gland] synonym: "Littre's gland" EXACT [FMA:21443] synonym: "gland of Littre" EXACT [] synonym: "gland of male urethra" EXACT [] synonym: "glandulae urethrales urethrae masculinae" RELATED LATIN [Wikipedia:Urethral_gland] synonym: "male urethra gland" EXACT [] synonym: "urethral gland (male)" EXACT [FMA:21443] xref: EMAPA:29645 xref: FMA:21443 xref: SCTID:303562001 xref: UMLS:C1314737 xref: ncithesaurus:Urethral_Gland intersection_of: UBERON:0001338 ! urethral gland intersection_of: part_of UBERON:0001333 ! male urethra [Term] id: UBERON:0010187 name: female urethral gland namespace: uberon def: "An urethral gland that is part of a female urethra." [OBOL:automatic] synonym: "female urethra gland" EXACT [] synonym: "gland of female urethra" EXACT [] synonym: "urethral gland (female)" EXACT [FMA:21444] xref: EMAPA:29653 xref: FMA:21444 xref: SCTID:279476001 intersection_of: UBERON:0001338 ! urethral gland intersection_of: part_of UBERON:0001334 ! female urethra [Term] id: UBERON:0010188 name: protuberance namespace: uberon def: "A roughly circular bulge in a surface." [EHDAA2:0003250] xref: AEO:0000205 xref: EHDAA2:0003250 xref: FMA:82506 is_a: UBERON:0003102 ! surface structure [Term] id: UBERON:0010189 name: right atrium venous valve namespace: uberon comment: AO notes: part_of in EHDAA2. Only child in MA. synonym: "right venous valve" RELATED [EHDAA2:0001762] xref: EHDAA2:0001762 xref: EMAPA:17010 xref: EMAPA:17328 xref: MA:0001872 is_a: UBERON:0005208 ! right atrium valve [Term] id: UBERON:0010190 name: pair of dorsal aortae namespace: uberon synonym: "paired dorsal aortae" EXACT [EHDAA2:0000410] xref: EHDAA2:0000410 xref: MA:0000476 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0010191 ! aortic system [Term] id: UBERON:0010191 name: aortic system namespace: uberon xref: EHDAA2:0004512 is_a: UBERON:0000480 ! anatomical group [Term] id: UBERON:0010192 name: genital artery namespace: uberon def: "One of the laterally paired arteries that supply the gonads." [ISBN10:0073040584, Wikipedia:Gonadal_artery] synonym: "gonadal artery" EXACT [] is_a: UBERON:0012254 ! abdominal aorta artery relationship: branch_of UBERON:0001516 ! abdominal aorta intersection_of: UBERON:0004573 ! systemic artery intersection_of: supplies UBERON:0000991 ! gonad [Term] id: UBERON:0010193 name: renal portal vein namespace: uberon def: "A portal vein that empties into capillaries within the kidneys." [ISBN10:0073040584] comment: Function notes: function not well understood. [ISBN10:0073040584] synonym: "renal portal veins" EXACT PLURAL [ZFA:0000577] xref: TAO:0000577 xref: ZFA:0000577 is_a: UBERON:0001638 ! vein is_a: UBERON:0003513 ! trunk blood vessel relationship: part_of UBERON:0002201 ! vasculature of trunk [Term] id: UBERON:0010194 name: hepatic portal system namespace: uberon def: "A portal system that begins in capillaries in the wall of the digestive tract and and runs as the hepatic portal vein to the liver." [ISBN10:0073040584] synonym: "hepatic-portal system" EXACT [AAO:0010225] synonym: "portal system of liver" EXACT [] xref: AAO:0010225 is_a: UBERON:0005806 ! portal system property_value: external_definition "Part of the circulatory system which includes the ventral abdominal vein, pelvic veins, and portal vein and collects blood from the pelvic region, liver, gall bladder and stomach.[AAO]" xsd:string [Term] id: UBERON:0010195 name: renal portal system namespace: uberon def: "A portal system that transports blood returning from capillary beds within tail or hindlimbs through paired renal portal veins that empty into capillaries within the kidneys." [ISBN10:0073040584] comment: Function notes: function not well understood. Taxon notes: present in all classes of vertebrates except mammals; the mammalian kidney has a low pressure vascular network that may be its counterpart [ISBN10:0073040584] synonym: "portal system of kidney" EXACT [] synonym: "renal-portal system" EXACT [AAO:0010518] xref: AAO:0010518 is_a: UBERON:0005806 ! portal system property_value: never_in_taxon NCBITaxon:40674 property_value: external_definition "Part of the circulatory system in which the veins of the hindlimb combine to form the pair Jacobson's veins which receive many small vesicles from the kidney and also collects blood from the oviducal vein.[AAO]" xsd:string [Term] id: UBERON:0010197 name: trunk of common carotid artery namespace: uberon def: "The initial part of the entire common carotid artery ending with the point where the artery bifurcates into an external carotid artery and an internal carotid artery." [UBERON:cjm] synonym: "common carotid arterial trunk" EXACT [FMA:69323] synonym: "common carotid artery" RELATED INCONSISTENT [EHDAA2:0000306] xref: EHDAA2:0000306 xref: EMAPA:18610 xref: FMA:69323 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0005396 ! carotid artery segment is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001530 ! common carotid artery plus branches [Term] id: UBERON:0010198 name: carotid duct namespace: uberon def: "a portion of the embryonic dorsal aorta between points of juncture with the third and fourth arch arteries; it disappears early in development." [http://www.medilexicon.com/medicaldictionary.php?s=ductus+caroticus] comment: In amphibians, closes at metamorphosis[Kardong] synonym: "ductus caroticus" EXACT [EMAPA:17006] xref: EMAPA:17006 xref: SCTID:340062006 is_a: UBERON:0003513 ! trunk blood vessel is_a: UBERON:0004573 ! systemic artery relationship: continuous_with UBERON:0003120 ! aortic arch 3 relationship: continuous_with UBERON:0003121 ! aortic arch 4 relationship: part_of UBERON:0005805 ! dorsal aorta [Term] id: UBERON:0010202 name: lateral line namespace: uberon def: "The lateral line consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head and body of all fishes and most amphibians. The lateral line develops from cranial ectodermal placodes situated behind the ear and between the eye and ear." [Wikipedia:Lateral_line, ZFA:0001469] synonym: "lateral lines" EXACT PLURAL [ZFA:0001469] xref: AAO:0011128 xref: TAO:0001469 xref: XAO:0004002 xref: ZFA:0001469 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0009128 ! lateral line placode relationship: part_of UBERON:0002540 ! lateral line system [Term] id: UBERON:0010204 name: tail vasculature namespace: uberon def: "A vasculature that is part of a post-anal tail." [OBOL:automatic] comment: AO notes: isa blood vessel in XAO synonym: "post-vent vasculature" EXACT [ZFA:0005037] synonym: "tail vasculature" RELATED [ZFA:0005037] xref: TAO:0005037 xref: XAO:0004151 xref: ZFA:0005037 intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0007812 ! post-anal tail [Term] id: UBERON:0010205 name: mesencephalic vein namespace: uberon def: "One of the several veins that drain the mesencephalon; the posterior ones are tributaries to the great cerebral vein; the lateral ones are tributaries to the basal vein. The main veins are: pontomesencephalic vein [TA] (vena pontomesencephalica [TA]), interpeduncular veins [TA] (venae interpedunculares [TA]), intercollicular vein [TA] (vena intercollicularis [TA]), and lateral mesencephalic vein [TA] (vena mesencephalica lateralis [TA])[MedLex]. The major vein of the midbrain, which crosses the midbrain medially to meet it's partner the mesencephalic artery[XAO]." [XAO:0004174, http://www.medilexicon.com/medicaldictionary.php?t=97378] comment: Editor notes: review this term, check taxon scope; note FMA has specific subtypes synonym: "msv" RELATED [TAO:0005092] synonym: "vena mesencephalica" EXACT [http://www.medilexicon.com/medicaldictionary.php?s=venae+mesencephalicae] synonym: "venae mesencephalicae" EXACT PLURAL [http://www.medilexicon.com/medicaldictionary.php?s=venae+mesencephalicae] xref: SCTID:43225002 xref: TAO:0005092 xref: XAO:0004174 xref: ZFA:0005092 is_a: UBERON:0001638 ! vein [Term] id: UBERON:0010207 name: nictitating membrane namespace: uberon def: "A fold of the mucous membrane of the conjunctiva in many animals. At rest, it is hidden in the medial canthus. It can extend to cover part or all of the cornea to help clean the cornea." [MESH:A13.660, Wikipedia:Nictitating_membrane] comment: Taxon notes: Some reptiles, birds, and sharks have full nictitating membranes; in many mammals, a small, vestigial portion of the membrane remains in the corner of the eye. Some mammals, such as camels, polar bears, seals, and aardvarks, have full nictitating membranes[WP]. Editor notes: We exclude the shark structure for this via a taxon constraint. synonym: "nictitans" EXACT [http://tolweb.org/Amniota] synonym: "third eyelid" EXACT [MESH:A13.660] xref: MESH:A13.660 xref: UMLS:C0028058 xref: http://en.wikipedia.org/wiki/File:Chickenblinking.jpg xref: ncithesaurus:Nictitating_Membrane is_a: UBERON:0001711 ! eyelid is_a: UBERON:0010305 ! region of conjunctiva relationship: part_of UBERON:0001811 ! conjunctiva property_value: never_in_taxon NCBITaxon:9606 [Term] id: UBERON:0010209 name: plica semilunaris of conjunctiva namespace: uberon def: "The plica semilunaris is a small fold of bulbar conjunctiva on the medial canthus of the eye. It is loose, so that eye movements are not restricted. It is considered a vestigial organ." [Wikipedia:Plica_semilunaris_of_conjunctiva] synonym: "plica semilunaris (conjunctiva)" EXACT [FMA:59045] synonym: "plica semilunaris conjunctivae" RELATED LATIN [Wikipedia:Plica_semilunaris_of_conjunctiva] synonym: "plica semilunaris of the conjunctiva" RELATED [Wikipedia:Plica_semilunaris_of_conjunctiva] synonym: "semilunar fold of conjunctiva" EXACT [FMA:59045] xref: FMA:59045 xref: SCTID:280686009 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Gray1205.png xref: http://upload.wikimedia.org/wikipedia/commons/thumb/1/1e/Gray1205.png/250px-Gray1205.png is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005160 ! vestigial structure relationship: homologous_to UBERON:0010207 ! nictitating membrane relationship: part_of UBERON:0001811 ! conjunctiva [Term] id: UBERON:0010210 name: blood clot namespace: uberon def: "A semisolid gelatinous mass of coagulated blood that consists of red blood cells, white blood cells, and platelets entrapped in a fibrin network." [BTO:0000102, Wikipedia:Thrombus] synonym: "thrombus" RELATED [BTO:0000102] xref: BTO:0000102 xref: galen:BloodClot is_a: UBERON:0000463 ! portion of organism substance relationship: develops_from UBERON:0000178 ! blood relationship: output_of GO:0007596 ! blood coagulation [Term] id: UBERON:0010211 name: granulation tissue namespace: uberon def: "Highly vascularized tissue that replaces the initial fibrin clot in a wound. Vascularization is by ingrowth of capillary endothelium from the surrounding vasculature. The tissue is also rich in fibroblasts (that will eventually produce the fibrous tissue) and leucocytes." [BTO:0003257] xref: BTO:0003257 xref: MESH:A10.165.450 is_a: UBERON:0002384 ! connective tissue relationship: has_part CL:0000057 ! fibroblast relationship: has_part CL:0000738 ! leukocyte relationship: participates_in GO:0042060 ! wound healing [Term] id: UBERON:0010212 name: laryngeal apparatus namespace: uberon def: "Apparatus located between the lungs and the buccal cavity. This apparatus is composed of a pair of arytenoid cartilages that are supported by the cricoid ring." [AAO:0000267] comment: Check this. See also UBERONREF:0000008 synonym: "laryngeal cartilage system" EXACT [EHDAA2:0000904] xref: AAO:0000267 xref: EHDAA2:0000904 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: composed_primarily_of UBERON:0001739 ! laryngeal cartilage relationship: part_of UBERON:0001737 ! larynx relationship: part_of UBERON:0008895 ! splanchnocranium [Term] id: UBERON:0010213 name: laryngeal pre-cartilage condensation namespace: uberon is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010221 ! laryngeal associated mesenchyme relationship: part_of UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0010212 ! laryngeal apparatus [Term] id: UBERON:0010214 name: cricoid pre-cartilage condensation namespace: uberon xref: EHDAA2:0000327 is_a: UBERON:0010213 ! laryngeal pre-cartilage condensation [Term] id: UBERON:0010215 name: arytenoid swellings namespace: uberon def: "paired primordial elevations, on either side of the embryonic larynx, within which the arytenoid cartilages are formed" [http://www.medilexicon.com/medicaldictionary.php?t=87317] comment: AO notes - EHDAA2 and EMAPA appear to be inconsistent xref: EHDAA2:0000146 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005856 ! developing mesenchymal condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010221 ! laryngeal associated mesenchyme relationship: part_of UBERON:0010212 ! laryngeal apparatus [Term] id: UBERON:0010219 name: thyroid pre-cartilage condensation namespace: uberon xref: EHDAA2:0004088 is_a: UBERON:0010213 ! laryngeal pre-cartilage condensation [Term] id: UBERON:0010220 name: arytenoid pre-cartilage condensation namespace: uberon synonym: "arytenoid swelling pre-cartilage condensation" EXACT [EMAPA:17387] xref: EHDAA2:0000144 xref: EMAPA:17387 xref: VHOG:0000998 is_a: UBERON:0010213 ! laryngeal pre-cartilage condensation relationship: develops_from UBERON:0010215 ! arytenoid swellings [Term] id: UBERON:0010221 name: laryngeal associated mesenchyme namespace: uberon comment: Many sources say: thyroid cartilage from arch 4 other laryngeal cartilage (cricoid/arytenoid) from 6? xref: EHDAA2:0004085 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0002539 ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003115 ! pharyngeal arch 4 relationship: has_developmental_contribution_from UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0001737 ! larynx relationship: part_of UBERON:0008895 ! splanchnocranium [Term] id: UBERON:0010222 name: anatomical line between pupils namespace: uberon synonym: "interpupillary line" EXACT [] is_a: UBERON:0006800 ! anatomical line relationship: connects UBERON:0010223 ! left pupil relationship: connects UBERON:0010224 ! right pupil relationship: part_of UBERON:0001456 ! face [Term] id: UBERON:0010223 name: left pupil namespace: uberon def: "A pupil that is part of a left eye." [OBOL:automatic] synonym: "pupil of left eye" EXACT [FMA:58254] xref: FMA:58254 xref: SCTID:368597006 intersection_of: UBERON:0001771 ! pupil intersection_of: part_of UBERON:0004548 ! left eye [Term] id: UBERON:0010224 name: right pupil namespace: uberon def: "A pupil that is part of a right eye." [OBOL:automatic] synonym: "pupil of right eye" EXACT [FMA:58253] xref: FMA:58253 xref: SCTID:368575009 intersection_of: UBERON:0001771 ! pupil intersection_of: part_of UBERON:0004549 ! right eye [Term] id: UBERON:0010225 name: thalamic complex namespace: uberon xref: EHDAA2:0004469 xref: FMA:258745 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0002784 ! regional part of diencephalon relationship: part_of UBERON:0001894 ! diencephalon [Term] id: UBERON:0010226 name: future cardiac ventricle namespace: uberon def: "Multi-tissue structure that is part of the heart tube and will become the cardiac ventricle." [ZFA:0001719] synonym: "presumptive cardiac ventricle heart tube" EXACT [ZFA:0001719] synonym: "primordial cardiac ventricle" EXACT [FMA:71006] synonym: "primordial ventricle" EXACT [FMA:71006] xref: FMA:71006 xref: TAO:0002231 xref: ZFA:0001719 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0004141 ! heart tube [Term] id: UBERON:0010227 name: future cardiac atrium namespace: uberon def: "Multi-tissue structure that is part of the heart tube and will become the cardiac atrium." [ZFA:0001718] synonym: "presumptive atrium heart tube" EXACT [ZFA:0001718] synonym: "primordial atrium" EXACT [FMA:71005] synonym: "primordial cardiac atrium" EXACT [FMA:71005] xref: FMA:71005 xref: TAO:0002228 xref: ZFA:0001718 is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_into UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0004141 ! heart tube [Term] id: UBERON:0010228 name: ruminal fluid namespace: uberon def: "A portion of organism substance that surrounded_by a rumen." [OBOL:automatic] xref: BTO:0004789 intersection_of: UBERON:0000463 ! portion of organism substance intersection_of: located_in UBERON:0007365 ! rumen [Term] id: UBERON:0010229 name: ruminant esophageal groove namespace: uberon def: "A muscular structure at the lower end of the esophagus that, when closed, forms a tube allowing milk to go directly into the abomasum. (This prevents milk from being fermented or soured by the ruminal microorganisms)." [http://www.extension.org/pages/16468/esophageal-groove] comment: The formation of the esophageal groove is controlled by neural stimulation from suckling and milk proteins. This means milk, colostrum, and milk replacer bypass the rumen, while water enters it synonym: "esophageal groove" BROAD SENSU [] synonym: "reticular groove" BROAD SENSU [] synonym: "ruminant reticular groove" EXACT [] xref: BTO:0004789 xref: SCTID:86149002 is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0006846 ! groove relationship: channel_for UBERON:0001913 ! milk relationship: channels_from UBERON:0001043 ! esophagus relationship: channels_into UBERON:0007358 ! abomasum relationship: develops_from UBERON:0007361 ! ruminant reticulum relationship: existence_ends_during UBERON:0000113 ! post-juvenile adult stage [Term] id: UBERON:0010230 name: eyeball of camera-type eye namespace: uberon def: "The camera-type eye apart from its appendages/adnexa." [Wikipedia:Globe_(human_eye)] comment: See notes for camera-type eye synonym: "bulbus oculi" EXACT [] synonym: "eye" RELATED INCONSISTENT [] synonym: "eye globe" EXACT [VHOG:0001616] synonym: "eyeball" EXACT [FMA:12513] synonym: "globe" RELATED [HP:0100886, MIAA:0000283] xref: FMA:12513 xref: MIAA:0000283 xref: SCTID:244486005 xref: VHOG:0001616 is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0010231 name: anatomical line between outer ears namespace: uberon synonym: "otic line" RELATED [] is_a: UBERON:0006800 ! anatomical line relationship: connects UBERON:0006616 ! right external ear relationship: connects UBERON:0006617 ! left external ear [Term] id: UBERON:0010232 name: placodal ectoderm namespace: uberon is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0000924 ! ectoderm [Term] id: UBERON:0010233 name: stroma of thyroid gland namespace: uberon def: "the connective tissue that supports the lobules and follicles of the thyroid gland." [http://www.drugs.com/dict/stroma-of-thyroid-gland.html] synonym: "thyroid gland stroma" EXACT [FMA:86304] synonym: "thyroid stroma" EXACT [] xref: FMA:86304 xref: SCTID:157862000 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0002046 ! thyroid gland [Term] id: UBERON:0010234 name: palatopharyngeus muscle namespace: uberon def: "The palatopharyngeus or palatopharyngeal or pharyngopalatinus muscle is a long, fleshy fasciculus, narrower in the middle than at either end, forming, with the mucous membrane covering its surface, the palatopharyngeal arch." [Wikipedia:Palatopharyngeus_muscle] comment: Structure notes: It is separated from the palatoglossus muscle by an angular interval, in which the palatine tonsil is lodged. It arises from the soft palate, where it is divided into two fasciculi by the levator veli palatini and musculus uvulae synonym: "musculus palatopharyngeus" RELATED LATIN [Wikipedia:Palatopharyngeus_muscle] synonym: "palatopharyngeal muscle" EXACT [] synonym: "palatopharyngeus" EXACT [FMA:46666] synonym: "pharyngopalatinus" RELATED [Wikipedia:Palatopharyngeus_muscle] synonym: "pharyngopalatinus muscle" EXACT [Wikipedia:Palatopharyngeus_muscle] xref: FMA:46666 xref: SCTID:244796000 xref: http://upload.wikimedia.org/wikipedia/commons/1/1b/Musculuspalatopharyngeus.png is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000933 ! pharyngeal muscle is_a: UBERON:0003682 ! palatal muscle is_a: UBERON:0003831 ! respiratory system muscle relationship: has_muscle_insertion UBERON:0001738 ! thyroid cartilage relationship: has_muscle_origin UBERON:0003216 ! hard palate relationship: in_lateral_side_of UBERON:0001042 ! chordate pharynx relationship: innervated_by UBERON:0001759 ! vagus nerve relationship: innervated_by UBERON:0002019 ! accessory XI nerve property_value: external_definition "Palatopharyngeus is a muscle that attaches to the palatine bones, soft palate, and pharynx and is innervated by Cranial Nerve X via the pharyngeal plexus.[FEED]" xsd:string [Term] id: UBERON:0010235 name: uvular muscle namespace: uberon def: "The musculus uvulae (azygos uvulae) is a muscle of the soft palate. It arises from the posterior nasal spine of the palatine bones and from the palatine aponeurosis. It descends to be inserted into the uvula and functions to move and shape it. It is innervated by the pharyngeal branch of the vagus nerve via the pharyngeal plexus[WP]." [Wikipedia:Musculus_uvulae] synonym: "azygos uvulae" RELATED [Wikipedia:Musculus_uvulae] synonym: "m. uvulae" RELATED [Wikipedia:Musculus_uvulae] synonym: "musculus uvulae" RELATED [Wikipedia:Musculus_uvulae] synonym: "musculus uvulae muscle" RELATED [Wikipedia:Musculus_uvulae] synonym: "uvulae muscle" RELATED [Wikipedia:Musculus_uvulae] synonym: "uvular muscle" EXACT [FMA:46733] xref: FMA:46733 xref: SCTID:244797009 xref: http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray169.png is_a: UBERON:0003682 ! palatal muscle relationship: has_muscle_origin UBERON:0003216 ! hard palate relationship: innervated_by UBERON:0000929 ! pharyngeal branch of vagus nerve property_value: external_definition "The muscle of the uvuli is an integral part of the soft palate and is innervated by Cranial Nerve X .[FEED]" xsd:string [Term] id: UBERON:0010238 name: torus pylorus namespace: uberon def: "A fleshy protuberance at the pylorus of some species such as ruminants and pigs, that projects into the lumen of the pyloric canal" [http://medical-dictionary.thefreedictionary.com/torus+pyloricus] synonym: "torus pyloricus" EXACT [] xref: SCTID:14214007 is_a: UBERON:0009034 ! stomach region relationship: part_of UBERON:0001166 ! pylorus property_value: never_in_taxon NCBITaxon:314146 [Term] id: UBERON:0010239 name: spiral colon namespace: uberon def: "A variant of the ascending colon in ruminants and pigs." [Wikipedia:Spiral_colon] comment: Editor notes: Consider merging with ascending colon synonym: "coiled colon" EXACT [] xref: UMLS:C0227374 xref: ncithesaurus:Spiral_Colon is_a: UBERON:0000168 ! segment of colon relationship: continuous_with UBERON:0001157 ! transverse colon relationship: develops_from UBERON:0001045 ! midgut relationship: homologous_to UBERON:0001156 ! ascending colon [Term] id: UBERON:0010240 name: zygomatic gland namespace: uberon def: "a salivary gland best developed in carnivores; located above the zygomatic arch and below the eye. Enlargement or mucocele of the gland causes exophthalmos" [http://medical-dictionary.thefreedictionary.com/zygomatic+gland] synonym: "orbital gland" RELATED [] synonym: "superior buccal gland" RELATED [] synonym: "superior buccal salivary gland" RELATED [] synonym: "upper molar gland" RELATED [] xref: UMLS:C2700338 xref: ncithesaurus:Zygomatic_Gland is_a: UBERON:0010241 ! molar gland is_a: UBERON:0012102 ! buccal salivary gland relationship: part_of UBERON:0001567 ! cheek [Term] id: UBERON:0010241 name: molar gland namespace: uberon def: "A minor salivary gland that is part of a cheek." [OBOL:automatic] comment: a variety of mammals have salivary glands variously terms upper molar/buccal gland - this class groups all of these synonym: "molar salivary gland" EXACT [FMA:59794] xref: FMA:59794 xref: SCTID:59637006 intersection_of: UBERON:0001830 ! minor salivary gland intersection_of: part_of UBERON:0001567 ! cheek [Term] id: UBERON:0010242 name: anterior buccal gland namespace: uberon synonym: "anterior buccal salivary gland" RELATED [] xref: MA:0002700 is_a: UBERON:0010241 ! molar gland is_a: UBERON:0012102 ! buccal salivary gland relationship: part_of UBERON:0001567 ! cheek [Term] id: UBERON:0010243 name: merocrine gland namespace: uberon def: "One in which the secretory cells maintain their integrity throughout the secretory cycle." [BTO:0002324, Wikipedia:Merocrine] xref: BTO:0002324 intersection_of: UBERON:0002530 ! gland intersection_of: capable_of GO:0006887 ! exocytosis property_value: has_relational_adjective "merocrine" xsd:string [Term] id: UBERON:0010244 name: choroid tapetum lucidum namespace: uberon def: "A tapetum lucidum that is part of the choroid. The choroidal tapetum lucidum lies immediately adjacent to the choriocapillaris and external to the retinal epithelium" [PMID:14738502, UBERON:cjm, Wikipedia:Tapetum_lucidum#Classification] comment: AO notes: we make the assumption that the BTO class belongs here rather than with the parent; the other type is the retinal type synonym: "choroidal tapetum lucidum" EXACT [] synonym: "tapetum choroideae" EXACT [BTO:0001828] xref: BTO:0001828 xref: SCTID:3034006 relationship: adjacent_to UBERON:0000966 ! retina intersection_of: UBERON:0004868 ! tapetum lucidum intersection_of: part_of UBERON:0001776 ! optic choroid [Term] id: UBERON:0010245 name: retinal tapetum lucidum namespace: uberon def: "A tapetum lucidum that is part of the retina, within the cytoplasm of the retinal epithelium" [PMID:14738502, UBERON:cjm, Wikipedia:Tapetum_lucidum#Classification] comment: Taxon notes: as seen in teleosts, crocodiles, marsupials and fruit bats[WP] intersection_of: UBERON:0004868 ! tapetum lucidum intersection_of: part_of UBERON:0000966 ! retina property_value: present_in_taxon NCBITaxon:30559 property_value: present_in_taxon NCBITaxon:32443 property_value: present_in_taxon NCBITaxon:8493 property_value: present_in_taxon NCBITaxon:9263 property_value: taxon_notes "In crocodilians, a semicircular area of the retinal epithelium in the superior fundus shows a fair sulfur yellow coloration and is specialized as a tapetum lucidum. " xsd:string property_value: taxon_notes "In the tapetal area, no melanosomes are formed indicating a nonocclusible tapetum in the Caiman sclerops. " xsd:string property_value: taxon_notes "Retinal tapeta lucida are common in fish and some reptiles, but rarely occur in mammals. In most of these species the retinal tapetum can be classified as either a lipid (in some teleosts, mammals) or guanine type (in some teleosts, reptiles). Another differentiation can be made among the retinal tapeta lucida based on whether the tapetum is occlusible (found in most of teleosts), or nonocclusible (or static) (found in mammals)" xsd:string property_value: taxon_notes "the tapetum lucidum is an integral part of the pigment epithelium in primitive teleosts (lying in the pro- cesses of the pigmented epithelial cells). It can vary in chemical nature. " xsd:string [Term] id: UBERON:0010246 name: choroidal guanine tapetum namespace: uberon def: "A choroid tapetum lucidum that is made of a palisade of cells containing stacks of flat hexagonal crystals of guanine" [PMID:14738502, UBERON:cjm, Wikipedia:Tapetum_lucidum#Classification] comment: Taxon notes: elasmobranchii (skates, rays, and sharks) and chimaeras[WP] is_a: UBERON:0010244 ! choroid tapetum lucidum property_value: present_in_taxon NCBITaxon:7778 property_value: present_in_taxon NCBITaxon:7864 property_value: taxon_notes "A choroidal tapetum of reflecting cells lying immediately outside the choriocapillaris is formed in a few primitive teleosts." xsd:string property_value: taxon_notes "The elasmobranch tapetum in Squalus and Scyliorhinus con- sists of sheets of 12b13 superposed guanine crystals in the choroid." xsd:string [Term] id: UBERON:0010247 name: choroidal tapetum cellulosum namespace: uberon def: "A choroid tapetum lucidum that consists of layers of cells containing organized, highly refractive crystals. These crystals are diverse in shape and makeup" [PMID:14738502, UBERON:cjm, Wikipedia:Tapetum_lucidum#Classification] comment: The choroidal stroma adjacent to the tapetum lucidum contains numerous small blood vessels that penetrate the tapetal layer to form a single-layered capillary network, known as the choriocapillaris, on the surface of the tapetum. The tapetum cellulosum is thus interposed between the large branching vessels in the choroid and the single layer of the choriocapillaris beneath the retinal epithelium[PMID:14738502] synonym: "choroid tapetum cellulosum" EXACT [] is_a: UBERON:0010244 ! choroid tapetum lucidum property_value: present_in_taxon NCBITaxon:33554 property_value: present_in_taxon NCBITaxon:9721 property_value: present_in_taxon NCBITaxon:9989 [Term] id: UBERON:0010248 name: choroidal tapetum fibrosum namespace: uberon def: "A choroid tapetum lucidum that is an array of extracellular fibers." [PMID:14738502, UBERON:cjm, Wikipedia:Tapetum_lucidum#Classification] comment: Taxon notes: cows, sheep, goats and horses[WP] synonym: "fibrous tapetum" RELATED [NCBITaxon:9845, PMID:14738502] is_a: UBERON:0010244 ! choroid tapetum lucidum property_value: present_in_taxon NCBITaxon:9788 property_value: present_in_taxon NCBITaxon:9845 [Term] id: UBERON:0010249 name: posterior meningeal artery namespace: uberon def: "The posterior meningeal artery are small vessels which are branches of the ascending pharyngeal artery which supply the dura mater. It passes through the mastoid foramen before entering the cranium via the jugular foramen." [Wikipedia:Posterior_meningeal_artery] synonym: "arteria meningea posterior" RELATED LATIN [Wikipedia:Posterior_meningeal_artery] synonym: "meningeal branches of the ascending pharyngeal artery" RELATED [Wikipedia:Posterior_meningeal_artery] synonym: "posterior meningeal arteries" RELATED PLURAL [Wikipedia:Posterior_meningeal_artery] synonym: "terminal branch of ascending pharyngeal artery" EXACT [FMA:49503] xref: FMA:49503 xref: UMLS:C0221310 xref: http://upload.wikimedia.org/wikipedia/commons/8/81/Gray193.png xref: ncithesaurus:Posterior_Meningeal_Artery is_a: UBERON:0003474 ! meningeal artery [Term] id: UBERON:0010250 name: middle meningeal artery namespace: uberon def: "The middle meningeal artery is typically the third branch of the first part (retromandibular part) of the maxillary artery; one of the two terminal branches of the external carotid artery. After branching off the maxillary artery in the infratemporal fossa, it runs through the foramen spinosum to supply the dura mater and the calvaria. The middle meningeal artery is the largest of the three (paired) arteries which supply the meninges, the others being the anterior meningeal artery and the posterior meningeal artery. In approximately half of subjects it branches into an accessory meningeal artery. The middle meningeal artery runs beneath the pterion. It is vulnerable to injury at this point, where the skull is thin. Rupture of the artery may give rise to an epidural hematoma." [Wikipedia:Middle_meningeal_artery] synonym: "arteria meningea media" RELATED LATIN [Wikipedia:Middle_meningeal_artery] xref: FMA:49711 xref: SCTID:278100005 xref: http://upload.wikimedia.org/wikipedia/commons/1/1e/Middle_meningeal_artery.png is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003474 ! meningeal artery is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0001616 ! maxillary artery [Term] id: UBERON:0010251 name: anterior meningeal artery namespace: uberon def: "a meningeal branch to the dura mater arising from the anterior ethmoidal artery." [Wikipedia:Anterior_ethmoidal_artery#Branches] comment: Editor notes: this needs checking as part of a general revision of the blood vessels and their branches - unclear if the anterior meningeal artery should be treated separately from the anterior ethmoidal artery (ie as a branch) or the same thing synonym: "a. ethmoidalis anterior" RELATED LATIN [Wikipedia:Anterior_ethmoidal_artery] synonym: "anterior ethmoid arteries" RELATED [Wikipedia:Anterior_ethmoidal_artery] synonym: "anterior ethmoid artery" RELATED [Wikipedia:Anterior_ethmoidal_artery] synonym: "anterior meningeal arteries" RELATED [Wikipedia:Anterior_ethmoidal_artery] synonym: "anterior meningeal artery" RELATED [Wikipedia:Anterior_ethmoidal_artery] synonym: "anterior meningeal branch of anterior ethmoidal artery" EXACT [FMA:49993] synonym: "arteria ethmoidalis anterior" RELATED LATIN [Wikipedia:Anterior_ethmoidal_artery] xref: FMA:49993 xref: SCTID:369327009 xref: UMLS:C0226187 xref: http://upload.wikimedia.org/wikipedia/commons/c/ce/Gray514.png xref: ncithesaurus:Anterior_Meningeal_Artery is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003474 ! meningeal artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branch_of UBERON:0012318 ! anterior ethmoidal artery [Term] id: UBERON:0010252 name: 1st arch mandibular mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000037 is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010259 ! 1st arch mesenchyme from neural crest relationship: develops_from UBERON:0007098 ! mandibular neural crest relationship: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme [Term] id: UBERON:0010253 name: 1st arch maxillary mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch maxillary mesenchyme." [OBOL:automatic] xref: EHDAA2:0000044 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0010045 ! 1st arch maxillary mesenchyme is_a: UBERON:0010259 ! 1st arch mesenchyme from neural crest relationship: part_of UBERON:0010045 ! 1st arch maxillary mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010045 ! 1st arch maxillary mesenchyme [Term] id: UBERON:0010254 name: 2nd arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 2nd arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 2 mesenchyme from neural crest" RELATED [] synonym: "neural crest derived arch 2 mesenchyme" EXACT [] synonym: "pharyngeal arch 2 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0000068 xref: EMAPA:16281 is_a: UBERON:0005689 ! 2nd arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest relationship: develops_from UBERON:0007099 ! hyoid neural crest relationship: part_of UBERON:0005689 ! 2nd arch mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0005689 ! 2nd arch mesenchyme [Term] id: UBERON:0010255 name: 3rd arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 3rd arch mesenchyme." [OBOL:automatic] synonym: "3rd pharyngeal arch mesenchyme derived from neural crest" EXACT [VHOG:0000571] synonym: "branchial arch 3 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 3rd arch" EXACT [EMAPA:16404] synonym: "neural crest derived arch 3 mesenchyme" EXACT [] synonym: "pharyngeal arch 3 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0000083 xref: EMAPA:16404 xref: VHOG:0000571 is_a: UBERON:0005690 ! 3rd arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: part_of UBERON:0005690 ! 3rd arch mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0005690 ! 3rd arch mesenchyme property_value: homology_notes "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0010256 name: 4th arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 4th arch mesenchyme." [OBOL:automatic] synonym: "4th pharyngeal arch mesenchyme derived from neural crest" EXACT [VHOG:0000580] synonym: "branchial arch 4 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 4th arch" EXACT [EMAPA:16772] synonym: "neural crest derived arch 4 mesenchyme" EXACT [] synonym: "pharyngeal arch 4 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0000098 xref: EMAPA:16772 xref: VHOG:0000580 is_a: UBERON:0005691 ! 4th arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: part_of UBERON:0005691 ! 4th arch mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0005691 ! 4th arch mesenchyme property_value: homology_notes "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string [Term] id: UBERON:0010257 name: 6th arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from neural crest" RELATED [] synonym: "neural crest derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0004077 is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: part_of UBERON:0010031 ! 6th arch mesenchyme relationship: part_of UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme [Term] id: UBERON:0010258 name: mesenchyme from rhombencephalic neural crest namespace: uberon def: "Mesenchyme that develops_from a rhombencephalon neural crest." [OBOL:automatic] xref: EHDAA2:0004423 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest relationship: part_of UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003852 ! rhombencephalon neural crest [Term] id: UBERON:0010259 name: 1st arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 1 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 1st arch" EXACT [EMAPA:16129] synonym: "neural crest derived arch 1 mesenchyme" EXACT [] synonym: "pharyngeal arch 1 mesenchyme from neural crest" EXACT [] xref: EMAPA:16129 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0010260 name: umbilical blood vessel namespace: uberon def: "A blood vessel that overlaps a umbilical cord." [OBOL:automatic] synonym: "umbilical cord blood vessel" EXACT [] xref: SCTID:408728001 intersection_of: UBERON:0001981 ! blood vessel intersection_of: overlaps UBERON:0002331 ! umbilical cord [Term] id: UBERON:0010262 name: operculum of brain namespace: uberon def: "The most posterior portion of the inferior frontal gyrus of the frontal lobe in the brain. In an axial plane, the Sylvian fissure extends from the operculum posteriorly to divide the frontal from the temporal lobe. Broca's area is a notable part of the operculum, which plays a key role in conversation or speech production, reading and writing. Its vascular supply comes from the M3 branches of the middle cerebral artery[WP]." [Wikipedia:Operculum_%28brain%29] synonym: "operculum" BROAD [HP:0100954] xref: SCTID:362351003 xref: http://upload.wikimedia.org/wikipedia/commons/b/b3/Operculum.png is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001869 ! cerebral hemisphere [Term] id: UBERON:0010263 name: obsolete embryoid body namespace: uberon def: "Embryoid bodies are structures resembling embryos, occurring in several types of germ cell tumors." [BTO:0001718, Wikipedia:Embryoid_body] is_obsolete: true consider: BTO:0001718 comment: Obsoled, as does not cover naturally occurring entity [Term] id: UBERON:0010264 name: hepatopancreas namespace: uberon def: "an organ of the digestive tract of arthropods and molluscs. It provides the functions which in mammals are provided separately by the liver and pancreas, including the production of digestive enzymes, and absorption of digested food." [Wikipedia:Hepatopancreas] xref: BTO:0000597 is_a: UBERON:0003408 ! gland of gut is_a: UBERON:0006925 ! digestive gland relationship: part_of UBERON:0001045 ! midgut property_value: present_in_taxon NCBITaxon:6657 [Term] id: UBERON:0010265 name: mollusc hepatopancreas namespace: uberon def: "." [Wikipedia:Digestive_system_of_gastropods#Hepatopancreas] is_a: UBERON:0010264 ! hepatopancreas [Term] id: UBERON:0010266 name: arthropod hepatopancreas namespace: uberon def: "Digestive gland of crustaceans with functions approximately analogous to liver and pancreas of vertebrates - enzyme secretion, food absorption and storage." [BTO:0000597] comment: Editor notes: this term should be ceded to the arthropod anatomy ontology synonym: "crustacean digestive gland" RELATED [] synonym: "midgut gland" RELATED [BTO:0000597] is_a: UBERON:0005057 ! immune organ is_a: UBERON:0010264 ! hepatopancreas relationship: has_part CL:0000387 ! hemocyte (sensu Nematoda and Protostomia) relationship: part_of UBERON:0002405 ! immune system [Term] id: UBERON:0010267 name: obsolete inferior reticular formation namespace: uberon def: "." [GO:0021728] is_obsolete: true [Term] id: UBERON:0010268 name: obsolete superior reticular formation namespace: uberon def: "." [GO:0021729] is_obsolete: true [Term] id: UBERON:0010269 name: filum terminale internum namespace: uberon synonym: "internal part of filum terminale" EXACT [FMA:256524] xref: FMA:256524 xref: SCTID:315673007 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0005443 ! filum terminale [Term] id: UBERON:0010270 name: filum terminale externum namespace: uberon synonym: "external part of filum terminale" EXACT [FMA:256526] xref: FMA:256526 xref: SCTID:315573001 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0005443 ! filum terminale [Term] id: UBERON:0010271 name: musculus retractor bulbi namespace: uberon def: "Cranial nerve VI innervated; ventral and posterior to the eye." [AAO:0010122] comment: Editors note: TODO - add innervation relationships // In most other mammals it also innervates the musculus retractor bulbi, which can retract the eye for protection[wiki/Abducens_nerve] synonym: "M. retractor bulbi" EXACT [] synonym: "retractor bulbi" EXACT [] synonym: "retractor bulbi muscle" EXACT [] xref: AAO:0010122 is_a: UBERON:0001601 ! extra-ocular muscle property_value: never_in_taxon NCBITaxon:9606 [Term] id: UBERON:0010272 name: hyoid apparatus namespace: uberon def: "A group of bones comprised of hyoid body and two pairs of cornua (i.e. greater cornua and lesser cornua), and lies just below the tongue, above the thyroid cartilage" [http://www.biology-online.org/dictionary/Hyoid_apparatus] comment: Taxon notes: In most mammals, including humans, the hyoid apparatus is shaped like a horseshoe. However, in humans, some of the bones of the hyoid apparatus are fused into a single bone called os hyoideum. In other animals such as frogs, the hyoid apparatus has a hyoid body that is chiefly comprised of hyaline cartilage and two pairs of processes (i.e. alary process and the posteriolateral process). synonym: "apparatus hyobranchialis" RELATED LATIN [] synonym: "apparatus hyoideus" RELATED [http://www.biology-online.org/dictionary/Hyoid_apparatus] synonym: "hyobranchial apparatus" RELATED [AAO:0000225] synonym: "hyolingual system" RELATED [AAO:0000225] xref: AAO:0000225 xref: AAO:0000682 xref: SCTID:410035009 xref: http://palaeos.com/vertebrates/bones/gill_arches/images/ReptileHyoids.gif is_a: UBERON:0000075 ! subdivision of skeletal system is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0005884 ! hyoid arch skeleton property_value: axiom_lost_from_external_ontology "relationship loss: part_of hyolaryngeal complex (AAO:0000226)[AAO]" xsd:string property_value: external_definition "Apparatus located in the floor of the mouth, under the mandibular arcade. The apparatus consists of a central corpus and four pairs of processes. This apparatus serves as the site of insertion for a variety of muscles associated with movements of the tongue and as the origin of the m. hyoglossus.[AAO]" xsd:string [Term] id: UBERON:0010273 name: zone of hyoid bone namespace: uberon def: "A zone of bone organ that is part of a hyoid bone." [OBOL:automatic] synonym: "hyoid bone zone" EXACT [FMA:59494] xref: FMA:59494 xref: SCTID:119534005 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0005913 ! zone of bone organ intersection_of: part_of UBERON:0001685 ! hyoid bone [Term] id: UBERON:0010276 name: vertebral column opening namespace: uberon def: "An anatomical conduit that is part of a vertebra." [OBOL:automatic] comment: AO notes: in AAO this is a space rather than conduit synonym: "vertebral conduit" EXACT [] xref: AAO:0000700 is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: part_of UBERON:0002412 ! vertebra [Term] id: UBERON:0010277 name: mesocardium namespace: uberon def: "The part of the embryonic mesentery which connects the embryonic heart with the body wall in front and the foregut behind." [http://medical-dictionary.thefreedictionary.com/mesocardium] comment: Editor notes: consider merging with heart mesentery xref: MA:0000098 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0003282 ! mesentery of heart relationship: surrounded_by UBERON:0001074 ! pericardial cavity property_value: has_relational_adjective "mesocardial" xsd:string [Term] id: UBERON:0010279 name: pericardial sinus namespace: uberon def: "There are two Pericardial sinuses: transverse and oblique. The cul-de-sac enclosed between the limbs of the inverted U of the venous mesocardium lies behind the left atrium and is known as the oblique sinus. . The passage between the venous and arterial mesocardiabi.e. , between the aorta and pulmonary artery in front and the superior vena cava behindbis termed the transverse sinus. Also, the sinus that forms in the pericardial cavity where the dorso-mesentary pericardium reside. Can be used to pass ligature during cardiac surgery." [Wikipedia:Pericardial_sinus] synonym: "oblique pericardial" RELATED [Wikipedia:Pericardial_sinus] synonym: "oblique pericardial sinus" RELATED [Wikipedia:Pericardial_sinus] synonym: "oblique sinus" RELATED [Wikipedia:Pericardial_sinus] synonym: "pericardial sinuses" RELATED [Wikipedia:Pericardial_sinus] synonym: "transverse pericardial" RELATED [Wikipedia:Pericardial_sinus] synonym: "transverse pericardial sinus" RELATED [Wikipedia:Pericardial_sinus] xref: SCTID:314273005 xref: http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001074 ! pericardial cavity relationship: part_of UBERON:0010277 ! mesocardium [Term] id: UBERON:0010283 name: oblique pericardial sinus namespace: uberon def: "The cul-de-sac enclosed between the limbs of the inverted U of the venous mesocardium lies behind the left atrium.[WP,unvetted]." [Wikipedia:Pericardial_sinus] synonym: "oblique sinus of pericardial cavity" EXACT [FMA:77133] xref: FMA:77133 is_a: UBERON:0010279 ! pericardial sinus [Term] id: UBERON:0010284 name: lacrimal punctum namespace: uberon def: "A minute orifice on the summit of the papillae lacrimales, which is the commencement point of the lacrimal canaliculi." [Wikipedia:Lacrimal_punctum] xref: FMA:59365 xref: SCTID:263344003 xref: http://upload.wikimedia.org/wikipedia/commons/5/53/Gray895.png is_a: UBERON:0000161 ! orifice is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001750 ! lacrimal apparatus [Term] id: UBERON:0010285 name: midbrain basal plate namespace: uberon def: "Portion of tissue that is dorsolateral to the floor plate and part of the midbrain." [ZFA:0000761] synonym: "basal plate midbrain" EXACT [TAO:0000761] xref: EFO:0003567 xref: EHDAA2:0004375 xref: TAO:0000761 xref: ZFA:0000761 is_a: UBERON:0002020 ! gray matter of neuraxis is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003528 ! brain grey matter relationship: part_of UBERON:0009581 ! midbrain mantle layer relationship: part_of UBERON:0010286 ! midbrain neural tube [Term] id: UBERON:0010286 name: midbrain neural tube namespace: uberon def: "Portion of neural tube that gives rise to the midbrain." [ZFA:0007039] xref: TAO:0007039 xref: ZFA:0007039 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003080 ! anterior neural tube [Term] id: UBERON:0010287 name: motor root of facial nerve namespace: uberon synonym: "facial nerve motor root" EXACT [FMA:53419] synonym: "seventh cranial nerve motor root" EXACT [FMA:53419] xref: FMA:53419 xref: SCTID:280191009 is_a: UBERON:0004674 ! facial nerve root relationship: develops_from UBERON:0005239 ! basal plate metencephalon [Term] id: UBERON:0010288 name: future medulla oblongata namespace: uberon def: "A multi-tissue structure that develops_into a medulla oblongata." [OBOL:automatic] xref: EHDAA2:0001088 is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: develops_into UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0010289 name: scleral cartilage namespace: uberon def: "Circular cartilage ringing the posterior portion of the eye in the sclera. Supports the eye." [http://www.fishbase.org/glossary/Glossary.php?q=scleral+cartilage] comment: Taxon notes: May be calcified in chondrichthyans. Tetrapods without this element (e.g., snakes and mammals) have a collagenous sclera. May not be homologous - see PMID:17051547. cup-shaped in birds. Present in monotremes. Editor notes: consider distinguishing cup from predecessor of ossicle. Hall: The scleral cartilaginous cup is a distinctly sepa- rate element composed of hyaline cartilage. Editors notes: relationship to sclera - overlaps? synonym: "scleral cartilage element" EXACT [PMID:17051547] synonym: "scleral cartilaginous cup" NARROW SENSU [PMID:17051547] synonym: "sclerotic cartilage" EXACT [ZFA:0001509] xref: TAO:0001509 xref: ZFA:0001509 is_a: UBERON:0003932 ! cartilage element of chondrocranium is_a: UBERON:0010296 ! scleral skeletal element relationship: develops_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0001773 ! sclera property_value: never_in_taxon NCBITaxon:32525 property_value: external_definition "Bilaterally paired thin continuous band of cartilage that sagitally encircles the eye.[TAO]" xsd:string [Term] id: UBERON:0010290 name: scleral ossicle namespace: uberon def: "A bony plate around the eyes, are situated at the corneal-scleral limbus. They do not articulate with other elements of the skull. Typically, the scleral ossicles overlap the rim of a cup of scleral cartilage that supports the eyeball. Situated near the equator of the eye and may slightly overlap the rim of scleral cartilage." [PMID:17051547] comment: Taxon notes: The distribution of scleral ossicles and scleral cartilage among verte- brate taxa is not the same. Some taxa (e.g., birds) have both elements; some only have one element (e.g., crocodiles only have a scleral cartilage); while others (e.g., snakes) have neither element (Walls, 1942) number of ossicles making up the sclerotic ring as well as the shape of both the individual plates and the sclerotic ring is variable among tetrapod taxa.... It is therefore extremely likely that scleral skeletal elements (ossicles and cartilage) of all rep- tiles (including birds) are homologous (but cannot be assumed for reptiles and teleosts). Function notes: The function of these elements is to support the eye from within the sclera; scleral ossicles play an additional important role during accommodation in terrestrial vertebrates (Lemmrich, 1931; Walls, 1942; King and McLelland, 1984). synonym: "scleral ossicle" EXACT [PMID:17051547] synonym: "sclerotic bone" EXACT [ZFA:0001411] synonym: "sclerotic ossicle" EXACT [] xref: SCTID:45632000 is_a: UBERON:0010296 ! scleral skeletal element relationship: part_of UBERON:0001697 ! orbital region relationship: part_of UBERON:0011156 ! facial skeleton property_value: never_in_taxon NCBITaxon:7777 property_value: never_in_taxon NCBITaxon:7878 [Term] id: UBERON:0010291 name: layer of sclera namespace: uberon def: "." [Wikipedia:Sclera#Histology] is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010292 name: episcleral layer of eyeball namespace: uberon def: "The episclera is the outermost layer of the sclera. It is composed of loose, fibrous, elastic tissue and attaches to Tenon's capsule. A vascular plexus is found between the conjunctiva and the sclera consisting of two layers of vessels, the superficial episcleral vessels and the deep episcleral vessels." [Wikipedia:Episcleral_layer] synonym: "episclera" EXACT [FMA:58362] synonym: "episcleral layer" EXACT [FMA:58362] synonym: "lamina episcleralis" EXACT LATIN [Wikipedia:Episcleral_layer] xref: FMA:58362 xref: SCTID:368850003 xref: UMLS:C0229109 xref: ncithesaurus:Episclera is_a: UBERON:0010291 ! layer of sclera [Term] id: UBERON:0010293 name: suprachoroid lamina namespace: uberon def: "On the external surface of the sclera is a thin membrane, the suprachoroid lamina, composed of delicate non-vascular lamellaebeach lamella consisting of a net-work of fine elastic fibers among which are branched pigment cells. The spaces between the lamellC& are lined by endothelium, and open freely into the perichoroidal lymph space, which, in its turn, communicates with the periscleral space by the perforations in the sclera through which the vessels and nerves are transmitted." [Wikipedia:Suprachoroid_lamina] synonym: "fusca sclerae" RELATED [Wikipedia:Suprachoroid_lamina] synonym: "lamina fusca of sclera" EXACT [FMA:58368] synonym: "lamina fusca sclerae" EXACT LATIN [FMA:TA, Wikipedia:Suprachoroid_lamina] synonym: "lamina fusca scletae" RELATED [Wikipedia:Suprachoroid_lamina] synonym: "lamina suprachorioidea" RELATED LATIN [Wikipedia:Suprachoroid_lamina] synonym: "lamina suprachoroidea" RELATED [Wikipedia:Suprachoroid_lamina] synonym: "suprachoroid lamina of sclera" EXACT [FMA:58368] xref: FMA:58368 xref: SCTID:280607003 is_a: UBERON:0010291 ! layer of sclera [Term] id: UBERON:0010294 name: scleral endothelium namespace: uberon def: "An endothelium that is part of a sclera." [OBOL:automatic] is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010291 ! layer of sclera is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010295 name: substantia propria of sclera namespace: uberon def: "A stroma that is part of a sclera." [OBOL:automatic] synonym: "scleral stroma" EXACT [FMA:58365] synonym: "stroma of sclera" EXACT [FMA:58365] synonym: "subsantia propria" BROAD [] synonym: "subsantia propria sclerae" EXACT [FMA:58365] xref: FMA:58365 xref: SCTID:368851004 xref: UMLS:C1704397 xref: ncithesaurus:Substantia_Propria is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0010291 ! layer of sclera intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010296 name: scleral skeletal element namespace: uberon comment: An eye adnexal structure, but not necessarily part of the eyeball is_a: UBERON:0004765 ! skeletal element is_a: UBERON:0010321 ! skeletal element of eye region relationship: part_of UBERON:0000019 ! camera-type eye property_value: never_in_taxon NCBITaxon:40674 [Term] id: UBERON:0010297 name: endochondral scleral ossicle namespace: uberon comment: Taxon notes: The scleral ossicles [of teleosts] are reported to form indirectly by endochondral (Hall and Miyake, 1992) or by perichondral ossification (Patterson, 1977) from a cartilage element that is also present in the sclera. This is unlike the scleral ossicles of reptiles, which develop directly from ectomesenchyme (i.e., intramembranous ossification) and independently from the scleral cartilage[PMID:17051547] xref: TAO:0001411 xref: ZFA:0001411 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0010290 ! scleral ossicle relationship: develops_from UBERON:0010289 ! scleral cartilage relationship: part_of UBERON:0002241 ! chondrocranium property_value: never_in_taxon NCBITaxon:32523 property_value: external_definition "A pair of small dish-shaped bones that cap the anterior and posterior margin of the eyeball.[TAO]" xsd:string [Term] id: UBERON:0010298 name: intramembranous scleral ossicle namespace: uberon comment: Development notes: The scleral ossicles [in reptiles] are of dermal (neural crest) origin, develop intramembranously within the scleral mesenchyme, and are induced to form by overlying (transient) epithelial scleral papillae (Nelson, 1942; Murray, 1943; Fyfe and Hall, 1981, 1983; Hall, 1981, 2005; Pinto and Hall, 1991) is_a: UBERON:0002514 ! intramembranous bone is_a: UBERON:0003462 ! facial bone is_a: UBERON:0010290 ! scleral ossicle relationship: develops_in UBERON:0010299 ! scleral mesenchyme relationship: induced_by UBERON:0010300 ! epithelial scleral papilla layer property_value: never_in_taxon NCBITaxon:32443 [Term] id: UBERON:0010299 name: scleral mesenchyme namespace: uberon def: "Mesenchyme surrounding the developing optic cup which develops into the sclera." [PMID:16496288, UBERON:cjm] comment: Development notes: The mesenchyme surrounding the developing optic cup differentiates into the sclera, the dense fibrous coat of the eye.. PMID:16496288 is_a: UBERON:0003104 ! mesenchyme [Term] id: UBERON:0010300 name: epithelial scleral papilla layer namespace: uberon comment: Development notes: The scleral ossicles are of dermal (neural crest) origin, develop intramembranously within the scleral mesenchyme, and are induced to form by overlying (transient) epithelial scleral papillae (Nelson, 1942; Murray, 1943; Fyfe and Hall, 1981, 1983; Hall, 1981, 2005; Pinto and Hall, 1991). Taxon notes: Scleral papillae (which induce scleral ossicles in birds) have not been reported in teleosts, but evidence for their presence may not have been sought synonym: "scleral papillae" EXACT [] is_a: UBERON:0000483 ! epithelium relationship: develops_in UBERON:0010299 ! scleral mesenchyme [Term] id: UBERON:0010302 name: amnioserosa namespace: uberon def: "a single extraembryonic epithelium, which closes the germband dorsally." [doi:10.1073/pnas.0709145105] comment: Editor's notes: May be obsoleted once added to insect ontology. Coordinate with cell type in CL synonym: "amnion-serosa" RELATED [BTO:0004800] xref: BTO:0004800 xref: EFO:0000250 xref: FBbt:00000095 is_a: UBERON:0010303 ! extraembryonic epithelium [Term] id: UBERON:0010303 name: extraembryonic epithelium namespace: uberon def: "An epithelium that is part of a extraembryonic structure." [OBOL:automatic] synonym: "extra-embryonic epithelium" EXACT [] intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000478 ! extraembryonic structure [Term] id: UBERON:0010304 name: non-keratinized stratified squamous epithelium namespace: uberon def: "Stratified squamous epithelium is a stratified squamous epithelium, the cells of which synthesizes but does not accumulate keratin. Examples: epithelium of vagina, epithelium of wall of esophagus." [FMA:45569, Wikipedia:Stratified_squamous_epithelium#Nonkeratinized] synonym: "epithelium stratificatum squamosum noncornificatum" EXACT [FMA:45569] synonym: "nonkeratinizing stratified squamous epithelium" EXACT [FMA:45569] xref: FMA:45569 is_a: UBERON:0006915 ! stratified squamous epithelium disjoint_from: UBERON:0012329 ! keratinized stratified squamous epithelium [Term] id: UBERON:0010305 name: region of conjunctiva namespace: uberon def: "The conjunctiva is divided into 3 parts." [Wikipedia:Conjunctiva#Gross_anatomy] subset: grouping_class ! Subset consisting of classes creating for grouping purposes synonym: "conjunctiva subdivision" EXACT [FMA:59023] xref: FMA:59023 is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000064 ! organ part intersection_of: part_of UBERON:0001811 ! conjunctiva [Term] id: UBERON:0010306 name: bulbar conjunctiva namespace: uberon comment: covers the eyeball, over the sclera. This region of the conjunctiva is tightly bound to the underlying sclera by Tenon's capsule and moves with the eyeball movements. synonym: "ocular conjunctiva" EXACT [Wikipedia:Conjunctiva] xref: FMA:59024 xref: SCTID:264509009 xref: UMLS:C0229275 xref: ncithesaurus:Bulbar_Conjunctiva is_a: UBERON:0010305 ! region of conjunctiva [Term] id: UBERON:0010307 name: conjunctival fornix namespace: uberon def: "line of reflexion of the conjunctiva from the eyelid to the eyeball." [http://medical-dictionary.thefreedictionary.com/conjunctival+fornix] comment: Forms the junction between the bulbar and palpebral conjunctivas. It is loose and flexible, allowing the free movement of the lids and eyeball synonym: "fornix conjunctiva" EXACT LATIN [Wikipedia:Conjunctiva] xref: FMA:59016 xref: SCTID:276831007 is_a: UBERON:0010305 ! region of conjunctiva [Term] id: UBERON:0010308 name: os opticus namespace: uberon def: "Scleral element located at the posterior pole of the scleral cartilage surrounding the foramen through which the optic nerve fibers pass. the internal architecture of this bone reveals a cancellous marrow cavity with fatty tissue." [PMID:16496288] comment: Taxon notes: At present, it has been documented in 219 species from 35 families, including perching birds, woodpeckers, hummingbirds, toucans, kingfishers, and falcons (Tiemeier, 1950). Morphologically, this element varies in shape from a complete encircling element in some woodpeckers (e.g., Melanerpes eryth- rocephalus) to an abbreviated arc in Gallus synonym: "Gemminger's ossicle" EXACT [PMID:16496288] synonym: "os nervi optici" EXACT [PMID:16496288] is_a: UBERON:0010298 ! intramembranous scleral ossicle [Term] id: UBERON:0010309 name: palpebral bone namespace: uberon def: "An ossified element investing the upper eyelid." [PMID:16496288, Wikipedia:Palpebral_(bone)] comment: Taxon notes: The most extreme development of the palpebral is found in the armored dino- saur Euoplocephalus tutus, where the bone forms a quarter-sphere and adducts to completely occlude the or- bit (Coombs, 1972; Vickaryous and Russell, 2003). Notwithstanding the superficially similar position, palpe- brals and tarsal plates differ both anatomically and developmentally and are not considered homologous (Gauthier et al., 1988). Editor notes PMID:16496288 says 'invests' the eyelid, is this consistent across taxa? synonym: "palpebral" EXACT [] is_a: UBERON:0003462 ! facial bone is_a: UBERON:0010321 ! skeletal element of eye region intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001712 ! upper eyelid [Term] id: UBERON:0010310 name: nictitating membrane lamina namespace: uberon def: "thin cartilage element that stiffens the nictitating membrane." [PMID:16496288] comment: Taxon notes: these laminae may consist of purely hyaline cartilage (cats and horses) or may be heavily invested with elastic fibers (dogs, pigs, and cows; Schlegel et al., 2001) synonym: "cartilago intercipiens" EXACT [PMID:16496288] is_a: UBERON:0003581 ! eyelid connective tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0010207 ! nictitating membrane [Term] id: UBERON:0010311 name: scleral sesamoid bone namespace: uberon def: "A sesamoid bone that lies adjacent to the tendon of one of the muscles responsible for adducting the nictitating membrane (the pyramidal nictitating muscle) " [PMID:16496288] comment: Structure notes: During contraction, the scleral sesamoid bone acts to anchor the pyramidal nictitating muscle to the sclera and divert the tendon from pro- jecting over the cornea. It remains to be determined whether this is indeed a true sesamoid (sensu; Vickaryous and Olson, 2006), as the scleral sesa- moid is actually invested within the synovial tendon sheath and not the tendon per se synonym: "scleral sesamoid" EXACT [PMID:16496288] synonym: "scleral sesamoid element" EXACT [] synonym: "sesamoideum esclerae" EXACT [PMID:16496288] is_a: UBERON:0001479 ! sesamoid bone is_a: UBERON:0010290 ! scleral ossicle [Term] id: UBERON:0010312 name: immature eye namespace: uberon def: "Developing anatomical structure that develops into the eyeball and associated structures." [ZFA:0001678] synonym: "future eye" EXACT [] xref: TAO:0002201 xref: ZFA:0001678 relationship: develops_from UBERON:0003071 ! eye primordium intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_developmental_contribution_from UBERON:0003071 ! eye primordium property_value: external_definition "Multi-tissue structure that consists of the structures that develop into the retina and lens.[TAO]" xsd:string [Term] id: UBERON:0010313 name: neural crest-derived structure namespace: uberon def: "An anatomical structure that develops from the neural crest." [UBERON:cjm] comment: Grouping term for query purposes subset: grouping_class ! Subset consisting of classes creating for grouping purposes is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0002342 ! neural crest [Term] id: UBERON:0010314 name: structure with developmental contribution from neural crest namespace: uberon def: "An anatomical structure that has some part that develops from the neural crest." [UBERON:cjm] comment: Grouping term for query purposes subset: grouping_class ! Subset consisting of classes creating for grouping purposes intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_developmental_contribution_from UBERON:0002342 ! neural crest [Term] id: UBERON:0010316 name: germ layer / neural crest namespace: uberon is_a: UBERON:0000479 ! tissue is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0002532 ! epiblast (generic) [Term] id: UBERON:0010317 name: obsolete germ layer / neural crest derived structure namespace: uberon is_obsolete: true comment: Grouping term for query purposes [Term] id: UBERON:0010321 name: skeletal element of eye region namespace: uberon def: "A skeletal element that is part of a ocular region." [OBOL:automatic] synonym: "eye skeleton" RELATED [] synonym: "ocular skeleton" RELATED [] synonym: "skeletal element of ocular region" RELATED [] is_a: UBERON:0010313 ! neural crest-derived structure relationship: develops_from UBERON:0002342 ! neural crest relationship: part_of UBERON:0011156 ! facial skeleton intersection_of: UBERON:0004765 ! skeletal element intersection_of: part_of UBERON:0004088 ! ocular region [Term] id: UBERON:0010323 name: cranial skeletal system namespace: uberon def: "Skeletal subdivision of the head including skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." [VSAO:0000049] comment: Note that the cranial skeleton includes the pharyngeal arch skeleton. It is thus more inclusive that the cranium itself, and extends beyond the head in tetrapods. The AAO class called 'skull' belongs here, as it includes the whole splanchnocranium. Editor notes: we use 'cranial skeletal system', so that we can include the skull, which has joints/sutures as parts (recall, we follow FMA in distinguishing between the skeleton and skeletal system - only the latter includes joints) synonym: "cranial skeleton" NARROW [] synonym: "cranium" RELATED INCONSISTENT [ZFA:0000737] synonym: "osteocranium" NARROW [] xref: AAO:0000109 xref: AAO:0000971 xref: AAO:0010185 xref: TAO:0000737 xref: VSAO:0000049 xref: XAO:0003075 xref: ZFA:0000737 is_a: UBERON:0000075 ! subdivision of skeletal system relationship: part_of UBERON:0011137 ! axial skeletal system property_value: external_definition "Bony structure that encases the central nervous system and the primary sense organs of sight, olfaction, hearing, and equilibrium.[AAO]" xsd:string property_value: external_definition "Skeletal system which is part of the skull, including the splanchnocranium, chondrocranium, and dermatocranium.[TAO]" xsd:string [Term] id: UBERON:0010324 name: obsolete craniofacial region namespace: uberon is_obsolete: true consider: UBERON:0001456 ! face xref: VSAO:0000083 [Term] id: UBERON:0010325 name: obsolete craniofacial skeleton namespace: uberon def: "Cranial skeleton derived from neural crest cells." [VSAO:0000082] is_obsolete: true consider: UBERON:0011156 ! facial skeleton synonym: "Cranio-facial skeleton" EXACT [VSAO:curator] xref: VSAO:0000082 [Term] id: UBERON:0010326 name: optic pedicel namespace: uberon def: "permanent cartilage structure projecting from the site of origin of the recti muscles. Supports eyeball and aids rotation." [ISBN10:071676959X, PMID:16496288] synonym: "eye stalk" RELATED [] is_a: UBERON:0003932 ! cartilage element of chondrocranium is_a: UBERON:0010321 ! skeletal element of eye region relationship: part_of UBERON:0004088 ! ocular region [Term] id: UBERON:0010327 name: obsolete early digestive tract associated mesenchyme namespace: uberon is_obsolete: true [Term] id: UBERON:0010328 name: limb bud mesenchyme namespace: uberon def: "Mesenchyme that is part of a limb bud." [OBOL:automatic] is_a: UBERON:0010329 ! limb/fin bud mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004347 ! limb bud [Term] id: UBERON:0010329 name: limb/fin bud mesenchyme namespace: uberon def: "Mesenchyme that is part of a limb/fin bud." [OBOL:automatic] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010377 ! mesenchyme from somatopleure relationship: develops_from UBERON:0010377 ! mesenchyme from somatopleure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004357 ! limb/fin bud [Term] id: UBERON:0010330 name: eyelid mesenchyme namespace: uberon def: "Mesenchyme that is part of a eyelid." [OBOL:automatic] is_a: UBERON:0003314 ! eye mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001711 ! eyelid [Term] id: UBERON:0010332 name: epithelium of handplate namespace: uberon def: "An epithelium that is part of a handplate." [OBOL:automatic] synonym: "handplate epithelium" EXACT [EHDAA2:0000730] xref: EHDAA2:0000730 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0003372 ! pectoral appendage bud ectoderm intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0006875 ! handplate [Term] id: UBERON:0010333 name: extraembryonic membrane mesenchyme namespace: uberon def: "Mesenchyme that is part of a extraembryonic membrane." [OBOL:automatic] is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0005728 ! extraembryonic mesoderm intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005631 ! extraembryonic membrane [Term] id: UBERON:0010334 name: maxillary process mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a maxillary process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004601 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0009526 ! maxillary process mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: develops_from UBERON:0010253 ! 1st arch maxillary mesenchyme from neural crest relationship: part_of UBERON:0009526 ! maxillary process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0009526 ! maxillary process mesenchyme [Term] id: UBERON:0010335 name: maxillary process mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a maxillary process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004602 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0009526 ! maxillary process mesenchyme relationship: develops_from UBERON:0010338 ! 1st arch maxillary mesenchyme from head mesenchyme relationship: part_of UBERON:0009526 ! maxillary process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0009526 ! maxillary process mesenchyme [Term] id: UBERON:0010336 name: mandibular process mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004603 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0006905 ! mandibular process mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: develops_from UBERON:0010252 ! 1st arch mandibular mesenchyme from neural crest relationship: part_of UBERON:0006905 ! mandibular process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme [Term] id: UBERON:0010337 name: mandibular process mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004604 is_a: UBERON:0000078 ! mixed ectoderm/mesoderm/endoderm-derived structure is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0006905 ! mandibular process mesenchyme relationship: develops_from UBERON:0010339 ! 1st arch mandibular mesenchyme from head mesenchyme relationship: part_of UBERON:0006905 ! mandibular process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme [Term] id: UBERON:0010338 name: 1st arch maxillary mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch maxillary mesenchyme." [OBOL:automatic] xref: EHDAA2:0000043 is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010045 ! 1st arch maxillary mesenchyme is_a: UBERON:0010341 ! 1st arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0010045 ! 1st arch maxillary mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010045 ! 1st arch maxillary mesenchyme [Term] id: UBERON:0010339 name: 1st arch mandibular mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000036 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010341 ! 1st arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme [Term] id: UBERON:0010341 name: 1st arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 1st arch" EXACT [EMAPA:16130] xref: EMAPA:16130 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme relationship: part_of UBERON:0010042 ! 1st arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0010343 name: 2nd arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 2nd arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 2 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 2 mesenchyme" EXACT [] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 2nd arch" EXACT [EMAPA:16280] synonym: "pharyngeal arch 2 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0000067 xref: EMAPA:16280 is_a: UBERON:0005689 ! 2nd arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0005689 ! 2nd arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0005689 ! 2nd arch mesenchyme [Term] id: UBERON:0010344 name: 3rd arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 3rd arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 3 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 3 mesenchyme" EXACT [] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 3rd arch" EXACT [EMAPA:16403] synonym: "pharyngeal arch 3 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0000082 xref: EMAPA:16403 is_a: UBERON:0005690 ! 3rd arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0005690 ! 3rd arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0005690 ! 3rd arch mesenchyme [Term] id: UBERON:0010345 name: 4th arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 4th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 4 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 4 mesenchyme" EXACT [] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 4th arch" EXACT [EMAPA:16771] synonym: "pharyngeal arch 4 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0000097 xref: EMAPA:16771 is_a: UBERON:0005691 ! 4th arch mesenchyme is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0005691 ! 4th arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0005691 ! 4th arch mesenchyme [Term] id: UBERON:0010347 name: 6th arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0004078 is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0010031 ! 6th arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme [Term] id: UBERON:0010348 name: hyoid pre-muscle mass namespace: uberon synonym: "hyoid muscle plate" RELATED [] xref: EHDAA2:0000795 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005865 ! pre-muscle condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0010343 ! 2nd arch mesenchyme from head mesenchyme [Term] id: UBERON:0010349 name: otic capsule pre-cartilage condensation namespace: uberon synonym: "otic capsule anlage" EXACT [] xref: EHDAA2:0000833 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0007524 ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: part_of UBERON:0001846 ! internal ear relationship: part_of UBERON:0003110 ! otic region [Term] id: UBERON:0010351 name: otic capsule cartilage condensation namespace: uberon xref: EHDAA2:0001333 xref: EHDAA:4704 xref: EMAPA:17596 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005863 ! cartilaginous condensation is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: adjacent_to UBERON:0001694 ! petrous part of temporal bone relationship: develops_from UBERON:0010349 ! otic capsule pre-cartilage condensation relationship: part_of UBERON:0001846 ! internal ear relationship: part_of UBERON:0003110 ! otic region [Term] id: UBERON:0010354 name: Reichert's cartilage pre-cartilage condensation namespace: uberon synonym: "future Reichert's cartilage" EXACT [] synonym: "hyoid cartilage pre-cartilage condensation" EXACT [EMAPA:17351] xref: EMAPA:17351 is_a: UBERON:0005866 ! pre-cartilage condensation is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest relationship: develops_from UBERON:0010254 ! 2nd arch mesenchyme from neural crest [Term] id: UBERON:0010355 name: ossification center namespace: uberon def: "The first step in ossification of the cartilage is that the cartilage cells, at the point where ossification is commencing and which is termed a ossification center, enlarge and arrange themselves in rows. The matrix in which they are imbedded increases in quantity, so that the cells become further separated from each other. A deposit of calcareous material now takes place in this matrix, between the rows of cells, so that they become separated from each other by longitudinal columns of calcified matrix, presenting a granular and opaque appearance. Here and there the matrix between two cells of the same row also becomes calcified, and transverse bars of calcified substance stretch across from one calcareous column to another. Thus there are longitudinal groups of the cartilage cells enclosed in oblong cavities, the walls of which are formed of calcified matrix which cuts off all nutrition from the cells; the cells, in consequence, atrophy, leaving spaces called the primary areolC&." [Wikipedia:Ossification_center] comment: Editors note: currently classified as a zone of a bone organ, but exists prior to bone ossifying synonym: "center of ossification" RELATED [Wikipedia:Ossification_center] synonym: "centrum ossificationis" EXACT LATIN [FMA:TA, Wikipedia:Ossification_center] synonym: "ossification centre" EXACT [FMA:75436] xref: FMA:75436 xref: http://upload.wikimedia.org/wikipedia/commons/f/fd/Gray79.png is_a: UBERON:0005913 ! zone of bone organ [Term] id: UBERON:0010356 name: primary ossification center namespace: uberon def: "A primary ossification center is the first area of a bone to start ossifying. It usually appears during prenatal development in the central part of each developing bone. In long bones the primary centers occur in the diaphysis/shaft and in irregular bones the primary centers occur usually in the body of the bone. Most bones have only one primary center (e.g. all long bones) but some irregular bones such as the os coxa (hip) and vertebrae have multiple primary centers." [Wikipedia:Ossification_center#Primary] synonym: "centrum ossificationis primarium" EXACT LATIN [NominaAnatomica:NA] synonym: "primarium" BROAD [FMA:TA] synonym: "primary ossification centre" EXACT [FMA:75447] xref: FMA:75447 xref: UMLS:C1184750 xref: ncithesaurus:Primary_Ossification_Center is_a: UBERON:0010355 ! ossification center [Term] id: UBERON:0010357 name: secondary ossification center namespace: uberon def: "A secondary ossification center is the area of ossification that appears after the primary ossification center has already appeared - most of which appear during the postnatal and adolescent years. Most bones have more than one secondary ossification center. In long bones, the secondary centres appear in the epiphyses." [Wikipedia:Ossification_center#Secondary] synonym: "centrum ossificationis secundarium" EXACT LATIN [NominaAnatomica:NA] synonym: "secondary ossification centre" EXACT [FMA:75448] synonym: "secundarium" BROAD [FMA:TA] xref: FMA:75448 is_a: UBERON:0010355 ! ossification center [Term] id: UBERON:0010358 name: arch of centrum of vertebra namespace: uberon comment: AO notes: Note that humans do not have hemal arches, so VA=NA for FMA synonym: "arch of vertebra" NARROW [FMA:11946] synonym: "arcus vertebrae (vertebralis)" NARROW [FMA:11946] synonym: "vertebra arch" NARROW [MA:0001453] synonym: "vertebral arch" NARROW [FMA:11946] xref: FMA:11946 xref: VHOG:0001670 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004765 ! skeletal element relationship: part_of UBERON:0002412 ! vertebra property_value: homology_notes " (...) certain common components [of vertebral structure] are found in nearly all vertebrate. A representative vertebra has a vertebral arch or neural arch, which extends dorsally around the spinal cord.[well established][VHOG]" xsd:string [Term] id: UBERON:0010359 name: pharyngeal arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements UBERONREF:0000002 NC meeting scheme synonym: "arch mesenchyme from neural crest" EXACT [] synonym: "branchial arch mesenchyme from neural crest" EXACT [] synonym: "neural crest derived arch mesenchyme" EXACT [] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010360 name: pharyngeal arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements UBERONREF:0000002 NC meeting scheme synonym: "arch mesenchyme from head mesenchyme" EXACT [] synonym: "branchial arch mesenchyme from head mesenchyme" EXACT [] synonym: "head mesenchyme derived arch mesenchyme" EXACT [] is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010361 name: synostosis namespace: uberon def: "Nonsynovial joint in which the articulating bones are connected by bone. Examples: epiphyseal junction, manubriosternal synostosis." [FMA:7499] synonym: "bony union" EXACT [FMA:7499] synonym: "junctura ossea" EXACT LATIN [FMA:TA] xref: FMA:7499 xref: SCTID:1216008 xref: ZFA:0005610 is_a: UBERON:0011134 ! nonsynovial joint [Term] id: UBERON:0010362 name: endoskeleton namespace: uberon def: "Skeletal subdivision that undergoes indirect development and includes elements that develop as a replacement or substitution of other elements or tissues[VSAO]." [VSAO:0000037, Wikipedia:Endoskeleton] synonym: "replacement skeleton" EXACT [VSAO:curator] xref: VSAO:0000037 xref: XAO:0004026 is_a: UBERON:0010912 ! subdivision of skeleton relationship: composed_primarily_of UBERON:0010522 ! replacement element property_value: external_definition "An endoskeleton is an internal support structure of an animal, composed of mineralized tissue. Endoskeleton develops within the skin or in the deeper body tissues. The vertebrate is basically an endoskeleton made up of two types of tissues (bone and cartilage). During early embryonic development the endoskeleton is composed of notochord and cartilage. The notochord in most vertebrates is replaced by vertebral column and cartilage is replaced by bone in most adults. In three phyla and one subclass of animals, endoskeletons of various complexity are found: Chordata, Echinodermata, Porifera, and Coleoidea. An endoskeleton may function purely for support (as in the case of sponges), but often serves as an attachment site for muscle and a mechanism for transmitting muscular forces. A true endoskeleton is derived from mesodermal tissue. Such a skeleton is present in echinoderms and chordates. The poriferan 'skeleton' consists of microscopic calcareous or siliceous spicules or a spongin network. The Coleoidae do not have a true endoskeleton in the evolutionary sense; here, a mollusk exoskeleton evolved into several sorts of internal structure, the \"cuttlebone\" of cuttlefish being the best-known version. Yet they do have cartilaginous tissue in their body, even if it is not mineralized, especially in the head, where it forms a primitive cranium. The endoskeleton gives shape,support and protection to the body and provides a mean of locomotion.[Wikipedia:Endoskeleton]t" xsd:string [Term] id: UBERON:0010363 name: endochondral element namespace: uberon def: "A skeletal element that has the potential to participate in endochondral ossification, and may participate in intramembranous ossification." [VSAO:0000139] synonym: "endochondral replacement element" EXACT [VSAO:0000139] xref: VSAO:0000139 xref: XAO:0004017 xref: ZFA:0005620 is_a: UBERON:0004765 ! skeletal element property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000009 [Term] id: UBERON:0010364 name: dermal skeleton namespace: uberon def: "Skeletal subdivision that undergoes direct development and includes elements that either develop in association with the basement membrane of the ectoderm or are homologous with such elements; includes dermatocranium, components of the appendicular skeleton, teeth and tooth-like elements of the oropharynx, and integumentary elements." [VSAO:0000035] comment: This ontology covers metazoa, so we do not use exoskeleton as primary label, as in VSAO synonym: "dermal skeletal system" RELATED [VSAO:curator] synonym: "dermoskeleton" RELATED [VSAO:curator] synonym: "desmoskeleton" RELATED [VSAO:curator] synonym: "exoskeleton" BROAD INCONSISTENT [VSAO:curator] xref: VSAO:0000035 xref: XAO:0004025 is_a: UBERON:0010912 ! subdivision of skeleton [Term] id: UBERON:0010365 name: odontoid tissue namespace: uberon def: "Skeletal tissue that is part of the exoskeleton and derived from an odontogenic papilla." [VSAO:0000063] synonym: "dental tissue" RELATED [VSAO:curator] synonym: "odontogenic tissue" EXACT [VSAO:curator] synonym: "tooth tissue" RELATED [] xref: UMLS:C1519551 xref: VSAO:0000063 xref: XAO:0004046 xref: ZFA:0005623 xref: ncithesaurus:Tooth_Tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0004755 ! skeletal tissue intersection_of: develops_from UBERON:0001763 ! odontogenic papilla intersection_of: part_of UBERON:0010364 ! dermal skeleton [Term] id: UBERON:0010366 name: conjunctival vasculature namespace: uberon def: "A vasculature that is part of a conjunctiva." [OBOL:automatic] synonym: "conjunctival veins" EXACT [FMA:70887] synonym: "conjunctival veins set" EXACT [FMA:70887] synonym: "set of conjunctival veins" EXACT [FMA:70887] synonym: "venae conjunctivales" EXACT LATIN [FMA:TA] xref: FMA:70887 is_a: UBERON:0002203 ! vasculature of eye intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001811 ! conjunctiva [Term] id: UBERON:0010367 name: conjunctival vein namespace: uberon def: "A vein that is part of a conjunctiva." [OBOL:automatic] synonym: "conjunctival blood vessel" BROAD [] xref: FMA:70887 xref: SCTID:149885003 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0006763 ! epithelium of conjunctiva is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0010366 ! conjunctival vasculature intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0001811 ! conjunctiva [Term] id: UBERON:0010368 name: pulmonary lobule namespace: uberon xref: FMA:75739 xref: ncithesaurus:Pulmonary_Lobule is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0009911 ! lobule relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0010369 name: secondary pulmonary lobule namespace: uberon xref: FMA:7414 is_a: UBERON:0010368 ! pulmonary lobule relationship: part_of UBERON:0008946 ! lung parenchyma [Term] id: UBERON:0010370 name: tibial vein namespace: uberon def: "One of the veins of the lower leg; empty into the popliteal vein" [http://www.thefreedictionary.com/tibial+vein] synonym: "vena tibialis" EXACT [] xref: MA:0002243 xref: UMLS:C0447138 xref: ncithesaurus:Tibial_Vein is_a: UBERON:0001638 ! vein is_a: UBERON:0003503 ! leg blood vessel relationship: part_of UBERON:0000978 ! leg [Term] id: UBERON:0010371 name: ecto-epithelium namespace: uberon def: "Epithelium that derives from the ectoderm. Examples: epithelium of acinus of lactiferous duct, subscapular lens epithelium, epithelium of posterior surface of cornea." [FMA:69064] synonym: "ectoderm-derived epithelium" EXACT [] xref: FMA:69064 is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000924 ! ectoderm [Term] id: UBERON:0010372 name: uncinate process of ethmoid namespace: uberon def: "In the ethmoid bone, a curved lamina, the uncinate process, projects downward and backward from this part of the labyrinth; it forms a small part of the medial wall of the maxillary sinus, and articulates with the ethmoidal process of the inferior nasal concha." [Wikipedia:Uncinate_process_of_ethmoid_bone] synonym: "processus uncinatus" RELATED [Wikipedia:Uncinate_process_of_ethmoid_bone] synonym: "processus uncinatus ossis ethmoidalis" RELATED LATIN [Wikipedia:Uncinate_process_of_ethmoid_bone] synonym: "uncinate process" BROAD INCONSISTENT [SCTID:306373001] synonym: "uncinate process of the ethmoid" EXACT [Wikipedia:Uncinate_process_of_ethmoid_bone] synonym: "uncinate process of the ethmoid bone" EXACT [Wikipedia:Uncinate_process_of_ethmoid_bone] xref: FMA:57455 xref: SCTID:306373001 xref: http://upload.wikimedia.org/wikipedia/commons/c/ce/Processus_uncinatus_ossis_ethmoidalis.PNG is_a: UBERON:0004529 ! anatomical projection disjoint_from: UBERON:0010373 ! uncinate process of pancreas [Term] id: UBERON:0010373 name: uncinate process of pancreas namespace: uberon def: "In the head of the pancreas, the angle of junction of the lower and left lateral borders forms a prolongation, termed the uncinate process. During the embryonic development of the distal foregut, the duodenum c-shape is formed while rotating the ventral pancreatic bud into the dorsal bud. The dorsal and ventral pancreatic buds fuse. The dorsal pancreatic bud becomes the body, tail, and isthmus of the pancreas and the ventral pancreatic bud forms the pancreatic head and uncinate process[WP]" [Wikipedia:Uncinate_process_of_pancreas] synonym: "Winslow's pancreas" EXACT [FMA:15857] synonym: "lesser pancreas" EXACT [FMA:15857] synonym: "processus uncinatus (pancreas)" EXACT [FMA:15857] synonym: "processus uncinatus pancreatis" RELATED LATIN [Wikipedia:Uncinate_process_of_pancreas] xref: EMAPA:18823 xref: FMA:15857 xref: SCTID:245383008 xref: UMLS:C0227580 xref: http://upload.wikimedia.org/wikipedia/commons/f/fe/Illu_pancreas_duodenum.jpg xref: ncithesaurus:Uncinate_Pancreas is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004529 ! anatomical projection relationship: develops_from UBERON:0003924 ! ventral pancreatic bud relationship: part_of UBERON:0001069 ! head of pancreas [Term] id: UBERON:0010375 name: pancreas dorsal primordium namespace: uberon comment: Consider merging with dorsal pancreatic bud. Starts at CS12 in human (EHDAA2, embryology.ch 'bud anlagen') synonym: "dorsal pancreas" RELATED INCONSISTENT [FMA:79793] xref: EHDAA2:0001384 xref: FMA:79793 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0001048 ! primordium is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0003921 ! pancreas primordium [Term] id: UBERON:0010376 name: pancreas ventral primordium namespace: uberon comment: Starts at CS14 in human (EHDAA2) or CS13-14 (embryology.ch 'bud anlagen') synonym: "ventral pancreas" RELATED INCONSISTENT [FMA:79794] xref: EHDAA2:0001387 xref: FMA:79794 is_a: UBERON:0001048 ! primordium is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0004119 ! endoderm-derived structure relationship: part_of UBERON:0003921 ! pancreas primordium [Term] id: UBERON:0010377 name: mesenchyme from somatopleure namespace: uberon def: "Mesenchyme that develops_from a somatopleure." [OBOL:automatic] comment: Editor notes: the way this class is defined also includes extraembryonic mesenchyme such as the amniotic mesenchyme; in future this may be restricted to embryonic derivatives xref: EHDAA2:0001120 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: part_of UBERON:0009142 ! entire mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0004874 ! somatopleure [Term] id: UBERON:0010378 name: mesenchyme from splanchnopleure namespace: uberon def: "Mesenchyme that develops_from a splanchnopleure." [OBOL:automatic] xref: EHDAA2:0001122 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0007524 ! dense mesenchyme tissue relationship: part_of UBERON:0009142 ! entire mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0004873 ! splanchnopleure [Term] id: UBERON:0010379 name: superior tarsal muscle namespace: uberon def: "The superior tarsal muscle is a smooth muscle adjoining the levator palpebrae superioris muscle that helps to raise the upper eyelid." [Wikipedia:Superior_tarsal_muscle] comment: Editors note: declaring this to be both smooth muscle and part of the LPS leads to a disjointness violation (smooth muscle and striated muscle) synonym: "MC X is part_of Y and X is adjacent_to the anterior boundary of Y" [UBERON:cjm] comment: to be added to BSPO xref: BSPO:0001104 is_a: in_anterior_side_of ! in_anterior_side_of is_a: part_of ! part of [Typedef] id: anterior_to name: anterior_to namespace: uberon def: "x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer" [BSPO:cjm] is_transitive: true xref: BSPO:0000096 [Typedef] id: anteriorly_connected_to name: anteriorly connected to namespace: uberon def: "x anteriorly_connected_to y iff the anterior part of x is connected to y. i.e. x connected_to y and x posterior_to y." [UBERONREF:0000004] is_a: connected_to ! connected to is_a: posterior_to ! posterior_to is_a: transitively_anteriorly_connected_to ! transitively anteriorly connected to [Typedef] id: appendage_segment_number name: appendage segment number namespace: uberon def: "x appendage_segment_number N if and only if (i) x is a appendage_segment, and (ii) x is appendage_segment number N in a series of appendage_segments repeated along an proximo-distal axis, with appendage_segment_number 1 being the proximalmost appendage_segment (in tetrapods this would be the stylopod, as we do not classify girdles as appendage segments)." [UBERON:cjm] is_metadata_tag: true comment: Examples: in dropsphila coxa=1, trochanter=2, femur=3, tibia=4, tarsal segments 1-5=5-9, pretarsus=10 property_value: is_count_of UBERON:0010758 property_value: preceding_element_is BSPO:0000100 [Typedef] id: attaches_to name: attaches_to namespace: uberon alt_id: FMA:85990 is_a: connects ! connects [Typedef] id: axiom_lost_from_external_ontology name: axiom_lost_from_external_ontology namespace: uberon def: "A textual description of an axiom loss in this ontology compared to an external ontology." [UBERON:cjm] is_metadata_tag: true comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000002 [Typedef] id: branch_of name: branch_of namespace: anatomical_entity_ontology alt_id: FMA:85994 comment: Source: FMA. Editor note: we need to check if FMA branch_of implies part_of. the relation we intend to use here should - for example, see vestibulocochlear nerve is_a: part_of ! part of [Typedef] id: channel_for name: channel for namespace: uberon synonym: "carries" BROAD [] domain: UBERON:0004111 ! anatomical conduit range: UBERON:0000463 ! portion of organism substance [Typedef] id: channels_from name: channels_from namespace: uberon is_transitive: true [Typedef] id: channels_into name: channels_into namespace: uberon is_transitive: true [Typedef] id: composed_primarily_of name: composed_primarily_of namespace: uberon def: "x composed_primarily_of y iff: more than half of the mass of x is made from parts of y" [] xref: UBREL:0000002 is_a: has_part ! has_part [Typedef] id: confers_advantage_in name: confers_advantage_in namespace: uberon comment: An experimental relation currently used to connect an anatomical structure to a habitat or environment to which that structure is well suited, adapted or provides an advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial. synonym: "adapted_for" NARROW [] [Typedef] id: connected_to name: connected to namespace: uberon def: "Binary relationship: x connected_to y if and only if there exists some z such that z connects x and y in a ternary connected_to(x,y,z) relationship." [UBERONREF:0000004] comment: Connection does not imply overlaps. xref: UBREL:0000001 is_a: transitively_connected_to ! transitively_connected to property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000004 property_value: seeAlso SIO:000652 [Typedef] id: connects name: connects namespace: uberon def: "Binary relationship: z connects x if and only if there exists some y such that z connects x and y in a ternary connected_to(x,y,z) relationship." [UBERONREF:0000004] comment: Editors note: this is currently used for both structural relationships (such as between a valve and the chamber it connects) and abstract relationships (anatomical lines and the entities they connect) [Typedef] id: contains name: contains namespace: uberon [Typedef] id: continuous_with name: continuous_with namespace: uberon comment: sourced from FMA xref: FMA:85972 [Typedef] id: dc-contributor name: contributor namespace: uberon is_metadata_tag: true xref: dc:contributor [Typedef] id: dc-creator name: creator namespace: uberon is_metadata_tag: true xref: dc:creator [Typedef] id: dc-description name: description namespace: uberon is_metadata_tag: true xref: dc:description [Typedef] id: dc-publisher name: publisher namespace: uberon is_metadata_tag: true xref: dc:publisher [Typedef] id: dc-source name: derived from resource namespace: uberon is_metadata_tag: true xref: dc:source [Typedef] id: dc-title name: title namespace: uberon is_metadata_tag: true xref: dc:title [Typedef] id: dcterms-isReferencedBy name: is referenced by namespace: uberon is_metadata_tag: true xref: dcterms:isReferencedBy [Typedef] id: deep_to name: deep_to namespace: uberon def: "Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines." [BSPO:cjm] is_transitive: true xref: BSPO:0000107 [Typedef] id: dental_formula name: dental formula namespace: uberon def: "Syntax: upper/lower = I.C.P.M / I.C.P.M. When used with generic tooth class applies to both deciduous and primary. Should also be used with a taxon property." [Wikipedia:Dentition#Dental_formula] is_metadata_tag: true [Typedef] id: developmentally_contributes_to name: developmentally_contributes_to namespace: uberon xref: RO:0002255 holds_over_chain: develops_into part_of ! part of [Typedef] id: developmentally_replaces name: developmentally_replaces namespace: uberon xref: RO:0002285 [Typedef] id: develops_from name: develops from namespace: zebrafish_anatomical_ontology is_transitive: true xref: RO:0002202 is_a: has_developmental_contribution_from ! has developmental contribution from transitive_over: part_of ! part of holds_over_chain: part_of develops_from ! develops from [Typedef] id: develops_from_part_of name: develops_from_part_of namespace: uberon xref: RO:0002225 is_a: develops_from ! develops from holds_over_chain: directly_develops_from part_of ! part of [Typedef] id: develops_in name: develops_in namespace: anatomical_entity_ontology def: "x develops_in y if x is located in x whilst x is developing." [] xref: RO:0002226 [Typedef] id: develops_into name: develops_into namespace: uberon inverse_of: develops_from ! develops from xref: RO:0002203 [Typedef] id: directly_develops_from name: directly_develops_from namespace: uberon xref: RO:0002207 [Typedef] id: distal_part_of name: distal_part_of namespace: uberon def: "X distal_part_of Y <=> X is part_of Y and X is adjacent_to the distal boundary of Y" [UBERON:cjm] comment: to be added to BSPO xref: BSPO:0001108 is_a: in_distal_side_of ! in_distal_side_of is_a: part_of ! part of [Typedef] id: distal_to name: distal_to namespace: uberon def: "x distal_to y iff x is further along the proximo-distal axis than y, towards the appendage tip. A proximo-distal axis extends from tip of an appendage (distal) to where it joins the body (proximal)." [BSPO:cjm] xref: BSPO:0000097 [Typedef] id: distally_connected_to name: distally connected to namespace: uberon def: "x distally_connected_to y iff the distal part of x is connected to y. i.e. x connected_to y and x proximal_to y." [UBERONREF:0000004] inverse_of: proximally_connected_to ! proximally connected to is_a: connected_to ! connected to is_a: proximal_to ! proximal_to is_a: transitively_distally_connected_to ! transitively distally connected to [Typedef] id: doap-GitRepository name: Git repository namespace: uberon is_metadata_tag: true xref: http://usefulinc.com/ns/doap#GitRepository [Typedef] id: doap-SVNRepository name: SVN repository namespace: uberon is_metadata_tag: true xref: http://usefulinc.com/ns/doap#SVNRepository [Typedef] id: doap-bug-database name: bug database namespace: uberon is_metadata_tag: true xref: http://usefulinc.com/ns/doap#bug-database [Typedef] id: doap-wiki name: wiki namespace: uberon is_metadata_tag: true xref: http://usefulinc.com/ns/doap#wiki [Typedef] id: dorsal_part_of name: dorsal_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001111 is_a: part_of ! part of [Typedef] id: dorsal_to name: dorsal_to namespace: uberon def: "x dorsal_to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm] is_transitive: true inverse_of: ventral_to ! ventral_to xref: BSPO:0000098 [Typedef] id: drains name: drains namespace: uberon comment: source: Wikipedia synonym: "drains blood from" EXACT [] synonym: "drains from" EXACT [] is_a: connected_to ! connected to domain: UBERON:0001638 ! vein [Typedef] id: dubious_for_taxon name: dubious_for_taxon namespace: uberon def: "S dubious_for_taxon T if it is probably the case that no instances of S can be found in any instance of T." [UBERON:cjm] is_metadata_tag: true is_class_level: true comment: this relation lacks a strong logical interpretation, but can be used in place of never_in_taxon where it is desirable to state that the definition of the class is too strict for the taxon under consideration, but placing a never_in_taxon link would result in a chain of inconsistencies that will take time to resolve. Example: metencephalon in teleost [Typedef] id: enclosed_by name: enclosed_by namespace: uberon is_a: part_of ! part of [Typedef] id: encloses name: encloses namespace: anatomical_entity_ontology def: "x encloses y iff the convex hull formed by x contains all or the majority of y." [UBERON:cjm] [Typedef] id: example_of_usage name: example of usage namespace: uberon is_metadata_tag: true xref: IAO:0000122 [Typedef] id: existence_ends_at name: existence_ends_at namespace: uberon def: "c existence_ends_at e iff c exists_at e and not ( exists e2 : c exists_at e2 and e before e2)." [UBERON:cjm] domain: UBERON:0001062 ! anatomical entity range: UBERON:0000103 ! life cycle stage boundary [Typedef] id: existence_ends_before name: existence_ends_before namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c ceases to exist before s." [UBERON:cjm] domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage [Typedef] id: existence_ends_during name: existence_ends_during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely." [UBERON:cjm] comment: todo - add full axioms to bfo synonym: "ceases_to_exist_during" EXACT [] xref: BFO:0000069 transitive_over: part_of ! part of [Typedef] id: existence_ends_with name: existence_ends_with namespace: uberon def: "Relation between continuant and occurrent, such that c ceases to exist at the end of p." [UBERON:cjm] domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage [Typedef] id: existence_starts_after name: existence_starts_after namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c comes into existing after some s has completed." [UBERON:cjm] comment: disjoint_from existence_starts_during (but this cannot be expressed in OWL2) domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage holds_over_chain: existence_starts_during preceded_by ! preceded_by [Typedef] id: existence_starts_and_ends_during name: existence_starts_and_ends_during namespace: uberon is_a: existence_ends_during ! existence_ends_during is_a: existence_starts_during ! existence_starts_during domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage [Typedef] id: existence_starts_at name: existence_starts_at namespace: uberon def: "c existence_starts_at e iff c exists_at e and not ( exists e2 : c exists_at e2 and e2 before e)" [UBERON:cjm] domain: UBERON:0001062 ! anatomical entity range: UBERON:0000103 ! life cycle stage boundary [Typedef] id: existence_starts_during name: existence_starts_during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c comes into existing during some s." [UBERON:cjm] synonym: "begins_to_exist_during" EXACT [] xref: BFO:0000068 transitive_over: part_of ! part of [Typedef] id: existence_starts_or_ends_during name: existence_starts_or_ends_during namespace: uberon domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage [Typedef] id: existence_starts_with name: existence_starts_with namespace: uberon def: "Relation between continuant and occurrent, such that c comes into existence at the start of p." [UBERON:cjm] domain: UBERON:0001062 ! anatomical entity range: UBERON:0000105 ! life cycle stage holds_over_chain: existence_starts_at start_of ! start_of [Typedef] id: exists_during name: exists_during namespace: uberon [Typedef] id: external_comment name: external_comment namespace: uberon def: "An alternate comment for a class taken unmodified from an external source. Note that obo format only allows a single comment for a class, and does not provide a structured means of adding provenance info." [UBERON:cjm] is_metadata_tag: true comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000005 [Typedef] id: external_definition name: external_definition namespace: uberon def: "An alternate textual definition for a class taken unmodified from an external source. This definition may have been used to derive a generalized definition for the new class." [UBERON:cjm] is_metadata_tag: true comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000001 [Typedef] id: finishes name: finishes namespace: uberon def: "Relation between occurrents, shares an end boundary with." [Allen:starts, UBERON:cjm, ZFS:finishes] synonym: "ends" EXACT [RO:0002229] xref: RO:0002229 is_a: part_of ! part of [Typedef] id: foaf-depicted_by name: depicted_by namespace: uberon is_metadata_tag: true xref: http://xmlns.com/foaf/0.1/depicted_by [Typedef] id: foaf-homepage name: homepage namespace: uberon is_metadata_tag: true xref: http://xmlns.com/foaf/0.1/homepage [Typedef] id: has_anterior_part name: has_anterior_part namespace: uberon inverse_of: anterior_part_of ! anterior_part_of comment: to be added to BSPO xref: BSPO:0001105 is_a: has_part ! has_part [Typedef] id: has_developmental_contribution_from name: has developmental contribution from namespace: uberon is_transitive: true xref: RO:0002254 holds_over_chain: has_part develops_from ! develops from [Typedef] id: has_distal_part name: has_distal_part namespace: uberon inverse_of: distal_part_of ! distal_part_of comment: to be added to BSPO xref: BSPO:0001109 is_a: has_part ! has_part [Typedef] id: has_end name: has_end namespace: uberon [Typedef] id: has_function_in name: has_function_in namespace: uberon [Typedef] id: has_fused_element name: has_fused_element namespace: uberon def: "x has_fused_element y iff: there exists some z : x has_part z, z homologous_to y, and y is a distinct element, the boundary between x and z is largely fiat" [] comment: A single bone in one species may correspond to the fusion of two or more bones found as distinct elements in another. For example, tibiofibula has_fused_element tibia. A has_fused_element B does not imply that A has_part some B, rather than A has_part some B', where B' is not a subtype of B (because B is a distinct element but B' is a regional part) but has some evolutionary relationship to B. [Typedef] id: has_muscle_antagonist name: has_muscle_antagonist namespace: uberon alt_id: dbpprop:antagonist def: "m1 has_muscle_antagonist m2 iff m1 acts in opposition to m2, and m2 is responsible for returning the structure to its initial position." [Wikipedia:Antagonist_(muscle)] [Typedef] id: has_muscle_insertion name: has_muscle_insertion namespace: uberon alt_id: dbpprop:insertion def: "m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone." [Wikipedia:Insertion_(anatomy)] is_a: attaches_to ! attaches_to [Typedef] id: has_muscle_origin name: has_muscle_origin namespace: uberon alt_id: dbpprop:origin def: "m has_muscle_origin s iff m is attaches_to s, and it is the case that when m contracts, s does not move. The site of the origin tends to be more proximal and have greater mass than what the other end attaches to." [Wikipedia:Insertion_(anatomy)#Muscles] is_a: attaches_to ! attaches_to [Typedef] id: has_no_connections_with name: has_no_connections_with namespace: uberon def: "A is has_no_connections_with B if there are no parts of A or B that have a connection with the other." [UBERON:cjm] is_metadata_tag: true is_class_level: true expand_assertion_to: "Class: EquivalentTo: (BFO_0000050 some ?X) and (UBREL_0000001 some (BFO_0000050 some ?Y)), (BFO_0000050 some ?Y) and (UBREL_0000001 some (BFO_0000050 some ?X))" [] [Typedef] id: has_posterior_part name: has_posterior_part namespace: uberon inverse_of: posterior_part_of ! posterior_part_of comment: to be added to BSPO xref: BSPO:0001103 is_a: has_part ! has_part [Typedef] id: has_proximal_part name: has_proximal_part namespace: uberon inverse_of: proximal_part_of ! proximal_part_of comment: to be added to BSPO xref: BSPO:0001207 is_a: has_part ! has_part [Typedef] id: has_quality name: has_quality namespace: uberon xref: http://semanticscience.org/resource/SIO_000008 [Typedef] id: has_relational_adjective name: has_relational_adjective namespace: uberon is_metadata_tag: true comment: Used to connect a class to an adjectival form of its label. For example, a class with label 'intestine' may have a relational adjective 'intestinal'. xref: UBPROP:0000007 [Typedef] id: has_start name: has_start namespace: anatomical_entity_ontology [Typedef] id: homologous_to name: homologous_to namespace: uberon xref: RO:0002158 [Typedef] id: homology_notes name: homology_notes namespace: uberon def: "Notes on the homology status of this class." [UBERON:cjm] is_metadata_tag: true comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000003 [Typedef] id: immediate_transformation_of name: immediate_transformation_of namespace: uberon synonym: "direct_transformation_of" EXACT [UBERON:cjm] synonym: "immediately transforms from" EXACT [SIO:000658] xref: http://semanticscience.org/resource/SIO_000658 is_a: transformation_of ! transformation_of [Typedef] id: immediately_deep_to name: immediately_deep_to namespace: uberon def: "This relation holds when both the deep_to and ajdacent_to relationship similarly hold." [BSPO:cjm] xref: BSPO:0001107 is_a: adjacent_to ! adjacent_to is_a: deep_to ! deep_to [Typedef] id: immediately_preceded_by name: immediately_preceded_by namespace: zebrafish_anatomical_ontology def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 xref: http://semanticscience.org/resource/SIO_000251 is_a: preceded_by ! preceded_by property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string [Typedef] id: implements_design_pattern name: implements_design_pattern namespace: uberon is_metadata_tag: true xref: UBPROP:0000006 [Typedef] id: in_anterior_side_of name: in_anterior_side_of namespace: uberon def: "X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the anterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000123 is_a: part_of ! part of [Typedef] id: in_deep_part_of name: in_deep_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001101 is_a: part_of ! part of [Typedef] id: in_distal_side_of name: in_distal_side_of namespace: uberon def: "X distal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the distal portion." [BSPO:PATO_mtg_2009] inverse_of: in_proximal_side_of ! in_proximal_side_of xref: BSPO:0000125 is_a: part_of ! part of [Typedef] id: in_lateral_side_of name: in_lateral_side_of namespace: uberon def: "X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure" [UBERON:cjm] xref: BSPO:0000126 is_a: part_of ! part of property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000014 [Typedef] id: in_left_side_of name: in_left_side_of namespace: uberon def: "X left_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the left portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000120 is_a: in_lateral_side_of ! in_lateral_side_of property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000014 [Typedef] id: in_median_plane_of name: in_median_plane_of namespace: uberon def: "X in_median_plane_of Y <=> if X lies on the median plane of Y; i.e. X overlaps o in_left_side_of Y and X overlaps o in_right_side_of Y. X is an unpaired structure" [UBERON:cjm] synonym: "in sagittal plane of" RELATED [] xref: BSPO:0000127 is_a: part_of ! part of [Typedef] id: in_posterior_side_of name: in_posterior_side_of namespace: uberon def: "X posterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the posterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000122 is_a: part_of ! part of [Typedef] id: in_proximal_side_of name: in_proximal_side_of namespace: uberon def: "X proximal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the proximal portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000124 is_a: part_of ! part of [Typedef] id: in_right_side_of name: in_right_side_of namespace: uberon def: "X right_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the right portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000121 is_a: in_lateral_side_of ! in_lateral_side_of property_value: seeAlso http://purl.obolibrary.org/obo/uberon/references/reference_0000014 [Typedef] id: in_superficial_part_of name: in_superficial_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001100 is_a: part_of ! part of [Typedef] id: in_taxon name: in taxon namespace: uberon xref: RO:0002162 holds_over_chain: attaches_to in_taxon ! in taxon holds_over_chain: connected_to in_taxon ! in taxon holds_over_chain: develops_from in_taxon ! in taxon holds_over_chain: has_developmental_contribution_from in_taxon ! in taxon holds_over_chain: induced_by in_taxon ! in taxon holds_over_chain: overlaps in_taxon ! in taxon holds_over_chain: part_of in_taxon ! in taxon holds_over_chain: supplies in_taxon ! in taxon [Typedef] id: induced_by name: induced_by namespace: uberon def: "t1 induced_by t2 if there is a process of organ induction (GO:0001759) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor tissue type T to T', where T' develops_from T." [GO:0001759] comment: sources for induced_by relationships in Uberon: Developmental Biology, Gilbert, 8th edition, figure 6.5(F) [Typedef] id: innervated_by name: innervated_by namespace: uberon alt_id: FMA:85999 alt_id: dbprop:nerve synonym: "nerve supply" EXACT [FMA:85999] transitive_over: branch_of ! branch_of [Typedef] id: is_count_of name: is count of namespace: uberon is_metadata_tag: true [Typedef] id: located_in name: located_in namespace: anatomical_entity_ontology [Typedef] id: location_of name: location_of namespace: uberon [Typedef] id: never_in_taxon name: never_in_taxon namespace: uberon def: "S never_in_taxon T iff: S SubClassOf in_taxon only not T" [PMID:20973947] is_metadata_tag: true is_class_level: true xref: RO:0002161 expand_assertion_to: "Class: EquivalentTo: ?X and (RO_0002162 some ?Y)" [] [Typedef] id: only_in_taxon name: only_in_taxon namespace: uberon def: "S only_in_taxon T iff: S SubClassOf in_taxon only T" [PMID:20973947] xref: RO:0002160 is_a: in_taxon ! in taxon [Typedef] id: output_of name: output_of namespace: uberon [Typedef] id: overlaps name: overlaps namespace: uberon def: "A overlaps B if they share some part in common." [] xref: RO:0002131 expand_expression_to: "BFO_0000051 some (BFO_0000050 some ?Y)" [] [Typedef] id: paired_appendage_number name: paired_appendage number namespace: uberon def: "x paired_appendage_number N if and only if (i) x is a paired_appendage, and (ii) x is paired_appendage number N in a series of paired_appendages repeated along an anterior-posterior axis, with paired_appendage_number 1 being the anteriormost paired_appendage. In vertebrates, this is the pectoral appendage" [UBERON:cjm] is_metadata_tag: true property_value: is_count_of UBERON:0000026 property_value: preceding_element_is BSPO:0000096 [Typedef] id: participates_in name: participates in namespace: uberon xref: BFO:0000056 [Typedef] id: phalanx_number name: phalanx number namespace: uberon def: "x phalanx_number N if and only if (i) x is a phalanx, and (ii) x is phalanx number N in a series of phalanges repeated along an prixomo-distal axis, with phalanx_number 1 being the proximalmost phalanx. Note that in humans, the distalmost phalanx has phlanax_number 3, except in ray_number 1, where the distalmost has phalanx_number 2" [UBERON:cjm, Wikipedia:Phalanx_bone#Phalangeal_formula] is_metadata_tag: true comment: Most land mammals including humans have a 2-3-3-3-3 formula in both the hands (or paws) and feet. Primitive reptiles typically had the formula 2-3-4-4-5, and this pattern, with some modification, remained in many later reptiles and in the mammal-like reptiles. The phalangeal formula in the flippers of cetaceans (marine mammals) is 2-12-8-1 property_value: is_count_of UBERON:0003221 property_value: preceding_element_is BSPO:0000100 [Typedef] id: pharyngeal_arch_number name: pharyngeal arch number namespace: uberon def: "x pharyngeal_arch_number N if and only if (i) x is a pharyngeal arch, and (ii) x is ancestrally pharyngeal arch number N in a series of pharyngeal arches repeated along a antero-posterior axis, with arch_number 1 being the mandibular arch." [UBERON:cjm] is_metadata_tag: true comment: Note that gill arch N = PA N-2. the term branchial_arch is ambiguous. property_value: is_count_of UBERON:0002539 property_value: preceding_element_is BSPO:0000096 [Typedef] id: postaxial_part_of name: postaxial_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001115 is_a: part_of ! part of [Typedef] id: postaxial_to name: postaxial_to namespace: uberon def: "x preaxial_to y iff x is further along the preaxial-postaxial axis than y, towards the rear." [http://medical-dictionary.thefreedictionary.com/postaxial] is_transitive: true comment: to be added to BSPO synonym: "posterior_to (developmentally)" RELATED [MA:th] xref: BSPO:0001114 [Typedef] id: posterior_part_of name: posterior_part_of namespace: uberon def: "X posterior_part_of Y <=> X is part_of Y and X is adjacent_to the posterior boundary of Y" [UBERON:cjm] comment: to be added to BSPO xref: BSPO:0001102 is_a: in_posterior_side_of ! in_posterior_side_of is_a: part_of ! part of [Typedef] id: posterior_to name: posterior_to namespace: uberon def: "x posterior_to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail." [BSPO:cjm] is_transitive: true synonym: "caudal_to" NARROW [] xref: BSPO:0000099 [Typedef] id: posteriorly_connected_to name: posteriorly connected to namespace: uberon def: "x posteriorly_connected_to y iff the posterior part of x is connected to y. i.e. x connected_to y and x anterior_to y." [UBERONREF:0000004] is_a: anterior_to ! anterior_to is_a: connected_to ! connected to [Typedef] id: preaxial_part_of name: preaxial_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001113 is_a: part_of ! part of [Typedef] id: preaxial_to name: preaxial_to namespace: uberon def: "x preaxial_to y iff x is further along the preaxial-postaxial axis than y, towards the front." [http://medical-dictionary.thefreedictionary.com/preaxial] is_transitive: true synonym: "anterior_to (developmentally)" RELATED [MA:th] synonym: "lateral (radial) to" RELATED [] synonym: "medial (tibial) to" RELATED [] xref: BSPO:1000000 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Typedef] id: preceding_element_is name: preceding element is namespace: uberon def: "A property used in conjunction with repeated_element_number to indicate an axis and directionality along that axis. If P preceding_element_is R, and P is_count_of S, and X P N, and X' P N+1, then it follows that every X R some X', and the class expression [S and R some X' and inv(R) some X] is empty (i.e. X is followed by X', with no intermediates)" [UBERON:cjm] is_metadata_tag: true [Typedef] id: present_in_taxon name: present_in_taxon namespace: uberon def: "S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S" [UBERON:cjm] is_metadata_tag: true is_class_level: true synonym: "applicable for taxon" EXACT [] [Typedef] id: provenance_notes name: provenance_notes namespace: uberon def: "Notes on the provenance of this class." [UBERON:cjm] is_metadata_tag: true comment: This annotation property may be replaced with an annotation property from an external ontology such as IAO xref: UBPROP:0000004 [Typedef] id: proximal_part_of name: proximal_part_of namespace: uberon def: "X proximal_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y" [UBERON:cjm] comment: to be added to BSPO xref: BSPO:0001106 is_a: in_proximal_side_of ! in_proximal_side_of is_a: part_of ! part of [Typedef] id: proximal_to name: proximal_to namespace: uberon def: "x proximal_to y iff x is closer to the point of attachment with the body than y." [BSPO:cjm] xref: BSPO:0000100 [Typedef] id: proximally_connected_to name: proximally connected to namespace: uberon def: "x proximally_connected_to y iff the proximal part of x is connected to y. i.e. x connected_to y and x distal_to y." [UBERONREF:0000004] is_a: connected_to ! connected to is_a: distal_to ! distal_to is_a: transitively_proximally_connected_to ! transitively proximally connected to [Typedef] id: ray_number name: ray number namespace: uberon def: "x ray_number N if and only if (i) x is a ray, and (ii) x is ancestrally associated with ray number N in a series of phalanges repeated along a radio-ulnar or equivalent axis, with ray_number 1 being the anteriormost ray." [UBERON:cjm] is_metadata_tag: true comment: The correct terminology is yet to be established; in tetrapods 'ray' might mean the mereological sum of the phalanges of a manual digit plus a metatarsal bone (or equivalent for hindlimb) property_value: is_count_of UBERON:0002544 property_value: preceding_element_is BSPO:1000000 [Typedef] id: repeated_element_number name: repeated element number namespace: uberon def: "A property used to indicate the position of an element where that element is of a type that is serially repeated linearly along some axis for which a total ordering exists. The ordering may represent an ancestral condition" [UBERON:cjm] is_metadata_tag: true comment: The range is currently non-negative integer [Typedef] id: rhombomere_number name: rhombomere number namespace: uberon def: "x rhombomere_number N if and only if (i) x is a rhombomere, and (ii) x is rhombomere number N in a series of rhombomeres repeated along an anterior-posterior axis, with rhombomere_number 1 being the anteriormost rhombomere." [UBERON:cjm] is_metadata_tag: true property_value: is_count_of UBERON:0001892 property_value: preceding_element_is BSPO:0000096 [Typedef] id: rib_number name: rib number namespace: uberon def: "x rib_number N if and only if (i) x is a rib, and (ii) x is rib number N in a series of ribs repeated along an anterior-posterior axis, with rib_number 1 being the anteriormost rib. Note that this property counts ribs, *not* the adjoining vertebrae." [UBERON:cjm] is_metadata_tag: true comment: AO notes: Note that in TAO, ribs are numbered by *vertebrae*. Taxon notes: In the early tetrapods, every vertebra bore a pair of ribs, although those on the thoracic vertebrae are typically the longest. In most subsequent forms, many of these early ribs have been lost, and in living amphibians and reptiles, there is great variation in rib structure and number. For example, turtles have only eight pairs of ribs, which are developed into a bony or cartilagenous carapace and plastron, while snakes have numerous ribs running along the full length of their trunk. Frogs typically have no ribs, aside from a sacral pair, which form part of the pelvis. Mammals usually also only have distinct ribs on the thoracic vertebra, although fixed cervical ribs are also present in monotremes. In marsupials and placental mammals, the cervical and lumbar ribs are found only as tiny remnants fused to the vertebrae, where they are referred to as transverse processes. In general, the structure and number of the true ribs in humans is similar to that in other mammals. Unlike reptiles, caudal ribs are never found in mammals. property_value: is_count_of UBERON:0002228 property_value: preceding_element_is BSPO:0000096 [Typedef] id: secreted_by name: secreted_by namespace: uberon [Typedef] id: secretes name: secretes namespace: uberon [Typedef] id: seeAlso name: see also namespace: uberon is_metadata_tag: true xref: rdfs:seeAlso [Typedef] id: serially_homologous_to name: serially_homologous_to namespace: uberon xref: RO:0002159 [Typedef] id: sexually_homologous_to name: sexually_homologous_to namespace: uberon is_metadata_tag: true [Typedef] id: simultaneous_with name: simultaneous_with namespace: uberon def: "Relation between occurrents, shares start and end boundaries." [Allen:is_equal_to, UBERON:cjm] synonym: "coincides_with" EXACT [] synonym: "is_equal_to" EXACT [] xref: RO:0002082 is_a: finishes ! finishes is_a: starts ! starts [Typedef] id: site_of name: site_of namespace: uberon def: "C site_of P iff exists species S such that P occurs_in C for all members of S. Example: bursa of Fabricius site_of B-cell differentiation." [GOC:cjm] [Typedef] id: somite_number name: somite number namespace: uberon def: "x somite_number N if and only if (i) x is a somite, and (ii) x is somite number N in a series of somites repeated along an anterior-posterior axis, with somite_number 1 being the anteriormost somite." [UBERON:cjm] is_metadata_tag: true property_value: is_count_of UBERON:0002329 property_value: preceding_element_is BSPO:0000096 [Typedef] id: spatially_disjoint_from name: spatially_disjoint_from namespace: uberon def: "A is spatially_disjoint_from B if they have no parts in common." [SO:cjm] is_metadata_tag: true is_class_level: true synonym: "non_overlapping_with" EXACT [] synonym: "shares_no_parts_with" EXACT [] expand_assertion_to: "Class: EquivalentTo: (BFO_0000050 some ?X) and (BFO_0000050 some ?Y)" [] [Typedef] id: start_of name: start_of namespace: uberon domain: UBERON:0000103 ! life cycle stage boundary range: UBERON:0000105 ! life cycle stage [Typedef] id: starts name: starts namespace: uberon def: "Relation between occurrents, shares a start boundary with." [Allen:starts, UBERON:cjm] xref: RO:0002224 is_a: part_of ! part of holds_over_chain: has_start start_of ! start_of [Typedef] id: subdivision_of name: subdivision of namespace: uberon comment: placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B [Typedef] id: superficial_to name: superficial_to namespace: uberon comment: to be added to BSPO xref: BSPO:0001110 [Typedef] id: supplies name: supplies namespace: uberon def: "relation between an artery and the structure is supplies with blood." [] comment: source: FMA synonym: "arterial supply of" EXACT [FMA:86003] xref: FMA:86003 is_a: connected_to ! connected to domain: UBERON:0001637 ! artery [Typedef] id: surrounded_by name: surrounded_by namespace: uberon def: "x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y" [UBERON:cjm] xref: RO:0002219 [Typedef] id: surrounds name: surrounds namespace: anatomical_entity_ontology def: "inverse of surrounded_by" [UBERON:cjm] inverse_of: surrounded_by ! surrounded_by xref: RO:0002221 [Typedef] id: taxon_notes name: taxon_notes namespace: uberon is_metadata_tag: true xref: UBPROP:0000008 [Typedef] id: tooth_number name: tooth number namespace: uberon def: "x tooth_number N if and only if (i) x is a tooth, and (ii) x is ancestrally tooth number N in a series of teeth repeated along an anterior-posterior axis, typically on the lateral side of a structure such as a jaw, with tooth_number 1 being the anteriormost. Note that this count refers to the total number of teeth starting from the first, regardless of the type of tooth. If sub-systems are required for numbering within a series of teeth of the same type, consider a subproperty. For example, in a human, maxillary canine = tooth 3 of upper jaw = canine_tooth 1 of upper jaw" [] is_metadata_tag: true comment: see also: dental_formula property_value: is_count_of UBERON:0001091 property_value: preceding_element_is BSPO:0000096 [Typedef] id: transformation_of name: transformation_of namespace: uberon is_transitive: true synonym: "transforms from" EXACT [SIO:000657] xref: http://semanticscience.org/resource/SIO_000657 is_a: develops_from ! develops from [Typedef] id: transitively_anteriorly_connected_to name: transitively anteriorly connected to namespace: uberon def: "." [UBERONREF:0000004] is_transitive: true [Typedef] id: transitively_connected_to name: transitively_connected to namespace: uberon is_transitive: true [Typedef] id: transitively_distally_connected_to name: transitively distally connected to namespace: uberon def: "." [UBERONREF:0000004] is_transitive: true [Typedef] id: transitively_proximally_connected_to name: transitively proximally connected to namespace: uberon def: "." [UBERONREF:0000004] is_transitive: true [Typedef] id: tributary_of name: tributary_of namespace: uberon comment: taken from the FMA [Typedef] id: ventral_part_of name: ventral_part_of namespace: uberon comment: to be added to BSPO xref: BSPO:0001112 is_a: part_of ! part of [Typedef] id: ventral_to name: ventral_to namespace: uberon def: "x ventral_to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm] is_transitive: true xref: BSPO:0000102 [Typedef] id: vertebra_number name: vertebra number namespace: uberon def: "x vertebra_number N if and only if (i) x is a vertebra, and (ii) x is vertebra number N in a series of vertebras repeated along an anterior-posterior axis, with vertebra_number 1 being the anteriormost vertebra (also known as the atlas)." [UBERON:cjm] is_metadata_tag: true property_value: is_count_of UBERON:0002412 property_value: preceding_element_is BSPO:0000096 [Term] id: XAO:0000003 name: outer fin (Xenopus) namespace: xenopus_anatomy def: "Part of the fin consisting of flattened epidermal cells elevated into a keel-like structure." [PMID:15188431] xref: AAO:0010380 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0008897 ! fin relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0000004 name: inner fin (Xenopus) namespace: xenopus_anatomy def: "Part of the fin consisting of a supporting core of mesenchyme and extracellular matrix." [PMID:15188431] xref: AAO:0010379 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0008897 ! fin relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0000026 name: branchial crest (Xenopus) namespace: xenopus_anatomy def: "The most posterior segments of the population of migratory cells of the cranial neural crest, contributing to the branchial arches 3 and 4. Branchial crest cells migrate in two distinct streams referred to as the anterior and posterior branchial crest." [XAO:CJZ] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003099 ! cranial neural crest relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0003099 ! cranial neural crest relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0000032 name: stomodeal-hypophyseal primordium (Xenopus) namespace: xenopus_anatomy def: "An anterior thickening of the sensorial layer of ectoderm, just above the cement gland. The hypophyseal layer separates from the stomodeal layer at NF stage 29 and 30, and when contacted by a protrusion of the foregut, the stomodeal layer will rupture to form the mouth opening at NF stage 39 and 40." [XAO:curator] is_a: UBERON:0001048 ! primordium relationship: develops_from XAO:0000320 ! sensorial layer (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0000036 name: animal cap (Xenopus) namespace: xenopus_anatomy def: "Ectodermal roof of the blastocoel." [XAO:curator] synonym: "animal ectoderm" RELATED [] xref: AAO:0010463 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000016 ! NF stage 6 (32-cell) (Xenopus) [Term] id: XAO:0000037 name: animal cap inner layer (Xenopus) namespace: xenopus_anatomy def: "Sensorial layer of blastocoel roof ectoderm." [XAO:curator] xref: AAO:0010464 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of XAO:0000036 ! animal cap (Xenopus) relationship: start_stage XAO:1000017 ! NF stage 7 (Xenopus) [Term] id: XAO:0000038 name: animal cap outer layer (Xenopus) namespace: xenopus_anatomy def: "Superficial layer of blastocoel roof ectoderm." [XAO:curator] xref: AAO:0010465 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of XAO:0000036 ! animal cap (Xenopus) relationship: start_stage XAO:1000017 ! NF stage 7 (Xenopus) [Term] id: XAO:0000039 name: anatomical site namespace: xenopus_anatomy is_obsolete: true consider: XAO:0003186 ! anatomical region (Xenopus) [Term] id: XAO:0000043 name: neuroectoderm outer layer (Xenopus) namespace: xenopus_anatomy def: "Superficial neuroectoderm layer consisting of horizontally flattened, pigmented cells." [PMID:2642003] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0002346 ! neurectoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000044 name: neuroectoderm inner layer (Xenopus) namespace: xenopus_anatomy def: "Deep neuroectoderm layer consisting of densely packed, cylindrical, unpigmented cells." [PMID:2642003] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0002346 ! neurectoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000047 name: notoplate (Xenopus) namespace: xenopus_anatomy def: "Region of the neural plate overlying the notochord." [WWW:www.encyclo.co.uk/define/Notoplate] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0003075 ! neural plate relationship: start_stage XAO:1000033 ! NF stage 12.5 (Xenopus) [Term] id: XAO:0000049 name: cement gland primordium (Xenopus) namespace: xenopus_anatomy def: "The thickening of the epithelial layer of the ectoderm, with corresponding dark pigmentation, on the anterior dorso-ventral surface of the embryo." [ISBN:0-07-017977-8] synonym: "adhesive organ primordium" EXACT [] synonym: "cement gland" BROAD [] synonym: "cement gland anlage" EXACT [] is_a: UBERON:0001048 ! primordium relationship: develops_from XAO:0000320 ! sensorial layer (Xenopus) relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0000059 name: pronephros namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0002000 ! pronephric kidney [Term] id: XAO:0000061 name: pronephric capsule namespace: xenopus_anatomy is_obsolete: true consider: XAO:0000318 ! glomus [Term] id: XAO:0000069 name: ventral marginal zone (Xenopus) namespace: xenopus_anatomy def: "Embryonic tissue region that will make the ventral mesoderm." [XAO:EJS] synonym: "VMZ" EXACT [] xref: AAO:0010453 is_a: UBERON:0004879 ! marginal zone of embryo relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0000070 name: ventro-lateral marginal zone (Xenopus) namespace: xenopus_anatomy def: "Region of the marginal zone extending from the ventral to lateral surface." [XAO:EJS] xref: AAO:0010454 is_a: UBERON:0004879 ! marginal zone of embryo relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0000071 name: dorso-lateral marginal zone (Xenopus) namespace: xenopus_anatomy def: "Region of the marginal zone extending from the dorsal to lateral surface." [XAO:EJS] xref: AAO:0010450 is_a: UBERON:0004879 ! marginal zone of embryo relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0000073 name: deep (mesenchymal) layer namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000074 name: involuting marginal zone (Xenopus) namespace: xenopus_anatomy def: "Portion of the marginal zone of the embryo that turns inside the embryo during involution." [WWW:worms.zoology.wisc.edu/frogs/glossary.html] synonym: "IMZ" EXACT [] xref: AAO:0010451 is_a: UBERON:0004879 ! marginal zone of embryo relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000075 name: involuting marginal zone mesenchymal layer (Xenopus) namespace: xenopus_anatomy def: "Deep layers of the IMZ consisting of prospective migrating mesodermal cells (which will migrate into the interior and form the leading edge of the mesodermal mantle) and prospective converging and extending mesoderm." [ISBN:0123646200] synonym: "deep involuting marginal zone" RELATED [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000074 ! involuting marginal zone (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000076 name: involuting marginal zone epithelial layer (Xenopus) namespace: xenopus_anatomy def: "Layer of prospective endoderm in the IMZ that will form the roof of the archenteron." [ISBN:0123646200] synonym: "superficial involuting marginal zone" RELATED [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000074 ! involuting marginal zone (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000077 name: bottle cell (Xenopus) namespace: xenopus_anatomy def: "Cell type that is first to migrate inwards at the blastopore during gastrulation." [OMD:bottle+cell] is_a: CL:0000361 ! gastrula cell relationship: end_stage XAO:1000033 ! NF stage 12.5 (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000078 name: blastopore lip (Xenopus) namespace: xenopus_anatomy def: "The edge of the blastopore. Local invagination is caused by narrowing of bottle cells at the exterior edge of the blastula." [ISBN:0-387-53740-6] xref: AAO:0010455 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of UBERON:0000100 ! blastopore relationship: start_stage XAO:1000030 ! NF stage 10.25 (Xenopus) [Term] id: XAO:0000080 name: forelimb region (Xenopus) namespace: xenopus_anatomy def: "The region from which the forelimb develops, first recognizable at NF stage 48, and distinct by NF stage 49." [XAO:curator] subset: anatomical_site_slim ! Anatomical Site slim synonym: "fore limb region" EXACT [] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000060 ! NF stage 48 (Xenopus) [Term] id: XAO:0000081 name: hindlimb region (Xenopus) namespace: xenopus_anatomy def: "The region from which the hindlimb develops, first recognizable as a slight concentration of mesenchymal cells dorsal and lateral to the anal tube at NF stage 43. The epidermal layers thicken dramatically through to NF stage 48, and become vascularised by NF stage 49." [XAO:curator] subset: anatomical_site_slim ! Anatomical Site slim synonym: "hind limb region" EXACT [] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:0000082 name: circumblastoporal collar (Xenopus) namespace: xenopus_anatomy def: "Embryonic structure that develops around the closed blastopore." [PMID:22138030] synonym: "circumblastoporal region" RELATED [] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000926 ! mesoderm relationship: end_stage XAO:1000036 ! NF stage 20 (Xenopus) relationship: start_stage XAO:1000022 ! NF stage 12 (Xenopus) [Term] id: XAO:0000083 name: involuted dorsal mesoderm (Xenopus) namespace: xenopus_anatomy def: "Dorsal mesoderm that has grown and curled inward during gastrulation." [WWW:medical-dictionary.thefreedictionary.com/involution] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000039 ! NF stage 23 (Xenopus) relationship: part_of XAO:0000082 ! circumblastoporal collar (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000084 name: involuted ventral mesoderm (Xenopus) namespace: xenopus_anatomy def: "Ventral mesoderm that has grown and curled inward during gastrulation." [WWW:medical-dictionary.thefreedictionary.com/involution] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000039 ! NF stage 23 (Xenopus) relationship: part_of XAO:0000082 ! circumblastoporal collar (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000088 name: upper blastopore lip (Xenopus) namespace: xenopus_anatomy def: "Dorsal part of the blastopore lip, which forms as a result of the contraction of bottle cells." [XAO:EJS] synonym: "dorsal blastopore lip" RELATED [] xref: AAO:0010457 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of XAO:0000078 ! blastopore lip (Xenopus) relationship: start_stage XAO:1000030 ! NF stage 10.25 (Xenopus) [Term] id: XAO:0000089 name: lower blastopore lip (Xenopus) namespace: xenopus_anatomy def: "Ventral part of the blastopore lip, which forms as a result of the contraction of bottle cells." [XAO:EJS] synonym: "ventral blastopore lip" RELATED [] xref: AAO:0010456 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of XAO:0000078 ! blastopore lip (Xenopus) relationship: start_stage XAO:1000030 ! NF stage 10.25 (Xenopus) [Term] id: XAO:0000091 name: head endoderm (Xenopus) namespace: xenopus_anatomy def: "The endoderm of the head." [XAO:curator] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000925 ! endoderm relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0000093 name: archenteron floor (Xenopus) namespace: xenopus_anatomy def: "The layer of cells forming the ventral surface of the archenteron space of the embryo." [PMID:17540356] xref: AAO:0010431 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: part_of UBERON:0004735 ! archenteron relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000094 name: archenteron roof (Xenopus) namespace: xenopus_anatomy def: "The layer of cells forming the dorsal surface of the archenteron space of the embryo." [PMID:17540356] synonym: "gastrocoel roof" EXACT [] xref: AAO:0010432 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: part_of UBERON:0004735 ! archenteron relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000106 name: post-anal gut (Xenopus) namespace: xenopus_anatomy def: "A temporary extension of the embryonic gut caudal to the cloaca." [WWW:medical-dictionary.thefreedictionary.com/gut] xref: AAO:0010437 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: part_of UBERON:0004735 ! archenteron relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0000109 name: posterior wall of neurenteric canal (Xenopus) namespace: xenopus_anatomy def: "Structure formed by the ventral movement of the proctodeum anlage, which results in the shifting of the circumblastoral collar lateral walls to the posterior end of the embryo." [PMID:7916680] synonym: "posterior wall of NEC" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000043 ! NF stage 27 (Xenopus) relationship: part_of UBERON:0002533 ! tail bud relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0000147 name: glomerus namespace: xenopus_anatomy is_obsolete: true comment: Made obolete - PV, perhaps a typo. [Term] id: XAO:0000149 name: renal proximal convoluted tubule namespace: xenopus_anatomy is_obsolete: true consider: XAO:0000331 ! mesonephric early proximal tubule (Xenopus) [Term] id: XAO:0000150 name: loop of Henle namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000152 name: renal distal convoluted tubule namespace: xenopus_anatomy is_obsolete: true consider: XAO:0000334 ! mesonephric late distal segment (Xenopus) [Term] id: XAO:0000181 name: globe (Xenopus) namespace: xenopus_anatomy def: "A general term for the whole eye, or eye ball, of an organism." [AAO:0010346] synonym: "eye ball" EXACT [] xref: AAO:0010346 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000019 ! camera-type eye relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0000200 name: animal blastomere (Xenopus) namespace: xenopus_anatomy def: "Pigmented, smaller blastomere of the animal (upper) hemisphere of the cleaving embryo." [ISBN:0471209627] synonym: "micromere" RELATED [] xref: AAO:0010283 is_a: CL:0000353 ! blastoderm cell relationship: develops_from UBERON:0012284 ! animal hemisphere relationship: end_stage XAO:1000017 ! NF stage 7 (Xenopus) relationship: start_stage UBERON:0007232 ! 2 cell stage [Term] id: XAO:0000201 name: olfactory apparatus namespace: xenopus_anatomy is_obsolete: true consider: XAO:0000273 ! olfactory organ [Term] id: XAO:0000203 name: archencephalic region namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000206 name: blastocoel anlage (Xenopus) namespace: xenopus_anatomy def: "The first appearance of the anatomical space that will become the blastocoel." [XAO:curator] xref: AAO:0010326 is_a: UBERON:0001048 ! primordium relationship: end_stage XAO:1000018 ! NF stage 8 (Xenopus) relationship: start_stage XAO:1000017 ! NF stage 7 (Xenopus) [Term] id: XAO:0000207 name: blastocoel roof (Xenopus) namespace: xenopus_anatomy def: "The dorsal surface of the blastocoel, the cavity of the blastula." [XAO:curator] xref: AAO:0010436 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000023 ! NF stage 13 (Xenopus) relationship: part_of UBERON:0000090 ! blastocele relationship: start_stage XAO:1000017 ! NF stage 7 (Xenopus) [Term] id: XAO:0000216 name: cortex namespace: xenopus_anatomy def: "Spatial descriptor for the outermost or superficial layer of an organ, such at the cerebral cortex or adrenal gland cortex; or the outer most layers of the oocyte." [XAO:curator] is_obsolete: true consider: XAO:0004467 ! zygote cortex (Xenopus) consider: XAO:0004468 ! organ cortex (Xenopus) [Term] id: XAO:0000219 name: superficial (epithelial) layer namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000221 name: deuterencephalic region namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000222 name: ear placode namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0000223 ! otic placode [Term] id: XAO:0000224 name: vegetal part, early involuting (Xenopus) namespace: xenopus_anatomy def: "Vegetal portion of the marginal zone of the embryo that turns inside the embryo during involution." [WWW:worms.zoology.wisc.edu/frogs/glossary.html] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000074 ! involuting marginal zone (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000226 name: equatorial belt (Xenopus) namespace: xenopus_anatomy def: "Equatorial zone of the zygote with which the plane of first cleavage aligns." [XAO:EJS] xref: AAO:0010328 is_a: UBERON:0000479 ! tissue is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage UBERON:0000106 ! zygote stage relationship: part_of CL:0000365 ! zygote relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0000229 name: fasciculated network of fibrils (Xenopus) namespace: xenopus_anatomy def: "Randomly dispersed fibrils organized into criss-crossing fascicles or bundles in the coelomic envelope of oocytes." [PMID:2909400] synonym: "coelomic envelope" BROAD [] xref: AAO:0010303 is_a: UBERON:0000478 ! extraembryonic structure is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000092 ! mature egg (Xenopus) relationship: part_of CL:0000023 ! oocyte relationship: start_stage XAO:1000083 ! oocyte stage I (Xenopus) [Term] id: XAO:0000231 name: follicle layer (Xenopus) namespace: xenopus_anatomy def: "A monolayer of follicle cells surrounding the developing oocyte and forming adhesive contacts with the surrounding follicular epithelium." [PMID:619165] xref: AAO:0010398 is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000992 ! female gonad relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0000233 name: germ plasm (Xenopus) namespace: xenopus_anatomy def: "A zone found in the cytoplasm of the egg cells which contains determinants that will give rise to the germ cell lineage. As the zygote undergoes mitotic divisions the germ plasm is ultimately restricted to a few cells of the embryo. These germ cells then migrate to the gonads." [XAO:curator] xref: AAO:0010333 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: part_of UBERON:0012285 ! vegetal hemisphere relationship: start_stage UBERON:0007236 ! 8 cell stage [Term] id: XAO:0000234 name: germinal vesicle (Xenopus) namespace: xenopus_anatomy def: "The nucleus of the oocyte, it is enclosed in a nuclear envelope and contains neucleoplasm, in which the chromosomes and extranucleoli are embedded. It breaks down as the oocyte matures, being no longer visible by the first meiotic metaphase." [XAO:curator] synonym: "GV" EXACT [] xref: AAO:0010305 is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage XAO:1000092 ! mature egg (Xenopus) relationship: part_of CL:0000023 ! oocyte relationship: start_stage XAO:1000088 ! oocyte stage VI (Xenopus) [Term] id: XAO:0000239 name: hepato-pancreatic duct (Xenopus) namespace: xenopus_anatomy def: "The pancreatic duct and common bile duct enter the descending duodenum, commonly known together as the hepatopancreatic duct." [XAO:curator] is_a: UBERON:0000058 ! duct relationship: develops_from UBERON:0008835 ! hepatic diverticulum relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002423 ! hepatobiliary system relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0000245 name: mitochondrial aggregate (Xenopus) namespace: xenopus_anatomy def: "A prominent mass in the cytoplasm of previtellogenic oocytes, containing both mitochondria and electron-dense granulofibrillar material." [PMID:6541166] xref: AAO:0010306 is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage XAO:1000083 ! oocyte stage I (Xenopus) relationship: part_of CL:0000023 ! oocyte relationship: start_stage XAO:1000083 ! oocyte stage I (Xenopus) [Term] id: XAO:0000246 name: myocoelic slit (Xenopus) namespace: xenopus_anatomy def: "Space that separates the thicker inner sheet of splanchnic mesoderm from the thinner outer somatic mesoderm." [PMID:5449482] is_a: UBERON:0000464 ! anatomical space relationship: end_stage XAO:1000034 ! NF stage 18 (Xenopus) relationship: part_of UBERON:0003082 ! myotome relationship: start_stage XAO:1000026 ! NF stage 16 (Xenopus) [Term] id: XAO:0000253 name: non-involuting marginal zone (Xenopus) namespace: xenopus_anatomy def: "Animal portion of the marginal zone of the embryo that spreads in front of the animal cap but does not involute during gastrulation." [WWW:worms.zoology.wisc.edu/frogs/glossary.html] synonym: "NIMZ" EXACT [] xref: AAO:0010452 is_a: UBERON:0004879 ! marginal zone of embryo relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000257 name: oral evagination (Xenopus) namespace: xenopus_anatomy def: "An outpocketing of the foregut ventral to the infundibulum and the hypophysis. The walls surrounding this cavity are composed of endoderm." [WWW:www.uoguelph.ca/zoology/devobio/34mmfrog/db34fg1.htm] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0001041 ! foregut relationship: end_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) relationship: part_of UBERON:0001007 ! digestive system relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0000260 name: perivitelline space (Xenopus) namespace: xenopus_anatomy def: "The space between the zona pellucida and the cell membrane of an oocyte or fertilized ovum." [WWW:en.wikipedia.org/wiki/Perivitelline_space] xref: AAO:0010329 is_a: UBERON:0000478 ! extraembryonic structure relationship: end_stage UBERON:0000106 ! zygote stage relationship: part_of CL:0000365 ! zygote relationship: start_stage XAO:1000092 ! mature egg (Xenopus) [Term] id: XAO:0000261 name: pigment layer (Xenopus) namespace: xenopus_anatomy def: "Outer layer of the developing optic vesicle, which contains pigmented epithelium." [XAO:EJS] xref: AAO:0010350 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000047 ! NF stage 32 (Xenopus) relationship: part_of UBERON:0004128 ! optic vesicle relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0000263 name: primary oogonium (Xenopus) namespace: xenopus_anatomy def: "A germ cell that is a primordial oocyte in a female and that develops into secondary oogonia by mitotic division." [XAO:EJS] synonym: "primary oogonia" RELATED PLURAL [] xref: AAO:0010297 is_a: CL:0000586 ! germ cell relationship: develops_from CL:0000670 ! primordial germ cell relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000992 ! female gonad relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0000267 name: hypophyseal primordium (Xenopus) namespace: xenopus_anatomy def: "The hypophyseal layer that separates from the stomodeal layer of the stomodeal-hypophyseal primordium at NF stage 29 and 30." [XAO:EJS] is_a: UBERON:0001048 ! primordium relationship: develops_from XAO:0000032 ! stomodeal-hypophyseal primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) [Term] id: XAO:0000268 name: secondary oogonium (Xenopus) namespace: xenopus_anatomy def: "A type of germ cell that results from the mitotic division of a primary oogonium." [XAO:EJS] synonym: "secondary oogonia" RELATED PLURAL [] xref: AAO:0010299 is_a: CL:0000586 ! germ cell relationship: develops_from XAO:0000263 ! primary oogonium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0000270 name: sensorial layer of neurectoderm (Xenopus) namespace: xenopus_anatomy def: "Deep layer of the neural ectoderm, which undergoes early neuronal differentiation." [PMID:11832243] synonym: "deep layer of neurectoderm" RELATED [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0002346 ! neurectoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000274 name: sperm entry point (Xenopus) namespace: xenopus_anatomy def: "The point on the surface of the egg at which the sperm enters the egg." [XAO:EJS] xref: AAO:0010330 is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage UBERON:0000106 ! zygote stage relationship: part_of CL:0000365 ! zygote relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0000278 name: animal part, late involuting (Xenopus) namespace: xenopus_anatomy def: "When the marginal zone mesoderm undergoes involution, where the marginal zone contacts the vegetal base." [XAO:curator] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000074 ! involuting marginal zone (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000279 name: vegetal blastomere (Xenopus) namespace: xenopus_anatomy def: "Unpigmented, larger blastomere of the vegetal (lower) hemisphere of the cleaving embryo." [ISBN:0471209627] synonym: "macromere" RELATED [] xref: AAO:0010284 is_a: CL:0000353 ! blastoderm cell relationship: develops_from UBERON:0012285 ! vegetal hemisphere relationship: end_stage XAO:1000017 ! NF stage 7 (Xenopus) relationship: start_stage UBERON:0007232 ! 2 cell stage [Term] id: XAO:0000281 name: vegetal yolk mass (Xenopus) namespace: xenopus_anatomy def: "Cell mass in the vegetal region of the embryo that will contribute to endoderm." [XAO:EJS] synonym: "vegetal cell mass" EXACT [] xref: AAO:0010334 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: start_stage XAO:1000019 ! NF stage 9 (Xenopus) [Term] id: XAO:0000286 name: late proximal tubule (Xenopus) namespace: xenopus_anatomy def: "Portion of the pronephric tubule that is immediately posterior to the early proximal tubule and anterior to the early distal tubule." [PMID:15223337] synonym: "PT3" EXACT [] synonym: "late proximal segment" EXACT [] synonym: "proximal tubule 3" EXACT [] xref: AAO:0011122 is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000076 ! NF stage 64 (Xenopus) relationship: part_of UBERON:0005309 ! pronephric nephron relationship: start_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) [Term] id: XAO:0000288 name: early proximal tubule (Xenopus) namespace: xenopus_anatomy def: "Portion of the pronephric tubule that is immediately anterior to the late proximal tubule." [PMID:15223337] synonym: "PT2" EXACT [] xref: AAO:0011120 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0005721 ! pronephric mesoderm relationship: end_stage XAO:1000076 ! NF stage 64 (Xenopus) relationship: part_of UBERON:0005309 ! pronephric nephron relationship: start_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) [Term] id: XAO:0000289 name: late distal segment (Xenopus) namespace: xenopus_anatomy def: "Pronephric segment immediately posterior to the early distal tubule and anterior to the pronehric duct." [PMID:15223337] synonym: "DT1" EXACT [] xref: AAO:0011121 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0005721 ! pronephric mesoderm relationship: end_stage XAO:1000076 ! NF stage 64 (Xenopus) relationship: part_of UBERON:0005309 ! pronephric nephron relationship: start_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) [Term] id: XAO:0000290 name: pronephric nephron segment S1 namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000293 name: neural fold namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0004087 ! neural fold [Term] id: XAO:0000295 name: central endoderm (Xenopus) namespace: xenopus_anatomy def: "The portion of endoderm between dorsal and ventral blastopore lips, and extending towards to the blastocoel." [XAO:curator] synonym: "endodermal yolk mass" RELATED [] synonym: "vegetal endodermal core" RELATED [] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000026 ! NF stage 16 (Xenopus) relationship: part_of UBERON:0000925 ! endoderm relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0000309 name: marginal zone (sensu neural) (Xenopus) namespace: xenopus_anatomy def: "Region of the neural tube that will become the white matter of the nervous system." [ISBN:0393974308] subset: anatomical_site_slim ! Anatomical Site slim is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0000310 name: anterior neural fold (Xenopus) namespace: xenopus_anatomy def: "The anterior U-shaped portion of the neural folds, the two longitudinal dorsal ridges, caused by a folding up of the ectoderm, that make their appearance on either side of the middle line of the early neural embryo." [XAO:curator] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0003056 ! pre-chordal neural plate relationship: part_of UBERON:0005062 ! neural fold relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0000320 name: sensorial layer (Xenopus) namespace: xenopus_anatomy def: "The inner layer of ectoderm." [XAO:curator] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000924 ! ectoderm relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0000323 name: profundus ganglion (Xenopus) namespace: xenopus_anatomy def: "Type of ganglion that is separate distally from the trigeminal ganglia; they become fused at their proximal end as they condense." [PMID:21452441] synonym: "cranial ganglion" RELATED [] synonym: "profundus ganglia" RELATED PLURAL [] is_a: UBERON:0000045 ! ganglion relationship: develops_from XAO:0004093 ! profundal placode (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0000324 name: hypobranchial placode (Xenopus) namespace: xenopus_anatomy def: "A unique type of neurogenic placode, located ventral and caudal to the 2nd and 3rd pharyngeal pouches, which gives rise to small hypobranchial ganglia of yet unknown function." [PMID:12712315] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003067 ! dorsolateral placode relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0000327 name: right spleen primordium (Xenopus) namespace: xenopus_anatomy def: "Transient splenic primordia that degenerates by NF stage 40." [XAO:curator] synonym: "spleen" BROAD [] is_a: UBERON:0001048 ! primordium relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of UBERON:0002405 ! immune system relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0000331 name: mesonephric early proximal tubule (Xenopus) namespace: xenopus_anatomy def: "Structure that is equivalent to the convoluted proximal tubule of metanephric nephrons." [XAO:curator] xref: AAO:0010392 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0005322 ! mesonephric nephron relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000083 ! mesonephric tubule relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0000332 name: mesonephric late proximal tubule (Xenopus) namespace: xenopus_anatomy def: "Structure that is the mesonephros nephron's equivalent to the straight proximal segment of a metanephric nephron." [XAO:curator] synonym: "opisthonephros" RELATED [] synonym: "proximal straight segment" RELATED [] xref: AAO:0010394 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0005322 ! mesonephric nephron relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000083 ! mesonephric tubule relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0000334 name: mesonephric late distal segment (Xenopus) namespace: xenopus_anatomy def: "The site of bicarbonate resorption in the adult kidney. It is equivalent to the convoluted distal segment of metanephric nephrons." [XAO:curator] xref: AAO:0010393 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0005322 ! mesonephric nephron relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000083 ! mesonephric tubule relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0000339 name: left channel of ventral aorta (Xenopus) namespace: xenopus_anatomy def: "Of the paired ventral aortas in the tadpole, the one that branches into the left aortic arches." [PMID:8928932] xref: AAO:0010413 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003085 ! ventral aorta relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0000340 name: right channel of ventral aorta (Xenopus) namespace: xenopus_anatomy def: "Of the paired ventral aortas in the tadpole, the one that branches into the right aortic arches." [PMID:8928932] xref: AAO:0010424 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003085 ! ventral aorta relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0000349 name: larval aorta (Xenopus) namespace: xenopus_anatomy def: "The aorta of a postembryonic, hatched or immature tadpole, prior to metamorphosis." [XAO:curator] xref: AAO:0010423 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003120 ! aortic arch 3 relationship: develops_from UBERON:0005805 ! dorsal aorta relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:0000351 name: secondary vessel namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0000354 name: posterior palatine artery (Xenopus) namespace: xenopus_anatomy def: "One of three branches of the internal carotid artery, the palatine artery supplies the mouth region." [PMID:12606281] xref: AAO:0010417 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003118 ! aortic arch 1 relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001532 ! internal carotid artery relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0000362 name: coeliaco-mesenteric artery (Xenopus) namespace: xenopus_anatomy def: "Artery consisting of many branches which supply blood to various organs in the viscus. One of the major blood vessels, branching off the dorsal aorta and supplying the embryonic foregut organs- liver, stomach, intestine, spleen and pancreas." [AAO:0010499, ISBN:0-07-017977-8] xref: AAO:0010499 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0005805 ! dorsal aorta relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0000363 name: occipitovertebral artery (Xenopus) namespace: xenopus_anatomy def: "One of paired arteries that extends dorsally from the systemic arch to supply the muscles of the jaw and back." [ISBN:0801836018] is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0005805 ! dorsal aorta relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0000369 name: anterior palatine artery (Xenopus) namespace: xenopus_anatomy def: "One of three branches of the internal carotid artery, the palatine artery supplies the mouth region." [PMID:12606281] is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0001532 ! internal carotid artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001532 ! internal carotid artery relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0000371 name: right lymph heart (Xenopus) namespace: xenopus_anatomy def: "Lymph hearts are pulsatile organs, present in lower vertebrates, that function to propel lymph into the venous system. Two bilaterally symmetrical lymph hearts can be seen adjacent to the somites 3 and 4 by NF stage 40, and can be seen beating by NF stage 43." [PMID:12606281, PMID:20067786] is_a: UBERON:0000489 ! cavitated compound organ relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002465 ! lymphoid system relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0000372 name: left lymph heart (Xenopus) namespace: xenopus_anatomy def: "Lymph hearts are pulsatile organs, present in lower vertebrates, that function to propel lymph into the venous system. Two bilaterally symmetrical lymph hearts can be seen adjacent to the somites 3 and 4 by NF stage 40, and can be seen beating by NF stage 43." [PMID:12606281, PMID:20067786] is_a: UBERON:0000489 ! cavitated compound organ relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002465 ! lymphoid system relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0000374 name: dorsal lymph space (Xenopus) namespace: xenopus_anatomy def: "Large subdermal lymph-containing space located dorsally near the last vertebrae." [XAO:EJS] is_a: UBERON:0000464 ! anatomical space relationship: develops_from XAO:0000371 ! right lymph heart (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002465 ! lymphoid system relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0000377 name: capillary system of liver (Xenopus) namespace: xenopus_anatomy def: "The smallest of the blood vessels, parts of the microcirculation, of the liver." [XAO:curator] synonym: "liver capillary" EXACT [] xref: AAO:0010404 is_a: UBERON:0001982 ! capillary relationship: develops_from UBERON:0005487 ! vitelline vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002107 ! liver relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0000378 name: musculoabdominal vein (Xenopus) namespace: xenopus_anatomy def: "Ventrolateral component of the external jugular vein." [PMID:12606281] is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0000380 name: lateral postcardinal vein (Xenopus) namespace: xenopus_anatomy def: "Vein that first appears as disconnected portions lateral to the Wolffian ducts at NF stage 44, gradually becoming continuous. They come into communication with the medial postcardinals at the kidney sinus." [ISBN:0815318960] is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000056 ! NF stage 44 (Xenopus) [Term] id: XAO:0000384 name: medial cardinal vein (Xenopus) namespace: xenopus_anatomy def: "Vein that gives rise to the interrenal vein and pronephric sinus." [XAO:EJS] is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0004344 ! cardinal vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0000386 name: interrenal vein (Xenopus) namespace: xenopus_anatomy def: "Vein formed from fusion of the posterior cardinal veins and that extends caudally." [ISBN:0226557626] is_a: UBERON:0001638 ! vein relationship: develops_from XAO:0000384 ! medial cardinal vein (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0000391 name: subinterstitial vein (Xenopus) namespace: xenopus_anatomy def: "Vein that carries away fluid in the interstitial spaces." [XAO:curator] is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0000395 name: medial abdominal vein (Xenopus) namespace: xenopus_anatomy def: "Vein in the posterior region that drains the ventral abdominal wall." [ISBN:0815318960] is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0000396 name: head somite 1 (Xenopus) namespace: xenopus_anatomy def: "Transient occipital somite that exists from NF stages 17 to 26 only." [XAO:curator] synonym: "somite W" RELATED [PMID:2769206] is_a: UBERON:0005594 ! head somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000042 ! NF stage 26 (Xenopus) relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0000399 name: tendon fibroblast (Xenopus) namespace: xenopus_anatomy def: "An elongated fibroblast type cell, the cytoplasm of which is stretched between the collagen fibres of the tendon." [WWW:en.wikipedia.org/wiki/Tendon_cell] is_a: CL:0000057 ! fibroblast relationship: develops_from UBERON:0003089 ! sclerotome relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0000401 name: sclerotomal cartilage (Xenopus) namespace: xenopus_anatomy def: "Sclerotome cells of the cartilage fate." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003089 ! sclerotome relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of UBERON:0003089 ! sclerotome relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0000403 name: head somite 2 (Xenopus) namespace: xenopus_anatomy def: "Transient occipital somite that exists from NF stages 18 to 29 only." [XAO:curator] synonym: "somite X" RELATED [PMID:2769206] is_a: UBERON:0005594 ! head somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0000404 name: head somite 3 (Xenopus) namespace: xenopus_anatomy def: "Transient occipital somite that exists from NF stages 18 to 29/30 only." [XAO:curator] synonym: "somite Y" RELATED [PMID:2769206] is_a: UBERON:0005594 ! head somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0000405 name: head somite 4 (Xenopus) namespace: xenopus_anatomy def: "Transient occipital somite that exists from NF stages 19 to late 30's." [XAO:curator] synonym: "somite Z" RELATED [PMID:2769206] is_a: UBERON:0005594 ! head somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0000406 name: trunk somite 1 (Xenopus) namespace: xenopus_anatomy def: "Trunk somite that is initially the 5th somite, first forming around NF stage 19 and becoming more anteriorly positioned as the head somites degenerate. It is the most anterior somite by NF stage 45 and is adjacent to the otic vesicle." [ISBN:0815318960] synonym: "fifth somite" RELATED [] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0000407 name: trunk somite 2 (Xenopus) namespace: xenopus_anatomy def: "Trunk somite that is initially the sixth somite." [ISBN:0815318960] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0000408 name: trunk somite 3 (Xenopus) namespace: xenopus_anatomy def: "The 1st somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0000409 name: trunk somite 4 (Xenopus) namespace: xenopus_anatomy def: "The 2nd somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000037 ! NF stage 21 (Xenopus) [Term] id: XAO:0000410 name: trunk somite 5 (Xenopus) namespace: xenopus_anatomy def: "The 3rd somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0000411 name: trunk somite 6 (Xenopus) namespace: xenopus_anatomy def: "The 4th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0000412 name: trunk somite 7 (Xenopus) namespace: xenopus_anatomy def: "The 5th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0000414 name: sclerotomal mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchymal cells that break from the sclerotome. Such cells migrate from the somite to surround the notochord." [ISBN:0123190606] is_a: UBERON:0003104 ! mesenchyme relationship: develops_from UBERON:0003089 ! sclerotome relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of UBERON:0003089 ! sclerotome relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0000415 name: notochordal sheath (Xenopus) namespace: xenopus_anatomy def: "Mesenchymal covering surrounding the notochord, derived from sclerotomal mesenchyme." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: develops_from XAO:0000414 ! sclerotomal mesenchyme (Xenopus) relationship: end_stage XAO:1000074 ! NF stage 62 (Xenopus) relationship: part_of UBERON:0002328 ! notochord relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0000416 name: trunk somite 8 (Xenopus) namespace: xenopus_anatomy def: "The 6th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0000417 name: trunk somite 9 (Xenopus) namespace: xenopus_anatomy def: "The 7th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0000418 name: trunk somite 10 (Xenopus) namespace: xenopus_anatomy def: "The 8th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0000419 name: trunk somite 11 (Xenopus) namespace: xenopus_anatomy def: "The 9th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0000420 name: trunk somite 12 (Xenopus) namespace: xenopus_anatomy def: "The 10th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0000421 name: trunk somite 13 (Xenopus) namespace: xenopus_anatomy def: "The 11th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0000422 name: trunk somite 14 (Xenopus) namespace: xenopus_anatomy def: "The 12th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0000423 name: trunk somite 15 (Xenopus) namespace: xenopus_anatomy def: "The 13th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0000424 name: trunk somite 16 (Xenopus) namespace: xenopus_anatomy def: "The 14th somite located posterior to the head. It forms at NF stage 28, by which time head somite 1 has degenerated." [XAO:curator] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0000425 name: trunk somite 17 (Xenopus) namespace: xenopus_anatomy def: "The 15th somite located posterior to the head." [XAO:EJS] is_a: UBERON:0005598 ! trunk somite relationship: develops_from UBERON:0003059 ! presomitic mesoderm relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0000439 name: filter chamber (Xenopus) namespace: xenopus_anatomy def: "The structure that enables tadpoles, which are suspension feeders, to trap food particles. The palatoquadrate, ceratohyal and the connecting muscles are responsible for the irrigation and ventilation of the filter apparatus." [XAO:curator] synonym: "coelom" RELATED [] synonym: "coelomic filter chamber" RELATED [] synonym: "filter apparatus" EXACT [] synonym: "peribranchial chamber" EXACT [] is_a: UBERON:0000464 ! anatomical space relationship: end_stage XAO:1000074 ! NF stage 62 (Xenopus) relationship: part_of UBERON:0003081 ! lateral plate mesoderm relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0000441 name: infraorbital lateral line primordium (Xenopus) namespace: xenopus_anatomy def: "Lateral line primordium which migrates ventrad along the posterior and ventral margin of the eye." [PMID:2652193] is_a: XAO:0004411 ! lateral line primordium (Xenopus) relationship: develops_from UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000054 ! NF stage 42 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0000443 name: trunk lateral line (Xenopus) namespace: xenopus_anatomy def: "A lateral line that is present on the trunk of the organism." [XAO:EJS] is_a: UBERON:0010202 ! lateral line relationship: develops_from UBERON:0009128 ! lateral line placode relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0000460 name: hyomandibular lateral line (Xenopus) namespace: xenopus_anatomy def: "Lateral line complex that radiates on the ventral side of the head from a point between the eye and the base of the larval tentacle." [PMID:2652193] is_a: UBERON:0010202 ! lateral line relationship: develops_from XAO:0000441 ! infraorbital lateral line primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:0000461 name: trunk placode (Xenopus) namespace: xenopus_anatomy def: "Thickened plate of ectoderm that contributes to the formation of the dorsal, middle, or ventral lateral line." [XAO:EJS] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from XAO:0000320 ! sensorial layer (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0000464 name: ventral lateral line (Xenopus) namespace: xenopus_anatomy def: "Ventrally located lateral line that runs over the abdomen." [XAO:EJS] is_a: UBERON:0010202 ! lateral line relationship: develops_from XAO:0000461 ! trunk placode (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0000470 name: unicellular gland (Xenopus) namespace: xenopus_anatomy def: "Any of the large number of glands of the larval skin, particularly common in the fins and adjacent skin of the trunk; also formed in the former frontal gland area on the upper jaw." [ISBN:0815318960] xref: AAO:0010377 is_a: UBERON:0003102 ! surface structure relationship: develops_from XAO:0000320 ! sensorial layer (Xenopus) relationship: end_stage UBERON:0000112 ! juvenile stage relationship: start_stage XAO:1000062 ! NF stage 50 (Xenopus) [Term] id: XAO:0001012 name: Stirnorgan (Xenopus) namespace: xenopus_anatomy def: "Structure that is part of the pineal system, is located in the skin on the dorsal surface of the head, and is exposed continuously to ambient illumination." [DOI:dx.doi.org/10.1007/BF00663609] synonym: "frontal organ" RELATED [] is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0001905 ! pineal body relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002104 ! visual system relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0001016 name: abdominal myoblast (Xenopus) namespace: xenopus_anatomy def: "The myoblast that forms the muscles of the anterior abdominal walls." [AAO:0010314] synonym: "abdominal musculature" RELATED [] xref: AAO:0010314 is_a: CL:0000056 ! myoblast relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of UBERON:0003082 ! myotome relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0001018 name: anterior lymph sac (Xenopus) namespace: xenopus_anatomy def: "The protrusion of mesenchymal tissue of the anterior cardinal vein which form lymph sacs." [PMID:17062017] synonym: "rostral lymph sac" RELATED [] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0001919 ! endothelium of vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002465 ! lymphoid system relationship: start_stage XAO:1000071 ! NF stage 59 (Xenopus) [Term] id: XAO:0001020 name: elastica externa (Xenopus) namespace: xenopus_anatomy def: "Notochordal membrane covering derived from notochordal epithelium. Its first indication is at NF stage 24, and it is a distinct membrane by NF stage 28." [ISBN:0815318960] synonym: "notochordal sheath" RELATED [] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0002328 ! notochord relationship: end_stage XAO:1000074 ! NF stage 62 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0001021 name: notochordal epithelium (Xenopus) namespace: xenopus_anatomy def: "Outer layer of cells of the differentiating notochord, which give rise to the elastica externa and interna." [WWW:dev.biologists.org/content/1/4/411.abstract] is_a: UBERON:0000483 ! epithelium relationship: develops_from UBERON:0002328 ! notochord relationship: end_stage XAO:1000074 ! NF stage 62 (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0001102 name: second pancreatic bud (Xenopus) namespace: xenopus_anatomy def: "Second of two pancreatic primordia that give rise to a ventral pancreatic bud." [XAO:EJS] synonym: "pancreas" BROAD [] is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0001041 ! foregut relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: part_of UBERON:0001007 ! digestive system relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0003003 name: unspecified (Xenopus) namespace: xenopus_anatomy comment: Annotation of data with this anatomy term indicates that a structure or tissue was not specified by the investigator. is_a: UBERON:0001062 ! anatomical entity relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0003018 name: primary spermatogonium (Xenopus) namespace: xenopus_anatomy def: "A germ cell that is a primordial spermatocyte in a male and that develops into secondary spermatogonia by mitotic division." [ISSN:0289-0003] synonym: "primary spermatogonia" RELATED PLURAL [] xref: AAO:0010298 is_a: CL:0000586 ! germ cell relationship: develops_from CL:0000670 ! primordial germ cell relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000473 ! testis relationship: start_stage XAO:1000071 ! NF stage 59 (Xenopus) [Term] id: XAO:0003020 name: secondary spermatogonium (Xenopus) namespace: xenopus_anatomy def: "A type of germ cell that results from the mitotic division of a primary spermatogonium." [ISSN:0289-0003] synonym: "secondary spermatogonia" RELATED PLURAL [] xref: AAO:0010300 is_a: CL:0000586 ! germ cell relationship: develops_from XAO:0003018 ! primary spermatogonium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000071 ! NF stage 59 (Xenopus) [Term] id: XAO:0003021 name: spinal cord neuron namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0003058 name: larval structure namespace: xenopus_anatomy is_obsolete: true [Term] id: XAO:0003067 name: fore epipodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0004297 ! forelimb zeugopod (Xenopus) [Term] id: XAO:0003068 name: fore mesopodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0003207 ! carpus [Term] id: XAO:0003069 name: hind propodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0004296 ! hindlimb stylopod (Xenopus) [Term] id: XAO:0003070 name: hind metapodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0003212 ! metatarsus [Term] id: XAO:0003071 name: fore propodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0004295 ! forelimb stylopod (Xenopus) [Term] id: XAO:0003072 name: hind epipodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0004298 ! hindlimb zeugopod (Xenopus) [Term] id: XAO:0003082 name: sucker namespace: xenopus_anatomy is_obsolete: true consider: XAO:0000033 ! cement gland [Term] id: XAO:0003083 name: braincase and otic capsule skeleton (Xenopus) namespace: xenopus_anatomy def: "Skeleton encasing the brain and auditory apparatus." [ISBN:0-07-017977-8] xref: AAO:0000052 is_a: XAO:0004289 ! skeletal subdivision (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0010323 ! cranial skeletal system relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0003104 name: myotome of head somite 1 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 1 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000396 ! head somite 1 (Xenopus) relationship: end_stage XAO:1000042 ! NF stage 26 (Xenopus) relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0003105 name: myotome of head somite 2 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 2 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000403 ! head somite 2 (Xenopus) relationship: end_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0003106 name: myotome of head somite 3 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 3 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000404 ! head somite 3 (Xenopus) relationship: end_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0003107 name: myotome of head somite 4 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 4 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000405 ! head somite 4 (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0003108 name: myotome of trunk somite 1 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 1 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000406 ! trunk somite 1 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0003109 name: myotome of trunk somite 2 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 2 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000407 ! trunk somite 2 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0003110 name: myotome of trunk somite 3 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 3 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000408 ! trunk somite 3 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0003111 name: myotome of trunk somite 4 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 4 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000409 ! trunk somite 4 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000037 ! NF stage 21 (Xenopus) [Term] id: XAO:0003112 name: sclerotome of head somite 4 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 4 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000405 ! head somite 4 (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0003113 name: sclerotome of trunk somite 1 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 1 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000406 ! trunk somite 1 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0003114 name: sclerotome of trunk somite 2 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 2 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000407 ! trunk somite 2 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0003115 name: sclerotome of trunk somite 3 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 3 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000408 ! trunk somite 3 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0003116 name: sclerotome of trunk somite 4 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 4 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000409 ! trunk somite 4 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000037 ! NF stage 21 (Xenopus) [Term] id: XAO:0003117 name: myotome of trunk somite 5 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 5 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000410 ! trunk somite 5 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0003118 name: myotome of trunk somite 6 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 6 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000411 ! trunk somite 6 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0003119 name: myotome of trunk somite 7 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 7 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000412 ! trunk somite 7 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003120 name: myotome of trunk somite 8 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 8 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000416 ! trunk somite 8 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003121 name: sclerotome of trunk somite 5 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 5 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000410 ! trunk somite 5 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0003122 name: sclerotome of trunk somite 6 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 6 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000411 ! trunk somite 6 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0003123 name: sclerotome of trunk somite 7 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 7 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000412 ! trunk somite 7 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003124 name: sclerotome of trunk somite 8 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 8 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000416 ! trunk somite 8 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003125 name: myotome of trunk somite 9 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 9 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000417 ! trunk somite 9 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003126 name: sclerotome of trunk somite 9 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 9 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000417 ! trunk somite 9 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:0003127 name: sclerotome of trunk somite 10 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 10 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000418 ! trunk somite 10 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0003128 name: myotome of trunk somite 10 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 10 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000418 ! trunk somite 10 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0003129 name: sclerotome of trunk somite 11 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 11 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000419 ! trunk somite 11 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0003130 name: myotome of trunk somite 11 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 11 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000419 ! trunk somite 11 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0003131 name: sclerotome of trunk somite 12 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 12 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000420 ! trunk somite 12 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0003132 name: myotome of trunk somite 12 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 12 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000420 ! trunk somite 12 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0003133 name: sclerotome of trunk somite 13 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 13 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000421 ! trunk somite 13 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0003134 name: myotome of trunk somite 13 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 13 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000421 ! trunk somite 13 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0003135 name: sclerotome of trunk somite 14 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 14 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000422 ! trunk somite 14 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0003136 name: myotome of trunk somite 14 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 14 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000422 ! trunk somite 14 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0003137 name: sclerotome of trunk somite 15 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 15 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000423 ! trunk somite 15 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0003138 name: myotome of trunk somite 15 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 15 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000423 ! trunk somite 15 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0003139 name: sclerotome of trunk somite 16 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 16 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000424 ! trunk somite 16 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0003140 name: myotome of trunk somite 16 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 16 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000424 ! trunk somite 16 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0003141 name: sclerotome of trunk somite 17 (Xenopus) namespace: xenopus_anatomy def: "Compartment of trunk somite 17 that is a precursor of the axial skeleton." [XAO:EJS] is_a: UBERON:0003089 ! sclerotome relationship: develops_from XAO:0000425 ! trunk somite 17 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0003142 name: myotome of trunk somite 17 (Xenopus) namespace: xenopus_anatomy def: "Compartment of head somite 17 that is a precursor of muscle." [XAO:EJS] is_a: UBERON:0003082 ! myotome relationship: develops_from XAO:0000425 ! trunk somite 17 (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0003144 name: amphibian papilla (Xenopus) namespace: xenopus_anatomy def: "The principal auditory organ of frog that utilizes both mechanical and electrical (hair cell-based) frequency tuning mechanisms for hearing, located near the junction of the utricle and the saccule bones of the inner ear." [PMID:10377339] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001846 ! internal ear relationship: start_stage XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:0003153 name: larval immune system (Xenopus) namespace: xenopus_anatomy def: "The immune system of a postembryonic, hatched or immature tadpole, prior to metamorphosis." [XAO:curator] is_a: UBERON:0002405 ! immune system relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0003154 name: adult immune system (Xenopus) namespace: xenopus_anatomy def: "The complete system of biological structures and processes within the adult organism that protects against disease by identifying and killing pathogens and tumor cells." [XAO:curator] xref: AAO:0011003 is_a: UBERON:0002405 ! immune system relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000093 ! adult frog (Xenopus) [Term] id: XAO:0003167 name: fore metapodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0003208 ! metacarpus [Term] id: XAO:0003168 name: hind mesopodium namespace: xenopus_anatomy is_obsolete: true replaced_by: XAO:0003211 ! tarsus [Term] id: XAO:0003181 name: branchial arch skeleton 1 (Xenopus) namespace: xenopus_anatomy def: "Skeletal and cartilaginous elements of the first branchial or pharyngeal arch." [XAO:curator] is_a: UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003114 ! pharyngeal arch 3 relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0003182 name: branchial arch skeleton 2 (Xenopus) namespace: xenopus_anatomy def: "Skeletal and cartilaginous elements of the second branchial or pharyngeal arch." [XAO:curator] is_a: UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0003183 name: branchial arch skeleton 3 (Xenopus) namespace: xenopus_anatomy def: "Skeletal and cartilaginous elements of the third branchial or pharyngeal arch." [XAO:curator] is_a: UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003116 ! pharyngeal arch 5 relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0003184 name: branchial arch skeleton 4 (Xenopus) namespace: xenopus_anatomy def: "Skeletal and cartilaginous elements of the forth branchial or pharyngeal arch." [XAO:curator] is_a: UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0003186 name: anatomical region (Xenopus) namespace: xenopus_anatomy def: "A region of the whole organism that contains a recognizable set of structures or anatomical entities." [XAO:curator] is_a: UBERON:0001062 ! anatomical entity relationship: develops_from UBERON:0000922 ! embryo relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000468 ! multi-cellular organism relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0003268 name: cardiac progenitor cell (Xenopus) namespace: xenopus_anatomy def: "Presumptive precardiac cells which lie as paired primordia 30 to 45 degree on either side of the dorsal midline of the Xenopus embryo, and as gastrulation proceeds, these migrate laterally, eventually fusing at the anterior ventral midline, where they differentiate into cardiac tissue. Cells that give rise to the linear heart tube of the fused heart primordium and derive from the cardiac crescent." [PMID:17194606, PMID:2340810] synonym: "CPC" EXACT [] is_a: CL:0000000 ! cell relationship: end_stage XAO:1000035 ! NF stage 19 (Xenopus) relationship: part_of UBERON:0003084 ! heart primordium relationship: start_stage XAO:1000024 ! NF stage 14 (Xenopus) [Term] id: XAO:0004023 name: craniofacial skeleton (Xenopus) namespace: xenopus_anatomy def: "Cranial skeleton derived from neural crest cells." [VAO:00000082] synonym: "cranio-facial skeleton" EXACT [] xref: VSAO:0000082 is_a: XAO:0004279 ! cranial skeleton (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004024 name: craniofacial region (Xenopus) namespace: xenopus_anatomy def: "Anatomical cluster that encompasses the cranium and facial structures." [XAO:EJS] xref: VSAO:0000083 is_a: UBERON:0000477 ! anatomical cluster relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000033 ! head relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004027 name: extracellular matrix (Xenopus) namespace: xenopus_anatomy def: "Combination of protein fibers, ground substance and tissue fluid; typically has embedded cells." [VAO:0000022] synonym: "ECM" EXACT [] xref: VSAO:0000022 is_a: UBERON:0000476 ! acellular anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004032 name: proteinaceous extracellular matrix (Xenopus) namespace: xenopus_anatomy def: "A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity." [VAO:0000021] xref: VSAO:0000021 is_a: XAO:0004027 ! extracellular matrix (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004033 name: avascular GAG-rich matrix (Xenopus) namespace: xenopus_anatomy def: "Proteinaceous extracellular matrix that is avascular and consists primarily of glycosaminoglycans." [VAO:0000059] synonym: "avascular glycosaminoglycan-rich matrix" EXACT [] synonym: "cartilage matrix" EXACT [] synonym: "cartilage-like matrix" EXACT [] xref: VSAO:0000059 is_a: XAO:0004032 ! proteinaceous extracellular matrix (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004034 name: mineralized extracellular matrix (Xenopus) namespace: xenopus_anatomy def: "Extracellular matrix that is mineralized." [VAO:0000020] xref: VSAO:0000020 is_a: XAO:0004032 ! proteinaceous extracellular matrix (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004036 name: mineralized avascular GAG-rich matrix (Xenopus) namespace: xenopus_anatomy def: "Avascular GAG-rich matrix that is mineralized." [VAO:0000120] xref: VSAO:0000120 is_a: XAO:0004033 ! avascular GAG-rich matrix (Xenopus) is_a: XAO:0004034 ! mineralized extracellular matrix (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004055 ! mineralized cartilage tissue (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004037 name: non-mineralized avascular GAG-rich matrix (Xenopus) namespace: xenopus_anatomy def: "Avascular GAG-rich matrix that is not mineralized." [VAO:0000119] synonym: "non-mineralized cartilage" EXACT [] xref: VSAO:0000119 is_a: XAO:0004033 ! avascular GAG-rich matrix (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004043 ! non-mineralized cartilage tissue (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004039 name: mineralized tissue (Xenopus) namespace: xenopus_anatomy def: "Skeletal tissue that is mineralized." [XAO:EJS] xref: VSAO:0000013 is_a: UBERON:0004755 ! skeletal tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004040 name: mineralized bone tissue (Xenopus) namespace: xenopus_anatomy def: "Bone tissue mineralized with hydroxyapatite." [VAO:0000115] xref: VSAO:0000115 is_a: UBERON:0001474 ! bone element is_a: XAO:0004039 ! mineralized tissue (Xenopus) relationship: develops_from UBERON:0008883 ! osteoid relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004034 ! mineralized extracellular matrix (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004041 name: mineralized hyaline cartilage tissue (Xenopus) namespace: xenopus_anatomy def: "Hyaline cartilage tissue that is mineralized." [VAO:0000109] xref: VSAO:0000109 is_a: XAO:0004039 ! mineralized tissue (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004043 name: non-mineralized cartilage tissue (Xenopus) namespace: xenopus_anatomy def: "Cartilage tissue that is not mineralized." [VAO:0000089] xref: VSAO:0000089 is_a: UBERON:0002418 ! cartilage tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004047 name: oropharyngeal papilla (Xenopus) namespace: xenopus_anatomy def: "Odontogenic papilla located along the jaws or pharyngeal skeleton." [VAO:0000030] synonym: "oropharyngeal dental papilla" EXACT [] xref: VSAO:0000030 is_a: UBERON:0001763 ! odontogenic papilla relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004054 name: vacuolated notochordal tissue (Xenopus) namespace: xenopus_anatomy def: "Connective tissue that is matrix-poor with large number of vacuolated cells." [VAO:0000053] synonym: "notochord proper" EXACT [] xref: VSAO:0000053 is_a: UBERON:0002384 ! connective tissue relationship: end_stage XAO:1000074 ! NF stage 62 (Xenopus) relationship: part_of UBERON:0002328 ! notochord relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0004055 name: mineralized cartilage tissue (Xenopus) namespace: xenopus_anatomy def: "Cartilage tissue that is mineralized." [VAO:0000088] xref: VSAO:0000088 is_a: UBERON:0002418 ! cartilage tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004056 name: distal mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchyme cells that proliferate in the progress zone of developing limb buds." [XAO:EJS] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000068 ! NF stage 56 (Xenopus) relationship: part_of UBERON:0004347 ! limb bud relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004058 name: ampullary nerve (Xenopus) namespace: xenopus_anatomy def: "Nerve that is a branch of cranial nerve VIII and innervates the cristae ampullaris." [ZFA:0005144] synonym: "neural ampulla" EXACT [] xref: ZFA:0005144 is_a: UBERON:0001021 ! nerve relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001648 ! vestibulocochlear nerve relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0004061 name: dorsal fin margin (Xenopus) namespace: xenopus_anatomy def: "The edge, and the area immediately adjacent to it, of the dorsal fin." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0003097 ! dorsal fin relationship: part_of XAO:0004063 ! dorsal fin (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004062 name: tail fin (Xenopus) namespace: xenopus_anatomy def: "The fin at the posterior part of the body of the tadpole." [BTO:0001827] synonym: "caudal fin" RELATED [] is_a: UBERON:0008897 ! fin relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0007812 ! post-anal tail relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0004063 name: dorsal fin (Xenopus) namespace: xenopus_anatomy def: "The unsupported flaps of epidermis-covered, loose connective tissue extending the length of the dorsal tail muscle, originating at or near the tail-body junction, and extending posteriorly to slightly beyond the tip of the notochord and tail musculature." [ISBN:0-226-55763-4] xref: AAO:0010378 is_a: UBERON:0008897 ! fin relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0004064 name: ventral tail fin (Xenopus) namespace: xenopus_anatomy def: "The ventral part of the tail fin." [XAO:EJS] xref: AAO:0010204 is_a: UBERON:0008897 ! fin relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004065 name: ventral fin margin (Xenopus) namespace: xenopus_anatomy def: "The edge, and the area immediately adjacent to it, of the ventral fin." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004064 ! ventral tail fin (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004066 name: vegetal endoderm (Xenopus) namespace: xenopus_anatomy def: "Portion of the cleavage-stage embryo below the equator and consisting of prospective endodermal cells." [ISBN:0123646200] is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000020 ! NF stage 10 (Xenopus) relationship: part_of UBERON:0000925 ! endoderm relationship: start_stage UBERON:0007232 ! 2 cell stage [Term] id: XAO:0004067 name: suprablastoporal endoderm (Xenopus) namespace: xenopus_anatomy def: "During gastrulation, the ring of endodermal cells that overlie the larger sub-blastoral endoderm cells." [ISBN:0123646200] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000033 ! NF stage 12.5 (Xenopus) relationship: part_of UBERON:0000925 ! endoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004068 name: sub-blastoporal endoderm (Xenopus) namespace: xenopus_anatomy def: "During gastrulation, the vegetal endodermal cells that lie just below the ring of smaller suprablastoral endoderm cells." [ISBN:0123646200] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000033 ! NF stage 12.5 (Xenopus) relationship: part_of UBERON:0000925 ! endoderm relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004069 name: migratory neural crest (Xenopus) namespace: xenopus_anatomy def: "Neural crest that lose their connections to other neuroepithelial cells during the delamination process and begin to migrate. This involves either partial or complete epithelial-to-mesenchymal transition. Numerous molecules have been demonstrated to guide a neural crest cell's migration to its target tissue." [XAO:CJZ] synonym: "NCMC" RELATED [] synonym: "neural crest migrating cells" RELATED PLURAL [] is_a: CL:0000000 ! cell relationship: develops_from UBERON:0002342 ! neural crest relationship: end_stage XAO:1000046 ! NF stage 31 (Xenopus) relationship: part_of UBERON:0002342 ! neural crest relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004074 name: intersomitic region (Xenopus) namespace: xenopus_anatomy def: "Anatomical region between somites." [XAO:EJS] synonym: "intersomitic junction" EXACT [] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0004075 name: intersomitic vessel (Xenopus) namespace: xenopus_anatomy def: "Primary vessel sprouts that originate from the aorta and grow dorsally between the somites." [PMID:17119151] synonym: "intersomitic blood vessel" EXACT [] xref: ZFA:0001285 is_a: UBERON:0001981 ! blood vessel relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of UBERON:0004535 ! cardiovascular system relationship: part_of XAO:0004074 ! intersomitic region (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004076 name: intersomitic tendon (Xenopus) namespace: xenopus_anatomy def: "A tendon located in the intersomitic region." [XAO:EJS] is_a: UBERON:0000043 ! tendon relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of XAO:0004074 ! intersomitic region (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0004077 name: intersomitic epithelium (Xenopus) namespace: xenopus_anatomy def: "Epithelium located in the intersomitic region." [XAO:EJS] synonym: "intersomitic membrane" EXACT [] is_a: UBERON:0000483 ! epithelium relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of XAO:0004074 ! intersomitic region (Xenopus) relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0004078 name: intersomitic neuron (Xenopus) namespace: xenopus_anatomy def: "Neuron located in the intersomitic region." [XAO:EJS] is_a: CL:0000540 ! neuron relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: part_of XAO:0004074 ! intersomitic region (Xenopus) relationship: start_stage XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:0004088 name: animal pole (Xenopus) namespace: xenopus_anatomy def: "The pole of the animal hemisphere, the actively dividing hemisphere of the embryo." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000021 ! NF stage 11 (Xenopus) relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0004092 name: preplacodal ectoderm (Xenopus) namespace: xenopus_anatomy def: "The field of naive ectoderm at the anterior of the neural stage embryo. It is positioned at the border between the future epidermis and the anterior neural plate/neural crest forming regions and is subdivided into 2 distinct domains: the anterior placodal region which is anterior to the neural plate, and the posterior placodal area which is lateral to the neural crest." [ISBN:0878933840] synonym: "PPE" EXACT [] synonym: "pre-placodal ectoderm" EXACT [] xref: ZFA:0007013 is_a: UBERON:0005497 ! non-neural ectoderm relationship: develops_from UBERON:0005497 ! non-neural ectoderm relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0004093 name: profundal placode (Xenopus) namespace: xenopus_anatomy def: "An embryonic structure positioned halfway between the prospective eye and ear, adjacent to the future midbrain-hindbrain boundary. The profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24." [PMID:21452441] synonym: "profundus placode" EXACT [] is_a: UBERON:0002546 ! cranial placode relationship: end_stage XAO:1000045 ! NF stage 29 and 30 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004095 name: lens transitional zone (Xenopus) namespace: xenopus_anatomy def: "The region of the lens of the eye where cells from the anterior epithelial capsule become transformed into the fibers that compose the lens substance." [WWW:dictionary.reference.com/browse/transitional+zone] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000965 ! lens of camera-type eye relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004102 name: pre-chordal neural plate border (Xenopus) namespace: xenopus_anatomy def: "The portion of the neural plate border that is anterior to the mid-hindbrain junction." [XAO:EJS] synonym: "anterior neural plate border" RELATED [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0003056 ! pre-chordal neural plate relationship: part_of XAO:0004104 ! neural plate border (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004103 name: chordal neural plate border (Xenopus) namespace: xenopus_anatomy def: "The portion of the neural plate border that is posterior to the mid-hindbrain junction." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0003057 ! chordal neural plate relationship: part_of XAO:0004104 ! neural plate border (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004104 name: neural plate border (Xenopus) namespace: xenopus_anatomy def: "The boundary between non-neural ectoderm and the neural plate of neurula stage embryos, it gives rise to the neural crest and cranial placodes." [ISBN:0878933840] synonym: "NPB" EXACT [] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000924 ! ectoderm relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0000924 ! ectoderm relationship: part_of UBERON:0003075 ! neural plate relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0004106 name: regenerating forelimb (Xenopus) namespace: xenopus_anatomy def: "A portion of forelimb tissue that is re-growing after damage or amputation." [XAO:curator] synonym: "forelimb" BROAD [] is_a: XAO:0004311 ! regenerating limb (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004107 name: regenerating hindlimb (Xenopus) namespace: xenopus_anatomy def: "A portion of hind limb tissue that is re-growing after damage or amputation." [XAO:curator] synonym: "hind limb" BROAD [] synonym: "hindlimb" BROAD [] synonym: "regenerating hind limb" EXACT [] is_a: XAO:0004311 ! regenerating limb (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004108 name: regenerating tail (Xenopus) namespace: xenopus_anatomy def: "A portion of tail tissue that is re-growing after damage or amputation." [XAO:curator] synonym: "tail" BROAD [] synonym: "tail blastema" RELATED [] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0004109 name: regenerating eye (Xenopus) namespace: xenopus_anatomy def: "A portion of eye tissue that is re-growing after damage or amputation." [XAO:curator] synonym: "eye" BROAD [] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:0004113 name: vegetal pole (Xenopus) namespace: xenopus_anatomy def: "The pole of the vegetal hemisphere, the lower, light-colored hemisphere of the embryo." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000021 ! NF stage 11 (Xenopus) relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0004114 name: stage I oocyte (Xenopus) namespace: xenopus_anatomy def: "The developing female gamete of the pre-vitellogenic stage." [XAO:curator] synonym: "pre-vitellogenic oocyte" EXACT [] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000083 ! oocyte stage I (Xenopus) relationship: start_stage XAO:1000083 ! oocyte stage I (Xenopus) [Term] id: XAO:0004115 name: stage II oocyte (Xenopus) namespace: xenopus_anatomy def: "The developing female gamete of the early vitellogenic stage." [XAO:curator] synonym: "early vitellogenic oocyte" EXACT [] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000084 ! oocyte stage II (Xenopus) relationship: start_stage XAO:1000084 ! oocyte stage II (Xenopus) [Term] id: XAO:0004116 name: stage III oocyte (Xenopus) namespace: xenopus_anatomy def: "The developing female gamete of the mid-vitellogenic stage." [XAO:curator] synonym: "mid-vitellogenic oocyte" EXACT [] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000085 ! oocyte stage III (Xenopus) relationship: start_stage XAO:1000085 ! oocyte stage III (Xenopus) [Term] id: XAO:0004117 name: stage IV oocyte (Xenopus) namespace: xenopus_anatomy def: "The stage in the developing female gamete where polarization along the animal-vegetal axis is established." [XAO:curator] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000086 ! oocyte stage IV (Xenopus) relationship: start_stage XAO:1000086 ! oocyte stage IV (Xenopus) [Term] id: XAO:0004118 name: stage V oocyte (Xenopus) namespace: xenopus_anatomy def: "The developing female gamete of the late-vitellogenic stage." [XAO:EJS] synonym: "late vitellogenic oocyte" EXACT [] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000087 ! oocyte stage V (Xenopus) relationship: start_stage XAO:1000087 ! oocyte stage V (Xenopus) [Term] id: XAO:0004119 name: stage VI oocyte (Xenopus) namespace: xenopus_anatomy def: "The fully grown female gamete." [XAO:EJS] synonym: "post-vitellogenic oocyte" EXACT [] is_a: CL:0000023 ! oocyte relationship: end_stage XAO:1000088 ! oocyte stage VI (Xenopus) relationship: start_stage XAO:1000088 ! oocyte stage VI (Xenopus) [Term] id: XAO:0004122 name: proliferative region (Xenopus) namespace: xenopus_anatomy def: "Anatomical cluster which consists of rapidly dividing cells." [ZFA:0000098] xref: ZFA:0000098 is_a: UBERON:0000477 ! anatomical cluster relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000018 ! NF stage 8 (Xenopus) [Term] id: XAO:0004125 name: atrioventricular valve leaflet (Xenopus) namespace: xenopus_anatomy def: "A portion of tissue forming a cusp guarding the opening of the atrioventricular valve." [XAO:EJS] synonym: "atrioventricular valve leaflets" RELATED PLURAL [] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000948 ! heart relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004129 name: rectus cervicus (Xenopus) namespace: xenopus_anatomy def: "One of the 3 hypaxial muscles." [XAO:curator] is_a: UBERON:0008777 ! hypaxial musclulature relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004131 name: horizontal crista (Xenopus) namespace: xenopus_anatomy def: "A horizontal patch of cristae/sensory epithelia cells of the inner ear." [PMID:20201105] is_a: CL:0000098 ! sensory epithelial cell relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001846 ! internal ear relationship: start_stage XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:0004144 name: anterior ventral blood island (Xenopus) namespace: xenopus_anatomy def: "Region that is overlapping, anterior, and dorsal to the main body of the ventral blood island." [PMID:21069823] synonym: "aVBI" EXACT [] synonym: "blood island" BROAD [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) relationship: part_of UBERON:0002390 ! hematopoietic system relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004159 name: posterior cerebral vein (Xenopus) namespace: xenopus_anatomy def: "Vein that drains the dorsal longitudinal vessel and the caudal portions of the venous capillary network of the medulla oblongata. The cerebral veins cross the head dorsally at NF stage 37-38. It drains into the vena capitis lateralis." [PMID:12606281, ZFA:0005027] xref: ZFA:0005027 is_a: UBERON:0001663 ! cerebral vein relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004161 name: middle cerebral vein (Xenopus) namespace: xenopus_anatomy def: "The middle cerebral veins cross the head dorsally at NF stage 37-38. It drains into the vena capitis lateralis." [PMID:12606281] synonym: "mid cerebral vein" EXACT [] synonym: "mid-cerebral vein" EXACT [] xref: ZFA:0005010 is_a: UBERON:0001663 ! cerebral vein relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004164 name: intersomitic vein (Xenopus) namespace: xenopus_anatomy def: "Veins that sprout from the posterior cardinal vein, growing dorsally between the somites, and will join, and drain the dorsal longitudinal anastomosing vessel." [PMID:12606281] is_a: XAO:0004075 ! intersomitic vessel (Xenopus) relationship: end_stage XAO:1000059 ! NF stage 47 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004166 name: left omphalomesenteric vein (Xenopus) namespace: xenopus_anatomy def: "In the trunk region, the subintestinal vein drains into the omphalomesenteric veins, which breaks up to merge with the vitelline network at NF stage 40." [PMID:12606281] is_a: UBERON:0005487 ! vitelline vein relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004167 name: metencephalic artery (Xenopus) namespace: xenopus_anatomy def: "The artery that crosses the brain dorsally, and meets the metencephalic vein." [PMID:12606281] xref: ZFA:0005084 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004168 name: metencephalic vein (Xenopus) namespace: xenopus_anatomy def: "The vein that crosses the brain dorsally, parallel with the mid-cerebral vein, and meets the metencephalic artery." [PMID:12606281] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004170 name: vena capitas medialis (Xenopus) namespace: xenopus_anatomy def: "One of the major dorsal head veins which drains into the anterior cardinal vein, the other being the vena capitas lateralis." [PMID:12606281] synonym: "VCM" EXACT [] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004171 name: vena capitas lateralis (Xenopus) namespace: xenopus_anatomy def: "One of the major dorsal head veins which drains into the anterior cardinal vein, the other being the vena capitas medialis." [PMID:12606281] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004175 name: nasociliary artery (Xenopus) namespace: xenopus_anatomy def: "The main artery of the olfactory region which arises from the cerebral artery at NF stage 41." [PMID:12606281] is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004177 name: dorsal longitudinal anastomosing vessel (Xenopus) namespace: xenopus_anatomy def: "Vessel into which intersomitic vessels enter in a regular pattern at each intersomitic junction. Posterior to the gut, the DLAV drains into the fused posterior cardinal vein by a minor right branch and a major left branch. By NF stage 36 the DLAV extends fully to the tip of the tail." [PMID:12606281] synonym: "DLAV" EXACT [] xref: ZFA:0005025 is_a: UBERON:0001981 ! blood vessel relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004178 name: dorsal longitudinal anastomosing vessel- left branch (Xenopus) namespace: xenopus_anatomy def: "The major (left ) branch of the dorsal longitudinal anastomosing vessel (dlav), remains as the sole branch after the right branch breaks up at stage 44." [PMID:12606281] synonym: "DLAV - left branch" RELATED [] is_a: XAO:0004177 ! dorsal longitudinal anastomosing vessel (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004179 name: dorsal longitudinal anastomosing vessel- right branch (Xenopus) namespace: xenopus_anatomy def: "The minor (right) branch of the dorsal longitudinal anastomosing vessel (dlav), the right branch disappears during NF stage 44." [PMID:12606281] synonym: "DLAV - right branch" EXACT [] is_a: XAO:0004177 ! dorsal longitudinal anastomosing vessel (Xenopus) relationship: end_stage XAO:1000057 ! NF stage 45 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004183 name: pericardial muscle (Xenopus) namespace: xenopus_anatomy def: "Muscle which is paired and runs anterio-posteriorly along the heart and is covered with epicardium." [ZFA:0001653] xref: ZFA:0001653 is_a: UBERON:0001630 ! muscle organ relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0004535 ! cardiovascular system relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004184 name: pericardial roof (Xenopus) namespace: xenopus_anatomy def: "The dorsal region of the pericardium." [PMID:18598690] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002407 ! pericardium relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004187 name: anterior branchial crest (Xenopus) namespace: xenopus_anatomy def: "Branchial crest that is the 3rd neural crest stream and lays between hyoid crest and posterior branchial crest." [PMID:21490068] synonym: "ABC" EXACT [] is_a: UBERON:0000479 ! tissue relationship: develops_from XAO:0000026 ! branchial crest (Xenopus) relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0002342 ! neural crest relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0004188 name: posterior branchial crest (Xenopus) namespace: xenopus_anatomy def: "Branchial crest that is the most posterior of the five neural crest streams." [PMID:21490068] synonym: "PBC" EXACT [] is_a: UBERON:0000479 ! tissue relationship: develops_from XAO:0000026 ! branchial crest (Xenopus) relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: part_of UBERON:0002342 ! neural crest relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0004193 name: ossicle (Xenopus) namespace: xenopus_anatomy def: "Skeletal element that is often isolated, small, and is usually ossified." [VAO:0000132] xref: VSAO:0000132 is_a: UBERON:0004765 ! skeletal element relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004195 name: cellular bone tissue (Xenopus) namespace: xenopus_anatomy def: "Mineralized bone tissue that always includes non-terminally differentiated osteoblasts and osteocytes." [VAO:0000118] xref: VSAO:0000118 is_a: XAO:0004040 ! mineralized bone tissue (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004200 name: non-mineralized chondroid tissue (Xenopus) namespace: xenopus_anatomy def: "Chondroid tissue that is not mineralized." [XAO:EJS] xref: VSAO:0000077 is_a: UBERON:0004755 ! skeletal tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004201 name: odontode tissue (Xenopus) namespace: xenopus_anatomy def: "Skeletal tissue that is avascular tubular mineralized matrix, primarily made of dentine that is deposited by odontoblasts that are excluded from the matrix; develops from pre-dentine tissue." [VAO:0000123] synonym: "dental tissue" RELATED [] xref: VSAO:0000123 is_a: UBERON:0010365 ! odontoid tissue relationship: develops_from UBERON:0011587 ! pre-dentine relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000072 ! NF stage 60 (Xenopus) [Term] id: XAO:0004204 name: sesamoid (Xenopus) namespace: xenopus_anatomy def: "Replacement element; an ossicle; often an endochondral replacement element that has cartilage and bone states that develops in dense regular connective tissue (e.g., tendons and ligaments)." [VAO:0000137] xref: VSAO:0000137 is_a: XAO:0004193 ! ossicle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000074 ! NF stage 62 (Xenopus) [Term] id: XAO:0004206 name: anterior placodal area (Xenopus) namespace: xenopus_anatomy def: "One of the 2 subregions of the pre-placodal ectoderm, which lies abutting and anterior to the neural plate." [ISBN:0878933840] synonym: "APA" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: part_of XAO:0004092 ! preplacodal ectoderm (Xenopus) relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0004207 name: posterior placodal area (Xenopus) namespace: xenopus_anatomy def: "One of the 2 subregions of the pre-placodal ectoderm, which lies abutting and lateral to the neural crest." [ISBN:0878933840] synonym: "PPA" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: part_of XAO:0004092 ! preplacodal ectoderm (Xenopus) relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0004209 name: anterior neural ridge (Xenopus) namespace: xenopus_anatomy def: "The region that delineates the rostral boundary of the neural plate in the neural stage embryo, and is devoid of neural crest cells. It gives rise to the pre-placodal region, some elements of the forebrain, and the anterior lobe of the pituitary gland." [ISBN:0878933840] synonym: "ANR" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000038 ! NF stage 22 (Xenopus) relationship: start_stage XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:0004216 name: glomeral nexus (Xenopus) namespace: xenopus_anatomy def: "The narrow bridge that links the two glomera of the pronephric kidney." [XAO:curator] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0004739 ! pronephric glomerulus relationship: end_stage XAO:1000066 ! NF stage 54 (Xenopus) relationship: part_of UBERON:0004739 ! pronephric glomerulus relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004218 name: palatoquadrate (Xenopus) namespace: xenopus_anatomy def: "The dorsal component of the mandibular arch, the ventral one being Meckel's cartilage. Together with the ceratohyal and connecting musculature, it is responsible for the ventilation and irrigation of the filter apparatus." [XAO:curator] xref: AAO:0000379 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0007098 ! mandibular neural crest relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004362 ! pharyngeal arch 1 relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0004219 name: ceratohyal (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that, together with the palatoquadrate and connecting musculature, is responsible for the ventilation and irrigation of the of the filter apparatus." [XAO:curator] synonym: "ch" EXACT [] xref: AAO:0000666 is_a: UBERON:0007844 ! cartilage element relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003066 ! pharyngeal arch 2 relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004220 name: anteroventral lateral line placode (Xenopus) namespace: xenopus_anatomy def: "Lateral line placode that gives rise to the anteroventral lateral line nerve." [XAO:EJS] is_a: UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004221 name: anterior lateral line placode (Xenopus) namespace: xenopus_anatomy def: "Lateral line placode that gives rise to the anterior lateral line nerve." [XAO:EJS] synonym: "pre-auditory lateral line placode" RELATED [] is_a: UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004222 name: middle lateral line placode (Xenopus) namespace: xenopus_anatomy def: "Lateral line placode that gives rise to the middle lateral line nerve." [XAO:EJS] synonym: "intermediate lateral line placode" RELATED [] is_a: UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004223 name: posterior lateral line placode (Xenopus) namespace: xenopus_anatomy def: "Lateral line placode that gives rise to the posterior lateral line nerve." [XAO:EJS] synonym: "vagus lateral line placode" RELATED [] is_a: UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004224 name: transporting epithelium (Xenopus) namespace: xenopus_anatomy def: "Type of epithelium that facilitates the transcellular transport of solutes. This transport can either be absorption, transport from lumen (apical membrane surface) to blood; or secretion, transport from blood (basolateral membrane surface) to lumen." [WWW:en.wikipedia.org/wiki/Transcellular_transport] synonym: "transporting epithelia" RELATED PLURAL [] is_a: UBERON:0000483 ! epithelium relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004225 name: non-ciliated epithelial cell (Xenopus) namespace: xenopus_anatomy def: "Type of cell of the epidermis lacking cilia, which separate and space the ciliated epidermal cells." [PMID:16728476] synonym: "intercalating non-ciliated cell" RELATED [] synonym: "non-ciliated epithelial cells" RELATED PLURAL [] is_a: CL:0000066 ! epithelial cell relationship: develops_from UBERON:0000924 ! ectoderm relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000483 ! epithelium relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004226 name: ventral tegmentum (Xenopus) namespace: xenopus_anatomy def: "Region of the mesencephalon that arises from a small area of the neural plate, spanning the midline immediately adjacent, and being slightly posterior to the dorsal tegmentum area." [PMID:2351962] synonym: "tegmentum ventrale" RELATED [] synonym: "ventral brain stem" RELATED [] xref: UBERON:0002691 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0003075 ! neural plate relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001891 ! midbrain relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0004227 name: dorsal tegmentum (Xenopus) namespace: xenopus_anatomy def: "Region of the mesencephalon that arises from a small area of the neural plate immediately adjacent and slightly anterior to the ventral tegmentum area." [PMID:2351962] synonym: "dorsal brain stem" RELATED [] synonym: "tegmentum dorsale" RELATED [] is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0003075 ! neural plate relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001891 ! midbrain relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0004228 name: lateral abdominal vein (Xenopus) namespace: xenopus_anatomy def: "Laterally located vein that drains the ventral abdominal wall." [ISBN:0815318960] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004229 name: fin crest (Xenopus) namespace: xenopus_anatomy def: "The thin epidermis extension of the inner fin visible in the mid trunk region of the inner fin at NF stage 27, and extending posteriorly and then ventrally, ending just before the proctodeum. The fin is more homogeneous in NF stage 46 tadpoles, and the inner fin and fin crest are no longer discrete." [XAO:curator] is_a: UBERON:0003102 ! surface structure relationship: develops_from XAO:0000004 ! inner fin (Xenopus) relationship: end_stage XAO:1000058 ! NF stage 46 (Xenopus) relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0007812 ! post-anal tail relationship: start_stage XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:0004230 name: anterior hypothalamus (Xenopus) namespace: xenopus_anatomy def: "Anterior part of the hypothalamus, given rise by the midanterior neural ridge along with the chiasmatic ridge during forebrain morphogenesis." [PMID:8537821] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001898 ! hypothalamus relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004231 name: barbel (Xenopus) namespace: xenopus_anatomy def: "A single long structure at each corner of the mouth that has muscle fibers attached to an internal cartilaginous support and that is mobile." [ISBN:0226557626] is_a: UBERON:0003102 ! surface structure relationship: end_stage XAO:1000073 ! NF stage 61 (Xenopus) relationship: start_stage XAO:1000056 ! NF stage 44 (Xenopus) [Term] id: XAO:0004232 name: spiracle (Xenopus) namespace: xenopus_anatomy def: "The exit for respiratory water in the tadpole." [ISBN:0226557626] is_a: UBERON:0003102 ! surface structure relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004233 name: truncus arteriosus (Xenopus) namespace: xenopus_anatomy def: "A cranial continuation of the bulbis cordis that contains two lateral branches and divides into the carotid arch, systemic arch, and pulmocutaneous arch." [ISBN:0801836018] xref: UBERON:0002061 is_a: UBERON:0001981 ! blood vessel relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0004234 name: bulbous arteriosis (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure through which the blood exits the heart. It is a chamber that functions as a capacitor, maintaining continuous blood flow into the gill arches." [ZFA:0000173] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004535 ! cardiovascular system relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004235 name: manicotto glandulare (Xenopus) namespace: xenopus_anatomy def: "The larval stomach." [ISBN:0226893340] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0001007 ! digestive system relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004236 name: posterior hypothalamus (Xenopus) namespace: xenopus_anatomy def: "Posterior part of the hypothalamus, given rise by the midanterior neural plate during forebrain morphogenesis." [PMID:8537821] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001898 ! hypothalamus relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004237 name: lateral ganglionic eminence (Xenopus) namespace: xenopus_anatomy def: "Transitory brain structure laterally located in the ventral part of the telencephalon, where it forms bulges in the ventricles." [WWW:en.wikipedia.org/wiki/Ganglionic_eminence] synonym: "LGE" RELATED [] xref: UBERON:0004025 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of UBERON:0001893 ! telencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004238 name: femur rudiment (Xenopus) namespace: xenopus_anatomy def: "A cartilaginous element that is the primordium or commencement of a femur." [XAO:EJS] is_a: UBERON:0007844 ! cartilage element relationship: end_stage XAO:1000067 ! NF stage 55 (Xenopus) relationship: start_stage XAO:1000063 ! NF stage 51 (Xenopus) [Term] id: XAO:0004239 name: hind digit 1 (Xenopus) namespace: xenopus_anatomy def: "The 1st digit of the foot." [UBERON:0003631] synonym: "hallux" RELATED [] synonym: "toe 1" EXACT [] synonym: "toe I" EXACT [] xref: UBERON:0003631 is_a: UBERON:0001466 ! pedal digit relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004240 name: branchial vein (Xenopus) namespace: xenopus_anatomy def: "Type of vein that drains the gill region and which passes backwards lateral to the gill chambers and opens into the pronephric sinus." [ISBN:0815318960] is_a: UBERON:0001638 ! vein relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004241 name: ischiadic vein (Xenopus) namespace: xenopus_anatomy def: "A vein of the hind limb, first visible in the developing hind limb bud at c. NF stage 50 when it enters the ventral commissural vessel." [ISBN:0815318960] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000062 ! NF stage 50 (Xenopus) [Term] id: XAO:0004242 name: ischiadic artery (Xenopus) namespace: xenopus_anatomy def: "The accompanying artery of ischiadic nerve." [WWW:en.wikipedia.org/wiki/Accompanying_artery_of_ischiadic_nerve] is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004243 name: femoral vein (Xenopus) namespace: xenopus_anatomy def: "Either of the primary veins in the hindlimbs which collect blood from the hindlimb region." [AAO:0010237] synonym: "vena femoralis" RELATED [] xref: AAO:0010237 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004296 ! hindlimb stylopod (Xenopus) relationship: start_stage XAO:1000063 ! NF stage 51 (Xenopus) [Term] id: XAO:0004244 name: mandibular artery (Xenopus) namespace: xenopus_anatomy def: "Part of the lateral pretrosal artery which supplies blood to the roof of the mouth." [AAO:0010496] xref: AAO:0010496 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004245 name: maxillary artery (Xenopus) namespace: xenopus_anatomy def: "A type of artery that supplies the deep structures of the facial region. It branches from the external carotid artery." [WWW:en.wikipedia.org/wiki/Maxillary_artery] xref: UBERON:0001616 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004246 name: rhombomere R7 (Xenopus) namespace: xenopus_anatomy def: "The 7th segment of the developing hindbrain." [XAO:EJS] synonym: "r7" EXACT [] synonym: "rhombomere 7" EXACT [] xref: UBERON:0005523 is_a: UBERON:0001892 ! rhombomere relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004247 name: vertebral artery (Xenopus) namespace: xenopus_anatomy def: "A major artery of the neck that branches from the subclavian arteries and merge to form the single midline basilar artery." [WWW:en.wikipedia.org/wiki/Vertebral_artery] xref: UBERON:0001535 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004248 name: epigastric artery (Xenopus) namespace: xenopus_anatomy def: "Artery that supplies the anterior wall of the abdomen." [WWW:medical-dictionary.thefreedictionary.com/epigastric+artery] xref: UBERON:0006349 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004249 name: renal artery (Xenopus) namespace: xenopus_anatomy def: "Artery which supplies blood via branches to the gonads, oviducts, and kidneys." [AAO:0010223] synonym: "interrenal artery" RELATED [] xref: AAO:0010223 is_a: UBERON:0001637 ! artery relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004122 ! genitourinary system relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004250 name: facial vein (Xenopus) namespace: xenopus_anatomy def: "Vein which collects blood from muscles of the head and drains into the external jugular vein." [AAO:0010513] xref: AAO:0010513 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002200 ! vasculature of head relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004251 name: cutaneous magnus (Xenopus) namespace: xenopus_anatomy def: "Vein that comes from the skin of the trunk." [XAO:EJS] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004252 name: cutaneous femoral vein (Xenopus) namespace: xenopus_anatomy def: "Vein that comes from the subcutaneous tissue of the hindlimb stylopod." [XAO:EJS] is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004296 ! hindlimb stylopod (Xenopus) relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004253 name: postcaval vein (Xenopus) namespace: xenopus_anatomy def: "One of three major veins which enter the sinus venosus." [AAO:0010506] xref: AAO:0010506 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000060 ! NF stage 48 (Xenopus) [Term] id: XAO:0004254 name: subclavian vein (Xenopus) namespace: xenopus_anatomy def: "Vein which collects blood from the forelimb via the branchial veins and from the muscles and skin of the trunk via the anterior epigastric and lateral veins." [AAO:0010510] xref: AAO:0010510 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000060 ! NF stage 48 (Xenopus) [Term] id: XAO:0004255 name: lateral vein (Xenopus) namespace: xenopus_anatomy def: "Either of the veins which collect blood from the trunk and skin and drain into the subclavian vein." [AAO:0010515] xref: AAO:0010515 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004256 name: ventral abdominal vein (Xenopus) namespace: xenopus_anatomy def: "A vein formed by the combination of veins in the pelvic region which collects blood from the liver, stomach, intestines, and gall bladder." [AAO:0010517] xref: AAO:0010517 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004423 ! trunk vasculature (Xenopus) relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004257 name: Jacobson's vein (Xenopus) namespace: xenopus_anatomy def: "Vein which drains Jacobson's organ." [XAO:curator] xref: AAO:0010519 is_a: UBERON:0001638 ! vein relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004258 name: subpallium (Xenopus) namespace: xenopus_anatomy def: "Structure that comprises the base region of the telencephalon." [UBERON:0000204] xref: UBERON:0000204 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001893 ! telencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004259 name: medial ganglionic eminence (Xenopus) namespace: xenopus_anatomy def: "Transitory brain structure medially located in the ventral part of the telencephalon, where it forms bulges in the ventricles." [WWW:en.wikipedia.org/wiki/Ganglionic_eminence] synonym: "MGE" EXACT [] xref: UBERON:0004024 is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of UBERON:0001893 ! telencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004260 name: pharyngeal pouch (Xenopus) namespace: xenopus_anatomy def: "Any of the outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits." [TAO:0001106] synonym: "pharyngeal pouches" RELATED PLURAL [] xref: UBERON:0004117 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from XAO:0004463 ! pharyngeal endoderm (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: part_of XAO:0004261 ! pharyngeal region (Xenopus) relationship: start_stage XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:0004261 name: pharyngeal region (Xenopus) namespace: xenopus_anatomy def: "Region encompassing the oral end of the alimentary canal." [XAO:EJS] xref: UBERON:0009145 is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000033 ! head relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0004262 name: ventral caudal lymphatic vessel (Xenopus) namespace: xenopus_anatomy def: "Lymphatic vessel located in the posterior ventral region of the trunk, ventral to the posterior cardinal vein." [PMID:9048122465] synonym: "VCLV" EXACT [] is_a: UBERON:0001473 ! lymphatic vessel relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004263 name: stylopod (Xenopus) namespace: xenopus_anatomy def: "Limb segment that is the proximal part of the limb." [UBERON:0002472] xref: UBERON:0002472 is_a: XAO:0004294 ! limb segment (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004264 name: zeugopod (Xenopus) namespace: xenopus_anatomy def: "Limb segment that is the middle part of the limb." [UBERON:0002471] xref: UBERON:0002471 is_a: XAO:0004294 ! limb segment (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004265 name: autopod (Xenopus) namespace: xenopus_anatomy def: "Limb segment that is the terminal part of the limb." [XAO:EJS] xref: UBERON:0002470 is_a: XAO:0004294 ! limb segment (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004266 name: rhombomere R8 (Xenopus) namespace: xenopus_anatomy def: "The 8th and most posterior segment of the developing hindbrain." [XAO:EJS] synonym: "r8" EXACT [] synonym: "rhombomere 8" EXACT [] xref: UBERON:0005527 is_a: UBERON:0001892 ! rhombomere relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004268 name: posterior lateral line (Xenopus) namespace: xenopus_anatomy def: "A lateral line that extends from the ear in a posterior-ventral direction." [PMID:2652193] is_a: UBERON:0010202 ! lateral line relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004269 name: anterodorsal lateral line placode (Xenopus) namespace: xenopus_anatomy def: "Lateral line placode that gives rise to the anterodorsal lateral line nerve." [XAO:EJS] is_a: UBERON:0009128 ! lateral line placode relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004270 name: hepato-pancreatic progenitor cell (Xenopus) namespace: xenopus_anatomy def: "Any of a field of cells in the posterior section of the foregut that will give rise to the liver bud and dorsal and ventral pancreatic buds." [XAO:curator] synonym: "hepato-pancreatic progenitor cells" RELATED PLURAL [] is_a: CL:0000000 ! cell relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of UBERON:0001041 ! foregut relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0004271 name: midbrain tegmentum (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure that is the ventral part of the midbrain." [ZFA:0000160] xref: UBERON:0001943 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from XAO:0004226 ! ventral tegmentum (Xenopus) relationship: develops_from XAO:0004227 ! dorsal tegmentum (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001891 ! midbrain relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004272 name: migrating neuroblast (Xenopus) namespace: xenopus_anatomy def: "Any of the neuronal precursor cells that are isolated and scattered throughout the anterior ventro-lateral region of the embryo, generally in a punctate pattern, immediately below the ectoderm." [PMID:17554687, XAO:curator] is_a: CL:0000000 ! cell relationship: develops_from UBERON:0000924 ! ectoderm relationship: end_stage XAO:1000057 ! NF stage 45 (Xenopus) relationship: part_of UBERON:0001016 ! nervous system relationship: start_stage XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:0004274 name: articular system (Xenopus) namespace: xenopus_anatomy def: "Anatomical system that consists of all the joints of the body." [VAO:0000181] synonym: "joint system" EXACT [] xref: VSAO:0000181 is_a: UBERON:0000467 ! anatomical system relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001434 ! skeletal system relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004275 name: axial ossicle (Xenopus) namespace: xenopus_anatomy def: "Ossicle that is part of the axial skeleton." [VAO:0000133] xref: VSAO:0000133 is_a: XAO:0004193 ! ossicle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004276 name: bone element (Xenopus) namespace: xenopus_anatomy def: "Skeletal element that is composed of bone tissue." [VAO:0000057] synonym: "bone" RELATED [] synonym: "bone organ" EXACT [] xref: VSAO:0000057 is_a: UBERON:0004765 ! skeletal element relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004277 name: caudal fin skeleton (Xenopus) namespace: xenopus_anatomy def: "Median fin skeleton supporting the caudal fin." [VAO:0000167] xref: VSAO:0000167 is_a: XAO:0004282 ! median fin skeleton (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004062 ! tail fin (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004278 name: coracoid (Xenopus) namespace: xenopus_anatomy def: "Paired bone which is part of the shoulder assembly, joining the scapula to the front end of the sternum." [Wikipedia:Coracoid] xref: VSAO:0000158 is_a: UBERON:0002513 ! endochondral bone relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0007831 ! pectoral girdle skeleton relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004279 name: cranial skeleton (Xenopus) namespace: xenopus_anatomy def: "Skeletal subdivision of the head including skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." [VAO:0000049] xref: VSAO:0000049 is_a: XAO:0004289 ! skeletal subdivision (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004280 name: dorsal fin skeleton (Xenopus) namespace: xenopus_anatomy def: "Median fin skeleton located on the dorsal surface of the organism." [VAO:0000168] xref: VSAO:0000168 is_a: XAO:0004282 ! median fin skeleton (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004063 ! dorsal fin (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004281 name: median fin (Xenopus) namespace: xenopus_anatomy def: "Fin that is an unpaired fin located in the sagittal plane of the organism." [VAO:0000162] xref: VSAO:0000162 is_a: UBERON:0008897 ! fin relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:0004282 name: median fin skeleton (Xenopus) namespace: xenopus_anatomy def: "Postcranial axial skeleton that is unpaired and located on the sagittal plane of the organism." [VAO:0000170] synonym: "axial fin skeleton" EXACT [] synonym: "unpaired fin skeleton" EXACT [] xref: VSAO:0000170 is_a: XAO:0004289 ! skeletal subdivision (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of XAO:0004281 ! median fin (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004283 name: paired appendage (Xenopus) namespace: xenopus_anatomy def: "Appendage that is one of the anterior or posterior paired appendages (i.e. the forelimbs and hindlimbs)." [XAO:EJS] xref: VSAO:0000067 is_a: UBERON:0000026 ! appendage relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0004284 name: pectoral appendage (Xenopus) namespace: xenopus_anatomy def: "Appendage that is one of the anterior paired appendages (i.e. the forelimbs)." [XAO:EJS] synonym: "anterior paired appendage" EXACT [] xref: VSAO:0000125 is_a: XAO:0004283 ! paired appendage (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0004285 name: pelvic appendage (Xenopus) namespace: xenopus_anatomy def: "Appendage that is one of the posterior paired appendages (i.e. the hindlimbs)." [XAO:EJS] synonym: "posterior paired appendage" EXACT [] xref: VSAO:0000126 is_a: XAO:0004283 ! paired appendage (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:0004286 name: scapula (Xenopus) namespace: xenopus_anatomy def: "Bone that forms the posterior part of the pectoral (shoulder) girdle." [Wikipedia:Scapula] xref: VSAO:0000157 is_a: UBERON:0002513 ! endochondral bone relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0007831 ! pectoral girdle skeleton relationship: start_stage XAO:1000072 ! NF stage 60 (Xenopus) [Term] id: XAO:0004287 name: vertebral centrum (Xenopus) namespace: xenopus_anatomy def: "Skeletal element that surrounds the notochord." [VAO:0000183] synonym: "centrum" EXACT [] xref: VSAO:0000183 is_a: UBERON:0004765 ! skeletal element relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004288 ! vertebral element (Xenopus) relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004288 name: vertebral element (Xenopus) namespace: xenopus_anatomy def: "Skeletal element that forms around the notochord and is part of the vertebral column." [VAO:0000184] xref: VSAO:0000184 is_a: UBERON:0004765 ! skeletal element relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001130 ! vertebral column relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004289 name: skeletal subdivision (Xenopus) namespace: xenopus_anatomy def: "Anatomical cluster consisting of the skeletal elements that are part of the skeleton." [VAO:0000042] xref: VSAO:0000042 is_a: UBERON:0000477 ! anatomical cluster relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004288 ! skeleton relationship: start_stage XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:0004290 name: cell component (Xenopus) namespace: xenopus_anatomy def: "Anatomical structure that is a direct part of the cell." [CARO:0000014] xref: CARO:0000014 is_a: UBERON:0000061 ! anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of CL:0000000 ! cell relationship: start_stage XAO:1000083 ! oocyte stage I (Xenopus) [Term] id: XAO:0004292 name: wedge region (Xenopus) namespace: xenopus_anatomy def: "Region of the oocyte vegetal cortex which contains a subdomain of ER organized on top of the mitochondrial cloud and where localization of Vg1 mRNA takes place." [PMID:15654016] is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage XAO:1000085 ! oocyte stage III (Xenopus) relationship: part_of CL:0000023 ! oocyte relationship: start_stage XAO:1000084 ! oocyte stage II (Xenopus) [Term] id: XAO:0004293 name: ring structure (Xenopus) namespace: xenopus_anatomy def: "Contractile ring formed at the division plane of the oocyte during first cleavage." [PMID:11942608] is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage XAO:1000092 ! mature egg (Xenopus) relationship: part_of CL:0000023 ! oocyte relationship: start_stage XAO:1000085 ! oocyte stage III (Xenopus) [Term] id: XAO:0004294 name: limb segment (Xenopus) namespace: xenopus_anatomy def: "A major subdivision of a limb." [UBERON:0002529] xref: UBERON:0002529 is_a: UBERON:0000475 ! organism subdivision relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002101 ! limb relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004295 name: forelimb stylopod (Xenopus) namespace: xenopus_anatomy def: "A stylopod that is part of a forelimb." [UBERON:0003822] xref: UBERON:0003822 is_a: XAO:0004263 ! stylopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002102 ! forelimb relationship: start_stage XAO:1000068 ! NF stage 56 (Xenopus) [Term] id: XAO:0004296 name: hindlimb stylopod (Xenopus) namespace: xenopus_anatomy def: "A stylopod that is part of a hindlimb." [XAO:EJS] xref: UBERON:0000376 is_a: XAO:0004263 ! stylopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002103 ! hindlimb relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004297 name: forelimb zeugopod (Xenopus) namespace: xenopus_anatomy def: "A zeugopod that is part of a forelimb." [XAO:EJS] xref: UBERON:0002386 is_a: XAO:0004264 ! zeugopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002102 ! forelimb relationship: start_stage XAO:1000068 ! NF stage 56 (Xenopus) [Term] id: XAO:0004298 name: hindlimb zeugopod (Xenopus) namespace: xenopus_anatomy def: "A zeugopod that is part of a hindlimb." [UBERON:0003823] xref: UBERON:0003823 is_a: XAO:0004264 ! zeugopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002103 ! hindlimb relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004299 name: hand (Xenopus) namespace: xenopus_anatomy def: "Terminal portion of a forelimb." [UBERON:0002398] xref: UBERON:0002398 is_a: XAO:0004265 ! autopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002102 ! forelimb relationship: start_stage XAO:1000068 ! NF stage 56 (Xenopus) [Term] id: XAO:0004300 name: foot (Xenopus) namespace: xenopus_anatomy def: "Terminal portion of a hindlimb which bears weight and allows locomotion." [UBERON:0002387] xref: UBERON:0002387 is_a: XAO:0004265 ! autopod (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002103 ! hindlimb relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004301 name: eminentia thalami (Xenopus) namespace: xenopus_anatomy def: "Part of the diencephalon that is located between the prethalamus, hypothalamus, and the telencephalon." [XAO:EJS] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001894 ! diencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004302 name: pallium (Xenopus) namespace: xenopus_anatomy def: "Structure that comprises the roof region of the telencephalon." [UBERON:0000203] xref: UBERON:0000203 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001893 ! telencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004303 name: pretectum (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure that is the dorsal part of the diencephalon and the major sensory input to which is visual." [ZFA:0000418] synonym: "forebrain-midbrain boundary" RELATED [] xref: ZFA:0000418 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001894 ! diencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004304 name: prethalamus (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure forming the anterior part of the diencephalon and lying between the thalamus, hypothalamus, and eminentia thalami." [XAO:EJS] xref: UBERON:0001900 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001894 ! diencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004305 name: zona limitans intrathalamica (Xenopus) namespace: xenopus_anatomy def: "A narrow stripe of cells that lies between the prospective dorsal and ventral thalami. This boundary contains signals that pattern the prethalamic and thalamic territories of the future mid-diencephalon." [UBERON:0009848] xref: UBERON:0009848 is_a: UBERON:0006800 ! anatomical line relationship: develops_from UBERON:0000924 ! ectoderm relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001894 ! diencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004306 name: thalamus (Xenopus) namespace: xenopus_anatomy def: "A midline paired symmetrical structure within the brain; the main product of the embryonic diencephalon." [UBERON:0001897] xref: UBERON:0001897 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001894 ! diencephalon relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004307 name: head mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head." [ZFA:0000113] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0000033 ! head relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004309 name: postmigratory neural crest cell (Xenopus) namespace: xenopus_anatomy def: "Any of the cells that are of neural crest origin, now in place in their postmigratory target tissues, such as the sciatic nerve, dorsal root ganglia, gut or skin. They can be visualised or detected by specific molecular markers." [XAO:CJZ] synonym: "postmigratory neural crest cells" RELATED PLURAL [] is_a: CL:0000000 ! cell relationship: end_stage XAO:1000046 ! NF stage 31 (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004310 name: stapes (Xenopus) namespace: xenopus_anatomy def: "Bone of the ear that is connected to the tympanic membrane via the extrastapes." [ISBN:0520252780] xref: UBERON:0001687 is_a: UBERON:0001686 ! auditory ossicle relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:0004311 name: regenerating limb (Xenopus) namespace: xenopus_anatomy def: "A portion of limb tissue that is re-growing after damage or amputation." [XAO:EJS] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004312 name: regenerating fin (Xenopus) namespace: xenopus_anatomy def: "A portion of fin tissue that is re-growing after damage or amputation." [XAO:EJS] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0004313 name: joint region (Xenopus) namespace: xenopus_anatomy def: "Anatomical region containing a joint, two or more adjacent bones or cartilages which may be interconnected by various types of tissue." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004314 name: digit-joint region (Xenopus) namespace: xenopus_anatomy def: "Anatomical region containing a joint in a digit, one of several most distal parts of a limb." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004315 name: perichondrial cell (Xenopus) namespace: xenopus_anatomy def: "A cell of the perichondrium, the fibrous membrane of connective tissue covering the surface of cartilage." [WWW:medical-dictionary.thefreedictionary.com/Perichondrial] synonym: "perichondrial cells" RELATED PLURAL [] is_a: CL:0000000 ! cell relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002222 ! perichondrium relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004316 name: interdigital region (Xenopus) namespace: xenopus_anatomy def: "Anatomical region between digits, the most distal parts of a limb." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004317 name: amputated tissue (Xenopus) namespace: xenopus_anatomy def: "A portion of tissue that has been removed from the body." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004318 name: amputated fin (Xenopus) namespace: xenopus_anatomy def: "A portion of fin tissue that has been removed from the body." [XAO:EJS] is_a: XAO:0004317 ! amputated tissue (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:0004319 name: amputated limb (Xenopus) namespace: xenopus_anatomy def: "A portion of limb tissue that has been removed from the body." [XAO:EJS] is_a: XAO:0004317 ! amputated tissue (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004320 name: mesenchymal cell (Xenopus) namespace: xenopus_anatomy def: "An undifferentiated cell found in mesenchyme that is capable of differentiating into various specialized connective tissues." [WWW:encyclopedia2.thefreedictionary.com/Mesenchymal+stem+cell] is_a: CL:0000000 ! cell relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000033 ! NF stage 12.5 (Xenopus) [Term] id: XAO:0004321 name: dorsal caudal lymphatic vessel (Xenopus) namespace: xenopus_anatomy def: "Lymphatic vessel located in the posterior dorsal region of the trunk." [XAO:EJS] synonym: "DCLV" EXACT [] is_a: UBERON:0001473 ! lymphatic vessel relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004322 name: cranial muscle (Xenopus) namespace: xenopus_anatomy def: "Any of the muscle that is part of the head." [XAO:curator] is_a: UBERON:0001630 ! muscle organ relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000033 ! head relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004323 name: mandibular head muscle (Xenopus) namespace: xenopus_anatomy def: "Any of the paired mandibular arch muscles." [PMID:21050205] is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004324 name: hyoid head muscle (Xenopus) namespace: xenopus_anatomy def: "Any of the bilateral hyoid arch muscles innervated by cranial nerve VII." [PMID:21050205] is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004325 name: branchial head muscle (Xenopus) namespace: xenopus_anatomy def: "Any of the muscles that support the filigreed structure of the gill basket necessary for filter feeding, through the stabilisation, extension and compression of the gill basket." [PMID:21050205] is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004326 name: hypobranchial head muscle (Xenopus) namespace: xenopus_anatomy def: "Straplike muscle that arises from elements of the pectoral girdle and pass to the hyoid bone and laryngeal cartilages." [WWW:www.britannica.com/EBchecked/topic/279858/hypobranchial-muscle] is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004327 name: eye muscle (Xenopus) namespace: xenopus_anatomy def: "A muscle that is part of the eye region and controls the movement of the eye." [UBERON:0004277] xref: UBERON:0004277 is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004328 name: m. levator mandibulae longus internus (Xenopus) namespace: xenopus_anatomy def: "Muscle that is part a complex that arises from the skull roof and acts to elevate or close the lower jaw. It separates medially from levator mandibulae longus supeficialis, with which it shares a common origin." [PMID:17624928] synonym: "mlmli" EXACT [] is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004425 ! m. levator mandibulae longus internus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004329 name: m. levator mandibulae longus profundus (Xenopus) namespace: xenopus_anatomy def: "Muscle that is part a complex that arises from the skull roof and acts to elevate or close the lower jaw. After separating from levator mandibulae longus superficialis, it parallels it and inserts in the connective tissue. Only at later stages, its rostral third is slightly curved laterally and inserts in the region of the anlage of the tentacular cartilage." [PMID:17624928] synonym: "mlmlp" EXACT [] is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004426 ! m. levator mandibulae longus profundus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004330 name: m. levator mandibulae longus superficialis (Xenopus) namespace: xenopus_anatomy def: "Muscle that is part a complex that arises from the skull roof and acts to elevate or close the lower jaw. The first mandibular arch muscle to appear, it originates ventral to the center of the eye, and extends rostroventrally to end lateral to the buccal cavity." [PMID:17624928] synonym: "mlmls" EXACT [] synonym: "superior long mandibular levator muscle" EXACT [] is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004427 ! m. levator mandibulae longus superior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004331 name: m. levator mandibulae articularis (Xenopus) namespace: xenopus_anatomy def: "Muscle that is part a complex that arises from the skull roof and acts to elevate or close the lower jaw. It originates from the ventral bend of the anlage of processus muscularis palatoquadrati. It runs ventrally near the levator mandibulae longus supeficialis and inserts anterior of it at Meckel's cartilage." [PMID:17624928] synonym: "articularis mandibular levator muscle" EXACT [] synonym: "mlma" EXACT [] is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004428 ! m. levator mandibulae articularis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004332 name: m. levator mandibulae externus (Xenopus) namespace: xenopus_anatomy def: "Muscle that is part a complex that arises from the skull roof and acts to elevate or close the lower jaw. The last jaw levator to develop, it originates rostral to the palatoquadrate." [PMID:17624928] synonym: "external mandibular levator muscle" EXACT [] synonym: "mlme" EXACT [] is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004429 ! m. levator mandibulae externus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004333 name: m. intermandibularis (Xenopus) namespace: xenopus_anatomy def: "Ventral muscle of the larval head that is a broad transverse sheet lying between the Meckel's cartilages and joining its opposite mid-ventrally in an median raphe." [WWW:jcs.biologists.org/content/s2-81/322/161] synonym: "intermandibular muscle" EXACT [] synonym: "mim" EXACT [] xref: UBERON:0010931 is_a: XAO:0004323 ! mandibular head muscle (Xenopus) relationship: develops_from XAO:0004430 ! m. intermandibularis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004334 name: m. quadrato-hyoangularis (Xenopus) namespace: xenopus_anatomy def: "Hyoid arch muscle that connects Meckel's cartilage with the palatoquadrate and supports the opening of the mouth by depressing Meckel's cartilage." [PMID:21050205] synonym: "mqh" EXACT [] synonym: "quadrato-hyoangularis muscle" EXACT [] is_a: XAO:0004324 ! hyoid head muscle (Xenopus) relationship: develops_from XAO:0004431 ! m. quadrato-hyoangularis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004335 name: m. orbitohyoideus (Xenopus) namespace: xenopus_anatomy def: "Large, tapering muscle that originates on the muscular process and inserts on the ceratohyal." [ISBN:0226557626] synonym: "moh" EXACT [] synonym: "orbitohyoidal muscle" EXACT [] is_a: XAO:0004324 ! hyoid head muscle (Xenopus) relationship: develops_from XAO:0004432 ! m. orbitohyoideus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004336 name: m. interhyoideus (Xenopus) namespace: xenopus_anatomy def: "A thin curved muscle located between the ceratohyal cartilages." [PMID:21050205] synonym: "interhyoidal muscle" EXACT [] synonym: "mih" EXACT [] xref: AAO:0010649 is_a: XAO:0004324 ! hyoid head muscle (Xenopus) relationship: develops_from XAO:0004433 ! m. interhyoideus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004337 name: m. subarcualis rectus I (Xenopus) namespace: xenopus_anatomy def: "Deep, visceral muscle associated with tongue movement." [AAO:0010659] synonym: "msr" EXACT [] xref: AAO:0010659 is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004434 ! m. subarcualis rectus I primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004338 name: m. transversus anterior (Xenopus) namespace: xenopus_anatomy def: "Muscle situated between the planum hypobranchiale and the basihyobranchial, presumably to stabilize the connection between these elements." [PMID:17624928] synonym: "mta" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004435 ! m. transversus anterior primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:0004339 name: m. transversus ventralis II (Xenopus) namespace: xenopus_anatomy def: "Muscle that springs from the second branchial arch, meeting its opposite in a mid-ventral raphe." [WWW:jcs.biologists.org/content/s2-81/322/161] synonym: "mtvII" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004436 ! m. transversus ventralis II primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004340 name: mm. levator arcuum branchialium I (Xenopus) namespace: xenopus_anatomy def: "The 1st branchial levator muscle, which contribute to raising the branchial apparatus." [XAO:EJS] synonym: "mlabI" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004437 ! mm. levator arcuum branchialium I primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004341 name: mm. levator arcuum branchialium II (Xenopus) namespace: xenopus_anatomy def: "The 2nd branchial levator muscle, which contribute to raising the branchial apparatus." [XAO:EJS] synonym: "mlabII" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004438 ! mm. levator arcuum branchialium II primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004342 name: mm. levator arcuum branchialium III (Xenopus) namespace: xenopus_anatomy def: "The 3rd branchial levator muscle, which contribute to raising the branchial apparatus." [XAO:EJS] synonym: "mlabIII" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004439 ! mm. levator arcuum branchialium III primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004343 name: mm. levator arcuum branchialium IV (Xenopus) namespace: xenopus_anatomy def: "The 4th branchial levator muscle, which contribute to raising the branchial apparatus." [XAO:EJS] synonym: "mlabIV" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004440 ! mm. levator arcuum branchialium IV primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004344 name: mm. constrictores branchiales II (Xenopus) namespace: xenopus_anatomy def: "Muscle that arises on part of the chondrocranium and passes to the ventro-lateral region of the cerato-branchialia. It originates on the ventrolateral process of the palatoquadrate." [WWW:jcs.biologists.org/content/s2-81/322/161] synonym: "mcbII" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004441 ! mm. constrictores branchiales II primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004345 name: mm. constrictores branchiales III (Xenopus) namespace: xenopus_anatomy def: "Muscle that arises on part of the chondrocranium and passes to the ventro-lateral region of the cerato-branchialia. It is located on the crista parotica and commissura branchio-cranialis." [WWW:jcs.biologists.org/content/s2-81/322/161] synonym: "mcbIII" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004442 ! mm. constrictores branchiales III primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004346 name: mm. constrictores branchiales IV (Xenopus) namespace: xenopus_anatomy def: "Muscle that arises on part of the chondrocranium and passes to the ventro-lateral region of the cerato-branchialia. It is a small muscle situated at the posterior end of the branchial skeleton." [WWW:jcs.biologists.org/content/s2-81/322/161] synonym: "mcbIV" EXACT [] is_a: XAO:0004325 ! branchial head muscle (Xenopus) relationship: develops_from XAO:0004443 ! mm. constrictores branchiales IV primordium (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004347 name: m. geniohyoideus (Xenopus) namespace: xenopus_anatomy def: "Muscle that pulls the hyoid apparatus forward and depresses the lower jaw." [AAO:0010655] synonym: "mgh" EXACT [] xref: AAO:0010655 is_a: XAO:0004326 ! hypobranchial head muscle (Xenopus) relationship: develops_from XAO:0004444 ! m. geniohyoideus primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004348 name: m. rectus cervicis (Xenopus) namespace: xenopus_anatomy def: "Muscle that retracts the hyoid and, therefore, the tongue." [AAO:0010654] synonym: "mrc" EXACT [] xref: AAO:0010654 is_a: XAO:0004326 ! hypobranchial head muscle (Xenopus) relationship: develops_from XAO:0004445 ! m. rectus cervicis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004349 name: m. constrictor laryngis (Xenopus) namespace: xenopus_anatomy def: "Muscle that consists of dorsal and ventral parts that arise from medial raphe and insert on the arytenoid cartilages." [ISBN:0226557626] is_a: XAO:0004351 ! laryngeal muscle (Xenopus) relationship: develops_from XAO:0004446 ! m. constrictor laryngis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:0004350 name: m. dilatator laryngis (Xenopus) namespace: xenopus_anatomy def: "Muscle that arises from the edge of levator arcus branchialis IV and inserts on the arytenoid cartilage and the cricoid ring." [ISBN:0226557626] xref: AAO:0010620 is_a: XAO:0004351 ! laryngeal muscle (Xenopus) relationship: develops_from XAO:0004447 ! m. dilatator laryngis primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004351 name: laryngeal muscle (Xenopus) namespace: xenopus_anatomy def: "Type of muscle that attaches to the larynx." [XAO:EJS] synonym: "LM" EXACT [] is_a: XAO:0004322 ! cranial muscle (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:0004352 name: m. rectus anterior (Xenopus) namespace: xenopus_anatomy def: "Muscle in the orbit that inserts on the anterior side of the eye and the function of which is adduction of the eyeball." [XAO:curator] is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004449 ! m. rectus anterior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004353 name: m. rectus posterior (Xenopus) namespace: xenopus_anatomy def: "Muscle in the orbit that inserts on the posterior side of the eye and the function of which is adduction of the eyeball." [XAO:curator] is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004450 ! m. rectus posterior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004354 name: m. rectus inferior (Xenopus) namespace: xenopus_anatomy def: "Muscle in the orbit that depresses, adducts, and helps extort (rotate laterally) the eye." [UBERON:0006322] xref: UBERON:0006322 is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004451 ! m. rectus inferior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004355 name: m. rectus superior (Xenopus) namespace: xenopus_anatomy def: "Muscle in the orbit, the primary function is of which is elevation." [UBERON:0006323] xref: UBERON:0006323 is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004452 ! m. rectus superior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004356 name: m. obliquus inferior (Xenopus) namespace: xenopus_anatomy def: "Thin, narrow muscle placed near the anterior margin of the floor of the orbit." [UBERON:0006320] xref: UBERON:0006320 is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004453 ! m. obliquus inferior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004357 name: m. obliquus superior (Xenopus) namespace: xenopus_anatomy def: "Muscle in the upper, medial side of the orbit whose primary action is downward, lateral rotation of the eye." [UBERON:0006321] xref: UBERON:0006321 is_a: XAO:0004327 ! eye muscle (Xenopus) relationship: develops_from XAO:0004454 ! m. obliquus superior primordium (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004358 name: basihyal (Xenopus) namespace: xenopus_anatomy alt_id: XAO:0004382 def: "Cartilaginous element that is median and is the anterior-most cartilage of the ventral hyoid arch." [UBERON:0011615] synonym: "basihyobranchial" EXACT [] synonym: "bhb" EXACT [] xref: UBERON:0011615 is_a: UBERON:0007844 ! cartilage element relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004359 name: ceratobranchial I (Xenopus) namespace: xenopus_anatomy def: "The cartilaginous element below the epibranchial in branchial arch 1." [WWW:www.thefreedictionary.com/Ceratobranchial] synonym: "cbl-I" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004360 name: ceratobranchial II (Xenopus) namespace: xenopus_anatomy def: "The cartilaginous element below the epibranchial in branchial arch 2." [WWW:www.thefreedictionary.com/Ceratobranchial] synonym: "cbl-II" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004361 name: ceratobranchial III (Xenopus) namespace: xenopus_anatomy def: "The cartilaginous element below the epibranchial in branchial arch 3." [WWW:www.thefreedictionary.com/Ceratobranchial] synonym: "cbl-III" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004362 name: ceratobranchial IV (Xenopus) namespace: xenopus_anatomy def: "The cartilaginous element below the epibranchial in branchial arch 4." [WWW:www.thefreedictionary.com/Ceratobranchial] synonym: "cbl-IV" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004363 name: commisura quadratocranialis anterior (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the rostral connection of the palatoquadrate cartilage to the neurocranium." [PMID:21050205] synonym: "cqca" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004364 name: cornua trabecula (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that supports the anterior end of the nasal organ." [ISBN:1276806469] synonym: "cornua trabeculae" RELATED PLURAL [] synonym: "ct" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004365 name: fenestra basicranialis (Xenopus) namespace: xenopus_anatomy def: "The space where the trabeculae of the tadpole chondrocranium have not yet fused." [ISBN:0226557626] synonym: "fbc" EXACT [] is_a: UBERON:0000464 ! anatomical space relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004366 name: facies hyoidis of the palatoquadrate (Xenopus) namespace: xenopus_anatomy def: "One of the cartilaginous surfaces of the tadpole jaw." [XAO:curator] synonym: "fhpq" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004367 name: fenestra subocularis (Xenopus) namespace: xenopus_anatomy def: "The wide gap that separates the palatoquadrate from the neurocranium." [ISBN:0226557626] synonym: "fso" EXACT [] is_a: UBERON:0000464 ! anatomical space relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004368 name: infrarostral (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising cartilages that articulate with Meckel's cartilage in the lower jaw and are fused medially." [PMID:21050205] synonym: "io" EXACT [] xref: AAO:0000237 is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004369 name: processus anterior hyalis (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the anterior process of ceratohyal cartilage derived from the hyoid neural crest stream." [PMID:21050205] synonym: "pach" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004370 name: processus articularis palatoquadrati (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the articular process that forms the jaw joint with the posterior end of Meckel's cartilage." [ISBN:0226557626] synonym: "parpq" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004371 name: processus ascendens palatoquadrate (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the ascending process that helps anchor the larval palatoquadrate to the neurocranium." [ISBN:0226557626] synonym: "paspq" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004372 name: parachordal (Xenopus) namespace: xenopus_anatomy def: "Rod-shaped paired cartilages located on either side of the notochord and involved in the formation of the base of the chondrochranium." [TAO:0001423] synonym: "parachordal cartilage" RELATED [] synonym: "pk" EXACT [] xref: UBERON:0009635 is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004373 name: processus lateralis hyalis (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the lateral process of ceratohyal cartilage derived from the hyoid neural crest stream." [PMID:21050205] synonym: "plch" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004374 name: planum hypobranchiale (Xenopus) namespace: xenopus_anatomy alt_id: XAO:0004383 def: "Cartilaginous elements that meet and articulate in the median plane posterior to the basibranchial." [WWW:amphibiatree.org/node/407] synonym: "plana hypobranchiale" RELATED PLURAL [] synonym: "plhb" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004375 name: planum trabeculare anticum (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that is posterior to the cornua trabeculae." [XAO:curator] synonym: "plta" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004376 name: processus muscularis palatoquadrati (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the muscular process, a flattened triangular process that is the site of attachment for the orbitohyoideus and suspensoriohyoideus muscles." [ISBN:0226557626] synonym: "pmpq" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004377 name: processus posterior hyalis (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the posterior process of ceratohyal cartilage derived from the hyoid neural crest stream." [PMID:21050205] synonym: "ppch" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004378 name: palatoquadrati (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising the dorsal component of the mandibular arch." [UBERON:0004752] synonym: "palatoquadrate cartilage" EXACT [] synonym: "pq" EXACT [] xref: UBERON:0004752 is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004379 name: processus retroarticularis of Meckel's cartilage (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that forms at the posteroventral tip of Meckel's cartilage." [ZFA:0000422] synonym: "prmc" EXACT [] xref: ZFA:0000422 is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0003107 ! Meckel's cartilage relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:0004380 name: suprarostral plate (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that comprises a crescent-shaped plate that supports the tentacular cartilage in the upper jaw." [PMID:21050205] synonym: "sp" EXACT [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004381 name: trabecula cranii (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element comprising a pair of chondrification centers in the base of the embryonic cartilaginous neurocranium." [WWW:www.medilexicon.com/medicaldictionary.php?t=92818] synonym: "tc" EXACT [] synonym: "trabeculae cranii" RELATED PLURAL [] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0004761 ! cartilaginous neurocranium relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004384 name: peripheral vegetal yolk mass (Xenopus) namespace: xenopus_anatomy def: "Peripherally located part of the vegetal cell mass of prospective endoderm." [XAO:EJS] synonym: "peripheral vegetal cell mass" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000281 ! vegetal yolk mass (Xenopus) relationship: start_stage XAO:1000019 ! NF stage 9 (Xenopus) [Term] id: XAO:0004385 name: branchial basket (Xenopus) namespace: xenopus_anatomy alt_id: XAO:0004386 def: "Cartilaginous element that comprises the network-like cartilaginous skeleton of the gill region." [UBERON:0009119] synonym: "gill basket" EXACT [] xref: UBERON:0009119 is_a: UBERON:0007844 ! cartilage element relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0000033 ! head relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004387 name: CMZ stem cell region (Xenopus) namespace: xenopus_anatomy def: "Region of the ciliary marginal zone, at the edge where retinal stem cells are located." [PMID:7695895] synonym: "ciliary marginal zone stem cell region" EXACT [] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0003065 ! ciliary marginal zone relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004388 name: CMZ progenitor cell region (Xenopus) namespace: xenopus_anatomy def: "Region of the ciliary marginal zone where retinal progenitor cells are located." [PMID:7695895] synonym: "ciliary marginal zone progenitor cell region" EXACT [] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0003065 ! ciliary marginal zone relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004389 name: oculomotor motornucleus (Xenopus) namespace: xenopus_anatomy def: "The nucleus of the oculomotor nerve (cranial nerve III)." [XAO:EJS] synonym: "OM" EXACT [] is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0002346 ! neurectoderm relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001891 ! midbrain relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004390 name: dorsal thalamus (Xenopus) namespace: xenopus_anatomy def: "The dorsal part of the thalamus." [XAO:EJS] synonym: "DT" EXACT [] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004306 ! thalamus (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004391 name: trochlear motornucleus (Xenopus) namespace: xenopus_anatomy def: "The nucleus of the trochlear nerve (cranial nerve IV)." [XAO:EJS] synonym: "TM" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001891 ! midbrain relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004392 name: goblet cell (Xenopus) namespace: xenopus_anatomy def: "A type of mucus surface cell in the tadpole." [ISBN:080184780X] synonym: "goblet cells" RELATED PLURAL [] is_a: CL:0000066 ! epithelial cell relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0002097 ! skin of body relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004393 name: mucociliary epithelium (Xenopus) namespace: xenopus_anatomy def: "Type of epithelium in the embryonic epidermis that is mucus-secreting and ciliated." [XAO:curator] is_a: UBERON:0000483 ! epithelium relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0001003 ! epidermis relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004394 name: hatching gland primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the hatching gland, present by the end of gastrulation." [XAO:EJS] is_a: UBERON:0001048 ! primordium relationship: end_stage XAO:1000024 ! NF stage 14 (Xenopus) relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0005497 ! non-neural ectoderm relationship: start_stage XAO:1000033 ! NF stage 12.5 (Xenopus) [Term] id: XAO:0004395 name: central vegetal yolk mass (Xenopus) namespace: xenopus_anatomy def: "Centrally located part of the vegetal cell mass of prospective endoderm." [XAO:EJS] synonym: "central vegetal cell mass" EXACT [] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000022 ! NF stage 12 (Xenopus) relationship: part_of XAO:0000281 ! vegetal yolk mass (Xenopus) relationship: start_stage XAO:1000019 ! NF stage 9 (Xenopus) [Term] id: XAO:0004396 name: apical mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Regenerating tissue consisting of mesenchyme cells at the tip of the regenerating limb." [XAO:EJS] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004397 name: wound epidermis (Xenopus) namespace: xenopus_anatomy def: "Regenerating tissue formed when upon amputation of a limb, the epidermal cells surrounding the amputation plane migrate to heal the wound." [PMID:18030417] synonym: "apical wound epidermis" RELATED [] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004398 name: wound epidermis inner layer (Xenopus) namespace: xenopus_anatomy def: "Regenerating tissue that forms the inner or basal layer of wound epidermis." [XAO:EJS] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004397 ! wound epidermis (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004399 name: wound epidermis outer layer (Xenopus) namespace: xenopus_anatomy def: "Regenerating tissue that forms the outer layer of wound epidermis." [XAO:EJS] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004397 ! wound epidermis (Xenopus) relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004400 name: regenerating zeugopod skeleton (Xenopus) namespace: xenopus_anatomy def: "A portion of zeugopod skeleton tissue that is re-growing after damage or amputation." [XAO:curator] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: part_of XAO:0004311 ! regenerating limb (Xenopus) relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004401 name: apical epithelial cap (Xenopus) namespace: xenopus_anatomy def: "Tissue, approximately 5-6 cells deep, that in regenerating limb buds forms distally, replacing the thinner wound epithelium." [PMID:18570684] synonym: "AEC" EXACT [] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004402 name: pseudoblastema (Xenopus) namespace: xenopus_anatomy def: "Following amputation in late prometamorphosis or in young froglets, tissue comprising fibroblast-like cells in a limb stump that aggregate beneath the wound epithelia." [ISBN:3540228713] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004403 name: fibrocellular pad (Xenopus) namespace: xenopus_anatomy def: "Regenerative tissue that develops and covers cut bone in the tadpole." [PMID:10906786] is_a: UBERON:0007567 ! regenerating anatomical structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004404 name: keratinocyte (Xenopus) namespace: xenopus_anatomy def: "The predominant cell type in the epidermis, the primary function of which is the formation of a barrier against environmental damage." [WWW:en.wikipedia.org/wiki/Keratinocyte] synonym: "keratinocytes" RELATED PLURAL [] is_a: CL:0000311 ! keratin accumulating cell relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:0004405 name: Leydig cell (Xenopus) namespace: xenopus_anatomy def: "A type of special epithelial cell that secretes mucus into the subsurface extracellular compartments of the epidermis." [ISBN:080184780X] synonym: "Leydig cells" RELATED PLURAL [] synonym: "Leydig gland cell" RELATED [] is_a: CL:0000066 ! epithelial cell relationship: end_stage XAO:1000078 ! NF stage 66 (Xenopus) relationship: part_of UBERON:0001003 ! epidermis relationship: part_of UBERON:0005306 ! blastema relationship: start_stage XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:0004406 name: presumptive axial mesoderm (Xenopus) namespace: xenopus_anatomy def: "Presumptive structure that will develop into axial mesoderm." [XAO:EJS] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003062 ! primitive knot relationship: end_stage XAO:1000033 ! NF stage 12.5 (Xenopus) relationship: start_stage XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:0004407 name: proximal mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchyme that occupies the proximal region of a limb bud." [XAO:EJS] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000068 ! NF stage 56 (Xenopus) relationship: part_of UBERON:0004347 ! limb bud relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004408 name: anterior-proximal mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchyme that occupies the anterior proximal region of a limb bud." [XAO:EJS] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000068 ! NF stage 56 (Xenopus) relationship: part_of UBERON:0004347 ! limb bud relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004409 name: posterior-proximal mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchyme that occupies the posterior proximal region of a limb bud." [XAO:EJS] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000068 ! NF stage 56 (Xenopus) relationship: part_of UBERON:0004347 ! limb bud relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004410 name: interdigital mesenchyme (Xenopus) namespace: xenopus_anatomy def: "Mesenchyme that occupies the interdigital region of a limb bud." [XAO:EJS] is_a: UBERON:0003104 ! mesenchyme relationship: end_stage XAO:1000068 ! NF stage 56 (Xenopus) relationship: part_of UBERON:0004347 ! limb bud relationship: start_stage XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:0004411 name: lateral line primordium (Xenopus) namespace: xenopus_anatomy def: "Portion of tissue that migrates and deposits immature neuromasts and interneuromasts." [ZFA:0000228] xref: ZFA:0000228 is_a: UBERON:0001048 ! primordium relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of UBERON:0002540 ! lateral line system relationship: start_stage XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:0004412 name: hind digit 2 (Xenopus) namespace: xenopus_anatomy def: "The 2nd digit of the foot." [UBERON:0003632] synonym: "toe 2" EXACT [] synonym: "toe II" EXACT [] xref: UBERON:0003632 is_a: UBERON:0001466 ! pedal digit relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004413 name: hind digit 3 (Xenopus) namespace: xenopus_anatomy def: "The 3rd digit of the foot." [UBERON:0003633] synonym: "toe 3" EXACT [] synonym: "toe III" EXACT [] xref: UBERON:0003633 is_a: UBERON:0001466 ! pedal digit relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004414 name: hind digit 4 (Xenopus) namespace: xenopus_anatomy def: "The 4th digit of the foot." [UBERON:0003634] synonym: "toe 4" EXACT [] synonym: "toe IV" EXACT [] xref: UBERON:0003634 is_a: UBERON:0001466 ! pedal digit relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004415 name: hind digit 5 (Xenopus) namespace: xenopus_anatomy def: "The 5th digit of the foot." [UBERON:0003635] synonym: "toe 5" EXACT [] synonym: "toe V" EXACT [] xref: UBERON:0003635 is_a: UBERON:0001466 ! pedal digit relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004416 name: claw primordium (Xenopus) namespace: xenopus_anatomy def: "Portion of tissue that will form any of the small, pointed keratinized appendages at the end of each of the toes of the hind limbs." [XAO:EJS] is_a: UBERON:0000479 ! tissue relationship: end_stage XAO:1000069 ! NF stage 57 (Xenopus) relationship: part_of UBERON:0001466 ! pedal digit relationship: start_stage XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:0004417 name: claw of hind digit 1 (Xenopus) namespace: xenopus_anatomy def: "Claw located at the end of the 1st hind digit." [XAO:EJS] is_a: UBERON:0001705 ! nail relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004239 ! hind digit 1 (Xenopus) relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004418 name: claw of hind digit 2 (Xenopus) namespace: xenopus_anatomy def: "Claw located at the end of the 2nd hind digit." [XAO:EJS] is_a: UBERON:0001705 ! nail relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004412 ! hind digit 2 (Xenopus) relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004419 name: claw of hind digit 3 (Xenopus) namespace: xenopus_anatomy def: "Claw located at the end of the 3rd hind digit." [XAO:EJS] is_a: UBERON:0001705 ! nail relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004413 ! hind digit 3 (Xenopus) relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004420 name: claw of hind digit 4 (Xenopus) namespace: xenopus_anatomy def: "Claw located at the end of the 4th hind digit." [XAO:EJS] is_a: UBERON:0001705 ! nail relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004414 ! hind digit 4 (Xenopus) relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004421 name: claw of hind digit 5 (Xenopus) namespace: xenopus_anatomy def: "Claw located at the end of the 5th hind digit." [XAO:EJS] is_a: UBERON:0001705 ! nail relationship: end_stage UBERON:0000071 ! death stage relationship: part_of XAO:0004415 ! hind digit 5 (Xenopus) relationship: start_stage XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:0004422 name: posterior lateral line ganglion (Xenopus) namespace: xenopus_anatomy def: "Ganglion that develops from a cranial ectodermal placode and contains sensory neurons that innervate the posterior lateral line system." [ZFA:0001314] synonym: "posterior lateral line ganglia" RELATED PLURAL [] is_a: XAO:0004457 ! lateral line ganglion (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004423 name: trunk vasculature (Xenopus) namespace: xenopus_anatomy def: "The blood vessels of the trunk region." [XAO:EJS] xref: UBERON:0002201 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0004535 ! cardiovascular system relationship: start_stage XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:0004424 name: central retina (Xenopus) namespace: xenopus_anatomy def: "Anatomical region comprising the central part of the retina." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000966 ! retina relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004425 name: m. levator mandibulae longus internus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator mandibulae longus internus muscle." [XAO:EJS] synonym: "mlmli" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004426 name: m. levator mandibulae longus profundus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator mandibulae longus profundus muscle." [XAO:EJS] synonym: "mlmlp" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004427 name: m. levator mandibulae longus superior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator mandibulae longus superior muscle." [XAO:EJS] synonym: "mlmls" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004428 name: m. levator mandibulae articularis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator mandibulae articularis muscle." [XAO:EJS] synonym: "mlma" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004429 name: m. levator mandibulae externus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator mandibulae externus muscle." [XAO:EJS] synonym: "mlme" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000057 ! NF stage 45 (Xenopus) relationship: start_stage XAO:1000056 ! NF stage 44 (Xenopus) [Term] id: XAO:0004430 name: m. intermandibularis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the intermandibularis muscle." [XAO:EJS] synonym: "mim" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004431 name: m. quadrato-hyoangularis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the quadrato-hyoangularis muscle." [XAO:EJS] synonym: "mqh" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004432 name: m. orbitohyoideus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the orbitohyoideus muscle." [XAO:EJS] synonym: "moh" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004433 name: m. interhyoideus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the interhyoideus muscle." [XAO:EJS] synonym: "mih" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:0004434 name: m. subarcualis rectus I primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the subarcualis rectus I muscle." [XAO:EJS] synonym: "msr" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004435 name: m. transversus anterior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the transversus anterior muscle." [XAO:EJS] synonym: "mta" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000054 ! NF stage 42 (Xenopus) relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004436 name: m. transversus ventralis II primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the transversus ventralis II muscle." [XAO:EJS] synonym: "mtvII" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:0004437 name: mm. levator arcuum branchialium I primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator arcuum branchialium I muscles." [XAO:EJS] synonym: "mlabI" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004438 name: mm. levator arcuum branchialium II primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator arcuum branchialium II muscles." [XAO:EJS] synonym: "mlabII" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004439 name: mm. levator arcuum branchialium III primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator arcuum branchialium III muscles." [XAO:EJS] synonym: "mlabIII" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004440 name: mm. levator arcuum branchialium IV primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the levator arcuum branchialium IV muscles." [XAO:EJS] synonym: "mlabIV" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000052 ! NF stage 40 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004441 name: mm. constrictores branchiales II primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the constrictores branchiales II muscles." [XAO:EJS] synonym: "mcbII" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004442 name: mm. constrictores branchiales III primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the constrictores branchiales III muscles." [XAO:EJS] synonym: "mcbIII" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004443 name: mm. constrictores branchiales IV primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the constrictores branchiales IV muscles." [XAO:EJS] synonym: "mcbIV" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004444 name: m. geniohyoideus primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the geniohyoideus muscle." [XAO:EJS] synonym: "mgh" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004445 name: m. rectus cervicis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the rectus cervicis muscle." [XAO:EJS] synonym: "mrc" RELATED [] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:0004446 name: m. constrictor laryngis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the constrictor laryngis muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000054 ! NF stage 42 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004447 name: m. dilatator laryngis primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the dilatator laryngis muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004448 name: laryngeal muscle primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of laryngeal muscle." [XAO:EJS] is_a: UBERON:0001048 ! primordium relationship: end_stage XAO:1000053 ! NF stage 41 (Xenopus) relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004449 name: m. rectus anterior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the rectus anterior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004450 name: m. rectus posterior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the rectus posterior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004451 name: m. rectus inferior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the rectus inferior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004452 name: m. rectus superior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the rectus superior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000051 ! NF stage 39 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004453 name: m. obliquus inferior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the obliquus inferior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004454 name: m. obliquus superior primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of the obliquus superior muscle." [XAO:EJS] is_a: XAO:0004455 ! cranial muscle primordium (Xenopus) relationship: end_stage XAO:1000050 ! NF stage 37 and 38 (Xenopus) relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004455 name: cranial muscle primordium (Xenopus) namespace: xenopus_anatomy def: "The presumptive cells of any of the cranial muscles." [XAO:EJS] is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage XAO:1000057 ! NF stage 45 (Xenopus) relationship: part_of UBERON:0000383 ! musculature of body relationship: start_stage XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:0004456 name: Brachet's cleft (Xenopus) namespace: xenopus_anatomy def: "A sharp boundary, running parallel to the outside of the embryo, between involuted mesoderm and external ectoderm. It runs from the blastopore to the upper limit of the involuted mesoderm." [PMID:21464931] synonym: "Brachy's cleft" EXACT [] is_a: UBERON:0002050 ! embryonic structure relationship: end_stage XAO:1000037 ! NF stage 21 (Xenopus) relationship: start_stage XAO:1000021 ! NF stage 11 (Xenopus) [Term] id: XAO:0004457 name: lateral line ganglion (Xenopus) namespace: xenopus_anatomy def: "Ganglion that develops from a cranial ectodermal placode and contains sensory neurons that innervate a lateral line." [ZFA:0000120] synonym: "lateral line ganglia" RELATED PLURAL [] is_a: UBERON:0001714 ! cranial ganglion relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0002540 ! lateral line system relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004458 name: peripheral retina (Xenopus) namespace: xenopus_anatomy def: "Anatomical region comprising the peripheral part of the retina." [XAO:EJS] is_a: XAO:0003186 ! anatomical region (Xenopus) relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000966 ! retina relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004459 name: subocular cartilage (Xenopus) namespace: xenopus_anatomy def: "Cartilaginous element that is below the trabecula and parachordal." [XAO:curator] is_a: UBERON:0007844 ! cartilage element relationship: develops_from CL:0000138 ! chondrocyte relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004460 name: choroid (Xenopus) namespace: xenopus_anatomy def: "Portion of tissue comprising the vascular layer of the eye, lying between the retina and sclera." [WIKI:Choroid] xref: UBERON:0001776 is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000019 ! camera-type eye relationship: start_stage XAO:1000056 ! NF stage 44 (Xenopus) [Term] id: XAO:0004461 name: circumpharyngeal ridge (Xenopus) namespace: xenopus_anatomy def: "Site above the branchial arch complex where vagal neural crest cells temporarily arrest their migration before entering the pharyngeal arches and heart." [XAO:curator] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0005428 ! vagal neural crest relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: part_of XAO:0004261 ! pharyngeal region (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004462 name: dorsal endoderm (Xenopus) namespace: xenopus_anatomy def: "Single cell layer of involuted endoderm lying beneath the prechordal plate." [XAO:curator] is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000034 ! NF stage 18 (Xenopus) relationship: part_of XAO:0000094 ! archenteron roof (Xenopus) relationship: start_stage XAO:1000021 ! NF stage 11 (Xenopus) [Term] id: XAO:0004463 name: pharyngeal endoderm (Xenopus) namespace: xenopus_anatomy def: "Embryonic endoderm that evaginates to form the paired pharyngeal pouches." [XAO:curator] xref: UBERON:0007690 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0000925 ! endoderm relationship: end_stage XAO:1000044 ! NF stage 28 (Xenopus) relationship: part_of UBERON:0000925 ! endoderm relationship: part_of XAO:0004261 ! pharyngeal region (Xenopus) relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0004464 name: rhombomere R1 (Xenopus) namespace: xenopus_anatomy def: "The most anterior segment of the developing hindbrain." [XAO:curator] synonym: "r1" EXACT [] synonym: "rhombomere 1" RELATED [] xref: UBERON:0005499 is_a: UBERON:0001892 ! rhombomere relationship: end_stage XAO:1000056 ! NF stage 44 (Xenopus) relationship: start_stage XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:0004465 name: endolymphatic duct (Xenopus) namespace: xenopus_anatomy def: "Canal that connects the membranous labyrinth of the ear with the endolymphatic sac." [WWW:medical-dictionary.thefreedictionary.com/endolymphatic+duct] xref: UBERON:0001860 is_a: UBERON:0000058 ! duct relationship: develops_from UBERON:0001854 ! saccule of membranous labyrinth relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0001846 ! internal ear relationship: start_stage XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:0004466 name: serous membrane (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure that comprises a secretory epithelial layer and a connective tissue layer." [WIKI:Serous_membrane] synonym: "serosa" RELATED [] xref: UBERON:0000042 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:0004467 name: zygote cortex (Xenopus) namespace: xenopus_anatomy def: "Cell component comprising the outer layers of the zygote." [XAO:EJS] is_a: XAO:0004290 ! cell component (Xenopus) relationship: end_stage UBERON:0000106 ! zygote stage relationship: part_of CL:0000365 ! zygote relationship: start_stage UBERON:0000106 ! zygote stage [Term] id: XAO:0004468 name: organ cortex (Xenopus) namespace: xenopus_anatomy def: "Multi-tissue structure that is the outermost layer of an organ." [UBERON:0001851] xref: UBERON:0001851 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000037 ! NF stage 21 (Xenopus) [Term] id: XAO:0004469 name: trabecula (Xenopus) namespace: xenopus_anatomy def: "A small tissue element in the form of a beam, strut, or rod that generally has a mechanical function and is usually composed of dense cartilaginous tissue." [WWW:en.wikipedia.org/wiki/Trabecula] synonym: "trabeculae" RELATED PLURAL [] is_a: UBERON:0000479 ! tissue relationship: end_stage UBERON:0000071 ! death stage relationship: start_stage XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:0004470 name: trabecula carnea (Xenopus) namespace: xenopus_anatomy def: "A type of trabecula that consists of a rounded or irregular column that projects from the inner surface of the ventricle of the heart." [WWW:en.wikipedia.org/wiki/Trabeculae_carneae] synonym: "trabeculae carneae" RELATED PLURAL [] xref: UBERON:0002511 is_a: XAO:0004469 ! trabecula (Xenopus) relationship: develops_from UBERON:0002349 ! myocardium relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000948 ! heart relationship: start_stage XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:0004471 name: atrial septum (Xenopus) namespace: xenopus_anatomy def: "Cardiac septum which separates the right atrium from the left atrium." [UBERON:0002085] xref: UBERON:0002085 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000948 ! heart relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:0004472 name: sinus venosus (Xenopus) namespace: xenopus_anatomy def: "A large quadrangular cavity which precedes the atrium on the venous side of the heart." [WWW:en.wikipedia.org/wiki/Sinus_venosus] xref: UBERON:0002063 is_a: UBERON:0000481 ! multi-tissue structure relationship: end_stage UBERON:0000071 ! death stage relationship: part_of UBERON:0000948 ! heart relationship: start_stage XAO:1000044 ! NF stage 28 (Xenopus) [Typedef] id: develops_from name: develops from namespace: zebrafish_anatomical_ontology is_transitive: true xref: RO:0002202 is_a: has_developmental_contribution_from ! has developmental contribution from transitive_over: part_of ! part of holds_over_chain: part_of develops_from ! develops from [Typedef] id: end_stage name: ends during namespace: xenopus_anatomy def: "Anatomical structure/expression stops being viable, obvious or of utility during this developmental stage." [XAO:curator] [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Typedef] id: start_stage name: starts during namespace: xenopus_anatomy def: "Anatomical structure/expression begins being viable, obvious or of utility during this developmental stage." [XAO:curator] [Term] id: XAO:1000002 name: early tailbud (Xenopus) namespace: xenopus_developmental_stage def: "The stages from Nieuwkoop and Faber stage 22 to stage 28." [ISBN:0815318960] is_a: UBERON:0009741 ! tailbud stage [Term] id: XAO:1000009 name: frog namespace: xenopus_developmental_stage is_obsolete: true [Term] id: XAO:1000015 name: NF stage 5 (16-cell) (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 5; age 2 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Advanced sixteen cell stage. Dorsal micromeres distinctly smaller and less pigmented than ventral ones. Macromeres entirely separated by cleavage grooves. Length: 1.4 - 1.5 mm." [ISBN:0815318960] synonym: "16-cell stage" EXACT [] xref: ZFS:0000005 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000107 ! cleavage stage relationship: preceded_by UBERON:0007236 ! 8 cell stage [Term] id: XAO:1000016 name: NF stage 6 (32-cell) (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 6; age 3 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Advanced thirty-two cell stage. Distinction between dorsal and ventral micromeres as in preceding stage. Length: 1.4 - 1.5 mm." [ISBN:0815318960] synonym: "32-cell stage" EXACT [] xref: ZFS:0000006 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000107 ! cleavage stage relationship: preceded_by XAO:1000015 ! NF stage 5 (16-cell) (Xenopus) [Term] id: XAO:1000017 name: NF stage 7 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 7, 64-cell embryo; age 4 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Large-cell blastula stage. In animal view about 10 micromeres along meridian. Length: 1.4 - 1.5 mm." [ISBN:0815318960] synonym: "64-cell stage" EXACT [] xref: ZFS:0000007 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000108 ! blastula stage relationship: preceded_by UBERON:0000085 ! morula [Term] id: XAO:1000018 name: NF stage 8 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 8, 128-cell embryo; age 5 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Medium-cell blastula stage. Surface not yet entirely smooth. Border of animal pigment cap more diffuse at dorsal than at lateral and ventral sides. Gradual transition in cell size from animal to vegetative pole. Length: 1.4 - 1.5 mm." [ISBN:0815318960] synonym: "128-cell stage" EXACT [] xref: ZFS:0000008 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000108 ! blastula stage relationship: preceded_by XAO:1000017 ! NF stage 7 (Xenopus) [Term] id: XAO:1000019 name: NF stage 9 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 9; age 7 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Fine-cell blastula stage. Animal cells smaller at dorsal than at ventral side. Border between marginal zone and vegetative field distinct, particularly dorsally, owing to difference in cell size. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000108 ! blastula stage relationship: preceded_by XAO:1000018 ! NF stage 8 (Xenopus) [Term] id: XAO:1000020 name: NF stage 10 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 10; age 9 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Initial gastrula stage. First indication of blastopore only by pigment concentration. No formation of groove. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000019 ! NF stage 9 (Xenopus) [Term] id: XAO:1000021 name: NF stage 11 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 11; age 11 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Horse-shoe-shaped blastopore stage. Blastopore groove surrounding about half of future yolk plug and indicated at its ventral side; future yolk plug often rounded rectangular, slightly elongated in dorso-ventral direction, diameter more than two-fifths of diameter of egg (plus or minus 50 degrees of circumference). Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000031 ! NF stage 10.5 (Xenopus) [Term] id: XAO:1000022 name: NF stage 12 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 12; age 13 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Medium yolk plug stage. Yolk plug circular; diameter somewhat less than one fourth of diameter of egg (plus or minus 25 degrees). More and less pigmented fields radiating from yolk plug. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000032 ! NF stage 11.5 (Xenopus) [Term] id: XAO:1000023 name: NF stage 13 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 13; age 14 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Slit-blastopore stage. Neural plate faintly delimited; slight elevation of its rostral part and slight flattening of its caudal part. Caudal part of median groove formed. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000033 ! NF stage 12.5 (Xenopus) [Term] id: XAO:1000024 name: NF stage 14 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 14; age 16 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Neural plate stage. Cerebral part of neural plate bent downwards, with median elevation at rostral end of median groove. Initial elevation of neural folds, most pronounced in future nucal region. Blastopore always slit-shaped. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000023 ! NF stage 13 (Xenopus) [Term] id: XAO:1000025 name: NF stage 15 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 15; age 17 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Early neural fold stage. Presumptive cement gland faintly circumscribed. Anterior part of neural plate roundish. Neural folds distinct, except medio-rostrally; initial formation of sharp inner ridges on neural folds in rhombencephalic region. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000024 ! NF stage 14 (Xenopus) [Term] id: XAO:1000026 name: NF stage 16 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 16; age 18 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Mid neural fold stage. Anterior part of neural plate rectangular; darkly pigmented eye anlagen present; neural plate sharply constricted in the middle. Inner ridges on neural folds forming angle of about 90 degrees with neural plate in rhombencephalic region. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000025 ! NF stage 15 (Xenopus) [Term] id: XAO:1000027 name: NF stage 17 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 17; age 18 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Late neural fold stage. Anterior part of neural plate oblong triangular, angles formed by eye anlagen. Neural folds approaching each other from blastopore up to anterior trunk region. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000026 ! NF stage 16 (Xenopus) [Term] id: XAO:1000028 name: NF stage 2- (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 2-; age 1 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Beginning of first cleavage. First cleavage groove has not yet reached vegetal pole. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000107 ! cleavage stage relationship: preceded_by UBERON:0000106 ! zygote stage [Term] id: XAO:1000030 name: NF stage 10.25 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 10.25; age 10 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Early gastrula stage. First formation of dorsal blastopore groove; the groove is still straight. Length: 1.4 - 1.5 mm." [ISBN:0815318960] synonym: "NF stage 10+" EXACT [] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000020 ! NF stage 10 (Xenopus) [Term] id: XAO:1000031 name: NF stage 10.5 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 10.5; age 11 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Crescent-shaped blastopore stage. Blastopore groove angular. Vegetal field slightly decreased in size, ventral border of future yolk plug indicated by pigment contraction. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000030 ! NF stage 10.25 (Xenopus) [Term] id: XAO:1000032 name: NF stage 11.5 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 11.5; age 12 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Large yolk plug stage. Blastopore groove closed ventrally; yolk plug not yet quite circular. At ventral side concentrated superficial pigment still visible. Diameter of yolk plug about a third of diameter of egg (plus or minus 40 degrees). Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000021 ! NF stage 11 (Xenopus) [Term] id: XAO:1000033 name: NF stage 12.5 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 12.5; age 14 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Small yolk plug stage. Future position of neural plate and median groove indicated by darker pigment lines. Yolk plug usually ovoid, variable in size. Length: 1.4 - 1.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000109 ! gastrula stage relationship: preceded_by XAO:1000022 ! NF stage 12 (Xenopus) [Term] id: XAO:1000034 name: NF stage 18 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 18; age 19 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Neural groove stage. Anterior part of neural plate narrow, more or less club-shaped, often narrower towards rostral end. Parallel neural folds in trunk region very close to each other, not yet touching. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000027 ! NF stage 17 (Xenopus) [Term] id: XAO:1000035 name: NF stage 19 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 19; age 20 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Initial neural tube stage. Neural folds touching each other, except for inconstant openings at anterior and posterior end and behind nucal region. Considerable lateral extension of brain. Lateral outline of embryo still convex. Length: 1.5 - 1.6 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000034 ! NF stage 18 (Xenopus) [Term] id: XAO:1000036 name: NF stage 20 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 20; age 21 hr 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Neural folds fused, suture still present. The two eye anlagen showing through dumb-bell-shaped, eyes hardly protruding. Beginning of stretching of embryos. Lateral outline flat. Length: 1.7 - 1.8 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000035 ! NF stage 19 (Xenopus) [Term] id: XAO:1000037 name: NF stage 21 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 21; age 22 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Suture of neural tube completely closed. Delimitation of frontal field by pigment lines. Primary eye vesicles showing through in the form of two separate, obliquely placed oval spots; beginning of protrusion of eyes. Lateral outline of embryo just becoming concave, ventral outline flat. Length: 1.9 - 2.0 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000110 ! neurula stage relationship: preceded_by XAO:1000036 ! NF stage 20 (Xenopus) [Term] id: XAO:1000038 name: NF stage 22 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 22; age 24 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Distinct protrusion of eyes. Initial groove between jaw- and gill-areas only at latero-dorsal side. Lateral and ventral outlines of embryo slightly concave. Anal opening displaced to ventral side. Vitelline membrane becoming wider. Length: 2.0 - 2.2 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000037 ! NF stage 21 (Xenopus) [Term] id: XAO:1000039 name: NF stage 23 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 23; age 1 day, 45 min at 22-24 Celsius; corresponding to the following external morphological criteria: Jaw- and gill-areas completely separated by groove. Ventral outline of embryo more concave. Length: 2.2 - 2.4 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000038 ! NF stage 22 (Xenopus) [Term] id: XAO:1000040 name: NF stage 24 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 24; age 1 day, 2 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Eyes protruding less far laterally than gill-area. Gill-area more prominent than jaw-area, gill-area not yet grooved. Ventral outline of embryo nicked. Tail bud discernible. Initial motor reactions to external stimulation. Length: 2.5 - 2.7 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000039 ! NF stage 23 (Xenopus) [Term] id: XAO:1000041 name: NF stage 25 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 25; age 1 day, 3 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Eyes protruding equally far or further laterally than gill-area. Gill-area grooved. Invagination of otic vesicle indicated by pigment spot. Beginning of fin formation. Length: 2.8 - 3.0 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000040 ! NF stage 24 (Xenopus) [Term] id: XAO:1000042 name: NF stage 26 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 26; age 1 day, 5 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: otic vesicle protruding. Pronephros distinctly visible. Myotomes showing through for the first time. Fin somewhat broadened at dorso-caudal end of body. Beginning of spontaneous movements. Length: 3.0 - 3.3 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000041 ! NF stage 25 (Xenopus) [Term] id: XAO:1000043 name: NF stage 27 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 27; age 1 day, 7 hr 15 min at 22-24 Celsius; corresponding to the following external morphological criteria: Lateral flattening of eyes. Fin transluscent, except for region behind anus. Tail bud formation accentuated in lateral outline. Length: 3.4 - 3.7 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000042 ! NF stage 26 (Xenopus) [Term] id: XAO:1000044 name: NF stage 28 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 28; age 1 day, 8 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Fin extending up to anus. Fin broadened and distinctly divided into outer transparent and inner translucent band. Length: 3.8 - 4.0 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000002 ! early tailbud (Xenopus) relationship: preceded_by XAO:1000043 ! NF stage 27 (Xenopus) [Term] id: XAO:1000045 name: NF stage 29 and 30 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 29 and 30; age 1 day, 11 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Gray eye cup showing through for the first time. Fin transparent up to the base over its whole length. Tail bud distinct. Length: 4.0 - 4.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000044 ! NF stage 28 (Xenopus) [Term] id: XAO:1000046 name: NF stage 31 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 31; age 1 day, 13 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Tail bud equally long as broad. Length: 4.2 - 4.8 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000045 ! NF stage 29 and 30 (Xenopus) [Term] id: XAO:1000047 name: NF stage 32 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 32; age 1 day, 16 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Eye cup horse-shoe-shaped, standing out distinctly. Length of tail bud about 1.5 times its breadth. Length: 4.5 - 5.1 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000046 ! NF stage 31 (Xenopus) [Term] id: XAO:1000048 name: NF stage 33 and 34 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 33 and 34; age 1 day, 20 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Stomodeal invagination a shallow vertical groove. Dorsal part of eye more pigmented than ventral part; distinct melanophores in dorsal part. Melanophores appearing dorsally on the head and laterally in a row extending from just below the pronephros backwards. Length of tail bud about twice its breadth. Beginning of heart beat. Length: 4.7 - 5.3 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000047 ! NF stage 32 (Xenopus) [Term] id: XAO:1000049 name: NF stage 35 and 36 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 35 and 36; age 2 days, 2 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Stomodeal invagination roundish. Eye entirely black, choroid fissure nearly closed. Formation of two gill rudiments, anterior one nipple-shaped. Melanophores appearing on back. Posterior outline of proctodeum still curved. Length of tail bud about three times its breadth. Beginning of hatching. Length: 5.3 - 6.0 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000048 ! NF stage 33 and 34 (Xenopus) [Term] id: XAO:1000050 name: NF stage 37 and 38 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 37 and 38; age 2 days, 5 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Stomodeal invagination much deeper, opening round. Both gill rudiments nipple-shaped, a branch of the anterior one indicated. Posterior outline of proctodeum straight, forming very obtuse angle with ventral border of tail myotomes. Melanophores spreading over tail. Length: 5.6 - 6.2 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000049 ! NF stage 35 and 36 (Xenopus) [Term] id: XAO:1000051 name: NF stage 39 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 39; age 2 days, 8 hr 30 min at 22-24 Celsius; corresponding to the following external morphological criteria: Melanophores appearing around nasal pits. Opening of stomodeal invagination transversely elongated. Melanophores on back arranged in a superficial and a deeper layer. Outlines of proctodeum and tail myotomes forming angle of about 135 degrees. Melanophores appearing along ventral edge of tail musculature. Length: 5.9 - 6.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000050 ! NF stage 37 and 38 (Xenopus) [Term] id: XAO:1000052 name: NF stage 40 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 40; age 2 days, 18 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Mouth broken through. Length of gills about twice their breadth, posterior one sometimes also showing a branch. Outlines of proctodeum and tail myotomes forming angles of 90 degrees. Beginning of blood circulation in gills. Length: 6.3 - 6.8 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000051 ! NF stage 39 (Xenopus) [Term] id: XAO:1000053 name: NF stage 41 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 41; age 3 days, 4 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Gills broader and flatter, more laterally directed. Formation of a left-rostral and a right-caudal furrow in yolk mass; torsion of interjacent part about 45 degrees; formation of conical proctodeum, forming angle of about 60 degrees with tail myotomes. Formation of fin rostral to proctodeum; ventral outline of yolk mass and proctodeum a smooth concave line. Length: 6.7 - 7.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000052 ! NF stage 40 (Xenopus) [Term] id: XAO:1000054 name: NF stage 42 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 42; age 3 days, 8 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Beginning of formation of opercular folds. Torsion of intestine about 90 degrees; proctodeum connected with yolk mass by short horizontal intestinal tube. Length: 7.0 - 7.7 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000053 ! NF stage 41 (Xenopus) [Term] id: XAO:1000055 name: NF stage 43 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 43; age 3 days, 15 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Lateral line system becoming visible externally. Cement gland losing its pigment. Torsion of intestine about 180 degrees; proctodeum narrower, arched or S-shaped. Length: 7.5 - 8.3 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000054 ! NF stage 42 (Xenopus) [Term] id: XAO:1000056 name: NF stage 44 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 44; age 3 days, 20 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Appearance of tentacle rudiments. Opercular folds protruding further. Coiling part of intestine showing S-shaped loop; torsion about 360 degrees. Blood-circulation in gills usually ceased (gills smaller). Length: 7.8 - 8.5 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000080 ! late tailbud (Xenopus) relationship: preceded_by XAO:1000055 ! NF stage 43 (Xenopus) [Term] id: XAO:1000057 name: NF stage 45 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 45; age 4 days, 2 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Operculum partly covering gills, edge still straight. Intestine spiralized in ventral aspects, showing 1.5 revolutions. Beginning of feeding. Length: 8 - 10 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000056 ! NF stage 44 (Xenopus) [Term] id: XAO:1000058 name: NF stage 46 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 46; age 4 days, 10 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Edge of operculum becoming convex. Xantophores appearing on eye and abdomen. Intestine showing 2 to 2.5 revolutions. Hindlimb bud visible for the first time. Length: 9 - 12 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000057 ! NF stage 45 (Xenopus) [Term] id: XAO:1000059 name: NF stage 47 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 47; age 5 days, 12 hr at 22-24 Celsius; corresponding to the following external morphological criteria: Tentacles larger. Edge of operculum forming quarter of a circle. Xantophores forming opaque layer on abdomen. Intestine showing 2.5 to 3.5 revolutions. Hindlimb bud more distinct. Length: 12 - 15 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000058 ! NF stage 46 (Xenopus) [Term] id: XAO:1000060 name: NF stage 48 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 48; age 7.5 days at 22-24 Celsius; corresponding to the following external morphological criteria: Beginning of pigmentation around n. acusticus. Forelimb bud visible for the first time. Shining gold-coloured abdomen. Hindlimb bud semicircular in lateral aspect. Length: 14 - 17 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000059 ! NF stage 47 (Xenopus) [Term] id: XAO:1000061 name: NF stage 49 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 49; age about 12 days at 22-24 Celsius; corresponding to the following external morphological criteria: Melanophores usually appearing around thymus gland and nerves and blood vessels of head; xantophores appearing on pericard. Forelimb bud distinct. Hindlimb bud somewhat longer, distal outline still circular, no constrictions at base. Melanophores appearing on dorsal and ventral fin. Length: 17 - 23 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000060 ! NF stage 48 (Xenopus) [Term] id: XAO:1000062 name: NF stage 50 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 50; age about 15 days at 22-24 Celsius; corresponding to the following external morphological criteria: Forelimb bud somewhat oval-shaped in dorsal aspect. Hindlimb bud longer than broad, constricted at base, distal outline somewhat conical. Length: 20 - 27 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000061 ! NF stage 49 (Xenopus) [Term] id: XAO:1000063 name: NF stage 51 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 51; age about 17 days at 22-24 Celsius; corresponding to the following external morphological criteria: Tentacles much longer. Forelimb bud oval-shaped in lateral aspect. Hindlimb bud conical in shape, its length about 1.5 times its breadth; melanophores appearing on it. Length: 28 - 36 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000062 ! NF stage 50 (Xenopus) [Term] id: XAO:1000064 name: NF stage 52 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 52; age about 21 days at 22-24 Celsius; corresponding to the following external morphological criteria: Forelimb bud irregularly conical. Hindlimb bud showing first indication of ankle constriction and first sign of flattening of foot. Length: 42 - 56 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000063 ! NF stage 51 (Xenopus) [Term] id: XAO:1000065 name: NF stage 53 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 53; age about 24 days at 22-24 Celsius; corresponding to the following external morphological criteria: Fore- and hindlimbs in paddle stage. Hindlimb whithout foot somewhat longer than broad; 4th and 5th toe indicated. Length: 50 - 60 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000064 ! NF stage 52 (Xenopus) [Term] id: XAO:1000066 name: NF stage 54 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 54; age about 26 days at 22-24 Celsius; corresponding to the following external morphological criteria: All four fingers indicated; edge of hand slightly scalloped between fingers; melanophores appearing on forelimb. Length of hindlimb without foot nearly twice its breadth; all five toes indicated, the second only very slightly. Length: 58 - 65 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000089 ! premetamorphosis (Xenopus) relationship: preceded_by XAO:1000065 ! NF stage 53 (Xenopus) [Term] id: XAO:1000067 name: NF stage 55 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 55; age about 32 days at 22-24 Celsius; corresponding to the following external morphological criteria: Hand pronated about 90 degrees; free parts of fingers about equally long as broad. Length of hindlimb without foot about 3 times its breadth; length of cartilages of 4th and 5th toe about 4 times their breadth. Length: 70 - 80 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000090 ! prometamorphosis (Xenopus) relationship: preceded_by XAO:1000066 ! NF stage 54 (Xenopus) [Term] id: XAO:1000068 name: NF stage 56 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 56; age about 38 days at 22-24 Celsius; corresponding to the following external morphological criteria: Elbow and wrist clearly indicated; length of free parts of fingers 3 to 4 times their breadth. Length of cartilages of 4th and 5th toe about 6 times their breadth. Length: 70 - 100 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000090 ! prometamorphosis (Xenopus) relationship: preceded_by XAO:1000067 ! NF stage 55 (Xenopus) [Term] id: XAO:1000069 name: NF stage 57 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 57; age about 41 days at 22-24 Celsius; corresponding to the following external morphological criteria: Pigment-free spot appearing above \"Stirnorgan\". Angle of elbow more than 90 degrees; fingers stretched out in forelimb atrium, their length about 7 times their breadth. Length: 75 - 105 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000090 ! prometamorphosis (Xenopus) relationship: preceded_by XAO:1000068 ! NF stage 56 (Xenopus) [Term] id: XAO:1000070 name: NF stage 58 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 58; age about 44 days at 22-24 Celsius; corresponding to the following external morphological criteria: Forelimbs broken through. Guanophores appearing on abdomen and thighs (adult skin areas). All three claws present on hindlimbs. Length: 80 - 110 mm." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000069 ! NF stage 57 (Xenopus) [Term] id: XAO:1000071 name: NF stage 59 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 59; age about 45 days at 22-24 Celsius; corresponding to the following external morphological criteria: Tentacles beginning to shrivel up. Stretched forelimb reaching down to base of hindlimb. Guanophores appearing near base of forelimb (adult skin area); anterior border of adult skin area on abdomen not yet sharp; appearance of irregular dark spots on back." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000070 ! NF stage 58 (Xenopus) [Term] id: XAO:1000072 name: NF stage 60 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 60; age about 46 days at 22-24 Celsius; corresponding to the following external morphological criteria: N. olfactorius still longer than bulbus olfactorius. Guanophores appearing on lower jaw (adult skin area). Openings of gill chambers still wide. Distal half of fingers of stretched forelimb extending beyond base of hindlimb; forelimb still situated behind level of heart. Adult skin area of base of forelimb covered with guanophores; anterior border of adult skin area on abdomen sharper, reaching up to heart." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000071 ! NF stage 59 (Xenopus) [Term] id: XAO:1000073 name: NF stage 61 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 61; age about 48 days at 22-24 Celsius; corresponding to the following external morphological criteria: Head narrower. Tentacles considerably shortened, mostly curved backwards. Length of n. olfactorius equal to diameter of bulbus olfactorius. 4th arterial arch seen just in front of adult skin area of forelimb. Openings of gill chambers considerably narrowed. Forelimb at level of posterior half of heart. Adult skin area on abdomen covering posterior half of heart. Fins considerably reduced." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000072 ! NF stage 60 (Xenopus) [Term] id: XAO:1000074 name: NF stage 62 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 62; age about 49 days at 22-24 Celsius; corresponding to the following external morphological criteria: Head still somewhat broader than cranial part of trunk. Tentacles short, straight. N. olfactorius shorter than diameter of bulbus olfactorius. Corner of mouth still in front of eye. Thymus gland somewhat protruding. 3rd arterial arch (\"larval aorta\") seen at distance of its own diameter in front of adult skin area of forelimb. Opening of operculum reduced to curved slit. Forelimb at level of middle of heart. Anterior border of adult skin area on abdomen entirely sharp, mostly nicked medially. Ventral fin disappeared from abdomen." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000073 ! NF stage 61 (Xenopus) [Term] id: XAO:1000075 name: NF stage 63 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 63; age about 51 days at 22-24 Celsius; corresponding to the following external morphological criteria: Head narrower than trunk. Tentacles mostly disappeared. Corner of mouth at level of caudal border of eye. \"Larval aorta\" and thymus gland no longer externally visible. Operculum closed. Adult skin areas on abdomen and lower jaw separated by narrow band of larval skin. Forelimb at level of anterior half of heart. Fin mostly perforated near anus. Tail still slightly longer than body." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000074 ! NF stage 62 (Xenopus) [Term] id: XAO:1000076 name: NF stage 64 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 64; age about 53 days at 22-24 Celsius; corresponding to the following external morphological criteria: Corner of mouth well behind eye. Various adult skin areas joined almost everywhere, borderlines still clearly visible. Length of tail (from anus) is a third of body length." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000075 ! NF stage 63 (Xenopus) [Term] id: XAO:1000077 name: NF stage 65 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 65; age about 54 days at 22-24 Celsius; corresponding to the following external morphological criteria: Borderlines between adult skin areas partly disappeared. Tail oblong triangular in dorsal aspect, length abouth one tenth of body length." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000076 ! NF stage 64 (Xenopus) [Term] id: XAO:1000078 name: NF stage 66 (Xenopus) namespace: xenopus_developmental_stage def: "Nieuwkoop and Faber stage 66; age about 58 days at 22-24 Celsius; corresponding to the following external morphological criteria: Border lines between adult skin areas disappeared. Tail only a very small triangle, no longer visible from ventral side." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000091 ! climax (Xenopus) relationship: preceded_by XAO:1000077 ! NF stage 65 (Xenopus) [Term] id: XAO:1000079 name: metamorphosing tadpole (Xenopus) namespace: xenopus_developmental_stage def: "The stages from Nieuwkoop and Faber stage 54 to stage 66." [ISBN:0815318960] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0004728 ! amphibian larval stage [Term] id: XAO:1000080 name: late tailbud (Xenopus) namespace: xenopus_developmental_stage def: "The stages from Nieuwkoop and Faber stage 29/30 to stage 44." [ISBN:0815318960] is_a: UBERON:0009741 ! tailbud stage [Term] id: XAO:1000081 name: unspecified stage (Xenopus) namespace: xenopus_developmental_stage is_a: UBERON:0000105 ! life cycle stage [Term] id: XAO:1000082 name: unfertilized egg (Xenopus) namespace: xenopus_developmental_stage def: "Any of the developmental stages corresponding to the developing and mature female germ cells." [XAO:EJS] is_a: UBERON:0000105 ! life cycle stage [Term] id: XAO:1000083 name: oocyte stage I (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the developing female gamete of the pre-vitellogenic stage." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) [Term] id: XAO:1000084 name: oocyte stage II (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the developing female gamete of the early vitellogenic stage." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000083 ! oocyte stage I (Xenopus) [Term] id: XAO:1000085 name: oocyte stage III (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the developing female gamete of the mid-vitellogenic stage." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000084 ! oocyte stage II (Xenopus) [Term] id: XAO:1000086 name: oocyte stage IV (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to establishment of polarization along the animal-vegetal axis in the developing female gamete." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000085 ! oocyte stage III (Xenopus) [Term] id: XAO:1000087 name: oocyte stage V (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the developing female gamete of the late-vitellogenic stage." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000086 ! oocyte stage IV (Xenopus) [Term] id: XAO:1000088 name: oocyte stage VI (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the fully grown female gamete." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000087 ! oocyte stage V (Xenopus) [Term] id: XAO:1000089 name: premetamorphosis (Xenopus) namespace: xenopus_developmental_stage def: "The period during which limb bud growth occurs, covering Nieuwkoop and Faber stage 45 to stage 54." [ISBN:0124554032] is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0004728 ! amphibian larval stage [Term] id: XAO:1000090 name: prometamorphosis (Xenopus) namespace: xenopus_developmental_stage def: "The period during which toe differentiation and rapid hind limb growth continue, covering Nieuwkoop and Faber stage 55 to stage 57." [ISBN:0124554032] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000079 ! metamorphosing tadpole (Xenopus) [Term] id: XAO:1000091 name: climax (Xenopus) namespace: xenopus_developmental_stage def: "The period during which tail resorption occurs, covering Nieuwkoop and Faber stage 58 to stage 66." [ISBN:0124554032] is_a: UBERON:0000105 ! life cycle stage relationship: part_of XAO:1000079 ! metamorphosing tadpole (Xenopus) [Term] id: XAO:1000092 name: mature egg (Xenopus) namespace: xenopus_developmental_stage def: "Developmental stage corresponding to the mature female germ cell." [XAO:EJS] is_a: XAO:1000082 ! unfertilized egg (Xenopus) relationship: preceded_by XAO:1000088 ! oocyte stage VI (Xenopus) [Term] id: XAO:1000093 name: adult frog (Xenopus) namespace: xenopus_developmental_stage def: "The stage of being a fully formed animal." [XAO:curator] is_a: UBERON:0000105 ! life cycle stage relationship: preceded_by UBERON:0000112 ! juvenile stage [Typedef] id: RO:0002131 name: overlaps namespace: zebrafish_anatomical_ontology [Typedef] id: develops_from name: develops from namespace: zebrafish_anatomical_ontology is_transitive: true xref: RO:0002202 is_a: has_developmental_contribution_from ! has developmental contribution from transitive_over: part_of ! part of holds_over_chain: part_of develops_from ! develops from [Typedef] id: end name: end stage namespace: zebrafish_anatomical_ontology [Typedef] id: immediately_preceded_by name: immediately_preceded_by namespace: zebrafish_anatomical_ontology def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 xref: http://semanticscience.org/resource/SIO_000251 is_a: preceded_by ! preceded_by property_value: external_definition "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string [Typedef] id: part_of name: part of namespace: zebrafish_anatomical_ontology is_transitive: true xref: BFO:0000050 [Typedef] id: preceded_by name: preceded_by namespace: zebrafish_anatomical_ontology def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] is_transitive: true comment: disjoint_from part_of, but this cannot be expressed in OWL2 synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 [Typedef] id: start name: start stage namespace: zebrafish_anatomical_ontology [Term] id: ZFA:0000000 name: Brachet's cleft (zebrafish) namespace: zebrafish_anatomy def: "The visible division between epiblast and hypoblast in the gastrula." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000000 xref: ZFIN:ZDB-ANAT-010921-404 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0000001 name: Kupffer's vesicle (zebrafish) namespace: zebrafish_anatomy def: "Small but distinctive epithelial sac containing fluid, located midventrally posterior to the yolk cell or its extension, and transiently present during most of the segmentation period. Kupffer's vesicle has been compared to the mouse embryonic node." [ZFIN:ZDB-PUB-050328-4, ZFIN:ZDB-PUB-961014-576] xref: TAO:0000001 xref: ZFIN:ZDB-ANAT-010921-406 is_a: UBERON:0002050 ! embryonic structure relationship: develops_from ZFA:0000023 ! forerunner cell group (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0002533 ! tail bud relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000003 name: adaxial cell (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "adaxial cells" EXACT PLURAL [] xref: TAO:0000003 xref: ZFIN:ZDB-ANAT-010921-408 is_a: CL:0000000 ! cell relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003059 ! presomitic mesoderm relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0000004 name: anterior axial hypoblast (zebrafish) namespace: zebrafish_anatomy def: "Anterior portion of the axial hypoblast." [ZFIN:Curator] synonym: "pre-polster" EXACT [ZFIN:ZDB-PUB-051019-5] xref: TAO:0000004 xref: ZFIN:ZDB-ANAT-010921-409 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000022 ! Gastrula:Bud relationship: part_of ZFA:0001378 ! axial hypoblast (zebrafish) relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0000006 name: ball (zebrafish) namespace: zebrafish_anatomy def: "The anterior round region of the yolk cell present after the yolk extension forms during the segmentation period." [ZFIN:ZDB-PUB-961014-576] synonym: "yolk ball" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000006 xref: ZFIN:ZDB-ANAT-010921-413 is_a: UBERON:0000475 ! organism subdivision relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of CL:0000428 ! yolk cell relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000015 name: anatomical set namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001512 ! anatomical group xref: ZFIN:ZDB-ANAT-061101-1 [Term] id: ZFA:0000023 name: forerunner cell group (zebrafish) namespace: zebrafish_anatomy def: "A group of cells that migrate at the leading edge of shield during gastrulation but do not involute. At the end of gastrulation, forerunner cells migrate deep into the embryo and organize to form Kupffer's vesicle." [ZFIN:ZDB-PUB-970107-2] synonym: "DFCs" EXACT PLURAL [] synonym: "dorsal forerunner cells" EXACT PLURAL [] synonym: "forerunner cells" EXACT PLURAL [] xref: TAO:0000023 xref: ZFIN:ZDB-ANAT-010921-434 is_a: UBERON:0002050 ! embryonic structure relationship: develops_from ZFA:0001126 ! noninvoluting endocytic marginal cell cluster (zebrafish) relationship: end ZFS:0000023 ! Segmentation:1-4 somites relationship: start ZFS:0000017 ! Gastrula:50%-epiboly [Term] id: ZFA:0000033 name: intermediate cell mass of mesoderm (zebrafish) namespace: zebrafish_anatomy synonym: "ICM" EXACT [] synonym: "intermediate cell mass of Oellacher" EXACT [] synonym: "posterior intermediate cell mass" EXACT [] xref: TAO:0000033 xref: ZFIN:ZDB-ANAT-010921-444 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: develops_from ZFA:0001201 ! ventral lateral mesoderm (zebrafish) relationship: end ZFS:0000033 ! Hatching:Long-pec relationship: part_of UBERON:0002390 ! hematopoietic system relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000039 name: median axial vein (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000039 xref: ZFIN:ZDB-ANAT-010921-452 is_a: UBERON:0001638 ! vein relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000040 name: median fin fold (zebrafish) namespace: zebrafish_anatomy def: "Surface structure that will develop into one of the median fins. Extends from dorsal surface of fish, caudal to the 8th somite, to the ventral surface ending at the caudal side of the vent." [ZFIN:curator] synonym: "median fin" EXACT [] xref: TAO:0000040 xref: ZFIN:ZDB-ANAT-010921-453 is_a: UBERON:0003102 ! surface structure relationship: end ZFS:0000037 ! Larval:Day 5 relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000043 name: muscle pioneer somite 1 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 1" EXACT PLURAL [] xref: TAO:0000043 xref: ZFIN:ZDB-ANAT-010921-456 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000963 ! slow muscle cell somite 1 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000044 name: myotome somite 14 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000044 xref: ZFIN:ZDB-ANAT-010921-457 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000726 ! somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000052 name: dorsal actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium which is part of the dorsal fin fold." [ZFIN:curator] synonym: "dorsal actinotrichia" EXACT PLURAL [] xref: TAO:0000052 xref: ZFIN:ZDB-ANAT-060131-1 is_a: ZFA:0000089 ! fin fold actinotrichium (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000102 ! dorsal fin fold (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000058 name: polster (zebrafish) namespace: zebrafish_anatomy def: "The hatching gland rudiment at the time it underlies the forebrain during the early segmentation period." [ZFIN:ZDB-PUB-961014-576] synonym: "pillow" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000058 xref: ZFIN:ZDB-ANAT-010921-475 is_a: UBERON:0002050 ! embryonic structure relationship: develops_from ZFA:0000004 ! anterior axial hypoblast (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003063 ! prechordal plate relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0000068 name: proneural cluster (zebrafish) namespace: zebrafish_anatomy def: "Cluster of cells in the neural plate that have the potential to become neuroblast." [ZFIN:ZDB-PUB-990921-1] synonym: "proneural clusters" EXACT PLURAL [] xref: TAO:0000068 xref: ZFIN:ZDB-ANAT-010921-486 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: part_of UBERON:0003075 ! neural plate relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000070 name: sensory axons peripheral namespace: zebrafish_anatomy is_obsolete: true comment: Consider post-composing term ZFA:0009053 sensory neuron with GO:0030424 axon xref: TAO:0000070 xref: ZFIN:ZDB-ANAT-010921-488 [Term] id: ZFA:0000072 name: somite 1 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000072 xref: ZFIN:ZDB-ANAT-010921-490 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000073 name: somite 5 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000073 xref: ZFIN:ZDB-ANAT-010921-492 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000074 name: somite 26 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000074 xref: ZFIN:ZDB-ANAT-010921-493 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000078 name: ventral actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium which is part of the ventral fin fold." [ZFIN:curator] synonym: "ventral actinotrichia" EXACT PLURAL [] xref: TAO:0000078 xref: ZFIN:ZDB-ANAT-060131-2 is_a: ZFA:0000089 ! fin fold actinotrichium (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001069 ! ventral fin fold (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000083 name: ventral mesoderm (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000083 xref: ZFIN:ZDB-ANAT-010921-502 is_a: UBERON:0000926 ! mesoderm relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0000088 name: YSL (zebrafish) namespace: zebrafish_anatomy def: "Peripheral layer of the yolk cell including nuclei and non-yolky cytoplasm." [ZFIN:ZDB-PUB-961014-576] synonym: "periblast" EXACT [ZFIN:ZDB-PUB-961014-576] synonym: "yolk syncytial layer" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000088 xref: ZFIN:ZDB-ANAT-010921-508 is_a: UBERON:0002050 ! embryonic structure relationship: develops_from CL:0000428 ! yolk cell relationship: develops_from ZFA:0000541 ! marginal blastomere (zebrafish) relationship: end ZFS:0000037 ! Larval:Day 5 relationship: start ZFS:0000011 ! Blastula:1k-cell [Term] id: ZFA:0000089 name: fin fold actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is a slender, horny, flexible, unsegmented fibril, which strengthens the embryonic fin fold. Actinotrichia are translucent, exhibit birefringence (double refraction) and are composed of the scleroprotein elastoidine." [http:www.briancoad.com/Dictionary/A.htm] synonym: "fin fold actinotrichia" EXACT PLURAL [] synonym: "median fin fold actinotrichium" EXACT [] xref: TAO:0000089 xref: ZFIN:ZDB-ANAT-060131-3 is_a: ZFA:0005435 ! actinotrichium (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000040 ! median fin fold (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000090 name: apical ectodermal ridge dorsal fin (zebrafish) namespace: zebrafish_anatomy def: "Apical ectodermal ridge that is part of the dorsal fin." [ZFIN:curator] xref: TAO:0000090 xref: ZFIN:ZDB-ANAT-010921-511 is_a: UBERON:0004356 ! apical ectodermal ridge relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0003097 ! dorsal fin relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000092 name: axis (zebrafish) namespace: zebrafish_anatomy synonym: "midline" EXACT [] xref: TAO:0000092 xref: ZFIN:ZDB-ANAT-010921-513 is_a: UBERON:0000475 ! organism subdivision relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: start ZFS:0000017 ! Gastrula:50%-epiboly [Term] id: ZFA:0000093 name: blastomere (zebrafish) namespace: zebrafish_anatomy def: "Cell that arises during cleavage and is partially cleaved, and located at the blastodisc margin prior to collectively forming the yolk syncytial layer (YSL) in the midblastula." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim synonym: "blastomeres" EXACT PLURAL [] xref: TAO:0000093 xref: ZFIN:ZDB-ANAT-010921-514 is_a: CL:0000000 ! cell relationship: end ZFS:0000015 ! Blastula:Dome relationship: part_of UBERON:0004749 ! blastodisc [Term] id: ZFA:0000096 name: cardinal system (zebrafish) namespace: zebrafish_anatomy def: "Blood vasculature comprised of the cardinal veins." [ZFIN:curator] xref: TAO:0000096 xref: ZFIN:ZDB-ANAT-010921-517 is_a: UBERON:0004537 ! blood vasculature relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000098 name: proliferative region (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster which consists of rapidly dividing cells." [ZFIN:curator] synonym: "cell cycle" RELATED [] synonym: "cell division" RELATED [] synonym: "proliferation" RELATED [] xref: TAO:0000098 xref: ZFIN:ZDB-ANAT-010921-520 is_a: UBERON:0000477 ! anatomical cluster relationship: start ZFS:0000012 ! Blastula:High [Term] id: ZFA:0000102 name: dorsal fin fold (zebrafish) namespace: zebrafish_anatomy def: "Region of the median fin fold that develops into the dorsal fin." [ZFIN:curator] xref: TAO:0000102 xref: ZFIN:ZDB-ANAT-010921-525 is_a: UBERON:0000481 ! multi-tissue structure relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of ZFA:0000040 ! median fin fold (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000103 name: embryo namespace: zebrafish_anatomy is_obsolete: true consider: ZFS:0000002 ! Cleavage:2-cell consider: ZFS:0000003 ! Cleavage:4-cell consider: ZFS:0000004 ! Cleavage:8-cell consider: ZFS:0000005 ! Cleavage:16-cell consider: ZFS:0000006 ! Cleavage:32-cell consider: ZFS:0000007 ! Cleavage:64-cell consider: ZFS:0000008 ! Blastula:128-cell consider: ZFS:0000009 ! Blastula:256-cell consider: ZFS:0000010 ! Blastula:512-cell consider: ZFS:0000011 ! Blastula:1k-cell consider: ZFS:0000012 ! Blastula:High consider: ZFS:0000013 ! Blastula:Oblong consider: ZFS:0000014 ! Blastula:Sphere consider: ZFS:0000015 ! Blastula:Dome consider: ZFS:0000016 ! Blastula:30%-epiboly consider: ZFS:0000017 ! Gastrula:50%-epiboly consider: ZFS:0000018 ! Gastrula:Germ-ring consider: ZFS:0000019 ! Gastrula:Shield consider: ZFS:0000020 ! Gastrula:75%-epiboly consider: ZFS:0000021 ! Gastrula:90%-epiboly consider: ZFS:0000022 ! Gastrula:Bud consider: ZFS:0000023 ! Segmentation:1-4 somites consider: ZFS:0000024 ! Segmentation:5-9 somites consider: ZFS:0000025 ! Segmentation:10-13 somites consider: ZFS:0000026 ! Segmentation:14-19 somites consider: ZFS:0000027 ! Segmentation:20-25 somites consider: ZFS:0000028 ! Segmentation:26+ somites consider: ZFS:0000029 ! Pharyngula:Prim-5 consider: ZFS:0000030 ! Pharyngula:Prim-15 consider: ZFS:0000031 ! Pharyngula:Prim-25 consider: ZFS:0000032 ! Pharyngula:High-pec xref: ZFIN:ZDB-ANAT-010921-528 [Term] id: ZFA:0000104 name: lateral cells namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-010921-529 [Term] id: ZFA:0000106 name: extension (zebrafish) namespace: zebrafish_anatomy def: "The posterior elongated region of the yolk cell that forms during the segmentation period." [ZFIN:ZDB-PUB-961014-576] synonym: "yolk extension" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000106 xref: ZFIN:ZDB-ANAT-010921-531 is_a: UBERON:0000475 ! organism subdivision relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of CL:0000428 ! yolk cell relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000116 name: macula lagena (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is a patch of thickened, pseudostratified epithelium in the inner ear, consisting of regular arrays of sensory hair cells interspersed with supporting cells. The macula lagena develops from the posterior macula. In juveniles the macula lagena lies in a vertical plane covering most of the medial wall of the lagena." [ZFIN:ZDB-PUB-010912-7, ZFIN:ZDB-PUB-020403-4] synonym: "maculae lagena" EXACT PLURAL [] xref: TAO:0000116 xref: ZFIN:ZDB-ANAT-010921-541 is_a: UBERON:0000054 ! macula relationship: develops_from ZFA:0000558 ! posterior macula (zebrafish) relationship: part_of UBERON:0001844 ! cochlea [Term] id: ZFA:0000120 name: lateral line ganglion (zebrafish) namespace: zebrafish_anatomy def: "Ganglion that develops from a cranial ectodermal placode and contains sensory neurons that innervate a lateral line." [ZFIN:curator] synonym: "lateral line ganglia" EXACT PLURAL [] synonym: "llg" EXACT [] xref: TAO:0000120 xref: ZFIN:ZDB-ANAT-010921-546 is_a: UBERON:0001714 ! cranial ganglion relationship: part_of UBERON:0002540 ! lateral line system relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000125 name: mandibular lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the mandibular lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast mandibular" EXACT [] synonym: "neuromasts mandibular" EXACT PLURAL [] xref: TAO:0000125 xref: ZFIN:ZDB-ANAT-010921-551 is_a: UBERON:0008904 ! neuromast relationship: part_of ZFA:0000259 ! mandibular lateral line (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000127 name: mesenchyme condensations namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-010921-554 [Term] id: ZFA:0000136 name: otic lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the otic lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast otic" EXACT [] synonym: "neuromasts otic" EXACT PLURAL [] xref: TAO:0000136 xref: ZFIN:ZDB-ANAT-010921-565 is_a: UBERON:0008904 ! neuromast relationship: part_of ZFA:0000464 ! otic lateral line (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000156 name: somite 20 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000156 xref: ZFIN:ZDB-ANAT-010921-593 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000157 name: somite 30 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000157 xref: ZFIN:ZDB-ANAT-010921-594 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000164 name: ventral mesenchyme (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000164 xref: ZFIN:ZDB-ANAT-010921-602 is_a: UBERON:0003104 ! mesenchyme relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000165 name: inferior lobe (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is a paired nucleus located in the lateral expansion of the dorsal hypothalamic zone." [ISBN:3764351209, ZFIN:curator] synonym: "inferior lobes" EXACT PLURAL [] synonym: "lateral lobe of hypothalamus" EXACT [] xref: TAO:0000165 xref: ZFIN:ZDB-ANAT-011113-1 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000347 ! dorsal hypothalamic zone (zebrafish) [Term] id: ZFA:0000167 name: anal fin skeleton (zebrafish) namespace: zebrafish_anatomy def: "Median fin skeleton that is located posterior to the anus." [TAO:curator] xref: TAO:0000167 xref: ZFIN:ZDB-ANAT-011113-100 is_a: ZFA:0001123 ! axial fin skeleton (zebrafish) relationship: part_of ZFA:0001162 ! anal fin (zebrafish) [Term] id: ZFA:0000168 name: anterior macula (zebrafish) namespace: zebrafish_anatomy def: "Macula that is located in the developing anterior inner ear, and gives rise to the macula utricle. (See Anatomical Atlas entry for sensory patches of the ear by T. Whitfield.)" [ZFIN:curator, http://zfin.org/zf_info/anatomy/dict/sens/sens.html] synonym: "am" EXACT [] synonym: "anterior sensory patch" EXACT [] xref: TAO:0000168 xref: ZFIN:ZDB-ANAT-011113-101 is_a: UBERON:0000054 ! macula relationship: part_of ZFA:0001671 ! macula communis (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000169 name: antorbital namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001410 ! orbital region xref: ZFIN:ZDB-ANAT-011113-102 [Term] id: ZFA:0000171 name: basisphenoid namespace: zebrafish_anatomy is_obsolete: true comment: A basisphenoid is absent in Danio rerio; its absence is a shared derived feature of all ostariophysan fishes (Fink and Fink, '81). from ZDB-PUB-961014-192 xref: ZFIN:ZDB-ANAT-011113-105 [Term] id: ZFA:0000174 name: cerebellovestibular tract (zebrafish) namespace: zebrafish_anatomy def: "Cerebellar tract that consists of efferent fibers from the Purkinje cells to the neurons of the vestibular nuclei in the hindbrain. The cerebellovestibular tracts are involved in precise motor controls, such as the vestibulo-ocular reflex." [ZFIN:ZDB-PUB-090422-9] synonym: "caudal cerebellar tract" EXACT [] synonym: "caudal cerebellar tracts" EXACT PLURAL [] synonym: "cerebellovestibular tracts" EXACT PLURAL [] xref: TAO:0000174 xref: ZFIN:ZDB-ANAT-011113-108 is_a: UBERON:0002317 ! white matter of cerebellum relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000175 name: posterior lateral line nerve (zebrafish) namespace: zebrafish_anatomy def: "Cranial nerve which enters the brain between cranial nerves VIII and IX; contains afferents and sensory efferents to the posterior lateral line ganglion and middle ganglion. Fibers from the posterior lateral line ganglion innervate the occipital dorsal lateral line and trunk lateral lines." [ZFIN:ZDB-PUB-000523-3, ZFIN:ZDB-PUB-961014-763] synonym: "caudal lateral line nerve" EXACT [] xref: TAO:0000175 xref: ZFIN:ZDB-ANAT-011113-109 is_a: UBERON:0001785 ! cranial nerve is_a: UBERON:0008906 ! lateral line nerve relationship: part_of ZFA:0001471 ! posterior lateral line system (zebrafish) [Term] id: ZFA:0000176 name: lateral nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Peripheral nucleus of the ventral telencephalon that has migrated to the periphery of the brain. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus lateralis" EXACT [] xref: TAO:0002204 xref: ZFIN:ZDB-ANAT-011113-11 is_a: ZFA:0001667 ! peripheral nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000177 name: caudal oblique (zebrafish) namespace: zebrafish_anatomy synonym: "caudal obliques" EXACT PLURAL [] xref: TAO:0000177 xref: ZFIN:ZDB-ANAT-011113-110 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000178 name: caudal peduncle (zebrafish) namespace: zebrafish_anatomy def: "Portion of the fish's body that is posterior to the vent and anterior to the caudal fin." [ZFIN:curator] xref: TAO:0000178 xref: ZFIN:ZDB-ANAT-011113-111 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0007812 ! post-anal tail [Term] id: ZFA:0000181 name: caudal zone of dorsal telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is the most caudally located part of the dorsal telencephalon and surrounds the central zone of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area dorsalis telencephali, zona posterior" EXACT [] synonym: "caudal zone of D" EXACT [] synonym: "posterior zone of dorsal telencephalic area" EXACT [] xref: TAO:0000181 xref: ZFIN:ZDB-ANAT-011113-114 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000182 name: central caudal thalamic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located in the caudal portion of the dorsal thalamus, ventral to the dorsal caudal thalamic nucleus." [ZFIN:curator] synonym: "central posterior thalamic nucleus" EXACT [] synonym: "nucleus centralis posterior thalami" EXACT [] xref: TAO:0000182 xref: ZFIN:ZDB-ANAT-011113-115 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: ZFA:0000183 name: central pretectum (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is the central part of the pretectum." [ZFIN:curator] xref: TAO:0000183 xref: ZFIN:ZDB-ANAT-011113-116 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001944 ! pretectal region [Term] id: ZFA:0000185 name: commissura rostral, pars ventralis (zebrafish) namespace: zebrafish_anatomy def: "Anterior commissure which abuts the preoptic region dorsally. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "commissura anterior, pars ventralis" EXACT [] xref: TAO:0000185 xref: ZFIN:ZDB-ANAT-011113-118 is_a: UBERON:0000935 ! anterior commissure [Term] id: ZFA:0000188 name: corpus cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is one of three parts of the cerebellum and is the entry point for a posterior cerebellar tract that carries cerebellar afferents from many brain stem nuclei. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "cerebellar corpus" EXACT [] synonym: "corpus cerebellum" EXACT PLURAL [] xref: TAO:0000188 xref: ZFIN:ZDB-ANAT-011113-120 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000193 name: diffuse nucleus inferior lobe (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the inferior lobe of the hypothalamus and consists of masses of small cells presumably migrated from the periventricular cell masses. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "DIL" EXACT [] synonym: "diffuse nuclei" EXACT PLURAL [] xref: TAO:0000193 xref: ZFIN:ZDB-ANAT-011113-125 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000165 ! inferior lobe (zebrafish) [Term] id: ZFA:0000194 name: dorsal accessory optic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the central pretectum and is ventral to the magnocellular superficial pretectal nucleus and the caudal pretectal nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "nucleus opticus accessorius dorsalis" EXACT [] xref: TAO:0000194 xref: ZFIN:ZDB-ANAT-011113-126 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000183 ! central pretectum (zebrafish) [Term] id: ZFA:0000195 name: dorsal depressor (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin muscle that moves the dorsal fin into a lowered position. Antagonistic to dorsal erector muscle." [ZFIN:curator] synonym: "dorsal depressors" EXACT PLURAL [] xref: TAO:0000195 xref: ZFIN:ZDB-ANAT-011113-127 is_a: ZFA:0005270 ! depressor muscle (zebrafish) relationship: part_of ZFA:0000648 ! dorsal fin musculature (zebrafish) [Term] id: ZFA:0000196 name: dorsal hypohyal bone (zebrafish) namespace: zebrafish_anatomy def: "The dorsal hypohyal is a small cartilage replacement bone ossifying from the anterodorsal ceratohyal cartilage. Ossification begins on the medial surface of the ceratohyal cartilage at a ligamentous connection to basibranchial 1 (6.8 mm)." [ZFIN:curator] synonym: "dorsal hypohyals" EXACT PLURAL [] xref: TAO:0000196 xref: ZFIN:ZDB-ANAT-011113-128 is_a: UBERON:0004751 ! hypohyal bone [Term] id: ZFA:0000197 name: dorsal habenular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Habenular nucleus where the efferent projections innervate the interpeduncular nucleus. The dorsal habenula is structurally homologous to the mammalian medial habenula." [ZFIN:ZDB-PUB-100202-7] synonym: "dorsal habenular nuclei" EXACT PLURAL [] synonym: "dorsal nuclei" EXACT PLURAL [] xref: TAO:0000197 xref: ZFIN:ZDB-ANAT-011113-129 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of UBERON:0001904 ! habenula [Term] id: ZFA:0000199 name: dorsal periventricular hypothalamus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the dorsal hypothalamic zone and is located periventricularly. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000199 xref: ZFIN:ZDB-ANAT-011113-130 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000347 ! dorsal hypothalamic zone (zebrafish) [Term] id: ZFA:0000201 name: dorsal transverse (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000201 xref: ZFIN:ZDB-ANAT-011113-132 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000202 name: efferent branchial artery (zebrafish) namespace: zebrafish_anatomy synonym: "EBA" EXACT [] xref: TAO:0000202 xref: ZFIN:ZDB-ANAT-011113-133 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0007303 ! pharyngeal vasculature relationship: part_of UBERON:0011150 ! pharyngeal arch derived gill [Term] id: ZFA:0000203 name: epicentrals namespace: zebrafish_anatomy is_obsolete: true comment: Epicentrals are not present in D. rerio.ZDB-PUB-031103-13 xref: ZFIN:ZDB-ANAT-011113-134 [Term] id: ZFA:0000205 name: external ventral flexor (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000205 xref: ZFIN:ZDB-ANAT-011113-136 is_a: UBERON:0000366 ! flexor muscle relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000209 name: lateral preglomerular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Preglomerular nucleus which is located between the rostral and medial preglomerular nuclei of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "lateral preglomerular nuclei" EXACT PLURAL [] xref: TAO:0000209 xref: ZFIN:ZDB-ANAT-011113-14 is_a: ZFA:0001662 ! preglomerular nucleus (zebrafish) [Term] id: ZFA:0000210 name: gigantocellular part of magnocellular preoptic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is the caudal gigantocellular portion of the magnocellular preoptic nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "nucleus praeopticus magnocellularis, pars gigantocellularis" EXACT [] xref: TAO:0000210 xref: ZFIN:ZDB-ANAT-011113-140 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000248 ! magnocellular preoptic nucleus (zebrafish) [Term] id: ZFA:0000211 name: gill lamella (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is the transverse vertical platelet on the gill filament, through which capillaries run. The primary gill lamellae carry numerous fine layers called secondary lamellae which are the actual regions of respiration and excretion." [http:www.briancoad.com/Dictionary/G.htm] synonym: "gill lamellae" EXACT PLURAL [] xref: TAO:0000211 xref: ZFIN:ZDB-ANAT-011113-141 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0011150 ! pharyngeal arch derived gill [Term] id: ZFA:0000212 name: granular eminence (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000187 def: "Brain structure which is paired and part of the vestibulolateralis lobe of the cerebellum and extends fibers into the cerebellar crest. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "EG" RELATED [] synonym: "eminentia granularis" EXACT [] synonym: "lateral granular eminence" EXACT [] xref: TAO:0000212 xref: ZFIN:ZDB-ANAT-011113-142 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000307 ! vestibulolateralis lobe (zebrafish) [Term] id: ZFA:0000214 name: hypobranchial vessel namespace: zebrafish_anatomy is_obsolete: true replaced_by: ZFA:0000673 ! hypobranchial artery (zebrafish) comment: May be the same as hypobranchial artery and may need to be merged. synonym: "hypobranchial vessels" EXACT PLURAL [] xref: TAO:0000214 xref: ZFIN:ZDB-ANAT-011113-144 [Term] id: ZFA:0000216 name: infracarinalis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000216 xref: ZFIN:ZDB-ANAT-011113-146 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0000221 name: internal levator (zebrafish) namespace: zebrafish_anatomy synonym: "internal levators" EXACT PLURAL [] xref: TAO:0000221 xref: ZFIN:ZDB-ANAT-011113-150 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000222 name: isthmic primary nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "isthmic primary nuclei" EXACT PLURAL [] xref: TAO:0000222 xref: ZFIN:ZDB-ANAT-011113-152 is_a: UBERON:0004132 ! trigeminal sensory nucleus [Term] id: ZFA:0000223 name: infraorbital 1 (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that covers the region between the anterior margin of the eye and the upper jaw. Infraorbital 1 (the lachrymal) is the first and largest bone in the infraorbital series. Bears the anterior most part of the infraorbital canal." [ZFIN:curator] synonym: "lachrymal bone" EXACT [] synonym: "lacrimal" EXACT [] synonym: "lacrymal bone" EXACT [] xref: TAO:0000223 xref: ZFIN:ZDB-ANAT-011113-153 is_a: ZFA:0000376 ! infraorbital (zebrafish) relationship: part_of ZFA:0001649 ! infraorbital series (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000224 name: larva namespace: zebrafish_anatomy is_obsolete: true consider: ZFS:0000035 ! Larval:Protruding-mouth consider: ZFS:0000036 ! Larval:Day 4 consider: ZFS:0000037 ! Larval:Day 5 consider: ZFS:0000038 ! Larval:Day 6 consider: ZFS:0000039 ! Larval:Days 7-13 consider: ZFS:0000040 ! Larval:Days 14-20 consider: ZFS:0000041 ! Larval:Days 21-29 xref: ZFIN:ZDB-ANAT-011113-154 [Term] id: ZFA:0000225 name: lateral crista primordium (zebrafish) namespace: zebrafish_anatomy def: "Is an otic epithelium that will mature into the lateral crista." [ZFIN:curator] synonym: "lateral crista primordia" EXACT PLURAL [] xref: TAO:0000225 xref: ZFIN:ZDB-ANAT-011113-155 is_a: UBERON:0003249 ! epithelium of otic placode relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0001843 ! lateral semicircular canal relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000226 name: lateral ethmoid (zebrafish) namespace: zebrafish_anatomy def: "Large, paired cartilage bones separating the olfactory region from the orbit. Arises from both perichondral and endochondral ossifications (Harrington 1955). Bordered by the mesethmoid anteriorly and overlain by the frontal dorsally, each lateral ethmoid extends medially to meet its fellow posteriorly along the midline. Develops from the laminae orbitonasales." [ZFIN:curator] synonym: "lateral ethmoids" EXACT PLURAL [] xref: TAO:0000226 xref: ZFIN:ZDB-ANAT-011113-156 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0006604 ! lamina orbitonasalis relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003112 ! olfactory region relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000228 name: lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "Is a portion of tissue that migrates and deposits immature neuromasts and interneuromasts." [ZFIN:curator] synonym: "lateral line primordia" EXACT PLURAL [] synonym: "llp" EXACT [] xref: TAO:0000228 xref: ZFIN:ZDB-ANAT-011113-158 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of UBERON:0002540 ! lateral line system relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000230 name: longitudinal hypochordal (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000230 xref: ZFIN:ZDB-ANAT-011113-16 is_a: UBERON:0001630 ! muscle organ relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000232 name: otic vesicle lateral protrusion (zebrafish) namespace: zebrafish_anatomy def: "Otic vesicle protrusion that is initially laterally located and then bifurcates and fuses anteriorly with the anterior protrusion, and posteriorly with the posterior protrusion." [ZFIN:ZDB-PUB-090330-11] synonym: "lateral semicircular canal primordia" RELATED PLURAL [] synonym: "lateral semicircular canal primordium" RELATED [] xref: TAO:0000232 xref: ZFIN:ZDB-ANAT-011113-161 is_a: ZFA:0001715 ! otic vesicle protrusion (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0000233 name: lower oral valve (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue, located on the lower jaw that defines the caudal extent of the labial cavity. The oral valves control the flow of water into the mouth during routine respiration." [ZFIN:ZDB-PUB-060921-12] synonym: "breathing valve" RELATED [] synonym: "buccal valve " RELATED [] synonym: "lower internal lip" EXACT [ZFIN:ZDB-PUB-060921-12] synonym: "lower semilunar valve" EXACT [ZFIN:ZDB-PUB-060921-12] synonym: "mandibular valve" EXACT [] xref: TAO:0000233 xref: ZFIN:ZDB-ANAT-011113-162 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000695 ! labial cavity (zebrafish) [Term] id: ZFA:0000234 name: macula neglecta (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is a patch of thickened, pseudostratified epithelium in the inner ear, consisting of regular arrays of sensory hair cells interspersed with supporting cells. The macula neglecta a pair of sensory patches positioned on the floor of the utricle adjacent to the utriculosaccular foramen at the base of the common crus." [ZFIN:ZDB-PUB-010912-7, ZFIN:ZDB-PUB-020403-4] synonym: "maculae neglecta" EXACT PLURAL [] xref: TAO:0000234 xref: ZFIN:ZDB-ANAT-011113-163 is_a: UBERON:0000054 ! macula relationship: develops_from ZFA:0000558 ! posterior macula (zebrafish) relationship: part_of UBERON:0002518 ! otolith organ relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000235 name: magnocellular superficial pretectal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the superficial pretectum and is caudally contiguous with the caudal pretectal nucleus. Cells of the magnocellular superficial pretectal nucleus are slightly larger and more orderly around a central neuropil than those of the caudal pretectal nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "magnocellular superficial pretectal nuclei" EXACT PLURAL [] xref: TAO:0000235 xref: ZFIN:ZDB-ANAT-011113-164 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000687 ! superficial pretectum (zebrafish) [Term] id: ZFA:0000237 name: medial forebrain bundle diencephalon (zebrafish) namespace: zebrafish_anatomy synonym: "medial forebrain bundles diencephalon" EXACT PLURAL [] xref: TAO:0000237 xref: ZFIN:ZDB-ANAT-011113-167 is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0001910 ! medial forebrain bundle [Term] id: ZFA:0000238 name: medial olfactory tract (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic white matter which extends between the olfactory bulb and the ipsilateral ventral telencephalon and carries secondary olfactory fibers. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "tractus olfactorius medialis" EXACT [] xref: TAO:0000238 xref: ZFIN:ZDB-ANAT-011113-168 is_a: UBERON:0011299 ! white matter of telencephalon [Term] id: ZFA:0000239 name: mesocoracoid bone (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone that articulates laterally with the medial surface of the cleithrum and ventro-medially with the scapula and coracoid. Mesocoracoid bone is a small, arch-like bone that develops from the mesocoracoid cartilage. Mesocoracoid bone is paired." [TAO:curator] synonym: "mesocoracoid bones" EXACT PLURAL [] xref: TAO:0000239 xref: ZFIN:ZDB-ANAT-011113-171 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from ZFA:0001537 ! mesocoracoid cartilage (zebrafish) relationship: part_of UBERON:0007831 ! pectoral girdle skeleton relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0000240 name: metapterygoid (zebrafish) namespace: zebrafish_anatomy def: "The metapterygoid is a posterior bone that ossifies in the cartilaginous palatoquadrate arch. It first appears as a rod of bone with an anterodorsally projecting process from the middle of the dorsal surface (6.4 mm). The adult metapterygoid is roughly rectangular in shape with rounded corners and an anterodorsally projecting spine that meets the entopterygoid medially in a synostosis at its posteromedial edge. The posterior end curves dorsally to form the posteroventral surface of the orbit." [ZFIN:curator] synonym: "metapterygoids" EXACT PLURAL [] xref: TAO:0000240 xref: ZFIN:ZDB-ANAT-011113-172 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0004752 ! palatoquadrate cartilage relationship: part_of UBERON:0011085 ! palatoquadrate arch relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000241 name: midline column (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000241 xref: ZFIN:ZDB-ANAT-011113-173 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002559 ! medullary reticular formation [Term] id: ZFA:0000245 name: nucleus of the descending root (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000245 xref: ZFIN:ZDB-ANAT-011113-177 is_a: UBERON:0004132 ! trigeminal sensory nucleus [Term] id: ZFA:0000246 name: nucleus taeniae (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is located immediately ventral to the caudal zone of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000246 xref: ZFIN:ZDB-ANAT-011113-178 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000248 name: magnocellular preoptic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is dorsal to the caudal parvocellular preoptic nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "magnocellular preoptic nuclei" EXACT PLURAL [] xref: TAO:0000248 xref: ZFIN:ZDB-ANAT-011113-18 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0001928 ! preoptic area [Term] id: ZFA:0000250 name: opercle (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that articulates anteriorly with the hyomandibula. The opercle is paired and typically the largest bone of the opercular series. It is derived from the neural crest and is located in 2nd pharyngeal arch." [ZFIN:Curator, ZFIN:ZDB-PUB-120529-44] synonym: "opercles" EXACT PLURAL [] xref: TAO:0000250 xref: ZFIN:ZDB-ANAT-011113-181 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011152 ! dorsal hyoid arch skeleton relationship: part_of ZFA:0000555 ! opercular flap (zebrafish) [Term] id: ZFA:0000251 name: opercular-branchiostegal series namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000863 ! dermatocranium comment: ZFIN not using series organization if at all possible. xref: ZFIN:ZDB-ANAT-011113-182 [Term] id: ZFA:0000256 name: pars subcommissuralis of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy synonym: "pars subcommissuralis of V" EXACT [] xref: TAO:0000256 xref: ZFIN:ZDB-ANAT-011113-187 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000204 ! ventral part of telencephalon [Term] id: ZFA:0000259 name: mandibular lateral line (zebrafish) namespace: zebrafish_anatomy def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] synonym: "mandibular lateral lines" EXACT PLURAL [] synonym: "mandibular line" EXACT [ZFIN:ZDB-PUB-000523-3] xref: TAO:0000259 xref: ZFIN:ZDB-ANAT-011113-19 is_a: UBERON:0010202 ! lateral line relationship: part_of ZFA:0001470 ! anterior lateral line (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000261 name: pharyngohyoid (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000261 xref: ZFIN:ZDB-ANAT-011113-191 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000264 name: preopercle (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is part of the opercular flap and bears the preopercular sensory canal. The preopercle is a paired bone and typically L-shaped, with the horizontal limb overlying the interopercle and the vertical limb overlying the opercle." [ZFIN:curator] synonym: "preopercles" EXACT PLURAL [] xref: TAO:0000264 xref: ZFIN:ZDB-ANAT-011113-194 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011152 ! dorsal hyoid arch skeleton relationship: part_of ZFA:0000555 ! opercular flap (zebrafish) [Term] id: ZFA:0000265 name: presumptive dorsal mesoderm (zebrafish) namespace: zebrafish_anatomy def: "Portion of presumptive mesoderm fated to become dorsal mesoderm. Determined by fate mapping." [ZFIN:curator] xref: TAO:0000265 xref: ZFIN:ZDB-ANAT-011113-195 is_a: UBERON:0006603 ! presumptive mesoderm relationship: end ZFS:0000019 ! Gastrula:Shield relationship: start ZFS:0000014 ! Blastula:Sphere [Term] id: ZFA:0000266 name: pretecto-mammillary tract (zebrafish) namespace: zebrafish_anatomy synonym: "TPp" RELATED [] synonym: "pretecto mammillary tract" EXACT [] synonym: "pretecto-mamillary tract" EXACT [] synonym: "pretectomamillary tract" EXACT [] xref: TAO:0000266 xref: ZFIN:ZDB-ANAT-011113-196 is_a: UBERON:0003931 ! diencephalic white matter [Term] id: ZFA:0000267 name: primary olfactory fiber layer (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is the most peripheral layer and present only in the rostroventral olfactory bulb. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "stratum nervosum bulbi olfactorii" EXACT [] xref: TAO:0000267 xref: ZFIN:ZDB-ANAT-011113-197 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: ZFA:0000268 name: anal fin proximal radial (zebrafish) namespace: zebrafish_anatomy def: "Rod-like internal median skeletal support bones of the anal fin, which articulate with the distal radials." [ZFIN:curator] synonym: "anal fin proximal radials" EXACT PLURAL [] xref: TAO:0000268 xref: ZFIN:ZDB-ANAT-011113-199 is_a: ZFA:0001646 ! anal fin radial (zebrafish) relationship: part_of ZFA:0001420 ! anal fin pterygiophore (zebrafish) [Term] id: ZFA:0000269 name: inferior ventral flexor (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000269 xref: ZFIN:ZDB-ANAT-011113-2 is_a: UBERON:0000366 ! flexor muscle relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000271 name: radial (zebrafish) namespace: zebrafish_anatomy def: "The internal skeletal supports of the median and paired fins." [TAO:curator] synonym: "radials" EXACT PLURAL [] xref: TAO:0000271 xref: ZFIN:ZDB-ANAT-011113-200 is_a: UBERON:0002513 ! endochondral bone [Term] id: ZFA:0000274 name: rostral octaval nucleus (zebrafish) namespace: zebrafish_anatomy def: "Octaval sensory nucleus located rostral to the magnocellular octaval nucleus and arches dorsally around the descending trigeminal root. Receives some vestibular information and is part of the vestibulo-ocular reflex circuitry and projects to abducens and oculomotor nuclei and descends to the spinal cord. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "anterior octaval nucleus" EXACT [] synonym: "nucleus octavus anterior" EXACT [] xref: TAO:0000274 xref: ZFIN:ZDB-ANAT-011113-204 is_a: ZFA:0000401 ! octaval nerve sensory nucleus (zebrafish) [Term] id: ZFA:0000276 name: rostrolateral thalamic nucleus of Butler & Saidel (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000276 xref: ZFIN:ZDB-ANAT-011113-206 is_a: UBERON:0002776 ! ventral nuclear group relationship: part_of UBERON:0001900 ! subthalamus [Term] id: ZFA:0000278 name: secondary gustatory nucleus medulla oblongata (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000278 xref: ZFIN:ZDB-ANAT-011113-208 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001033 ! gustatory system relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000280 name: medial valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Medial division of the valvula cerebelli." [ZFIN:curator] synonym: "medial division" EXACT [] synonym: "valvula cerebelli, pars medialis" EXACT [] xref: TAO:0000280 xref: ZFIN:ZDB-ANAT-011113-21 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0000281 name: hair cell posterior macula (zebrafish) namespace: zebrafish_anatomy def: "Specialized neuronal receptor cells of the lateral line and acoustico-vestibular systems. (Also see Anatomical Atlas entry for hair cells by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "sensory hair cells posterior macula" EXACT PLURAL [] xref: TAO:0000281 xref: ZFIN:ZDB-ANAT-011113-210 is_a: CL:0000855 ! sensory hair cell relationship: develops_from ZFA:0001099 ! immature hair cell posterior macula (zebrafish) relationship: part_of ZFA:0000558 ! posterior macula (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000283 name: sternohyoid (zebrafish) namespace: zebrafish_anatomy synonym: "sternohyoids" EXACT PLURAL [] xref: TAO:0000283 xref: ZFIN:ZDB-ANAT-011113-212 is_a: UBERON:0011648 ! jaw muscle relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000284 name: subopercle (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone lying below the opercle. The subopercle is a paired bone." [ZFIN:curator] synonym: "subopercles" EXACT PLURAL [] xref: TAO:0000284 xref: ZFIN:ZDB-ANAT-011113-213 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011152 ! dorsal hyoid arch skeleton relationship: part_of ZFA:0000555 ! opercular flap (zebrafish) [Term] id: ZFA:0000285 name: superficial adductor (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin muscle that develops from the primitive pectoral fin adductor. The adductor superficialis originates at the cleithrum and inserts on all fins rays except the first. Insertion of the adductor superficialis on fin rays is distal to the fin ray bases." [ZFIN:ZDB-PUB-050920-7] synonym: "adductor superficialis" EXACT [ZFIN:ZDB-PUB-050920-7] synonym: "superficial adductors" EXACT PLURAL [] xref: TAO:0000285 xref: ZFIN:ZDB-ANAT-011113-214 is_a: UBERON:0011145 ! adductor muscle relationship: develops_from ZFA:0005650 ! primitive pectoral fin adductor (zebrafish) relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000286 name: superficial lateralis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000286 xref: ZFIN:ZDB-ANAT-011113-215 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0000287 name: superior dorsal flexor (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000287 xref: ZFIN:ZDB-ANAT-011113-216 is_a: UBERON:0000366 ! flexor muscle relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000288 name: supracarinalis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000288 xref: ZFIN:ZDB-ANAT-011113-217 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0000289 name: supramaxillae namespace: zebrafish_anatomy is_obsolete: true comment: Supramaxillary bones are absent from D. rerio, as in other ostariophysans (Fink and Fink, '81) xref: ZFIN:ZDB-ANAT-011113-218 [Term] id: ZFA:0000291 name: medial octavolateralis nucleus (zebrafish) namespace: zebrafish_anatomy def: "Lateral line sensory nucleus located in the cerebellum that processes sensory input from the lateral line." [ZFIN:curator] synonym: "MON" RELATED [] synonym: "intermediate octavolateral nucleus" EXACT [] synonym: "medial octavolateralis nuclei" EXACT PLURAL [] xref: TAO:0000291 xref: ZFIN:ZDB-ANAT-011113-22 is_a: ZFA:0000381 ! lateral line sensory nucleus (zebrafish) relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000293 name: synencephalon (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is located between the dorsal diencephalon and the mesencephalon and contains the caudal commissure. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000293 xref: ZFIN:ZDB-ANAT-011113-221 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001894 ! diencephalon [Term] id: ZFA:0000294 name: torus lateralis (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "lateral torus" EXACT [] xref: TAO:0000294 xref: ZFIN:ZDB-ANAT-011113-222 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000296 name: uncrossed tecto-bulbar tract (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000296 xref: ZFIN:ZDB-ANAT-011113-225 is_a: UBERON:0002164 ! tectobulbar tract [Term] id: ZFA:0000297 name: vagal lobe (zebrafish) namespace: zebrafish_anatomy def: "The multi-tissue, vagal lobe is a large, paired brain stem structure flanking the unpaired facial lobe laterally. The vagal lobe contains motor and gustatory neurons. While some degree of histological segregation is apparent within the vagal lobe, a clear lamination, as seen in goldfish or carp is absent." [ZFIN:ZDB-PUB-961014-1280] synonym: "LX" EXACT [ZFIN:ZDB-PUB-961014-1280] xref: ZFIN:ZDB-ANAT-011113-226 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000298 name: vent (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000298 xref: ZFIN:ZDB-ANAT-011113-227 is_a: UBERON:0003102 ! surface structure relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000299 name: ventral entopeduncular nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Peripheral nucleus of the ventral telencephalon that is a band of tightly packed cells starting at the level of the anterior commissure and extends into the telencephalo-diencephalic boundary region. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "ENv" EXACT [] synonym: "endopeduncular nucleus, ventral part" EXACT [] synonym: "entopeduncular nucleus, ventral part" EXACT [] synonym: "nucleus entopeduncularis, pars ventralis" EXACT [] synonym: "ventral entopeduncular nucleus V" EXACT [] xref: TAO:0000299 xref: ZFIN:ZDB-ANAT-011113-228 is_a: ZFA:0001667 ! peripheral nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000300 name: ventral hypohyal bone (zebrafish) namespace: zebrafish_anatomy def: "The ventral hypohyal ossifies first along the anteroventral tip of the ceratohyal cartilage at the insertion of the tendon from the sternohyoideus (5.7 mm)." [ZFIN:curator] synonym: "lower hypohyal" EXACT [] synonym: "ventrohyal" EXACT [] xref: TAO:0000300 xref: ZFIN:ZDB-ANAT-011113-229 is_a: UBERON:0004751 ! hypohyal bone [Term] id: ZFA:0000302 name: ventral habenular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Habenular nucleus positioned ventromedially to the dorsal habenular nuclei. The axons of the ventral habenular nucleus passed laterally through the interpeduncular nucleus and projected to the ventral part of the median raphe. The ventral habenular nucleus is homolog mammalian lateral habenular nucleus." [ZFIN:ZDB-PUB-100202-7] xref: TAO:0000302 xref: ZFIN:ZDB-ANAT-011113-230 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of UBERON:0001904 ! habenula [Term] id: ZFA:0000305 name: ventral sulcus (zebrafish) namespace: zebrafish_anatomy def: "Groove that separates the paired inferior (or lateral) lobes of the hypothalamus from the tuberal hypothalamus." [http:en.wikipedia.org/wiki/Hypothalamic_sulcus] synonym: "hypothalamic sulcus" RELATED [] xref: TAO:0000305 xref: ZFIN:ZDB-ANAT-011113-233 is_a: UBERON:0006846 ! groove relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: ZFA:0000307 name: vestibulolateralis lobe (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is part of the cerebellum consists of the paired granular eminentia and the medial caudal lobe. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000307 xref: ZFIN:ZDB-ANAT-011113-235 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000309 name: E-YSL (zebrafish) namespace: zebrafish_anatomy def: "The portion of the YSL that is outside of the blastoderm margin during epiboly." [ZFIN:ZDB-PUB-961014-576] synonym: "external yolk syncytial layer" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000309 xref: ZFIN:ZDB-ANAT-011113-237 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000030 ! Pharyngula:Prim-15 relationship: part_of ZFA:0000088 ! YSL (zebrafish) relationship: start ZFS:0000013 ! Blastula:Oblong [Term] id: ZFA:0000311 name: adductor mandibulae complex (zebrafish) namespace: zebrafish_anatomy def: "Is a mandibular muscle that consists of three subdivisions A1, A2, and A3. All three originate on the hyomandibula and suspensorium but each has a distinct insertion. A1 inserts on the maxilla, A2 inserts along the caudal margin of the articular and A3 inserts on the medial surface of the articular." [ZFIN:ZDB-PUB-070330-4] xref: TAO:0000311 xref: ZFIN:ZDB-ANAT-011113-239 is_a: UBERON:0011145 ! adductor muscle relationship: develops_from UBERON:0011683 ! adductor mandibulae relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0000313 name: anal inclinator (zebrafish) namespace: zebrafish_anatomy synonym: "anal inclinators" EXACT PLURAL [] xref: TAO:0000313 xref: ZFIN:ZDB-ANAT-011113-240 is_a: ZFA:0005276 ! inclinator muscle (zebrafish) relationship: part_of ZFA:0001154 ! anal fin musculature (zebrafish) [Term] id: ZFA:0000315 name: asteriscus (zebrafish) namespace: zebrafish_anatomy def: "Otolith part of lagena." [ZFIN:ZDB-PUB-020403-4] synonym: "lagenar otolith" EXACT [] synonym: "lagenolith" EXACT [] xref: TAO:0000315 xref: ZFIN:ZDB-ANAT-011113-242 is_a: UBERON:0002280 ! otolith relationship: part_of UBERON:0001844 ! cochlea [Term] id: ZFA:0000318 name: brainstem and spinal white matter (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter that is part of the brain stem or spinal cord." [ZFIN:curator] synonym: "brain stem and spinal tract/commissure" EXACT [] synonym: "brain stem/spinal tracts and commissures" EXACT PLURAL [] xref: TAO:0000318 xref: ZFIN:ZDB-ANAT-011113-245 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0002298 ! brainstem [Term] id: ZFA:0000319 name: branchiostegal membrane (zebrafish) namespace: zebrafish_anatomy def: "The portion of tissue forming the membrane connecting the branchiostegals and enclosing the gill chamber." [http://www.fishbase.org/glossary/Glossary.php?q=branchiostegal+membrane] synonym: "branchiostegal membranes" EXACT PLURAL [] xref: TAO:0000319 xref: ZFIN:ZDB-ANAT-011113-246 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0011150 ! pharyngeal arch derived gill [Term] id: ZFA:0000321 name: caudal levator (zebrafish) namespace: zebrafish_anatomy synonym: "caudal levators" EXACT PLURAL [] xref: TAO:0000321 xref: ZFIN:ZDB-ANAT-011113-248 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000322 name: caudal octaval nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "caudal octaval nuclei" EXACT PLURAL [] xref: TAO:0000322 xref: ZFIN:ZDB-ANAT-011113-249 is_a: ZFA:0000401 ! octaval nerve sensory nucleus (zebrafish) [Term] id: ZFA:0000324 name: caudal periventricular hypothalamus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the caudal hypothalamus and surrounds the paired posterior ventricular recesses of the third ventricle. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "caudal zone of periventricular hypothalamus" EXACT [] synonym: "nucleus periventricularis hypothalami, zona caudalis" EXACT [] xref: TAO:0000324 xref: ZFIN:ZDB-ANAT-011113-250 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000634 ! caudal hypothalamic zone (zebrafish) [Term] id: ZFA:0000331 name: commissure infima of Haller (zebrafish) namespace: zebrafish_anatomy synonym: "commissura infima Halleri" EXACT [] synonym: "commissura infima of Haller" EXACT [] xref: TAO:0000331 xref: ZFIN:ZDB-ANAT-011113-258 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) [Term] id: ZFA:0000335 name: crossed tecto-bulbar tract (zebrafish) namespace: zebrafish_anatomy synonym: "tractus tectobulbaris cruciatus" EXACT [] xref: TAO:0000335 xref: ZFIN:ZDB-ANAT-011113-261 is_a: UBERON:0002164 ! tectobulbar tract [Term] id: ZFA:0000336 name: hypural arches namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000364 ! hypural (zebrafish) xref: ZFIN:ZDB-ANAT-011113-262 [Term] id: ZFA:0000337 name: dermopalatine namespace: zebrafish_anatomy is_obsolete: true comment: Doesn't seem to exist in zebrafish. xref: ZFIN:ZDB-ANAT-011113-263 [Term] id: ZFA:0000340 name: dorsal entopeduncular nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Peripheral nucleus of the ventral telencephalon which is a band of tightly packed cells starting at the level of the anterior commissure and disappearing more rostrally. May be homologous to the intermediate nucleus of the area ventralis of other species. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "ENd" EXACT [] synonym: "endopeduncular nucleus, dorsal part" EXACT [] synonym: "entopeduncular nucleus, dorsal part" EXACT [] synonym: "nucleus entopeduncularis, pars dorsalis" EXACT [] xref: TAO:0000340 xref: ZFIN:ZDB-ANAT-011113-266 is_a: ZFA:0001667 ! peripheral nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000341 name: dorsal flexor (zebrafish) namespace: zebrafish_anatomy synonym: "dorsal flexors" EXACT PLURAL [] xref: TAO:0000341 xref: ZFIN:ZDB-ANAT-011113-267 is_a: UBERON:0000366 ! flexor muscle relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000342 name: dorsal inclinator (zebrafish) namespace: zebrafish_anatomy synonym: "dorsal inclinators" EXACT PLURAL [] xref: TAO:0000342 xref: ZFIN:ZDB-ANAT-011113-268 is_a: ZFA:0005276 ! inclinator muscle (zebrafish) relationship: part_of ZFA:0000648 ! dorsal fin musculature (zebrafish) [Term] id: ZFA:0000343 name: dorsal nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Periventricular nucleus which lies rostral to the anterior commissure and is contiguous caudally with the supracommissural nucleus of the ventral telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus dorsalis" EXACT [] synonym: "dorsal division of ventral telencephalic area" RELATED [] synonym: "dorsal nucleus of V" EXACT [] xref: TAO:0000343 xref: ZFIN:ZDB-ANAT-011113-269 is_a: ZFA:0001666 ! periventricular nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000347 name: dorsal hypothalamic zone (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is the dorsal most region of the hypothalamus and expands laterally and emerges caudal to the ventral zone and is separated from the median tuberal portion by a deep ventral sulcus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000347 xref: ZFIN:ZDB-ANAT-011113-272 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from ZFA:0006000 ! intermediate hypothalamus (zebrafish) relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: ZFA:0000348 name: duodenum namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-011113-273 [Term] id: ZFA:0000349 name: epaxialis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000349 xref: ZFIN:ZDB-ANAT-011113-274 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0000350 name: epipleural (zebrafish) namespace: zebrafish_anatomy def: "Epipleurals lie below the horizontal septum and are posteroventrally directed. There are ossified epipleurals in certain ostariophysans. In many lower elopocephalan teleosts including ostariophysans the epipleural bones develop an anterodorsal branch so that they are forked proximally." [ZFIN:curator] synonym: "epipleurals" EXACT PLURAL [] xref: TAO:0000350 xref: ZFIN:ZDB-ANAT-011113-275 is_a: ZFA:0000526 ! intermuscular bone (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000352 name: external cellular layer (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is located between the glomerular layer and internal cellular layer of the olfactory bulb, and contains large mitral cells whose efferent axons form most of the lateral and medial olfactory tracts. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "stratum cellulare externum bulbi olfactorii" EXACT [] xref: TAO:0000352 xref: ZFIN:ZDB-ANAT-011113-277 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: ZFA:0000356 name: gill raker (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is a small anterior projection present on all of pharyngeal arches 3-7. The rakers have epithelial denticles and both their gross and fine structure serves to retain food particles in the mouth." [http:www.briancoad.com/Dictionary/G.htm] synonym: "gill rakers" EXACT PLURAL [] xref: TAO:0000356 xref: ZFIN:ZDB-ANAT-011113-280 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0000358 name: granular layer corpus cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is the innermost layer of the corpus cerebelli and consists of small granule cells and larger Golgi cells. The granule cell receive excitatory input from the mossy fibers, and send parallel fibers to the molecular layer where they synapse with Purkinje cell dendrites." [ZFIN:curator] xref: TAO:0000358 xref: ZFIN:ZDB-ANAT-011113-282 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000188 ! corpus cerebelli (zebrafish) [Term] id: ZFA:0000362 name: hypaxialis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000362 xref: ZFIN:ZDB-ANAT-011113-287 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0000363 name: hypobranchial bone (zebrafish) namespace: zebrafish_anatomy def: "Hypobranchials are the most medial of the bilaterally paired elements of the gill arches. Hypobranchial ossifications 1-3 (of 4) develop in the small hypobranchial cartilages that lie between the medial tips of the ceratobranchials and copula 2. The hypobranchials articulate anteromedially with the basibranchials." [ZFIN:curator] synonym: "hypobranchial bones" EXACT PLURAL [] xref: TAO:0000363 xref: ZFIN:ZDB-ANAT-011113-288 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from ZFA:0001522 ! hypobranchial cartilage (zebrafish) relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0000364 name: hypural (zebrafish) namespace: zebrafish_anatomy def: "Expanded and laterally flattened hemal arches and spines. They support the lepidotrichia of the caudal fin. The hypurals form ventral to the posterior tip of the dorsally-flexed notochord. In zebrafish condensation of the hypurals begins at approximately 6 dpf (4.1 mm NL, notochord length)." [ZFIN:ZDB-PUB-011008-1] synonym: "hyp" EXACT [] synonym: "hypuralia" EXACT [] synonym: "hypurals" EXACT PLURAL [] xref: TAO:0000364 xref: ZFIN:ZDB-ANAT-011113-289 is_a: ZFA:0000859 ! specialized hemal arch and spine (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000367 name: infraorbital bridge namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001410 ! orbital region xref: ZFIN:ZDB-ANAT-011113-291 [Term] id: ZFA:0000371 name: internal pharyngoclavicularis (zebrafish) namespace: zebrafish_anatomy synonym: "internal pharyngoclavicularae" EXACT PLURAL [] xref: TAO:0000371 xref: ZFIN:ZDB-ANAT-011113-295 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000372 name: interpeduncular nucleus medulla oblongata (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000372 xref: ZFIN:ZDB-ANAT-011113-296 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000373 name: juvenile namespace: zebrafish_anatomy is_obsolete: true consider: ZFS:0000042 ! Juvenile:Days 30-44 consider: ZFS:0000043 ! Juvenile:Days 45-89 xref: ZFIN:ZDB-ANAT-011113-297 [Term] id: ZFA:0000375 name: last preural centrum namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000557 ! preural 1 vertebra (zebrafish) consider: ZFA:0000586 ! preural 2 vertebra (zebrafish) consider: ZFA:0001583 ! preural centrum 1+ ural centrum 1 (zebrafish) xref: ZFIN:ZDB-ANAT-011113-299 [Term] id: ZFA:0000376 name: infraorbital (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000489 def: "Dermal bone that is situated under or posterior to the eye and associated with the infraorbital sensory canal." [ZFIN:curator] xref: TAO:0000376 xref: ZFIN:ZDB-ANAT-011113-3 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0001697 ! orbital region relationship: part_of UBERON:0003113 ! dermatocranium relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000379 name: lateral forebrain bundle diencephalon (zebrafish) namespace: zebrafish_anatomy synonym: "lateral forebrain bundles diencephalon" EXACT PLURAL [] xref: TAO:0000379 xref: ZFIN:ZDB-ANAT-011113-301 is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of ZFA:0007012 ! lateral forebrain bundle (zebrafish) [Term] id: ZFA:0000381 name: lateral line sensory nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "lateral line sensory nuclei" EXACT PLURAL [] xref: TAO:0000381 xref: ZFIN:ZDB-ANAT-011113-303 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000384 name: levator arcus palatini (zebrafish) namespace: zebrafish_anatomy def: "Mandibular muscle that inserts along the dorsolateral faces of the hyosymplectics." [ZFIN:ZDB-PUB-020703-2] synonym: "levators arcus palatini" EXACT PLURAL [] xref: TAO:0000384 xref: ZFIN:ZDB-ANAT-011113-307 is_a: UBERON:0011648 ! jaw muscle relationship: develops_from ZFA:0007050 ! constrictor dorsalis (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000388 name: medial caudal lobe (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is part of the vestibulolateralis lobe of the cerebellum. The medial caudal lobe receives primary octaval (presumably vestibular) as well as lateral line projections. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "caudal lobe of cerebellum" EXACT [] synonym: "lobus caudalis cerebelli" EXACT [] xref: TAO:0000388 xref: ZFIN:ZDB-ANAT-011113-311 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000307 ! vestibulolateralis lobe (zebrafish) [Term] id: ZFA:0000389 name: medial funicular nucleus medulla oblongata (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000389 xref: ZFIN:ZDB-ANAT-011113-312 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000390 name: medial preglomerular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Preglomerular nucleus which is located between the lateral and caudal preglomerular nuclei of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "medial preglomerular nuclei" EXACT PLURAL [] xref: TAO:0000390 xref: ZFIN:ZDB-ANAT-011113-313 is_a: ZFA:0001662 ! preglomerular nucleus (zebrafish) [Term] id: ZFA:0000391 name: medial zone of dorsal telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is medially located and surrounds the central zone of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area dorsalis telencephali, zona medialis" EXACT [] synonym: "medial zone of D" EXACT [] synonym: "medial zone of dorsal telencephalic area" EXACT [] xref: TAO:0000391 xref: ZFIN:ZDB-ANAT-011113-314 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000392 name: median tuberal portion (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure which is part of the hypothalamus and consists of caudal and ventral zones, and is separated from the dorsal hypothalamic zone by a deep ventral sulcus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000392 xref: ZFIN:ZDB-ANAT-011113-315 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001898 ! hypothalamus [Term] id: ZFA:0000394 name: molecular layer corpus cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is the outermost layer of the corpus cerebelli and consists largely of axons and dendrites. Other cell types such as stellate and basket neurons are also found in the molecular layer." [ZFIN:curator] xref: TAO:0000394 xref: ZFIN:ZDB-ANAT-011113-317 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000188 ! corpus cerebelli (zebrafish) [Term] id: ZFA:0000395 name: muscle pioneer somite 2 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 2" EXACT PLURAL [] xref: TAO:0000395 xref: ZFIN:ZDB-ANAT-011113-318 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000843 ! slow muscle cell somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000397 name: nucleus subglomerulosis (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000397 xref: ZFIN:ZDB-ANAT-011113-32 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000398 name: nucleus isthmi (zebrafish) namespace: zebrafish_anatomy def: "The nucleus isthmi is a hindbrain nucleus located in the tegmentum of rhombomere 1 close to the secondary gustatory nucleus. It projects to and receives excitatory visual input from the ipsilateral optic tectum and the parvocellular and/or magnocellular superficial pretectal nucleus." [ZFIN:ZDB-PUB-100601-20] xref: TAO:0000398 xref: ZFIN:ZDB-ANAT-011113-320 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000399 name: secondary gustatory nucleus trigeminal nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "secondary gustatory nucleus trigeminal nuclei" EXACT PLURAL [] xref: TAO:0000399 xref: ZFIN:ZDB-ANAT-011113-321 is_a: UBERON:0004132 ! trigeminal sensory nucleus relationship: part_of UBERON:0001033 ! gustatory system [Term] id: ZFA:0000401 name: octaval nerve sensory nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "cranial nerve VIII sensory nucleus" EXACT [] synonym: "octaval nerve sensory nuclei" EXACT PLURAL [] xref: TAO:0000401 xref: ZFIN:ZDB-ANAT-011113-323 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000404 name: paracommissural nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the synencephalon and is located adjacent to the caudal commissure. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000404 xref: ZFIN:ZDB-ANAT-011113-329 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000293 ! synencephalon (zebrafish) [Term] id: ZFA:0000406 name: parvocellular superficial pretectal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the superficial pretectum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "parvocellular superficial pretectal nuclei" EXACT PLURAL [] xref: TAO:0000406 xref: ZFIN:ZDB-ANAT-011113-330 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000687 ! superficial pretectum (zebrafish) [Term] id: ZFA:0000408 name: periventricular nucleus of caudal tuberculum (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located between the ventral thalamus and the hypothalamus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "periventricular nucleus of posterior tuberculum" EXACT [] xref: TAO:0000408 xref: ZFIN:ZDB-ANAT-011113-333 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000410 name: postcleithrum (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is part of the pectoral girdle and located ventral to the supracleithrum and posterior to the cleithrum. Postcleithral bones are paired and can vary up in number from a single pair (such as in zebrafish) to three pairs in other teleosts." [ZFIN:curator] synonym: "postcleithra" EXACT PLURAL [] xref: TAO:0000410 xref: ZFIN:ZDB-ANAT-011113-335 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: ZFA:0000411 name: posterior crista primordium (zebrafish) namespace: zebrafish_anatomy def: "Is an otic epithelium that will mature into the posterior crista." [ZFIN:curator] synonym: "posterior crista primordia" EXACT PLURAL [] xref: TAO:0000411 xref: ZFIN:ZDB-ANAT-011113-336 is_a: UBERON:0003249 ! epithelium of otic placode relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0001842 ! posterior semicircular canal relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000412 name: otic vesicle posterior protrusion (zebrafish) namespace: zebrafish_anatomy def: "Otic vesicle protrusion that is anteriorly located and gives rise to the pillar of the posterior semicircular canal." [ZFIN:ZDB-PUB-090330-11] synonym: "posterior semicircular canal primordia" RELATED PLURAL [] synonym: "posterior semicircular canal primordium" RELATED [] xref: TAO:0000412 xref: ZFIN:ZDB-ANAT-011113-337 is_a: ZFA:0001715 ! otic vesicle protrusion (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0000414 name: presumptive cephalic mesoderm (zebrafish) namespace: zebrafish_anatomy def: "Embryonic structure that is fated to become cephalic mesoderm." [ZFIN:curator] xref: TAO:0000414 xref: ZFIN:ZDB-ANAT-011113-339 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: part_of UBERON:0000926 ! mesoderm relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0000419 name: pterosphenoid (zebrafish) namespace: zebrafish_anatomy def: "Paired cartilage bones, flat and hexagonal in shape that contact the orbitosphenoid anteriorly. Roofed by the frontal and bordered posteriorly by the prootic and sphenotic, the pterosphenoid bears foramina that accommodate branches of the trigeminal and facial nerves." [ZFIN:curator] synonym: "pterosphenoids" EXACT PLURAL [] xref: TAO:0000419 xref: ZFIN:ZDB-ANAT-011113-345 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from ZFA:0001515 ! taenia marginalis posterior (zebrafish) relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003111 ! sphenoid region [Term] id: ZFA:0000422 name: retroarticular (zebrafish) namespace: zebrafish_anatomy def: "The retroarticular is a cartilage bone that forms at the posteroventral tip of Meckel's cartilage where the interoperculomandibular ligament attaches (5.1 mm NL). In the adult it is basically triangular in shape. The retroarticular is ligamentously connected to the interopercle and preopercle posteriorly and abuts the ventral shelf of the dentary anteriorly." [ZFIN:curator] synonym: "retroarticulars" EXACT PLURAL [] xref: TAO:0000422 xref: ZFIN:ZDB-ANAT-011113-348 is_a: UBERON:0002513 ! endochondral bone relationship: RO:0002131 ZFA:0005618 ! anguloarticular-retroarticular joint (zebrafish) relationship: develops_from UBERON:0003107 ! Meckel's cartilage relationship: part_of UBERON:0003278 ! skeleton of lower jaw [Term] id: ZFA:0000424 name: opercular lateral line (zebrafish) namespace: zebrafish_anatomy def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] synonym: "opercular lateral lines" EXACT PLURAL [] xref: TAO:0000424 xref: ZFIN:ZDB-ANAT-011113-35 is_a: UBERON:0010202 ! lateral line relationship: part_of ZFA:0001470 ! anterior lateral line (zebrafish) relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0000425 name: anterior lateral line nerve (zebrafish) namespace: zebrafish_anatomy def: "Cranial nerve which enters the brain between cranial nerves VI and VII and projects to a dorsal medullary area between cerebellum and vagal lobe. Contains afferents and sensory efferents to the anterior lateral line ganglia. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "ALLn" EXACT [] synonym: "nervi lineae lateralis anterioris" EXACT [] synonym: "rostral lateral line nerve" EXACT [] xref: TAO:0000425 xref: ZFIN:ZDB-ANAT-011113-350 is_a: UBERON:0001785 ! cranial nerve is_a: UBERON:0008906 ! lateral line nerve relationship: part_of ZFA:0001468 ! anterior lateral line system (zebrafish) [Term] id: ZFA:0000426 name: rostral parvocellular preoptic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the preoptic area and is the anterior continuation of the caudal parvocellular preoptic nucleus and is ventral to the telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "anterior parvocellular preoptic nucleus" EXACT [] synonym: "rostral parvocellular preoptic nuclei" EXACT PLURAL [] xref: TAO:0000426 xref: ZFIN:ZDB-ANAT-011113-351 is_a: ZFA:0001680 ! parvocellular preoptic nucleus (zebrafish) relationship: part_of UBERON:0001928 ! preoptic area [Term] id: ZFA:0000429 name: scaphium (zebrafish) namespace: zebrafish_anatomy def: "The scaphium is a modification of NA 1 in which the neural arch is reduced and fused to a cup-shaped ossification of membrane bone, the concha. The second Weberian ossicle, consisting of three parts: the concha, the ascending process, and the articulating process." [ZFIN:curator] xref: TAO:0000429 xref: ZFIN:ZDB-ANAT-011113-354 is_a: UBERON:0003861 ! neural arch relationship: part_of UBERON:0001092 ! cervical vertebra 1 relationship: part_of ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000430 name: secondary gustatory tract (zebrafish) namespace: zebrafish_anatomy def: "White matter connecting the primary gustatory nuclei to the secondary gustatory nucleus in the isthmus." [ZFIN:ZDB-PUB-961014-1280] xref: TAO:0000430 xref: ZFIN:ZDB-ANAT-011113-355 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0001033 ! gustatory system relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000437 name: stomach namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001076 ! intestinal bulb (zebrafish) xref: TAO:0002121 xref: ZFIN:ZDB-ANAT-011113-361 [Term] id: ZFA:0000438 name: parhypural (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000562 def: "Hemal arch and spine of preural centrum 1. The parhypural is defined as the most posterior hemal arch with an open canal through which the dorsal aorta passes." [ZFIN:ZDB-PUB-011008-1] synonym: "parhyural" EXACT [] synonym: "phy" EXACT [] xref: TAO:0000438 xref: ZFIN:ZDB-ANAT-011113-363 is_a: ZFA:0000859 ! specialized hemal arch and spine (zebrafish) relationship: part_of ZFA:0000557 ! preural 1 vertebra (zebrafish) relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0000439 name: superficial pelvic abductor (zebrafish) namespace: zebrafish_anatomy synonym: "superficial pelvic abductors" EXACT PLURAL [] xref: TAO:0000439 xref: ZFIN:ZDB-ANAT-011113-364 is_a: UBERON:0006845 ! abductor muscle relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000440 name: superior raphe nucleus (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain nucleus that is located in ventral rhombomeres 1-3 and gives rise to ascending fibers innervating most areas of the brain. Early in development, both the superior raphe nucleus emits rostrally and caudally directed projections. However, in the adult, the long projections of superior raphe nucleus restricted to anterior." [ZFIN:ZDB-PUB-081114-19] comment: May be homologous to the dorsal raphe nucleus of human mouse and rat. ZDB-PUB-081008-18. synonym: "anterior raphe nucleus" EXACT [] xref: TAO:0000440 xref: ZFIN:ZDB-ANAT-011113-365 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0004684 ! raphe nuclei [Term] id: ZFA:0000442 name: supraneural (zebrafish) namespace: zebrafish_anatomy def: "Supraneurals independent, median, elongate, rod-like cartilages or bones in the dorsal skeletogenous septum between the cranium and the dorsal fin. In actinopterygians, supraneurals develop from cartilages that are independent of the neural spine (Arratia et al., 2001)." [ZFIN:curator] synonym: "sn" EXACT [] xref: TAO:0000442 xref: ZFIN:ZDB-ANAT-011113-367 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000448 name: tertiary gustatory nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located ventral to the medial preglomerular nucleus in the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000448 xref: ZFIN:ZDB-ANAT-011113-372 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0001033 ! gustatory system relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000449 name: torus longitudinalis (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is a paired longitudinal eminence of granular cells that develops from the alar plate and is attached to the tegmentum in the medial tectal ventricle. The torus longitudinalis only occurs in ray finned fishes." [ZFIN:curator] synonym: "tori longitudinalis" EXACT PLURAL [] xref: TAO:0000449 xref: ZFIN:ZDB-ANAT-011113-373 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from ZFA:0001357 ! alar plate midbrain region (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0000451 name: upper oral valve (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue, located on the upper jaw that defines the caudal extent of the labial cavity. The oral valves control the flow of water into the mouth during routine respiration." [ZFIN:ZDB-PUB-060921-12] synonym: "breathing valve" RELATED [] synonym: "buccal valve" RELATED [] synonym: "maxillary valve " EXACT [] synonym: "upper internal lip" RELATED [ZFIN:ZDB-PUB-060921-12] synonym: "upper semilunar valve " EXACT [ZFIN:ZDB-PUB-060921-12] xref: TAO:0000451 xref: ZFIN:ZDB-ANAT-011113-375 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000695 ! labial cavity (zebrafish) [Term] id: ZFA:0000452 name: urohyal (zebrafish) namespace: zebrafish_anatomy def: "The urohyal is a median dermal bone that ossifies in the membrane between the paired sternohyoideus muscles ventral to the anterior end of copula 1. It is an unpaired ossification of the tendon of the sternohyoideos muscles in basal teleosts, and it is paired in catfishes (Arratia and Schultze, 1990)." [ZFIN:curator] xref: TAO:0000452 xref: ZFIN:ZDB-ANAT-011113-376 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011153 ! ventral hyoid arch skeleton [Term] id: ZFA:0000454 name: ventral accessory optic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the central pretectum and is ventromedial to the magnocellular superficial pretectal nucleus and the caudal pretectal nucleus. The ventral accessory optic nucleus is very large in zebrafish as compared to other cyprinids. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000454 xref: ZFIN:ZDB-ANAT-011113-378 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000183 ! central pretectum (zebrafish) [Term] id: ZFA:0000455 name: ventral flexor (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000455 xref: ZFIN:ZDB-ANAT-011113-379 is_a: UBERON:0000366 ! flexor muscle relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000456 name: ventral nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Periventricular nucleus which lies rostral to the anterior commissure of the ventral telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus ventralis" EXACT [] synonym: "ventral division of ventral telencephalic area" RELATED [] synonym: "ventral nucleus of V" EXACT [] xref: TAO:0000456 xref: ZFIN:ZDB-ANAT-011113-380 is_a: ZFA:0001666 ! periventricular nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000459 name: ventromedial thalamic nucleus (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000459 xref: ZFIN:ZDB-ANAT-011113-384 is_a: UBERON:0002776 ! ventral nuclear group relationship: part_of UBERON:0001900 ! subthalamus [Term] id: ZFA:0000460 name: Mauthner axon namespace: zebrafish_anatomy is_obsolete: true comment: Part of axon so domain of GO celular component. xref: ZFIN:ZDB-ANAT-011113-386 [Term] id: ZFA:0000461 name: Weberian ossicle (zebrafish) namespace: zebrafish_anatomy def: "A group of modified neural arches and spines of the first four vertebrae. These include, from anterior to posterior, the claustrum, scaphium, intercalarium, and tripus. The os suspensorium is considered to be a fifth ossicle." [ZFIN:ZDB-PUB-011008-1] synonym: "Weberian ossicles" EXACT PLURAL [] xref: TAO:0000461 xref: ZFIN:ZDB-ANAT-011113-387 is_a: UBERON:0000491 ! solid compound organ relationship: part_of ZFA:0001188 ! Weberian apparatus (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000462 name: abductor hyohyoid (zebrafish) namespace: zebrafish_anatomy def: "Hyoid muscle that originates at the first branchiostegal ray and inserts in the mesal aponeurosis, meeting its contralateral counterpart. The abductor hyohyoid is responsible for expansion of the branchiostegal membrane." [ZFIN:ZDB-PUB-080306-33] synonym: "abductors hyohyoid" EXACT PLURAL [] synonym: "hyohyoideus abductor" EXACT [] xref: TAO:0000462 xref: ZFIN:ZDB-ANAT-011113-388 is_a: UBERON:0005493 ! hyoid muscle [Term] id: ZFA:0000464 name: otic lateral line (zebrafish) namespace: zebrafish_anatomy def: "One of eight distinct lateral lines in the 4-day larva. A sensory system on the surface of the fish, consisting of small sensory patches (neuromasts) distributed in discrete lines over the body surface. The lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance. (See Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:curator] synonym: "otic lateral lines" EXACT PLURAL [] xref: TAO:0000464 xref: ZFIN:ZDB-ANAT-011113-39 is_a: UBERON:0010202 ! lateral line relationship: part_of ZFA:0001470 ! anterior lateral line (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000465 name: adductor operculi (zebrafish) namespace: zebrafish_anatomy def: "Is a hyoid muscle that moves the auditory capsules with the opercles." [ZFIN:ZDB-PUB-020703-2] synonym: "adductor operculae" EXACT PLURAL [] xref: TAO:0000465 xref: ZFIN:ZDB-ANAT-011113-390 is_a: UBERON:0005493 ! hyoid muscle relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0000466 name: anal depressor (zebrafish) namespace: zebrafish_anatomy synonym: "anal depressors" EXACT PLURAL [] xref: TAO:0000466 xref: ZFIN:ZDB-ANAT-011113-391 is_a: ZFA:0005270 ! depressor muscle (zebrafish) relationship: part_of ZFA:0001154 ! anal fin musculature (zebrafish) [Term] id: ZFA:0000468 name: anterior crista primordium (zebrafish) namespace: zebrafish_anatomy def: "Is an otic epithelium that will mature into the anterior crista." [ZFIN:curator] synonym: "anterior crista primordia" EXACT PLURAL [] xref: TAO:0000468 xref: ZFIN:ZDB-ANAT-011113-393 is_a: UBERON:0003249 ! epithelium of otic placode relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0001841 ! anterior semicircular canal relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000469 name: otic vesicle anterior protrusion (zebrafish) namespace: zebrafish_anatomy def: "Otic vesicle protrusion that is anteriorly located and gives rise to the pillar of the anterior semicircular canal." [ZFIN:ZDB-PUB-090330-11] synonym: "anterior semicircular canal primordia" RELATED PLURAL [] synonym: "anterior semicircular canal primordium" RELATED [] xref: TAO:0000469 xref: ZFIN:ZDB-ANAT-011113-394 is_a: ZFA:0001715 ! otic vesicle protrusion (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0000474 name: intercalar (zebrafish) namespace: zebrafish_anatomy def: "Small membrane bone homologous with a cartilage bone in more basal fishes (Patterson, 1977). Situated between the exoccipital and the pterotic at point of attachment of short ligament that originates on the ventral arm of the posttemporal." [ZFIN:curator] synonym: "opisthotic" EXACT [] xref: TAO:0000474 xref: ZFIN:ZDB-ANAT-011113-4 is_a: UBERON:0007842 ! membrane bone relationship: part_of UBERON:0003110 ! otic region [Term] id: ZFA:0000475 name: paraventricular organ (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located anterior to the caudal tuberal nucleus and contains tyrosine hydroxylase immunoreactive CSF contacting bipolar cells." [ZFIN:ZDB-PUB-001220-2] synonym: "PVO" EXACT [] xref: TAO:0000475 xref: ZFIN:ZDB-ANAT-011113-40 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000476 name: branchiostegal ray (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is a bilaterally paired and flattened element that supports the branchiostegal membrane. Three dermal branchiostegal rays form in the branchiostegal membrane ventral to the ceratohyal cartilage. The most posterior ray, branchiostegal 3, ossifies first (3.4 mm NL), and the most anterior ray, branchiostegal 1, ossifies last (5.5 mm NL). The most posterior two branchiostegals (2 and 3) insert externally on the ceratohyal; their anterodorsal tips are thickened triangles, and the rays are expanded. The bifurcated tip of the acinaciform anteriormost ray lies at the ventral margin of the ceratohyal." [ZFIN:curator] synonym: "branchiostegal rays" EXACT PLURAL [] xref: TAO:0000476 xref: ZFIN:ZDB-ANAT-011113-400 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011153 ! ventral hyoid arch skeleton [Term] id: ZFA:0000479 name: caudal mesencephalo-cerebellar tract (zebrafish) namespace: zebrafish_anatomy def: "Brainstem tract which carries cerebellar afferents from the dorsal tegmental nucleus and nucleus lateralis valvulae. Fuses with the rostral mesencephalo-cerebellar tract upon entering the cerebellum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "posterior mesencephalo-cerebellar tract" EXACT [] xref: TAO:0000479 xref: ZFIN:ZDB-ANAT-011113-403 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002298 ! brainstem relationship: part_of ZFA:0000643 ! rostral cerebellar tract (zebrafish) [Term] id: ZFA:0000480 name: caudal octavolateralis nucleus (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain nucleus which is part of the medulla oblongata and is a mechanoreceptive area along with the medial octavolateralis nucleus. It is smaller than the medial octavolateralis nucleus and is located lateral to the facial and vagal lobes of the medulla oblongata. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "nucleus octavolateralis caudalis" EXACT [] xref: TAO:0000480 xref: ZFIN:ZDB-ANAT-011113-404 is_a: ZFA:0000381 ! lateral line sensory nucleus (zebrafish) [Term] id: ZFA:0000481 name: caudal preglomerular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Preglomerular nucleus which is the most caudomedial of the preglomerular nuclei of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "nucleus praeglomerulosus caudalis" EXACT [] xref: TAO:0000481 xref: ZFIN:ZDB-ANAT-011113-405 is_a: ZFA:0001662 ! preglomerular nucleus (zebrafish) [Term] id: ZFA:0000482 name: caudal tuberal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located posterior to the paraventricular organ." [ZFIN:ZDB-PUB-001220-2] synonym: "posterior tuberal nucleus" EXACT [] xref: TAO:0000482 xref: ZFIN:ZDB-ANAT-011113-406 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0000484 name: celiacomesenteric artery (zebrafish) namespace: zebrafish_anatomy synonym: "coeliac-mesenteric artery" EXACT [] xref: TAO:0000484 xref: ZFIN:ZDB-ANAT-011113-408 is_a: UBERON:0001637 ! artery [Term] id: ZFA:0000485 name: central nucleus inferior lobe (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is part of the inferior lobe of the hypothalamus and consists of masses of large cells presumably migrated from the periventricular cell masses and receives signals from the secondary gustatory nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "central nucleus inferior lobes" EXACT PLURAL [] synonym: "central nucleus of the inferior lobe" EXACT [] synonym: "nucleus centralis lobi inferioris hypothalami" EXACT [] xref: TAO:0000485 xref: ZFIN:ZDB-ANAT-011113-409 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000165 ! inferior lobe (zebrafish) [Term] id: ZFA:0000487 name: central zone of dorsal telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is centrally located and is surrounded by the other four dorsal telencephalic regions. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area dorsalis telencephali, zona centralis" EXACT [] synonym: "central zone of D" EXACT [] xref: TAO:0000487 xref: ZFIN:ZDB-ANAT-011113-410 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000488 name: ceratobranchial bone (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone that is bilaterally paired and forms part of the ventral branchial arches. They articulate medially with the hypobranchials and laterally and dorsally with the epibranchials." [ZFIN:curator] synonym: "ceratobranchial bones" EXACT PLURAL [] xref: TAO:0000488 xref: ZFIN:ZDB-ANAT-011113-411 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000491 name: commissure of the caudal tuberculum (zebrafish) namespace: zebrafish_anatomy synonym: "commissura tuberculi posterioris" EXACT [] synonym: "commissure of the posterior tuberculum" EXACT [] xref: TAO:0000491 xref: ZFIN:ZDB-ANAT-011113-414 is_a: UBERON:0003931 ! diencephalic white matter [Term] id: ZFA:0000492 name: coracoradialis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000492 xref: ZFIN:ZDB-ANAT-011113-415 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0007269 ! pectoral appendage musculature [Term] id: ZFA:0000493 name: decussation of medial funicular nucleus (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000493 xref: ZFIN:ZDB-ANAT-011113-416 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000495 name: infraorbital 5 (zebrafish) namespace: zebrafish_anatomy def: "Plate like dermal bone with usually only one neuromast pore (Nelson, 1969). The last infraorbital bone in the series is referred to as the dermosphenotic (Nelson, 1969). In basal teleosts it is usually the sixth bone in the series but in zebrafish it is the fifth bone." [ZFIN:curator] synonym: "dermosphenotic" EXACT [] xref: TAO:0000495 xref: ZFIN:ZDB-ANAT-011113-418 is_a: ZFA:0000376 ! infraorbital (zebrafish) relationship: part_of ZFA:0001649 ! infraorbital series (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0000497 name: pelvic adductor profundus (zebrafish) namespace: zebrafish_anatomy synonym: "pelvic adductors profundus" EXACT PLURAL [] xref: TAO:0000497 xref: ZFIN:ZDB-ANAT-011113-42 is_a: UBERON:0011145 ! adductor muscle relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000498 name: dilator operculi (zebrafish) namespace: zebrafish_anatomy def: "Mandibular muscle that inserts along the dorsolateral faces of the opercles." [ZFIN:ZDB-PUB-020703-2] synonym: "dilators operculi" EXACT PLURAL [] xref: TAO:0000498 xref: ZFIN:ZDB-ANAT-011113-420 is_a: UBERON:0011648 ! jaw muscle relationship: develops_from ZFA:0007050 ! constrictor dorsalis (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0000499 name: dorsal arrector (zebrafish) namespace: zebrafish_anatomy def: "The muscle that acts as an antagonist to the arrector ventralis, reversing the direction of the leading edge of the pectoral fin to initiate the upstroke." [ZFIN:ZDB-PUB-050920-7] comment: Acts as antagonist to the ventral arrector ZDB-PUB-050920. synonym: "arrector dorsalis" EXACT [ZFIN:ZDB-PUB-050920-7] synonym: "dorsal arrectors" EXACT PLURAL [] xref: TAO:0000499 xref: ZFIN:ZDB-ANAT-011113-421 is_a: ZFA:0005275 ! arrector muscle (zebrafish) relationship: develops_from ZFA:0005650 ! primitive pectoral fin adductor (zebrafish) [Term] id: ZFA:0000500 name: dorsal erector (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin muscle that moves parts of the dorsal fin to an erect position. Antagonistic to dorsal depressor muscle." [ZFIN:curator] synonym: "dorsal erectors" EXACT PLURAL [] xref: TAO:0000500 xref: ZFIN:ZDB-ANAT-011113-422 is_a: ZFA:0005267 ! erector muscle (zebrafish) relationship: part_of ZFA:0000648 ! dorsal fin musculature (zebrafish) [Term] id: ZFA:0000502 name: dorsal motor nucleus trigeminal nerve (zebrafish) namespace: zebrafish_anatomy def: "Trigeminal motor nucleus that is located dorsal to the lateral longitudinal fascicle." [ISBN:3764351209] xref: TAO:0000502 xref: ZFIN:ZDB-ANAT-011113-424 is_a: UBERON:0002633 ! motor nucleus of trigeminal nerve [Term] id: ZFA:0000503 name: dorsal oblique branchial muscle (zebrafish) namespace: zebrafish_anatomy synonym: "dorsal oblique branchial muscles" EXACT PLURAL [] xref: TAO:0000503 xref: ZFIN:ZDB-ANAT-011113-425 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000504 name: dorsal retractor (zebrafish) namespace: zebrafish_anatomy synonym: "dorsal retractors" EXACT PLURAL [] xref: TAO:0000504 xref: ZFIN:ZDB-ANAT-011113-426 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000506 name: dorsal zone of dorsal telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is the most dorsally located part of the dorsal telencephalon and surrounds the central zone of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area dorsalis telencephali, zona dorsalis" EXACT [] synonym: "dorsal zone of D" EXACT [] synonym: "dorsal zone of dorsal telencephalic area" EXACT [] xref: TAO:0000506 xref: ZFIN:ZDB-ANAT-011113-428 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000507 name: epineural (zebrafish) namespace: zebrafish_anatomy def: "Some or all epineural bones ossify free from the neural arches in most teleosts. In some lower teleosts, e.g. Leptolepis, Hiodon, elopiforms and albuliforms, ossification proceeds from the attachment point of the ligament to the arch, and the epineural is a process of the neural arch. In many lower teleosts epineurals are forked proximally." [ZFIN:curator] synonym: "epineurals" EXACT PLURAL [] xref: TAO:0000507 xref: ZFIN:ZDB-ANAT-011113-429 is_a: ZFA:0000526 ! intermuscular bone (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000508 name: pelvic radial (zebrafish) namespace: zebrafish_anatomy def: "Internal skeletal supports of the pelvic fin." [TAO:curator] synonym: "pelvic radials" EXACT PLURAL [] xref: TAO:0000508 xref: ZFIN:ZDB-ANAT-011113-43 is_a: ZFA:0000271 ! radial (zebrafish) relationship: part_of UBERON:0010711 ! pelvic fin skeleton [Term] id: ZFA:0000510 name: external levatores (zebrafish) namespace: zebrafish_anatomy synonym: "external levators" EXACT PLURAL [] xref: TAO:0000510 xref: ZFIN:ZDB-ANAT-011113-432 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000512 name: facial lobe (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain nucleus that doesn't project to the spinal cord." [ZFIN:ZDB-PUB-970218-12] synonym: "LVII" EXACT [ZFIN:ZDB-PUB-961014-1280] synonym: "lobus facialis" EXACT [] synonym: "tuberculum impar of Herrick " RELATED [] xref: TAO:0000512 xref: ZFIN:ZDB-ANAT-011113-434 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000513 name: fast muscle cell somite 1 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 1" EXACT PLURAL [] xref: TAO:0000513 xref: ZFIN:ZDB-ANAT-011113-435 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000924 ! myotome somite 1 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000516 name: periventricular grey zone (zebrafish) namespace: zebrafish_anatomy synonym: "periventricular grey zones" EXACT PLURAL [] xref: TAO:0000516 xref: ZFIN:ZDB-ANAT-011113-44 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001945 ! superior colliculus [Term] id: ZFA:0000517 name: glossopharyngeal lobe (zebrafish) namespace: zebrafish_anatomy synonym: "lobus glossopharyngei" EXACT [] xref: TAO:0000517 xref: ZFIN:ZDB-ANAT-011113-440 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000520 name: horizontal commissure (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000520 xref: ZFIN:ZDB-ANAT-011113-443 is_a: UBERON:0003931 ! diencephalic white matter [Term] id: ZFA:0000522 name: inferior hyohyoid (zebrafish) namespace: zebrafish_anatomy def: "Hyoid muscle that originates at the anterior ceratohyals and inserts into the mesial aponeurosis, meeting its contralateral counterpart. The inferior hyohyoid is responsible for adduction of the hyoid arch." [ZFIN:ZDB-PUB-080306-33] synonym: "hyohyoideus inferior" RELATED [] synonym: "inferior hyohyoids" EXACT PLURAL [] xref: TAO:0000522 xref: ZFIN:ZDB-ANAT-011113-445 is_a: UBERON:0005493 ! hyoid muscle [Term] id: ZFA:0000523 name: inferior reticular formation (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000523 xref: ZFIN:ZDB-ANAT-011113-446 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of ZFA:0000542 ! medial column (zebrafish) [Term] id: ZFA:0000525 name: intercalarium (zebrafish) namespace: zebrafish_anatomy def: "Third Weberian ossicle. The intercalarium is a Y- or T-shaped modification of neural arch 2 in which an anteriolateral process (the manubrium) is embedded in the interossicular ligament; other parts include the ascending and articulating processes." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0000525 xref: ZFIN:ZDB-ANAT-011113-448 is_a: UBERON:0003861 ! neural arch relationship: part_of UBERON:0001093 ! cervical vertebra 2 relationship: part_of ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000526 name: intermuscular bone (zebrafish) namespace: zebrafish_anatomy def: "Axial bone which is a segmental ossification that forms in the myoseptum; found in teleosts fishes only." [ZFIN:curator] synonym: "intermuscular bones" EXACT PLURAL [] xref: TAO:0000526 xref: ZFIN:ZDB-ANAT-011113-449 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0002090 ! postcranial axial skeleton relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000527 name: pharyngobranchial bone (zebrafish) namespace: zebrafish_anatomy def: "The pharyngobranchials are the dorsalmost bones of the branchial arches located immediately dorsal and medial to the epibranchials." [ZFIN:curator] synonym: "infrapharyngobranchial" EXACT [] synonym: "pharyngobranchials" EXACT [] xref: TAO:0000527 xref: ZFIN:ZDB-ANAT-011113-45 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0000528 name: interradialis (zebrafish) namespace: zebrafish_anatomy synonym: "interradiali" EXACT PLURAL [] xref: TAO:0000528 xref: ZFIN:ZDB-ANAT-011113-450 is_a: UBERON:0001630 ! muscle organ relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000530 name: lapillus (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0001102 def: "Otolith part of utricle." [ZFIN:ZDB-PUB-020403-4] synonym: "immature anterior otolith" RELATED [] synonym: "utricular otolith" EXACT [] synonym: "utriculith" EXACT [] xref: TAO:0000530 xref: ZFIN:ZDB-ANAT-011113-452 is_a: UBERON:0002280 ! otolith relationship: part_of UBERON:0001853 ! utricle of membranous labyrinth relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000532 name: lateral valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Lateral division of the valvula cerebelli." [ZFIN:curator] synonym: "lateral division" EXACT [] synonym: "valvula cerebelli, pars lateralis" EXACT [] xref: TAO:0000532 xref: ZFIN:ZDB-ANAT-011113-454 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0000534 name: lateral longitudinal fasciculus (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000198 def: "The lateral longitudinal fascicule is an ascending bundle of axons. The LLF contains fibers of the auditory and mechanosensory systems which originate in the primary sensory brainstem nuclei and terminate in the torus semicircularis. The LLF lies dorsal to the superior reticular formation, adjacent to the ventral rhombencephalic commissure. The LLF becomes displaced more laterally as it approaches the torus semicircularis. The LLF is homologous to the mammalian lateral lemniscus." [ZFIN:ZDB-PUB-961014-1280] synonym: "LLF" RELATED [] synonym: "lateral longitundinal fasciculus" EXACT [] xref: TAO:0000534 xref: ZFIN:ZDB-ANAT-011113-456 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000536 name: lateral zone of dorsal telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is laterally located and surrounds the central zone of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area dorsalis telencephali, zona lateralis" EXACT [] synonym: "lateral zone of D" EXACT [] synonym: "lateral zone of dorsal telencephalic area" EXACT [] xref: TAO:0000536 xref: ZFIN:ZDB-ANAT-011113-458 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000540 name: magnocellular octaval nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "magnocellular octaval nuclei" EXACT PLURAL [] xref: TAO:0000540 xref: ZFIN:ZDB-ANAT-011113-461 is_a: ZFA:0000401 ! octaval nerve sensory nucleus (zebrafish) [Term] id: ZFA:0000541 name: marginal blastomere (zebrafish) namespace: zebrafish_anatomy def: "Cells (incompletely cleaved before the YSL forms), located at the surface just at the rim of the blastodisc, external to the deep blastomeres." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim synonym: "marginal blastomeres" EXACT PLURAL [] xref: TAO:0000541 xref: ZFIN:ZDB-ANAT-011113-462 is_a: ZFA:0000093 ! blastomere (zebrafish) relationship: end ZFS:0000015 ! Blastula:Dome relationship: start ZFS:0000005 ! Cleavage:16-cell [Term] id: ZFA:0000542 name: medial column (zebrafish) namespace: zebrafish_anatomy synonym: "medial column of the reticular formation" EXACT [] synonym: "medial columns" EXACT PLURAL [] xref: TAO:0000542 xref: ZFIN:ZDB-ANAT-011113-463 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002559 ! medullary reticular formation [Term] id: ZFA:0000544 name: medial pterygiophores anal fin namespace: zebrafish_anatomy is_obsolete: true replaced_by: ZFA:0001646 ! anal fin radial (zebrafish) xref: ZFIN:ZDB-ANAT-011113-465 [Term] id: ZFA:0000549 name: posttemporal (zebrafish) namespace: zebrafish_anatomy def: "Paired fin bone that attaches the pectoral girdle to the skull via two projections contacting the epiotic and intercalar bones, and carry the main laterosensory canal." [ZFIN:curator] synonym: "post-temporal " RELATED [] synonym: "postemporal" EXACT [] xref: TAO:0000549 xref: ZFIN:ZDB-ANAT-011113-47 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003110 ! otic region relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: ZFA:0000551 name: nucleus lateralis valvulae (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain nucleus in the tegmental region of rhombomere 1." [ZFIN:ZDB-PUB-100601-20] xref: TAO:0000551 xref: ZFIN:ZDB-ANAT-011113-471 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000555 name: opercular flap (zebrafish) namespace: zebrafish_anatomy synonym: "gill cover" EXACT [] synonym: "gill slit" RELATED [] synonym: "opercular apparatus" EXACT [] synonym: "operculum" EXACT [] xref: TAO:0000555 xref: ZFIN:ZDB-ANAT-011113-476 is_a: UBERON:0003102 ! surface structure [Term] id: ZFA:0000557 name: preural 1 vertebra (zebrafish) namespace: zebrafish_anatomy def: "Vertebra anterior to the urostyle; sometimes termed the 'penultimate' vertebra." [ZFIN:ZDB-PUB-011008-1] synonym: "penultimate vertebra" EXACT [] synonym: "preural centrum 1" EXACT [] synonym: "pu1" EXACT [] synonym: "second last vertebra" EXACT [] xref: TAO:0000557 xref: ZFIN:ZDB-ANAT-011113-479 is_a: ZFA:0000734 ! preural vertebra (zebrafish) relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0000558 name: posterior macula (zebrafish) namespace: zebrafish_anatomy def: "Macula that is located in the developing posterior inner ear, and gives rise to the macula neglecta and the macula saccule. (See Anatomical Atlas entry for sensory patches of the ear by T. Whitfield.)" [ZFIN:curator] synonym: "pm" EXACT [] synonym: "posterior sensory patch" EXACT [] synonym: "posteromedial macula" EXACT [] xref: TAO:0000558 xref: ZFIN:ZDB-ANAT-011113-48 is_a: UBERON:0000054 ! macula relationship: part_of ZFA:0001671 ! macula communis (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000564 name: pelvic abductor profundus (zebrafish) namespace: zebrafish_anatomy synonym: "pelvic abductors profundus" EXACT PLURAL [] xref: TAO:0000564 xref: ZFIN:ZDB-ANAT-011113-485 is_a: UBERON:0006845 ! abductor muscle relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000571 name: presumptive telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Embryonic structure that gives rise to the telencephalon." [ZFIN:curator] xref: TAO:0000571 xref: ZFIN:ZDB-ANAT-011113-497 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of UBERON:0007135 ! neural keel relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000573 name: internal cellular layer (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is the innermost layer of the olfactory bulb. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "stratum cellulare internum bulbi olfactorii" EXACT [] xref: TAO:0000573 xref: ZFIN:ZDB-ANAT-011113-5 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002264 ! olfactory bulb [Term] id: ZFA:0000576 name: pterotic (zebrafish) namespace: zebrafish_anatomy def: "Paired cartilage bone that contacts the autosphenotic anteriorly, the parietal dorsally, the prootic ventrally, and the epiotic and exoccipital posteriorly. The pterotic encloses the horizontal semicircular canal of the inner ear. The lower edge of the pterotic contributes to the hyomandibular facet." [ZFIN:curator] synonym: "autopterotic" EXACT [] xref: TAO:0000576 xref: ZFIN:ZDB-ANAT-011113-501 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0005410 ! cartilaginous otic capsule relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003110 ! otic region relationship: part_of UBERON:0003113 ! dermatocranium relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000579 name: rostral mesencephalo-cerebellar tract (zebrafish) namespace: zebrafish_anatomy def: "Brainstem tract which carries cerebellar afferents from the pretectum and runs medial to the lateral longitudinal fascicle for a distance before turning dorsally to traverse the nucleus lateralis valvulae. Fuses with the caudal mesencephalo-cerebellar tract upon entering the cerebellum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "anterior mesencephalo-cerebellar tract" EXACT [] xref: TAO:0000579 xref: ZFIN:ZDB-ANAT-011113-506 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0002298 ! brainstem relationship: part_of ZFA:0000643 ! rostral cerebellar tract (zebrafish) [Term] id: ZFA:0000580 name: rostral preglomerular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Preglomerular nucleus which is the most rostrolaterally located of the preglomerular nuclei of the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "anterior preglomerular nucleus" EXACT [] synonym: "nucleus praeglomerulosus anterior" EXACT [] xref: TAO:0000580 xref: ZFIN:ZDB-ANAT-011113-507 is_a: ZFA:0001662 ! preglomerular nucleus (zebrafish) [Term] id: ZFA:0000581 name: rostral tuberal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is the most anterior and lateral part of the ventral hypothalamic zone. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "anterior tuberal nucleus" EXACT [] synonym: "nucleus tuberis anterior" EXACT [] xref: TAO:0000581 xref: ZFIN:ZDB-ANAT-011113-508 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000707 ! ventral hypothalamic zone (zebrafish) [Term] id: ZFA:0000582 name: saccus dorsalis (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000582 xref: ZFIN:ZDB-ANAT-011113-509 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001899 ! epithalamus [Term] id: ZFA:0000585 name: kinethmoid cartilage (zebrafish) namespace: zebrafish_anatomy def: "Cranial cartilage which is a small median cartilage located between the premaxillae and anterodorsal to the ethmoid." [ZFIN:curator] xref: TAO:0000585 xref: ZFIN:ZDB-ANAT-070928-115 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: end ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000586 name: preural 2 vertebra (zebrafish) namespace: zebrafish_anatomy def: "Vertebra anterior to preural centrum 1; sometimes termed the 'antepenultimate' vertebra." [ZFIN:ZDB-PUB-011008-1] synonym: "antepenultimate vertebra" EXACT [] synonym: "preural centrum 2" EXACT [] synonym: "pu2" EXACT [] synonym: "third last vertebra" EXACT [] xref: TAO:0000586 xref: ZFIN:ZDB-ANAT-011113-514 is_a: ZFA:0000734 ! preural vertebra (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000587 name: sphenotic (zebrafish) namespace: zebrafish_anatomy def: "Paired cartilage bone that contacts the pterosphenoid anteriorly, the prootic ventrally, and the pterotic posteriorly. Roofed by the frontal bone anteriorly and the parietal bone posteriorly, the sphenotic bears a large anteriolateral process that borders the posterodorsal margin of the orbit. The lower edge of the sphenotic contributes to the hyomandibular facet." [ZFIN:curator] synonym: "autosphenotic" EXACT [] xref: TAO:0000587 xref: ZFIN:ZDB-ANAT-011113-515 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0006605 ! tectum synoticum relationship: develops_from ZFA:0001515 ! taenia marginalis posterior (zebrafish) relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003110 ! otic region [Term] id: ZFA:0000589 name: sulcus ypsiloniformis (zebrafish) namespace: zebrafish_anatomy def: "Anatomical line which separates the dorsal and medial zones of dorsal telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000589 xref: ZFIN:ZDB-ANAT-011113-518 is_a: UBERON:0006846 ! groove relationship: part_of UBERON:0000203 ! pallium [Term] id: ZFA:0000592 name: superficial pelvic adductor (zebrafish) namespace: zebrafish_anatomy synonym: "superficial pelvic adductors" EXACT PLURAL [] xref: TAO:0000592 xref: ZFIN:ZDB-ANAT-011113-520 is_a: UBERON:0011145 ! adductor muscle relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000593 name: superior reticular formation medial column (zebrafish) namespace: zebrafish_anatomy comment: There may be a cholinergic nucleus called the superior reticular nucleus rostral to the locus coeruleus, ZDB-PUB-040526-6. xref: TAO:0000593 xref: ZFIN:ZDB-ANAT-011113-521 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of ZFA:0000542 ! medial column (zebrafish) [Term] id: ZFA:0000594 name: supracleithrum (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that articulates dorsally with the posttemporal and ventrally with the cleithrum. Supracleithrum is part of the secondary pectoral girdle and commonly, carries part of the lateral line canal." [TAO:curator] synonym: "supracleithra" EXACT PLURAL [] xref: TAO:0000594 xref: ZFIN:ZDB-ANAT-011113-522 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: ZFA:0000596 name: supraorbital series namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001410 ! orbital region xref: ZFIN:ZDB-ANAT-011113-524 [Term] id: ZFA:0000599 name: torus semicircularis (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is part of the midbrain and develops from the alar plate. The torus semicircularis is located dorsal to the lateral tegmentum where it extends into the medial tectal ventricle and receives ascending sensory octavolateralis input." [ZFIN:curator] xref: TAO:0000599 xref: ZFIN:ZDB-ANAT-011113-527 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from ZFA:0001357 ! alar plate midbrain region (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0000601 name: pretectal periventricular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the synencephalon and the pretectum and is located periventricularly. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "periventricular pretectum" EXACT [] synonym: "pretectal periventricular nuclei" EXACT PLURAL [] xref: TAO:0000601 xref: ZFIN:ZDB-ANAT-011113-53 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0001944 ! pretectal region relationship: part_of ZFA:0000293 ! synencephalon (zebrafish) [Term] id: ZFA:0000602 name: uroneural (zebrafish) namespace: zebrafish_anatomy def: "Neural arch that extends along the dorso-lateral surface of the last preural centra and/or ural centra and the notochord (Arratia & Schultze, 1992). An uroneural develops as a modification of the neural arch of an ural centrum (Patterson, 1968). The series of uroneurals may include from 7 to 1 elements that are numbered from rostral to caudal. An uroneural is a paired membrane bone." [TAO:curator] synonym: "uroneurals" EXACT PLURAL [] xref: TAO:0000602 xref: ZFIN:ZDB-ANAT-011113-530 is_a: UBERON:0003861 ! neural arch relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0000603 name: valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is caudally attached to the rostral medulla oblongata and extends into the tectal ventricle. The valvula cerebelli consists of a granular and a molecular layer along with aggregations of large Purkinje and eurydendroid cells and is uniquely present in ray-finned fishes. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "valvula" RELATED [] synonym: "valvula cerebellum" EXACT PLURAL [] xref: TAO:0000603 xref: ZFIN:ZDB-ANAT-011113-531 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000606 name: ventral oblique branchial muscle (zebrafish) namespace: zebrafish_anatomy synonym: "ventral oblique branchial muscles" EXACT PLURAL [] xref: TAO:0000606 xref: ZFIN:ZDB-ANAT-011113-534 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000607 name: ventral rhombencephalic commissure (zebrafish) namespace: zebrafish_anatomy def: "Brainstem commissure that intersects the medial longitudinal fasciculus." [ISBN:3764351209] xref: TAO:0000607 xref: ZFIN:ZDB-ANAT-011113-535 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) [Term] id: ZFA:0000608 name: ventral transverse (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000608 xref: ZFIN:ZDB-ANAT-011113-536 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000609 name: ventrolateral nucleus (zebrafish) namespace: zebrafish_anatomy def: "Midbrain nucleus which is part of the torus semicircularis and is the target of ascending octavolateralis systems related to mechanoreception. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000609 xref: ZFIN:ZDB-ANAT-011113-537 is_a: UBERON:0009661 ! midbrain nucleus relationship: part_of ZFA:0000599 ! torus semicircularis (zebrafish) [Term] id: ZFA:0000610 name: vertical myoseptum (zebrafish) namespace: zebrafish_anatomy def: "Connective tissue partitions developing between the myotomes." [ZFIN:ZDB-PUB-961014-576] synonym: "transverse myoseptum" EXACT [] xref: TAO:0000610 xref: ZFIN:ZDB-ANAT-011113-538 is_a: ZFA:0001089 ! myoseptum (zebrafish) relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000611 name: visceromotor column (zebrafish) namespace: zebrafish_anatomy def: "Collection of the visceromotor nuclei and their fiber tracts in the medulla oblongata." [ISBN:3540560130] xref: TAO:0000611 xref: ZFIN:ZDB-ANAT-011113-539 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000612 name: protractor hyoidei (zebrafish) namespace: zebrafish_anatomy def: "Muscle located on ventral side of the head, linking the ventral hyoid arch to the dentary. Innervated by ramus mandibularis V and ramus hyoides VII." [TAO:curator] synonym: "protractor hyoideus" EXACT PLURAL [] synonym: "protractors hyoidei" EXACT PLURAL [] xref: TAO:0000612 xref: ZFIN:ZDB-ANAT-011113-54 is_a: UBERON:0005493 ! hyoid muscle [Term] id: ZFA:0000614 name: abductor profundus (zebrafish) namespace: zebrafish_anatomy def: "Abductor muscle that develops from the primitive pectoral fin abductor. It originates along the anterior skeletal flange of the pectoral girdle. The abductor profundus bundles insert onto the fin ray base proximal processes of all fin rays." [ZFIN:ZDB-PUB-050920-7] synonym: "abductors profundus" EXACT PLURAL [] xref: TAO:0000614 xref: ZFIN:ZDB-ANAT-011113-542 is_a: UBERON:0006845 ! abductor muscle relationship: develops_from ZFA:0005651 ! primitive pectoral fin abductor (zebrafish) relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000615 name: adductor arcus palatini (zebrafish) namespace: zebrafish_anatomy def: "Hyoid muscle that originates at the parasphenoid and inserts into the mesial sides of the hyomandibula, metapterygoid and entopterygoid. The Adductor arcus palatini is responsible for suspensorial adduction." [ZFIN:ZDB-PUB-080306-33] synonym: "adductors arcus palatini" EXACT PLURAL [] xref: TAO:0000615 xref: ZFIN:ZDB-ANAT-011113-543 is_a: UBERON:0005493 ! hyoid muscle [Term] id: ZFA:0000616 name: adductor profundus (zebrafish) namespace: zebrafish_anatomy def: "Small thin adductor muscle that is part of the pectoral fin. The origin of the adductor profundus lies along the developing anterior skeletal flange of the pectoral girdle. The adductor profundus develops from the primitive pectoral fin adductor." [ZFIN:ZDB-PUB-050920-7] synonym: "adductors profundus" EXACT PLURAL [] xref: TAO:0000616 xref: ZFIN:ZDB-ANAT-011113-544 is_a: UBERON:0011145 ! adductor muscle relationship: develops_from ZFA:0005650 ! primitive pectoral fin adductor (zebrafish) relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000617 name: anal erector (zebrafish) namespace: zebrafish_anatomy synonym: "anal erectors" EXACT PLURAL [] xref: TAO:0000617 xref: ZFIN:ZDB-ANAT-011113-545 is_a: ZFA:0005267 ! erector muscle (zebrafish) relationship: part_of ZFA:0001154 ! anal fin musculature (zebrafish) [Term] id: ZFA:0000618 name: ansulate commissure (zebrafish) namespace: zebrafish_anatomy def: "Brainstem commissure located immediately rostral to the interpeduncular nucleus. Many fibers in the tecto-bulbar tract cross the midline through the ansulate commissure. Referred to as the ventral tegmental commissure at embryonic stages, and is the only commissure to change names during development. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "Cans" EXACT [] synonym: "commissura ansulata" EXACT [] synonym: "ventral tegmental commissure" EXACT [] xref: TAO:0000618 xref: ZFIN:ZDB-ANAT-011113-546 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) [Term] id: ZFA:0000620 name: autopalatine (zebrafish) namespace: zebrafish_anatomy def: "The cartilaginous autopalatine forms from the anterior palatoquadrate arch. The first sign of ossification is visible at the anterior tip where it articulates with the maxilla (7.6 mm). In adults there are three processes at the anterior portion of the palatine: a ventromedial process, which forms the socket of the small ball- and- socket joint with the preethmoid; a dorsomedial process, which is connected by a short ligament to the ethmoid; and a lateral process, which extends toward the first infraorbital. Possession of a dorsomedial process, which abuts the ethmoid, is a unique feature shared by Cypriniformes (Fink and Fink, 1981). The palatine has two components, the autopalatine (derived from pars autopalatine) and the dermal component having teeth, the dermopalatine Arratia & Schultze 1990. The element in cypriniforms is only the cartilage part, so that it is more correct to name it autopalatine and not as palatine in general that it implies a fusion of elements (as in perciforms)." [ZFIN:curator] synonym: "palatine" EXACT [] xref: TAO:0000620 xref: ZFIN:ZDB-ANAT-011113-549 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0004752 ! palatoquadrate cartilage relationship: part_of UBERON:0011085 ! palatoquadrate arch relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0000622 name: barbel (zebrafish) namespace: zebrafish_anatomy def: "Surface structure which is a tactile structure found in the branchial region. Barbels are covered with epidermis rich in taste buds, and are innervated by branches of the cranial nerves." [ZFIN:curator] synonym: "barble" EXACT [] xref: TAO:0000622 xref: ZFIN:ZDB-ANAT-011113-550 is_a: UBERON:0003102 ! surface structure relationship: develops_from ZFA:0005119 ! barbel primordium (zebrafish) relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0002199 ! integument relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0000623 name: basipterygium (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone that is paired and supports the pelvic fin. The basipterygium has a posteromedial process called the ischiac process (Wietzman 1962)." [TAO:curator] synonym: "pelvic bone" EXACT [] xref: TAO:0000623 xref: ZFIN:ZDB-ANAT-011113-551 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from ZFA:0001539 ! basipterygium cartilage (zebrafish) relationship: part_of UBERON:0007832 ! pelvic girdle skeleton [Term] id: ZFA:0000624 name: brachium conjunctivum namespace: zebrafish_anatomy is_obsolete: true comment: Term is being obsoleted because it cannot be anatomically identified in zebrafish. From Neuroanatomy of the Zebrafish Brain ISBN:3764351209. xref: TAO:0000624 xref: ZFIN:ZDB-ANAT-011113-552 [Term] id: ZFA:0000626 name: bulbo-spinal tract (zebrafish) namespace: zebrafish_anatomy def: "Brainstem and spinal tract which emerges medial to the caudal intermediate reticular formation and runs caudally along the medial edge of the inferior reticular formation. It is displaced laterally and associates with other tracts in the dorsal part of the funiculus lateralis immediately prior to reaching the spinal cord. The bulbo-spinal tract carries descending spinal projections. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "tractus bulbospinalis" EXACT [] xref: TAO:0000626 xref: ZFIN:ZDB-ANAT-011113-554 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) [Term] id: ZFA:0000627 name: epihyal (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone that begins ossifying on the anterior surface of the posterior end of the ceratohyal cartilage near the site of articulation with the interhyal (5.8 mm). It joins the ceratohyal in a pad of persisting cartilage." [ZFIN:curator] synonym: "caudal ceratohyal" EXACT [] synonym: "posterior ceratohyal" EXACT [] xref: TAO:0000627 xref: ZFIN:ZDB-ANAT-011113-555 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0011610 ! ceratohyal cartilage relationship: part_of UBERON:0011153 ! ventral hyoid arch skeleton [Term] id: ZFA:0000628 name: caudal fin musculature (zebrafish) namespace: zebrafish_anatomy def: "Fin musculature that is part of the caudal fin." [ZFIN:ZDB-PUB-011008-1] xref: TAO:0000628 xref: ZFIN:ZDB-ANAT-011113-556 is_a: UBERON:0007271 ! limb/fin musculature relationship: part_of ZFA:0001058 ! caudal fin (zebrafish) relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0000629 name: caudal motor nucleus (zebrafish) namespace: zebrafish_anatomy def: "Abducens motor nucleus which is located at the level of the intermediate reticular formation." [ZFIN:curator] synonym: "nVIc" EXACT [] synonym: "nucleus nervi abducentis, pars caudalis" EXACT [] xref: TAO:0000629 xref: ZFIN:ZDB-ANAT-011113-557 is_a: UBERON:0002682 ! abducens nucleus [Term] id: ZFA:0000630 name: caudal parvocellular preoptic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the preoptic area and is the posterior continuation of the rostral parvocellular preoptic nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "caudal parvocellular preoptic nuclei" EXACT PLURAL [] synonym: "posterior parvocellular preoptic nucleus" EXACT [] xref: TAO:0000630 xref: ZFIN:ZDB-ANAT-011113-558 is_a: ZFA:0001680 ! parvocellular preoptic nucleus (zebrafish) relationship: part_of UBERON:0001928 ! preoptic area [Term] id: ZFA:0000633 name: caudal tuberculum (zebrafish) namespace: zebrafish_anatomy def: "Brain structure which is part of the diencephalon and is larger than the dorsal thalamus and ventral thalamus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "posterior tubercle" EXACT [] synonym: "posterior tuberculum" EXACT [] xref: TAO:0000633 xref: ZFIN:ZDB-ANAT-011113-560 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001894 ! diencephalon [Term] id: ZFA:0000634 name: caudal hypothalamic zone (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure which forms most of the median tuberal portion of the hypothalamus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: ZFIN:ZDB-ANAT-011113-561 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000392 ! median tuberal portion (zebrafish) [Term] id: ZFA:0000635 name: central pretectal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the central pretectum and is dorsal to the magnocellular superficial pretectal nucleus and the caudal pretectal nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "nucleus praetectalis centralis" EXACT [] xref: TAO:0000635 xref: ZFIN:ZDB-ANAT-011113-562 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000183 ! central pretectum (zebrafish) [Term] id: ZFA:0000636 name: cerebellar crest (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue composed of parallel fibers that originate at the granular eminence that overlays the rhombencephalic lateral line region. Also termed the molecular layer." [ISBN:3540560130] comment: Not sure how much of the molecular layer is cerebellar crest. synonym: "crista cerebellaris" EXACT [] synonym: "molecular layer" RELATED [] xref: TAO:0000636 xref: ZFIN:ZDB-ANAT-011113-563 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000291 ! medial octavolateralis nucleus (zebrafish) [Term] id: ZFA:0000637 name: claustrum cartilage (zebrafish) namespace: zebrafish_anatomy def: "Postcranial axial cartilage and Weberian ossicle that is located dorsal to the scaphium. The claustrum is bilaterally paired." [ZFIN:curator] xref: TAO:0000637 xref: ZFIN:ZDB-ANAT-011113-564 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) relationship: part_of ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000638 name: commissura rostral, pars dorsalis (zebrafish) namespace: zebrafish_anatomy def: "Anterior commissure which is located immediately ventral to the supracommissural nucleus of area ventralis telencephali. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "commissura anterior, pars dorsalis" EXACT [] xref: TAO:0000638 xref: ZFIN:ZDB-ANAT-011113-565 is_a: UBERON:0000935 ! anterior commissure [Term] id: ZFA:0000639 name: commissure of the secondary gustatory nucleus (zebrafish) namespace: zebrafish_anatomy def: "Cerebellar commissure that runs between the bulbo-spinal tract and the vestibulo-spinal tract." [ISBN:3764351209] synonym: "commissura nucleorum gustatoriorum secundariorum" EXACT [] synonym: "commissure of the secondary gustatory nuclei" RELATED [] xref: TAO:0000639 xref: ZFIN:ZDB-ANAT-011113-566 is_a: UBERON:0002317 ! white matter of cerebellum relationship: part_of UBERON:0001033 ! gustatory system [Term] id: ZFA:0000642 name: decussation of the medial octavolateralis nucleus (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000642 xref: ZFIN:ZDB-ANAT-011113-569 is_a: ZFA:0000318 ! brainstem and spinal white matter (zebrafish) relationship: part_of ZFA:0000381 ! lateral line sensory nucleus (zebrafish) [Term] id: ZFA:0000643 name: rostral cerebellar tract (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter comprised of the rostral mesencephalo-cerebellar and caudal mesencephalo-cerebellar tracts. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] synonym: "anterior cerebellar tract" EXACT [] synonym: "tractus cerebellaris anterior" EXACT [] xref: TAO:0000643 xref: ZFIN:ZDB-ANAT-011113-57 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0002037 ! cerebellum [Term] id: ZFA:0000644 name: dental plate namespace: zebrafish_anatomy is_obsolete: true comment: \"Dermal tooth plates are variable structures. During upper pharyngeal arch development in Astatotilapia elegans, dermal tooth plates are formed entirely of fused tooth pedicels (Huys-seune, 1983). However, in lower pharyngeals of the same species, teeth attach to a preexisting plate (Vandewalle et al., 1994). In other teleosts (e.g., cyprinid fifth ceratobranchials), there is no tooth plate per se, because tooth pedicels do not fuse to one another, but each fuses to the endochondral bone separately (see Gosline, 1985).\"nConsider ZFA:0001239 ceratobranchial 5 bone or ZFA:0000694 ceratobranchial 5 tooth synonym: "dental plates" EXACT PLURAL [] xref: TAO:0000644 xref: ZFIN:ZDB-ANAT-011113-570 [Term] id: ZFA:0000645 name: descending octaval nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "nucleus octavus descendens" EXACT [] xref: TAO:0000645 xref: ZFIN:ZDB-ANAT-011113-571 is_a: ZFA:0000401 ! octaval nerve sensory nucleus (zebrafish) [Term] id: ZFA:0000646 name: anal fin distal radial (zebrafish) namespace: zebrafish_anatomy def: "Rod-like internal median skeletal support bones of the anal fin, which articulate with the lepidotrichia distally." [ZFIN:curator] synonym: "anal fin distal radials" EXACT PLURAL [] xref: TAO:0000646 xref: ZFIN:ZDB-ANAT-011113-572 is_a: ZFA:0001646 ! anal fin radial (zebrafish) relationship: part_of ZFA:0001420 ! anal fin pterygiophore (zebrafish) [Term] id: ZFA:0000647 name: dorsal caudal thalamic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located in the caudal portion of the dorsal thalamus, dorsal to the central caudal thalamic nucleus." [ZFIN:curator] synonym: "dorsal posterior thalamic nucleus" EXACT [] synonym: "nucleus dorsalis posterior thalami" EXACT [] xref: TAO:0000647 xref: ZFIN:ZDB-ANAT-011113-573 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of UBERON:0004703 ! dorsal thalamus [Term] id: ZFA:0000648 name: dorsal fin musculature (zebrafish) namespace: zebrafish_anatomy def: "Musculature that is part of the dorsal fin." [ZFIN:curator] xref: TAO:0000648 xref: ZFIN:ZDB-ANAT-011113-574 is_a: UBERON:0007271 ! limb/fin musculature relationship: part_of UBERON:0003097 ! dorsal fin relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000651 name: dorsal pelvic arrector (zebrafish) namespace: zebrafish_anatomy synonym: "dorsal pelvic arrectors" EXACT PLURAL [] xref: TAO:0000651 xref: ZFIN:ZDB-ANAT-011113-577 is_a: ZFA:0005275 ! arrector muscle (zebrafish) relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000654 name: rostral motor nucleus (zebrafish) namespace: zebrafish_anatomy def: "Abducens motor nucleus which is located at the level of the superior reticular formation." [ZFIN:curator] xref: TAO:0000654 xref: ZFIN:ZDB-ANAT-011113-58 is_a: UBERON:0002682 ! abducens nucleus [Term] id: ZFA:0000655 name: dorsomedial optic tract (zebrafish) namespace: zebrafish_anatomy synonym: "tractus opticus dorsomedialis" EXACT [] xref: TAO:0000655 xref: ZFIN:ZDB-ANAT-011113-580 is_a: UBERON:0002316 ! white matter is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0001908 ! optic tract [Term] id: ZFA:0000657 name: entopterygoid (zebrafish) namespace: zebrafish_anatomy def: "The entopterygoid is a dermal bone that forms the anteroventral and ventral surface of the orbit. It develops as a long sliver of bone developing in the membrane dorsomedial to the palatoquadrate cartilage (3.8 mm NL)." [ZFIN:curator] synonym: "endopterygoid" EXACT [] synonym: "mesopterygoid" EXACT [] xref: TAO:0000657 xref: ZFIN:ZDB-ANAT-011113-582 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011085 ! palatoquadrate arch [Term] id: ZFA:0000658 name: epibranchial bone (zebrafish) namespace: zebrafish_anatomy def: "Pharyngeal arch bone that is bilaterally paired and articulates laterally with ceratobranchial cartilage or bone. Epibranchials are dorsal parts of the gill arches. Epibranchials 1-4 ossify in the epibranchial cartilages in a posterior to anterior progression. Gill rakers are present on the anterior and posterior edges of epibranchials 2 and 4 and the posterior edge of epibranchial 1. A reduced gill raker is present on the anterior margin of epibranchial 1 in some specimens." [ZFIN:curator] synonym: "epibranchial bones" EXACT PLURAL [] xref: TAO:0000658 xref: ZFIN:ZDB-ANAT-011113-583 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0000660 name: epural (zebrafish) namespace: zebrafish_anatomy def: "A free, modified neural spine of a preural or a ural vertebra that is placed between the last developed neural spine of a preural centrum and the dorsal axis (= anterior margin of first uroneural) of the caudal skeleton . An epural commonly supports one or more dorsal procurrent rays. An epural is an unpaired median perichondrally ossified bone." [TAO:curator] xref: TAO:0000660 xref: ZFIN:ZDB-ANAT-011113-585 is_a: UBERON:0001076 ! spinous process of vertebra relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0000662 name: external pharyngoclavicularis (zebrafish) namespace: zebrafish_anatomy synonym: "external pharyngoclavicularae" EXACT PLURAL [] xref: TAO:0000662 xref: ZFIN:ZDB-ANAT-011113-587 is_a: UBERON:0000933 ! pharyngeal muscle [Term] id: ZFA:0000663 name: extrascapula (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0001413 def: "Dermal canal-bearing bone placed at the dorso-posterior region of the skull roof, lying on the posterior region of the pterotic and parietals, or the pterotic and epioccipital, or on the pterotic, epioccipital and occipital bones." [TAO:curator] synonym: "supratemporal" EXACT [] synonym: "tabular" EXACT [] xref: TAO:0000663 xref: ZFIN:ZDB-ANAT-011113-588 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: ZFA:0000666 name: filamental artery (zebrafish) namespace: zebrafish_anatomy def: "Artery of the gill filament." [ZFIN:curator] synonym: "filamental arteries" EXACT PLURAL [] xref: TAO:0000666 xref: ZFIN:ZDB-ANAT-011113-590 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0007303 ! pharyngeal vasculature relationship: part_of UBERON:0009120 ! gill filament relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0000673 name: hypobranchial artery (zebrafish) namespace: zebrafish_anatomy def: "A pair of HA are connect one to each AA1. They run rostromedially until at the extreme rostro-ventral midline the two vessels merge and then run straight caudally along the ventral midline until they reach the cranial end of the ventral aorta (VA). There, the single HA passes just dorsal to the rostral end of the VA and then immediately splits again into a pair of HA. The paired HA continue caudally just to either side of the ventral midline. The HA provide blood supply to the ventral branchial region and the heart." [ZFIN:ZDB-PUB-010205-5] synonym: "HA" EXACT [] xref: TAO:0000673 xref: ZFIN:ZDB-ANAT-011113-599 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003118 ! aortic arch 1 relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0000674 name: interopercle (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is located anterior to the subopercle and lying below and slightly ventral to the horizontal limb of the preopercle. The interopercle is a paired bone." [ZFIN:curator] synonym: "interopercles" EXACT PLURAL [] xref: TAO:0000674 xref: ZFIN:ZDB-ANAT-011113-6 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0011152 ! dorsal hyoid arch skeleton relationship: part_of ZFA:0000555 ! opercular flap (zebrafish) [Term] id: ZFA:0000676 name: sagitta (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0001103 def: "Otolith that is part of the sacculus." [ZFIN:ZDB-PUB-020403-4] synonym: "immature posterior otolith" RELATED [] synonym: "saccular otolith" EXACT [] synonym: "sacculith" EXACT [] xref: TAO:0000676 xref: ZFIN:ZDB-ANAT-011113-61 is_a: UBERON:0002280 ! otolith relationship: part_of UBERON:0001854 ! saccule of membranous labyrinth relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000677 name: segmental intercostal artery (zebrafish) namespace: zebrafish_anatomy synonym: "segmental intercostal arteries" EXACT PLURAL [] xref: TAO:0000677 xref: ZFIN:ZDB-ANAT-011113-62 is_a: UBERON:0001637 ! artery [Term] id: ZFA:0000678 name: hair cell anterior macula (zebrafish) namespace: zebrafish_anatomy def: "Specialized neuronal receptor cells of the anterior macula. (Also see Anatomical Atlas entry for hair cells by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "sensory hair cells anterior macula" EXACT PLURAL [] xref: TAO:0000678 xref: ZFIN:ZDB-ANAT-011113-63 is_a: CL:0000855 ! sensory hair cell relationship: develops_from ZFA:0001098 ! immature hair cell anterior macula (zebrafish) relationship: part_of ZFA:0000168 ! anterior macula (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000685 name: superficial abductor (zebrafish) namespace: zebrafish_anatomy def: "Abductor muscle that develops from the primitive pectoral fin abductor. The abductor superficialis originates along the anterior skeletal flange of the pectoral girdle, the bundles insert to fin ray base distal processes." [ZFIN:ZDB-PUB-050920-7] synonym: "abductor superficialis" EXACT [ZFIN:ZDB-PUB-050920-7] synonym: "superficial abductors" EXACT PLURAL [] xref: TAO:0000685 xref: ZFIN:ZDB-ANAT-011113-70 is_a: UBERON:0006845 ! abductor muscle relationship: develops_from ZFA:0005651 ! primitive pectoral fin abductor (zebrafish) relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000687 name: superficial pretectum (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is the superficial part of the pretectum and is embedded in the optic tract." [ZFIN:curator] xref: TAO:0000687 xref: ZFIN:ZDB-ANAT-011113-72 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001944 ! pretectal region [Term] id: ZFA:0000689 name: supracommissural nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Periventricular nucleus which is contiguous with the caudal part of the dorsal nucleus of the ventral telencephalon and the postcommissural nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus supracommissuralis" EXACT [] synonym: "supracommissural nucleus of V" EXACT [] xref: TAO:0000689 xref: ZFIN:ZDB-ANAT-011113-74 is_a: ZFA:0001666 ! periventricular nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000690 name: supraoptic commissure (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000690 xref: ZFIN:ZDB-ANAT-011113-75 is_a: UBERON:0003931 ! diencephalic white matter [Term] id: ZFA:0000691 name: supraorbital bone (zebrafish) namespace: zebrafish_anatomy def: "Paired dermal bones that form the anterodorsal margin of the orbit." [ZFIN:curator] synonym: "supraorbital bones" EXACT PLURAL [] xref: TAO:0000691 xref: ZFIN:ZDB-ANAT-011113-76 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0001697 ! orbital region relationship: part_of UBERON:0003113 ! dermatocranium [Term] id: ZFA:0000692 name: symplectic (zebrafish) namespace: zebrafish_anatomy def: "The symplectic is an irregularly rod-shaped cartilage replacement bone articulating with the hyomandibular and quadrate." [ZFIN:curator] synonym: "symplectics" EXACT PLURAL [] xref: TAO:0000692 xref: ZFIN:ZDB-ANAT-011113-77 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0011607 ! hyomandibular cartilage relationship: part_of UBERON:0011152 ! dorsal hyoid arch skeleton [Term] id: ZFA:0000693 name: tangential nucleus (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000693 xref: ZFIN:ZDB-ANAT-011113-78 is_a: ZFA:0000401 ! octaval nerve sensory nucleus (zebrafish) [Term] id: ZFA:0000695 name: labial cavity (zebrafish) namespace: zebrafish_anatomy def: "The anatomical space located between the lips and the oral valves." [ZFIN:curator] synonym: "labial cavities" EXACT PLURAL [] xref: TAO:0000695 xref: ZFIN:ZDB-ANAT-011113-8 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0001007 ! digestive system [Term] id: ZFA:0000698 name: tripus (zebrafish) namespace: zebrafish_anatomy def: "The fourth Weberian ossicle. The tripus is a complex modification of the parapophysis and rib of the third vertebra. Anteriorly it attaches to the interosseus ligament and posteriorly it extends as a transformator process embedded in the tunica externa of the swim bladder." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0000698 xref: ZFIN:ZDB-ANAT-011113-82 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0007842 ! membrane bone relationship: part_of ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: part_of ZFA:0001169 ! vertebra 3 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000699 name: ural ossification namespace: zebrafish_anatomy is_obsolete: true comment: Ural ossification is a process not a structure, thus it belongs in GO biologyical process not ZFA. xref: ZFIN:ZDB-ANAT-011113-83 [Term] id: ZFA:0000701 name: ventral arrector (zebrafish) namespace: zebrafish_anatomy def: "Muscle that is important in controlling the leading edge of the pectoral fin in the juvenile zebrafish, particularly during the initiation of the downstroke." [ZFIN:ZDB-PUB-050920-7] comment: Acts as antagonist to the dorsal arrector. synonym: "arrector ventralis" EXACT [ZFIN:ZDB-PUB-050920-7] synonym: "ventral arrectors" EXACT PLURAL [] xref: TAO:0000701 xref: ZFIN:ZDB-ANAT-011113-85 is_a: ZFA:0005275 ! arrector muscle (zebrafish) relationship: develops_from ZFA:0005651 ! primitive pectoral fin abductor (zebrafish) relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0000703 name: ventral motor nucleus trigeminal nerve (zebrafish) namespace: zebrafish_anatomy def: "Trigeminal motor nucleus that is located at the ventrolateral edge of the lateral longitudinal fascicle." [ISBN:3764351209] xref: TAO:0000703 xref: ZFIN:ZDB-ANAT-011113-87 is_a: UBERON:0002633 ! motor nucleus of trigeminal nerve [Term] id: ZFA:0000704 name: ventral pelvic arrector (zebrafish) namespace: zebrafish_anatomy synonym: "ventral pelvic arrectors" EXACT PLURAL [] xref: TAO:0000704 xref: ZFIN:ZDB-ANAT-011113-88 is_a: ZFA:0005275 ! arrector muscle (zebrafish) relationship: part_of UBERON:0007270 ! pelvic appendage musculature [Term] id: ZFA:0000707 name: ventral hypothalamic zone (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure which is the ventral region of the median tuberal portion of the hypothalamus and is the most rostral region of the hypothalamus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000707 xref: ZFIN:ZDB-ANAT-011113-90 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of ZFA:0000392 ! median tuberal portion (zebrafish) [Term] id: ZFA:0000708 name: ventrolateral optic tract (zebrafish) namespace: zebrafish_anatomy synonym: "ventrolateral optic tracts" EXACT PLURAL [] xref: TAO:0000708 xref: ZFIN:ZDB-ANAT-011113-91 is_a: UBERON:0003931 ! diencephalic white matter relationship: part_of UBERON:0001908 ! optic tract [Term] id: ZFA:0000710 name: viscerosensory commissural nucleus of Cajal (zebrafish) namespace: zebrafish_anatomy synonym: "commissural nucleus of Cajal" EXACT [] synonym: "nucleus commissuralis Cajal" EXACT [] xref: TAO:0000710 xref: ZFIN:ZDB-ANAT-011113-93 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000711 name: DEL (zebrafish) namespace: zebrafish_anatomy def: "A multilayer of deep cells of fairly uniform thickness that forms during early epiboly (at dome stage; upon conversion of the blastodisc to the blastoderm); during gastrulation the DEL (deep cell layer) gives rise to the epiblast and hypoblast." [ZFIN:ZDB-PUB-961014-576] synonym: "DEL cells" EXACT PLURAL [] synonym: "deep cell layer" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000711 xref: ZFIN:ZDB-ANAT-011113-94 is_a: UBERON:0002050 ! embryonic structure relationship: develops_from ZFA:0001473 ! deep blastomere (zebrafish) relationship: end ZFS:0000022 ! Gastrula:Bud relationship: part_of UBERON:0004750 ! blastoderm relationship: start ZFS:0000016 ! Blastula:30%-epiboly [Term] id: ZFA:0000712 name: I-YSL (zebrafish) namespace: zebrafish_anatomy def: "The portion of the YSL that lies deep to the blastoderm during epiboly." [ZFIN:ZDB-PUB-961014-576] synonym: "internal yolk syncytial layer" EXACT [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000712 xref: ZFIN:ZDB-ANAT-011113-95 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000030 ! Pharyngula:Prim-15 relationship: part_of ZFA:0000088 ! YSL (zebrafish) relationship: start ZFS:0000013 ! Blastula:Oblong [Term] id: ZFA:0000714 name: accessory pretectal nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the central pretectum and lies dorsolateral to the caudal pretectal nucleus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "APN" EXACT [] synonym: "nucleus praetectalis accessorius" EXACT [] xref: TAO:0000714 xref: ZFIN:ZDB-ANAT-011113-97 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000183 ! central pretectum (zebrafish) [Term] id: ZFA:0000715 name: adductor hyohyoid (zebrafish) namespace: zebrafish_anatomy def: "Hyoid muscle that originates at the opercle and subopercle and inserts into the branchiostegal rays. The adductor hyohyoid is responsible for constriction of the branchiostegal membrane." [ZFIN:ZDB-PUB-080306-33] synonym: "adductors hyohyoid" EXACT PLURAL [] synonym: "hyohyoidei adductores" EXACT [] xref: TAO:0000715 xref: ZFIN:ZDB-ANAT-011113-98 is_a: UBERON:0005493 ! hyoid muscle [Term] id: ZFA:0000716 name: afferent branchial artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that is part of the pharyngeal arches 3-5, and forms the afferent portion of a loop off of the aortic arch." [ZFIN:ZDB-PUB-010205-5] synonym: "ABA" EXACT [] xref: TAO:0000716 xref: ZFIN:ZDB-ANAT-011113-99 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0007303 ! pharyngeal vasculature relationship: part_of UBERON:0011150 ! pharyngeal arch derived gill [Term] id: ZFA:0000717 name: apical ectodermal ridge median fin fold (zebrafish) namespace: zebrafish_anatomy def: "Apical ectodermal ridge that is part of the median fin fold." [ZFIN:curator] xref: TAO:0000717 xref: ZFIN:ZDB-ANAT-020309-1 is_a: UBERON:0004356 ! apical ectodermal ridge relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of ZFA:0000040 ! median fin fold (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000718 name: epaxial region somite 27 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000718 xref: ZFIN:ZDB-ANAT-020309-10 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000931 ! myotome somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000719 name: slow muscle cell somite 21 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 21" EXACT PLURAL [] xref: TAO:0000719 xref: ZFIN:ZDB-ANAT-020309-100 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000929 ! myotome somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000720 name: slow muscle cell somite 24 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 24" EXACT PLURAL [] xref: TAO:0000720 xref: ZFIN:ZDB-ANAT-020309-101 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000930 ! myotome somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000721 name: slow muscle cell somite 27 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 27" EXACT PLURAL [] xref: TAO:0000721 xref: ZFIN:ZDB-ANAT-020309-102 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000931 ! myotome somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000722 name: slow muscle cell somite 3 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 3" EXACT PLURAL [] xref: TAO:0000722 xref: ZFIN:ZDB-ANAT-020309-103 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000932 ! myotome somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000723 name: slow muscle cell somite 5 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 5" EXACT PLURAL [] xref: TAO:0000723 xref: ZFIN:ZDB-ANAT-020309-104 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000933 ! myotome somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000724 name: slow muscle cell somite 8 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 8" EXACT PLURAL [] xref: TAO:0000724 xref: ZFIN:ZDB-ANAT-020309-105 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000934 ! myotome somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000725 name: somite 11 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000725 xref: ZFIN:ZDB-ANAT-020309-106 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000726 name: somite 14 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000726 xref: ZFIN:ZDB-ANAT-020309-107 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000727 name: somite 17 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000727 xref: ZFIN:ZDB-ANAT-020309-108 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000728 name: somite 2 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000728 xref: ZFIN:ZDB-ANAT-020309-109 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000729 name: epaxial region somite 3 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000729 xref: ZFIN:ZDB-ANAT-020309-11 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000932 ! myotome somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000730 name: somite 23 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000730 xref: ZFIN:ZDB-ANAT-020309-110 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000731 name: somite 27 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000731 xref: ZFIN:ZDB-ANAT-020309-111 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000732 name: somite 3 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000732 xref: ZFIN:ZDB-ANAT-020309-112 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000733 name: somite 7 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000733 xref: ZFIN:ZDB-ANAT-020309-113 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000734 name: preural vertebra (zebrafish) namespace: zebrafish_anatomy def: "Vertebra which are the three most posterior vertebra supporting the caudal fin." [ZFIN:curator] synonym: "caudal fin vertebra" EXACT [] synonym: "specialized centra/vertebrae" EXACT PLURAL [] xref: TAO:0000734 xref: ZFIN:ZDB-ANAT-020309-114 is_a: UBERON:0001095 ! caudal vertebra relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0000735 name: hemal postzygapophysis (zebrafish) namespace: zebrafish_anatomy def: "Paired, ventromedially directed processes on the posterior ends of the centra, ligamentously joined to the hemal postzygapophyses of the immediately posterior vertebra. The most posterior caudal vertebrae lack hemal postzygapophyses." [ZFIN:curator] synonym: "haemal postzygapophysis" EXACT [] synonym: "hemal postzygapophyses" EXACT PLURAL [] synonym: "hemal postzygopophysis" EXACT [] xref: TAO:0000735 xref: ZFIN:ZDB-ANAT-060331-4 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0006065 ! hemal arch [Term] id: ZFA:0000739 name: epaxial region somite 11 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000739 xref: ZFIN:ZDB-ANAT-020309-119 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000801 ! myotome somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000740 name: epaxial region somite 5 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000740 xref: ZFIN:ZDB-ANAT-020309-12 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000933 ! myotome somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000741 name: epaxial region somite 14 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000741 xref: ZFIN:ZDB-ANAT-020309-120 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000044 ! myotome somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000742 name: epaxial region somite 17 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000742 xref: ZFIN:ZDB-ANAT-020309-121 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001015 ! myotome somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000743 name: epaxial region somite 2 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000743 xref: ZFIN:ZDB-ANAT-020309-122 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001016 ! myotome somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000744 name: epaxial region somite 22 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000744 xref: ZFIN:ZDB-ANAT-020309-123 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001017 ! myotome somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000745 name: epaxial region somite 25 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000745 xref: ZFIN:ZDB-ANAT-020309-124 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001018 ! myotome somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000746 name: epaxial region somite 28 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000746 xref: ZFIN:ZDB-ANAT-020309-125 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001019 ! myotome somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000747 name: epaxial region somite 30 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000747 xref: ZFIN:ZDB-ANAT-020309-126 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001020 ! myotome somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000748 name: epaxial region somite 6 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000748 xref: ZFIN:ZDB-ANAT-020309-127 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001021 ! myotome somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000749 name: epaxial region somite 9 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000749 xref: ZFIN:ZDB-ANAT-020309-128 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001022 ! myotome somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000750 name: fast muscle cell somite 10 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 10" EXACT PLURAL [] xref: TAO:0000750 xref: ZFIN:ZDB-ANAT-020309-129 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001013 ! myotome somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000751 name: epaxial region somite 8 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000751 xref: ZFIN:ZDB-ANAT-020309-13 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000934 ! myotome somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000752 name: fast muscle cell somite 13 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 13" EXACT PLURAL [] xref: TAO:0000752 xref: ZFIN:ZDB-ANAT-020309-130 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001014 ! myotome somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000753 name: fast muscle cell somite 16 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 16" EXACT PLURAL [] xref: TAO:0000753 xref: ZFIN:ZDB-ANAT-020309-131 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000927 ! myotome somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000754 name: fast muscle cell somite 19 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 19" EXACT PLURAL [] xref: TAO:0000754 xref: ZFIN:ZDB-ANAT-020309-132 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000928 ! myotome somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000755 name: fast muscle cell somite 21 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 21" EXACT PLURAL [] xref: TAO:0000755 xref: ZFIN:ZDB-ANAT-020309-133 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000929 ! myotome somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000756 name: fast muscle cell somite 24 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 24" EXACT PLURAL [] xref: TAO:0000756 xref: ZFIN:ZDB-ANAT-020309-134 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000930 ! myotome somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000757 name: fast muscle cell somite 27 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 27" EXACT PLURAL [] xref: TAO:0000757 xref: ZFIN:ZDB-ANAT-020309-135 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000931 ! myotome somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000758 name: fast muscle cell somite 3 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 3" EXACT PLURAL [] xref: TAO:0000758 xref: ZFIN:ZDB-ANAT-020309-136 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000932 ! myotome somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000759 name: fast muscle cell somite 5 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 5" EXACT PLURAL [] xref: TAO:0000759 xref: ZFIN:ZDB-ANAT-020309-137 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000933 ! myotome somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000760 name: fast muscle cell somite 8 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 8" EXACT PLURAL [] xref: TAO:0000760 xref: ZFIN:ZDB-ANAT-020309-138 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000934 ! myotome somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000766 name: granular layer valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is part of the valvula cerebelli and consists largely of axons and dendrites." [ZFIN:curator] xref: TAO:0000766 xref: ZFIN:ZDB-ANAT-020309-143 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0000767 name: hypaxial region somite 11 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000767 xref: ZFIN:ZDB-ANAT-020309-144 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000801 ! myotome somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000768 name: hypaxial region somite 14 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000768 xref: ZFIN:ZDB-ANAT-020309-145 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000044 ! myotome somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000769 name: hypaxial region somite 17 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000769 xref: ZFIN:ZDB-ANAT-020309-146 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001015 ! myotome somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000770 name: hypaxial region somite 2 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000770 xref: ZFIN:ZDB-ANAT-020309-147 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001016 ! myotome somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000771 name: hypaxial region somite 22 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000771 xref: ZFIN:ZDB-ANAT-020309-148 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001017 ! myotome somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000772 name: hypaxial region somite 25 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000772 xref: ZFIN:ZDB-ANAT-020309-149 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001018 ! myotome somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000773 name: fast muscle cell somite 12 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 12" EXACT PLURAL [] xref: TAO:0000773 xref: ZFIN:ZDB-ANAT-020309-15 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000926 ! myotome somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000774 name: hypaxial region somite 28 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000774 xref: ZFIN:ZDB-ANAT-020309-150 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001019 ! myotome somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000775 name: hypaxial region somite 30 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000775 xref: ZFIN:ZDB-ANAT-020309-151 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001020 ! myotome somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000776 name: hypaxial region somite 6 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000776 xref: ZFIN:ZDB-ANAT-020309-152 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001021 ! myotome somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000777 name: hypaxial region somite 9 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000777 xref: ZFIN:ZDB-ANAT-020309-153 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001022 ! myotome somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000779 name: lateral forebrain bundle telencephalon (zebrafish) namespace: zebrafish_anatomy synonym: "lateral forebrain bundles telencephalon" EXACT PLURAL [] xref: TAO:0000779 xref: ZFIN:ZDB-ANAT-020309-155 is_a: UBERON:0011299 ! white matter of telencephalon relationship: part_of ZFA:0007012 ! lateral forebrain bundle (zebrafish) [Term] id: ZFA:0000784 name: fast muscle cell somite 15 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 15" EXACT PLURAL [] xref: TAO:0000784 xref: ZFIN:ZDB-ANAT-020309-16 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000802 ! myotome somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000788 name: mesenchyme dorsal fin (zebrafish) namespace: zebrafish_anatomy def: "Mesenchyme part of dorsal fin." [ZFIN:curator] xref: TAO:0000788 xref: ZFIN:ZDB-ANAT-020309-163 is_a: UBERON:0003104 ! mesenchyme relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0003097 ! dorsal fin relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000790 name: muscle pioneer somite 10 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 10" EXACT PLURAL [] xref: TAO:0000790 xref: ZFIN:ZDB-ANAT-020309-165 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001047 ! slow muscle cell somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000791 name: muscle pioneer somite 13 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 13" EXACT PLURAL [] xref: TAO:0000791 xref: ZFIN:ZDB-ANAT-020309-166 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001048 ! slow muscle cell somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000792 name: muscle pioneer somite 16 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 16" EXACT PLURAL [] xref: TAO:0000792 xref: ZFIN:ZDB-ANAT-020309-167 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001049 ! slow muscle cell somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000793 name: muscle pioneer somite 19 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 19" EXACT PLURAL [] xref: TAO:0000793 xref: ZFIN:ZDB-ANAT-020309-168 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001050 ! slow muscle cell somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000794 name: muscle pioneer somite 22 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 22" EXACT PLURAL [] xref: TAO:0000794 xref: ZFIN:ZDB-ANAT-020309-169 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000844 ! slow muscle cell somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000795 name: fast muscle cell somite 18 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 18" EXACT PLURAL [] xref: TAO:0000795 xref: ZFIN:ZDB-ANAT-020309-17 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000803 ! myotome somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000796 name: muscle pioneer somite 25 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 25" EXACT PLURAL [] xref: TAO:0000796 xref: ZFIN:ZDB-ANAT-020309-170 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000845 ! slow muscle cell somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000797 name: muscle pioneer somite 28 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 28" EXACT PLURAL [] xref: TAO:0000797 xref: ZFIN:ZDB-ANAT-020309-171 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000846 ! slow muscle cell somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000798 name: muscle pioneer somite 30 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 30" EXACT PLURAL [] xref: TAO:0000798 xref: ZFIN:ZDB-ANAT-020309-172 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000847 ! slow muscle cell somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000799 name: muscle pioneer somite 6 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 6" EXACT PLURAL [] xref: TAO:0000799 xref: ZFIN:ZDB-ANAT-020309-173 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000848 ! slow muscle cell somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000800 name: muscle pioneer somite 9 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 9" EXACT PLURAL [] xref: TAO:0000800 xref: ZFIN:ZDB-ANAT-020309-174 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000850 ! slow muscle cell somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000801 name: myotome somite 11 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000801 xref: ZFIN:ZDB-ANAT-020309-175 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000725 ! somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000802 name: myotome somite 15 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000802 xref: ZFIN:ZDB-ANAT-020309-176 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000852 ! somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000803 name: myotome somite 18 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000803 xref: ZFIN:ZDB-ANAT-020309-177 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000853 ! somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000804 name: myotome somite 20 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000804 xref: ZFIN:ZDB-ANAT-020309-178 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000156 ! somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000805 name: myotome somite 23 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000805 xref: ZFIN:ZDB-ANAT-020309-179 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000730 ! somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000806 name: fast muscle cell somite 20 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 20" EXACT PLURAL [] xref: TAO:0000806 xref: ZFIN:ZDB-ANAT-020309-18 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000804 ! myotome somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000807 name: myotome somite 26 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000807 xref: ZFIN:ZDB-ANAT-020309-180 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000074 ! somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000808 name: myotome somite 29 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000808 xref: ZFIN:ZDB-ANAT-020309-181 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000981 ! somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000809 name: myotome somite 4 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000809 xref: ZFIN:ZDB-ANAT-020309-182 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000857 ! somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000810 name: myotome somite 7 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim xref: TAO:0000810 xref: ZFIN:ZDB-ANAT-020309-183 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000733 ! somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000813 name: infraorbital lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the infraorbital lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast infraorbital" EXACT [] synonym: "neuromasts infraorbital" EXACT PLURAL [] xref: TAO:0000813 xref: ZFIN:ZDB-ANAT-020309-186 is_a: UBERON:0008904 ! neuromast relationship: part_of UBERON:0003094 ! infraorbital lateral line relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000814 name: opercular lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the opercular lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast opercular" EXACT [] synonym: "neuromasts opercular" EXACT PLURAL [] xref: TAO:0000814 xref: ZFIN:ZDB-ANAT-020309-187 is_a: UBERON:0008904 ! neuromast relationship: part_of ZFA:0000424 ! opercular lateral line (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000815 name: nucleus of the medial longitudinal fasciculus medulla oblongata (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000815 xref: ZFIN:ZDB-ANAT-020309-188 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000817 name: fast muscle cell somite 23 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 23" EXACT PLURAL [] xref: TAO:0000817 xref: ZFIN:ZDB-ANAT-020309-19 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000805 ! myotome somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000819 name: postcommissural nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Periventricular nucleus which is contiguous with the supracommissural nucleus of the ventral telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus postcommissuralis" EXACT [] synonym: "postcommissural nucleus of V" EXACT [] xref: TAO:0000819 xref: ZFIN:ZDB-ANAT-020309-191 is_a: ZFA:0001666 ! periventricular nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0000820 name: presumptive neuron neural tube (zebrafish) namespace: zebrafish_anatomy comment: This term needs to be obsoleted. synonym: "presumptive neurons neural tube" EXACT PLURAL [] xref: TAO:0000820 xref: ZFIN:ZDB-ANAT-020309-192 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000027 ! Segmentation:20-25 somites relationship: part_of UBERON:0001049 ! neural tube relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000821 name: primary neuron hindbrain (zebrafish) namespace: zebrafish_anatomy synonym: "primary neurons hindbrain" EXACT PLURAL [] xref: TAO:0000821 xref: ZFIN:ZDB-ANAT-020309-195 is_a: CL:0000530 ! primary neuron relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000826 name: central nucleus torus semicircularis (zebrafish) namespace: zebrafish_anatomy def: "Midbrain nucleus which is part of the torus semicircularis and is the target of ascending octavolateralis systems related to audition. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "central nucleus of semicircular torus" EXACT [] synonym: "nucleus centralis tori semicircularis" EXACT [] xref: TAO:0000826 xref: ZFIN:ZDB-ANAT-020309-2 is_a: UBERON:0009661 ! midbrain nucleus relationship: part_of ZFA:0000599 ! torus semicircularis (zebrafish) [Term] id: ZFA:0000827 name: fast muscle cell somite 26 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 26" EXACT PLURAL [] xref: TAO:0000827 xref: ZFIN:ZDB-ANAT-020309-20 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000807 ! myotome somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000829 name: sclerotome somite 11 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000829 xref: ZFIN:ZDB-ANAT-020309-201 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000725 ! somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000830 name: sclerotome somite 14 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000830 xref: ZFIN:ZDB-ANAT-020309-202 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000726 ! somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000831 name: sclerotome somite 17 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000831 xref: ZFIN:ZDB-ANAT-020309-203 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000727 ! somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000832 name: sclerotome somite 2 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000832 xref: ZFIN:ZDB-ANAT-020309-204 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000728 ! somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000833 name: sclerotome somite 22 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000833 xref: ZFIN:ZDB-ANAT-020309-205 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000978 ! somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000834 name: sclerotome somite 25 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000834 xref: ZFIN:ZDB-ANAT-020309-206 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000980 ! somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000835 name: sclerotome somite 28 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000835 xref: ZFIN:ZDB-ANAT-020309-207 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000856 ! somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000836 name: sclerotome somite 30 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000836 xref: ZFIN:ZDB-ANAT-020309-208 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000157 ! somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000837 name: sclerotome somite 6 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000837 xref: ZFIN:ZDB-ANAT-020309-209 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000982 ! somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000838 name: fast muscle cell somite 29 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 29" EXACT PLURAL [] xref: TAO:0000838 xref: ZFIN:ZDB-ANAT-020309-21 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000808 ! myotome somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000839 name: sclerotome somite 9 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000839 xref: ZFIN:ZDB-ANAT-020309-210 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000983 ! somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000840 name: slow muscle cell somite 11 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 11" EXACT PLURAL [] xref: TAO:0000840 xref: ZFIN:ZDB-ANAT-020309-211 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000801 ! myotome somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000841 name: slow muscle cell somite 14 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 14" EXACT PLURAL [] xref: TAO:0000841 xref: ZFIN:ZDB-ANAT-020309-212 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000044 ! myotome somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000842 name: slow muscle cell somite 17 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 17" EXACT PLURAL [] xref: TAO:0000842 xref: ZFIN:ZDB-ANAT-020309-213 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001015 ! myotome somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000843 name: slow muscle cell somite 2 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 2" EXACT PLURAL [] xref: TAO:0000843 xref: ZFIN:ZDB-ANAT-020309-214 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001016 ! myotome somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000844 name: slow muscle cell somite 22 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 22" EXACT PLURAL [] xref: TAO:0000844 xref: ZFIN:ZDB-ANAT-020309-215 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001017 ! myotome somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000845 name: slow muscle cell somite 25 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 25" EXACT PLURAL [] xref: TAO:0000845 xref: ZFIN:ZDB-ANAT-020309-216 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001018 ! myotome somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000846 name: slow muscle cell somite 28 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 28" EXACT PLURAL [] xref: TAO:0000846 xref: ZFIN:ZDB-ANAT-020309-217 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001019 ! myotome somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000847 name: slow muscle cell somite 30 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 30" EXACT PLURAL [] xref: TAO:0000847 xref: ZFIN:ZDB-ANAT-020309-218 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001020 ! myotome somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000848 name: slow muscle cell somite 6 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 6" EXACT PLURAL [] xref: TAO:0000848 xref: ZFIN:ZDB-ANAT-020309-219 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001021 ! myotome somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000849 name: fast muscle cell somite 4 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 4" EXACT PLURAL [] xref: TAO:0000849 xref: ZFIN:ZDB-ANAT-020309-22 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000809 ! myotome somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000850 name: slow muscle cell somite 9 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 9" EXACT PLURAL [] xref: TAO:0000850 xref: ZFIN:ZDB-ANAT-020309-220 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001022 ! myotome somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000851 name: somite 12 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000851 xref: ZFIN:ZDB-ANAT-020309-221 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000852 name: somite 15 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000852 xref: ZFIN:ZDB-ANAT-020309-222 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000853 name: somite 18 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000853 xref: ZFIN:ZDB-ANAT-020309-223 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000854 name: somite 21 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000854 xref: ZFIN:ZDB-ANAT-020309-224 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000855 name: somite 24 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000855 xref: ZFIN:ZDB-ANAT-020309-225 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000856 name: somite 28 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000856 xref: ZFIN:ZDB-ANAT-020309-226 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000857 name: somite 4 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000857 xref: ZFIN:ZDB-ANAT-020309-227 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000858 name: somite 8 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000858 xref: ZFIN:ZDB-ANAT-020309-228 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000859 name: specialized hemal arch and spine (zebrafish) namespace: zebrafish_anatomy def: "Modified hemal arches and spines that support the caudal fin. In developing fish they articulate with preural 1, ural1 and ural2; in adults they articulate with the urostyle." [ZFIN:ZDB-PUB-031103-13] synonym: "ha(pu)" EXACT [] synonym: "hemal arch (preural)" EXACT [ZFIN:ZDB-PUB-011008-1] synonym: "specialized haemal arch and spine" EXACT [] synonym: "specialized hemal arches and spines" EXACT PLURAL [] xref: TAO:0000859 xref: ZFIN:ZDB-ANAT-020309-229 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000860 name: fast muscle cell somite 7 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 7" EXACT PLURAL [] xref: TAO:0000860 xref: ZFIN:ZDB-ANAT-020309-23 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000810 ! myotome somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000862 name: caudal fin skeleton (zebrafish) namespace: zebrafish_anatomy def: "Median fin skeleton supporting the caudal fin." [TAO:curator] xref: TAO:0000862 xref: ZFIN:ZDB-ANAT-020309-231 is_a: ZFA:0001123 ! axial fin skeleton (zebrafish) relationship: part_of ZFA:0001058 ! caudal fin (zebrafish) [Term] id: ZFA:0000864 name: epaxial region somite 1 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000864 xref: ZFIN:ZDB-ANAT-020309-233 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000924 ! myotome somite 1 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000865 name: epaxial region somite 12 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000865 xref: ZFIN:ZDB-ANAT-020309-234 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000926 ! myotome somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000866 name: epaxial region somite 15 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000866 xref: ZFIN:ZDB-ANAT-020309-235 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000802 ! myotome somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000867 name: epaxial region somite 18 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000867 xref: ZFIN:ZDB-ANAT-020309-236 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000803 ! myotome somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000868 name: epaxial region somite 20 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000868 xref: ZFIN:ZDB-ANAT-020309-237 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000804 ! myotome somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000869 name: epaxial region somite 23 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000869 xref: ZFIN:ZDB-ANAT-020309-238 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000805 ! myotome somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000870 name: epaxial region somite 26 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000870 xref: ZFIN:ZDB-ANAT-020309-239 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000807 ! myotome somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000872 name: epaxial region somite 29 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000872 xref: ZFIN:ZDB-ANAT-020309-240 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000808 ! myotome somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000873 name: epaxial region somite 4 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000873 xref: ZFIN:ZDB-ANAT-020309-241 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000809 ! myotome somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000874 name: epaxial region somite 7 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000874 xref: ZFIN:ZDB-ANAT-020309-242 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000810 ! myotome somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000876 name: fast muscle cell somite 11 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 11" EXACT PLURAL [] xref: TAO:0000876 xref: ZFIN:ZDB-ANAT-020309-244 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000801 ! myotome somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000877 name: fast muscle cell somite 14 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 14" EXACT PLURAL [] xref: TAO:0000877 xref: ZFIN:ZDB-ANAT-020309-245 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000044 ! myotome somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000878 name: fast muscle cell somite 17 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 17" EXACT PLURAL [] xref: TAO:0000878 xref: ZFIN:ZDB-ANAT-020309-246 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001015 ! myotome somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000879 name: fast muscle cell somite 2 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 2" EXACT PLURAL [] xref: TAO:0000879 xref: ZFIN:ZDB-ANAT-020309-247 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001016 ! myotome somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000880 name: fast muscle cell somite 22 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 22" EXACT PLURAL [] xref: TAO:0000880 xref: ZFIN:ZDB-ANAT-020309-248 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001017 ! myotome somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000881 name: fast muscle cell somite 25 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 25" EXACT PLURAL [] xref: TAO:0000881 xref: ZFIN:ZDB-ANAT-020309-249 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001018 ! myotome somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000883 name: fast muscle cell somite 28 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 28" EXACT PLURAL [] xref: TAO:0000883 xref: ZFIN:ZDB-ANAT-020309-250 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001019 ! myotome somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000884 name: fast muscle cell somite 30 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 30" EXACT PLURAL [] xref: TAO:0000884 xref: ZFIN:ZDB-ANAT-020309-251 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001020 ! myotome somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000885 name: fast muscle cell somite 6 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 6" EXACT PLURAL [] xref: TAO:0000885 xref: ZFIN:ZDB-ANAT-020309-252 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001021 ! myotome somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000886 name: fast muscle cell somite 9 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "fast muscle cells somite 9" EXACT PLURAL [] xref: TAO:0000886 xref: ZFIN:ZDB-ANAT-020309-253 is_a: CL:0000190 ! fast muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001022 ! myotome somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000887 name: floor plate neural rod (zebrafish) namespace: zebrafish_anatomy def: "Floor plate that is part of the neural rod." [ZFIN:curator] synonym: "floorplate neural rod" EXACT [] xref: TAO:0000887 xref: ZFIN:ZDB-ANAT-020309-254 is_a: UBERON:0000481 ! multi-tissue structure relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of UBERON:0003079 ! floor plate relationship: part_of UBERON:0005068 ! neural rod relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000891 name: hypaxial region somite 1 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000891 xref: ZFIN:ZDB-ANAT-020309-258 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000924 ! myotome somite 1 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000892 name: hypaxial region somite 12 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000892 xref: ZFIN:ZDB-ANAT-020309-259 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000926 ! myotome somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000894 name: hypaxial region somite 15 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000894 xref: ZFIN:ZDB-ANAT-020309-260 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000802 ! myotome somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000895 name: hypaxial region somite 18 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000895 xref: ZFIN:ZDB-ANAT-020309-261 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000803 ! myotome somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000896 name: hypaxial region somite 20 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000896 xref: ZFIN:ZDB-ANAT-020309-262 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000804 ! myotome somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000897 name: hypaxial region somite 23 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000897 xref: ZFIN:ZDB-ANAT-020309-263 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000805 ! myotome somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000898 name: hypaxial region somite 26 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000898 xref: ZFIN:ZDB-ANAT-020309-264 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000807 ! myotome somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000899 name: hypaxial region somite 29 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000899 xref: ZFIN:ZDB-ANAT-020309-265 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000808 ! myotome somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000900 name: hypaxial region somite 4 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000900 xref: ZFIN:ZDB-ANAT-020309-266 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000809 ! myotome somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000901 name: hypaxial region somite 7 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000901 xref: ZFIN:ZDB-ANAT-020309-267 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000810 ! myotome somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000902 name: hypural musculature (zebrafish) namespace: zebrafish_anatomy synonym: "hypural muscles" EXACT PLURAL [] xref: TAO:0000902 xref: ZFIN:ZDB-ANAT-020309-268 is_a: UBERON:0001630 ! muscle organ relationship: part_of ZFA:0000628 ! caudal fin musculature (zebrafish) [Term] id: ZFA:0000910 name: medial forebrain bundle telencephalon (zebrafish) namespace: zebrafish_anatomy synonym: "medial forebrain bundles telencephalon" EXACT PLURAL [] xref: TAO:0000910 xref: ZFIN:ZDB-ANAT-020309-275 is_a: UBERON:0011299 ! white matter of telencephalon relationship: part_of UBERON:0001910 ! medial forebrain bundle [Term] id: ZFA:0000911 name: medial pterygiophores dorsal fin namespace: zebrafish_anatomy is_obsolete: true replaced_by: ZFA:0001647 ! dorsal fin radial (zebrafish) xref: ZFIN:ZDB-ANAT-020309-276 [Term] id: ZFA:0000912 name: mesenchyme median fin fold (zebrafish) namespace: zebrafish_anatomy def: "Mesenchyme part of median fin fold." [ZFIN:curator] xref: TAO:0000912 xref: ZFIN:ZDB-ANAT-020309-278 is_a: UBERON:0003104 ! mesenchyme relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of ZFA:0000040 ! median fin fold (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0000913 name: molecular layer valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue which is part of the valvula cerebelli and contains neuronal cell bodies." [ZFIN:curator] xref: TAO:0000913 xref: ZFIN:ZDB-ANAT-020309-279 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0000915 name: muscle pioneer somite 11 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 11" EXACT PLURAL [] xref: TAO:0000915 xref: ZFIN:ZDB-ANAT-020309-280 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000840 ! slow muscle cell somite 11 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000916 name: muscle pioneer somite 14 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 14" EXACT PLURAL [] xref: TAO:0000916 xref: ZFIN:ZDB-ANAT-020309-281 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000841 ! slow muscle cell somite 14 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000917 name: muscle pioneer somite 17 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 17" EXACT PLURAL [] xref: TAO:0000917 xref: ZFIN:ZDB-ANAT-020309-282 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000842 ! slow muscle cell somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000918 name: muscle pioneer somite 20 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 20" EXACT PLURAL [] xref: TAO:0000918 xref: ZFIN:ZDB-ANAT-020309-283 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000967 ! slow muscle cell somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000919 name: muscle pioneer somite 23 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 23" EXACT PLURAL [] xref: TAO:0000919 xref: ZFIN:ZDB-ANAT-020309-284 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000969 ! slow muscle cell somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000920 name: muscle pioneer somite 26 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 26" EXACT PLURAL [] xref: TAO:0000920 xref: ZFIN:ZDB-ANAT-020309-285 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000970 ! slow muscle cell somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000921 name: muscle pioneer somite 29 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 29" EXACT PLURAL [] xref: TAO:0000921 xref: ZFIN:ZDB-ANAT-020309-286 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000971 ! slow muscle cell somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000922 name: muscle pioneer somite 4 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 4" EXACT PLURAL [] xref: TAO:0000922 xref: ZFIN:ZDB-ANAT-020309-287 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000972 ! slow muscle cell somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000923 name: muscle pioneer somite 7 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 7" EXACT PLURAL [] xref: TAO:0000923 xref: ZFIN:ZDB-ANAT-020309-288 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000973 ! slow muscle cell somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000924 name: myotome somite 1 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000924 xref: ZFIN:ZDB-ANAT-020309-289 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000072 ! somite 1 (zebrafish) relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000925 name: hypaxial region somite 10 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000925 xref: ZFIN:ZDB-ANAT-020309-29 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001013 ! myotome somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000926 name: myotome somite 12 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000926 xref: ZFIN:ZDB-ANAT-020309-290 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000851 ! somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000927 name: myotome somite 16 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000927 xref: ZFIN:ZDB-ANAT-020309-291 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000976 ! somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000928 name: myotome somite 19 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000928 xref: ZFIN:ZDB-ANAT-020309-292 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000977 ! somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000929 name: myotome somite 21 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000929 xref: ZFIN:ZDB-ANAT-020309-293 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000854 ! somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000930 name: myotome somite 24 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000930 xref: ZFIN:ZDB-ANAT-020309-294 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000855 ! somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000931 name: myotome somite 27 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000931 xref: ZFIN:ZDB-ANAT-020309-295 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000731 ! somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000932 name: myotome somite 3 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000932 xref: ZFIN:ZDB-ANAT-020309-296 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000732 ! somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000933 name: myotome somite 5 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000933 xref: ZFIN:ZDB-ANAT-020309-297 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000073 ! somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000934 name: myotome somite 8 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000934 xref: ZFIN:ZDB-ANAT-020309-298 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000858 ! somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000936 name: dorsal fin distal radial (zebrafish) namespace: zebrafish_anatomy def: "Rod-like internal median skeletal support bones of the dorsal fin, which articulate with the lepidotrichia distally." [ZFIN:curator] synonym: "dorsal fin distal radials" EXACT PLURAL [] xref: TAO:0000936 xref: ZFIN:ZDB-ANAT-020309-3 is_a: ZFA:0001647 ! dorsal fin radial (zebrafish) relationship: part_of ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000937 name: hypaxial region somite 13 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000937 xref: ZFIN:ZDB-ANAT-020309-30 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001014 ! myotome somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000939 name: middle lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the middle lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast middle" EXACT [] synonym: "neuromasts middle" EXACT PLURAL [] xref: TAO:0000939 xref: ZFIN:ZDB-ANAT-020309-301 is_a: UBERON:0008904 ! neuromast relationship: part_of UBERON:0003096 ! middle lateral line relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0000940 name: posterior lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the posterior lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.) " [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast posterior" EXACT [] synonym: "neuromasts posterior" EXACT PLURAL [] xref: TAO:0000940 xref: ZFIN:ZDB-ANAT-020309-302 is_a: UBERON:0008904 ! neuromast relationship: develops_from ZFA:0001157 ! posterior lateral line primordium (zebrafish) relationship: part_of UBERON:0006334 ! posterior lateral line relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0000941 name: nucleus of the medial longitudinal fasciculus synencephalon (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the synencephalon, is located adjacent to the caudal commissure, and extends axons into the medial longitudinal fasciculus. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0000941 xref: ZFIN:ZDB-ANAT-020309-303 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000293 ! synencephalon (zebrafish) [Term] id: ZFA:0000946 name: hypaxial region somite 16 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000946 xref: ZFIN:ZDB-ANAT-020309-31 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000927 ! myotome somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000947 name: dorsal fin proximal radial (zebrafish) namespace: zebrafish_anatomy def: "Rod-like internal median skeletal support bones of the dorsal fin, which articulate with the distal radials." [ZFIN:curator] synonym: "dorsal fin proximal radials" EXACT PLURAL [] xref: TAO:0000947 xref: ZFIN:ZDB-ANAT-020309-310 is_a: ZFA:0001647 ! dorsal fin radial (zebrafish) relationship: part_of ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0000952 name: sclerotome somite 1 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000952 xref: ZFIN:ZDB-ANAT-020309-315 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000072 ! somite 1 (zebrafish) relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0000953 name: sclerotome somite 12 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000953 xref: ZFIN:ZDB-ANAT-020309-316 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000851 ! somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000954 name: sclerotome somite 15 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000954 xref: ZFIN:ZDB-ANAT-020309-317 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000852 ! somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000955 name: sclerotome somite 18 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000955 xref: ZFIN:ZDB-ANAT-020309-318 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000853 ! somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000956 name: sclerotome somite 20 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000956 xref: ZFIN:ZDB-ANAT-020309-319 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000156 ! somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000957 name: hypaxial region somite 19 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000957 xref: ZFIN:ZDB-ANAT-020309-32 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000928 ! myotome somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000958 name: sclerotome somite 23 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000958 xref: ZFIN:ZDB-ANAT-020309-320 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000730 ! somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000959 name: sclerotome somite 26 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000959 xref: ZFIN:ZDB-ANAT-020309-321 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000074 ! somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000960 name: sclerotome somite 29 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000960 xref: ZFIN:ZDB-ANAT-020309-322 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000981 ! somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000961 name: sclerotome somite 4 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000961 xref: ZFIN:ZDB-ANAT-020309-323 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000857 ! somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000962 name: sclerotome somite 7 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000962 xref: ZFIN:ZDB-ANAT-020309-324 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000733 ! somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000963 name: slow muscle cell somite 1 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 1" EXACT PLURAL [] xref: TAO:0000963 xref: ZFIN:ZDB-ANAT-020309-325 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000924 ! myotome somite 1 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000964 name: slow muscle cell somite 12 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 12" EXACT PLURAL [] xref: TAO:0000964 xref: ZFIN:ZDB-ANAT-020309-326 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000926 ! myotome somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000965 name: slow muscle cell somite 15 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 15" EXACT PLURAL [] xref: TAO:0000965 xref: ZFIN:ZDB-ANAT-020309-327 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000802 ! myotome somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000966 name: slow muscle cell somite 18 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 18" EXACT PLURAL [] xref: TAO:0000966 xref: ZFIN:ZDB-ANAT-020309-328 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000803 ! myotome somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000967 name: slow muscle cell somite 20 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 20" EXACT PLURAL [] xref: TAO:0000967 xref: ZFIN:ZDB-ANAT-020309-329 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000804 ! myotome somite 20 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000968 name: hypaxial region somite 21 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000968 xref: ZFIN:ZDB-ANAT-020309-33 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000929 ! myotome somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000969 name: slow muscle cell somite 23 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 23" EXACT PLURAL [] xref: TAO:0000969 xref: ZFIN:ZDB-ANAT-020309-330 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000805 ! myotome somite 23 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000970 name: slow muscle cell somite 26 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 26" EXACT PLURAL [] xref: TAO:0000970 xref: ZFIN:ZDB-ANAT-020309-331 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000807 ! myotome somite 26 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000971 name: slow muscle cell somite 29 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 29" EXACT PLURAL [] xref: TAO:0000971 xref: ZFIN:ZDB-ANAT-020309-332 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000808 ! myotome somite 29 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000972 name: slow muscle cell somite 4 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 4" EXACT PLURAL [] xref: TAO:0000972 xref: ZFIN:ZDB-ANAT-020309-333 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000809 ! myotome somite 4 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000973 name: slow muscle cell somite 7 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 7" EXACT PLURAL [] xref: TAO:0000973 xref: ZFIN:ZDB-ANAT-020309-334 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000810 ! myotome somite 7 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000974 name: somite 10 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000974 xref: ZFIN:ZDB-ANAT-020309-335 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000975 name: somite 13 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000975 xref: ZFIN:ZDB-ANAT-020309-336 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000976 name: somite 16 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000976 xref: ZFIN:ZDB-ANAT-020309-337 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000977 name: somite 19 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000977 xref: ZFIN:ZDB-ANAT-020309-338 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0000978 name: somite 22 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000978 xref: ZFIN:ZDB-ANAT-020309-339 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000979 name: hypaxial region somite 24 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000979 xref: ZFIN:ZDB-ANAT-020309-34 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000930 ! myotome somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000980 name: somite 25 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000980 xref: ZFIN:ZDB-ANAT-020309-340 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0000981 name: somite 29 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000981 xref: ZFIN:ZDB-ANAT-020309-341 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0000982 name: somite 6 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000982 xref: ZFIN:ZDB-ANAT-020309-342 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000983 name: somite 9 (zebrafish) namespace: zebrafish_anatomy def: "Undifferentiated mesodermal component of early trunk or tail segment or metamere, derived from paraxial mesoderm; forms the myotome, sclerotome and perhaps dermatome." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000983 xref: ZFIN:ZDB-ANAT-020309-343 is_a: UBERON:0002329 ! somite relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000984 name: superior reticular formation tegmentum (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000984 xref: ZFIN:ZDB-ANAT-020309-344 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of UBERON:0001943 ! midbrain tegmentum [Term] id: ZFA:0000985 name: ventral rhombencephalic commissure medulla oblongata (zebrafish) namespace: zebrafish_anatomy xref: TAO:0000985 xref: ZFIN:ZDB-ANAT-020309-345 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0000986 name: hypaxial region somite 27 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000986 xref: ZFIN:ZDB-ANAT-020309-35 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000931 ! myotome somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0000987 name: hypaxial region somite 3 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000987 xref: ZFIN:ZDB-ANAT-020309-36 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000932 ! myotome somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000988 name: hypaxial region somite 5 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000988 xref: ZFIN:ZDB-ANAT-020309-37 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000933 ! myotome somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0000989 name: hypaxial region somite 8 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present ventral to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000989 xref: ZFIN:ZDB-ANAT-020309-38 is_a: UBERON:0003895 ! hypaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000934 ! myotome somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000991 name: epaxial region somite 10 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0000991 xref: ZFIN:ZDB-ANAT-020309-4 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001013 ! myotome somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000993 name: lateral wall neural rod (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue located at either side of the neural rod." [ZFIN:curator] xref: TAO:0000993 xref: ZFIN:ZDB-ANAT-020309-42 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of UBERON:0005068 ! neural rod relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0000997 name: medial funicular nucleus trigeminal nucleus (zebrafish) namespace: zebrafish_anatomy synonym: "medial funicular nucleus trigeminal nuclei" EXACT PLURAL [] xref: TAO:0000997 xref: ZFIN:ZDB-ANAT-020309-46 is_a: UBERON:0004132 ! trigeminal sensory nucleus [Term] id: ZFA:0001001 name: epaxial region somite 13 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001001 xref: ZFIN:ZDB-ANAT-020309-5 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001014 ! myotome somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001002 name: peripheral motor axons namespace: zebrafish_anatomy is_obsolete: true comment: Consider post-composing ZFA:0009052 motor neuron with GO:0030424 axon xref: TAO:0001002 xref: ZFIN:ZDB-ANAT-020309-50 [Term] id: ZFA:0001003 name: muscle pioneer somite 12 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 12" EXACT PLURAL [] xref: TAO:0001003 xref: ZFIN:ZDB-ANAT-020309-51 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000964 ! slow muscle cell somite 12 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001004 name: muscle pioneer somite 15 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 15" EXACT PLURAL [] xref: TAO:0001004 xref: ZFIN:ZDB-ANAT-020309-52 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000965 ! slow muscle cell somite 15 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001005 name: muscle pioneer somite 18 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 18" EXACT PLURAL [] xref: TAO:0001005 xref: ZFIN:ZDB-ANAT-020309-53 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000966 ! slow muscle cell somite 18 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001006 name: muscle pioneer somite 21 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 21" EXACT PLURAL [] xref: TAO:0001006 xref: ZFIN:ZDB-ANAT-020309-54 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000719 ! slow muscle cell somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001007 name: muscle pioneer somite 24 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 24" EXACT PLURAL [] xref: TAO:0001007 xref: ZFIN:ZDB-ANAT-020309-55 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000720 ! slow muscle cell somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001008 name: muscle pioneer somite 27 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 27" EXACT PLURAL [] xref: TAO:0001008 xref: ZFIN:ZDB-ANAT-020309-56 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000721 ! slow muscle cell somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001009 name: muscle pioneer somite 3 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 3" EXACT PLURAL [] xref: TAO:0001009 xref: ZFIN:ZDB-ANAT-020309-57 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000722 ! slow muscle cell somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001010 name: muscle pioneer somite 5 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 5" EXACT PLURAL [] xref: TAO:0001010 xref: ZFIN:ZDB-ANAT-020309-58 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000723 ! slow muscle cell somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001011 name: muscle pioneer somite 8 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers somite 8" EXACT PLURAL [] xref: TAO:0001011 xref: ZFIN:ZDB-ANAT-020309-59 is_a: ZFA:0001086 ! muscle pioneer (zebrafish) relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000724 ! slow muscle cell somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001012 name: epaxial region somite 16 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001012 xref: ZFIN:ZDB-ANAT-020309-6 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000927 ! myotome somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001013 name: myotome somite 10 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001013 xref: ZFIN:ZDB-ANAT-020309-60 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000974 ! somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001014 name: myotome somite 13 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001014 xref: ZFIN:ZDB-ANAT-020309-61 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000975 ! somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001015 name: myotome somite 17 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001015 xref: ZFIN:ZDB-ANAT-020309-62 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000727 ! somite 17 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001016 name: myotome somite 2 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001016 xref: ZFIN:ZDB-ANAT-020309-63 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000728 ! somite 2 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001017 name: myotome somite 22 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001017 xref: ZFIN:ZDB-ANAT-020309-64 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000978 ! somite 22 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001018 name: myotome somite 25 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001018 xref: ZFIN:ZDB-ANAT-020309-65 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000980 ! somite 25 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001019 name: myotome somite 28 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001019 xref: ZFIN:ZDB-ANAT-020309-66 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000856 ! somite 28 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001020 name: myotome somite 30 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001020 xref: ZFIN:ZDB-ANAT-020309-67 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000157 ! somite 30 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001021 name: myotome somite 6 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001021 xref: ZFIN:ZDB-ANAT-020309-68 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000982 ! somite 6 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001022 name: myotome somite 9 (zebrafish) namespace: zebrafish_anatomy def: "Portion of the somite giving rise to body wall muscle masses." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001022 xref: ZFIN:ZDB-ANAT-020309-69 is_a: UBERON:0003082 ! myotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000983 ! somite 9 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001023 name: epaxial region somite 19 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001023 xref: ZFIN:ZDB-ANAT-020309-7 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000928 ! myotome somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001025 name: occipital lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the occipital lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.) " [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast occipital" EXACT [] synonym: "neuromasts occipital" EXACT PLURAL [] xref: TAO:0001025 xref: ZFIN:ZDB-ANAT-020309-72 is_a: UBERON:0008904 ! neuromast relationship: part_of UBERON:0003093 ! occipital lateral line relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0001026 name: supraorbital lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the supraorbital lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast supraorbital" EXACT [] synonym: "neuromasts supraorbital" EXACT PLURAL [] xref: TAO:0001026 xref: ZFIN:ZDB-ANAT-020309-73 is_a: UBERON:0008904 ! neuromast relationship: part_of UBERON:0003090 ! supraorbital lateral line relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0001028 name: hypurapophysis (zebrafish) namespace: zebrafish_anatomy def: "The paired bony lateral extensions off the parhypural." [ZFIN:ZDB-PUB-011008-1] synonym: "hypurapophyses" EXACT PLURAL [] synonym: "parhypurapophysis" EXACT [] synonym: "parhypurapophysis process" EXACT [] xref: TAO:0001028 xref: ZFIN:ZDB-ANAT-020309-75 is_a: ZFA:0000859 ! specialized hemal arch and spine (zebrafish) relationship: part_of ZFA:0000438 ! parhypural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001030 name: epaxial region somite 21 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001030 xref: ZFIN:ZDB-ANAT-020309-8 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000929 ! myotome somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001036 name: sclerotome somite 10 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001036 xref: ZFIN:ZDB-ANAT-020309-86 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000974 ! somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001037 name: sclerotome somite 13 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001037 xref: ZFIN:ZDB-ANAT-020309-87 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000975 ! somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001038 name: sclerotome somite 16 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001038 xref: ZFIN:ZDB-ANAT-020309-88 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000976 ! somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001039 name: sclerotome somite 19 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001039 xref: ZFIN:ZDB-ANAT-020309-89 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000977 ! somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001040 name: epaxial region somite 24 (zebrafish) namespace: zebrafish_anatomy def: "Somite-derived body wall muscle present dorsal to the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001040 xref: ZFIN:ZDB-ANAT-020309-9 is_a: UBERON:0003900 ! epaxial myotome region relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000930 ! myotome somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001041 name: sclerotome somite 21 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001041 xref: ZFIN:ZDB-ANAT-020309-90 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000854 ! somite 21 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001042 name: sclerotome somite 24 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001042 xref: ZFIN:ZDB-ANAT-020309-91 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000855 ! somite 24 (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001043 name: sclerotome somite 27 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001043 xref: ZFIN:ZDB-ANAT-020309-92 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000731 ! somite 27 (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001044 name: sclerotome somite 3 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001044 xref: ZFIN:ZDB-ANAT-020309-93 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000732 ! somite 3 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001045 name: sclerotome somite 5 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001045 xref: ZFIN:ZDB-ANAT-020309-94 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000073 ! somite 5 (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001046 name: sclerotome somite 8 (zebrafish) namespace: zebrafish_anatomy def: "Medial ventral region of the somite that will form vertebral cartilages." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0001046 xref: ZFIN:ZDB-ANAT-020309-95 is_a: UBERON:0003089 ! sclerotome relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000858 ! somite 8 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001047 name: slow muscle cell somite 10 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 10" EXACT PLURAL [] xref: TAO:0001047 xref: ZFIN:ZDB-ANAT-020309-96 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001013 ! myotome somite 10 (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001048 name: slow muscle cell somite 13 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 13" EXACT PLURAL [] xref: TAO:0001048 xref: ZFIN:ZDB-ANAT-020309-97 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0001014 ! myotome somite 13 (zebrafish) relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001049 name: slow muscle cell somite 16 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 16" EXACT PLURAL [] xref: TAO:0001049 xref: ZFIN:ZDB-ANAT-020309-98 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000927 ! myotome somite 16 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001050 name: slow muscle cell somite 19 (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "slow muscle cells somite 19" EXACT PLURAL [] xref: TAO:0001050 xref: ZFIN:ZDB-ANAT-020309-99 is_a: CL:0000189 ! slow muscle cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of ZFA:0000928 ! myotome somite 19 (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001051 name: caudal division of the internal carotid artery (zebrafish) namespace: zebrafish_anatomy synonym: "CaDI" EXACT [] xref: TAO:0001051 xref: ZFIN:ZDB-ANAT-020702-1 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0001532 ! internal carotid artery relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001052 name: primordial hindbrain channel (zebrafish) namespace: zebrafish_anatomy def: "The paired vessels that run along the lateral walls of the hindbrain and drain into the anterior cardinal veins." [ZFIN:ZDB-PUB-010205-5] synonym: "PHBC" EXACT [] synonym: "medial head vein" EXACT [] xref: TAO:0001052 xref: ZFIN:ZDB-ANAT-020702-10 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001053 name: primitive internal carotid artery (zebrafish) namespace: zebrafish_anatomy synonym: "PICA" EXACT [] xref: TAO:0001053 xref: ZFIN:ZDB-ANAT-020702-11 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001054 name: lateral dorsal aorta (zebrafish) namespace: zebrafish_anatomy def: "Connect the outflow of the aortic arches to the dorsal aorta. The place where the lateral dorsal aorta fuse is called the radix of the aorta." [ZFIN:ZDB-PUB-010205-5] synonym: "LDA" EXACT [] xref: TAO:0001054 xref: ZFIN:ZDB-ANAT-020702-12 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001055 name: pronephric duct opening (zebrafish) namespace: zebrafish_anatomy def: "The juncture where the pronephric ducts empty into the cloaca." [ZFIN:curator] synonym: "pronephric duct openings" EXACT PLURAL [] xref: TAO:0001055 xref: ZFIN:ZDB-ANAT-020702-13 is_a: UBERON:0000464 ! anatomical space relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0003060 ! pronephric duct relationship: part_of UBERON:0012463 ! cloacal lumen relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001058 name: caudal fin (zebrafish) namespace: zebrafish_anatomy def: "Fin that is the most posterior median fin. It is composed of a complex of three modified centra and modified neural and hemal arches and spines." [ZFIN:ZDB-PUB-011008-1] synonym: "tail" EXACT [] synonym: "tail fin" EXACT [] xref: TAO:0001058 xref: ZFIN:ZDB-ANAT-020702-16 is_a: ZFA:0005597 ! median fin (zebrafish) relationship: develops_from ZFA:0001069 ! ventral fin fold (zebrafish) relationship: part_of UBERON:0007812 ! post-anal tail relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001059 name: cranial division of the internal carotid artery (zebrafish) namespace: zebrafish_anatomy synonym: "CrDI" EXACT [] synonym: "rostral division of the internal carotid artery" EXACT [] xref: TAO:0001059 xref: ZFIN:ZDB-ANAT-020702-17 is_a: UBERON:0001637 ! artery relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of UBERON:0001532 ! internal carotid artery relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001060 name: basidorsal (zebrafish) namespace: zebrafish_anatomy def: "Basidorsals are bilaterally paired cartilages on the dorsolateral side of the notochord which are replaced by ossified neural arches or dorsal arcocentra. In otophysan fishes, basidorsal 1, bd2, bd3, and bd4 give rise to parts of the Weberian apparatus." [ZFIN:curator] synonym: "arcualia" RELATED [] xref: TAO:0001060 xref: ZFIN:ZDB-ANAT-060331-5 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001062 name: primitive mesencephalic artery (zebrafish) namespace: zebrafish_anatomy def: "Branches dorsally from the cranial division of the internal carotid artery, then curves caudally along the dorsal medial wall of the eye capsule to drain into the PMBC just rostral to the midbrain hindbrain boundary." [ZFIN:curator] synonym: "PMsA" EXACT [] xref: TAO:0001062 xref: ZFIN:ZDB-ANAT-020702-2 is_a: UBERON:0001637 ! artery relationship: end ZFS:0000032 ! Pharyngula:High-pec relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001063 name: posterior caudal vein (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001063 xref: ZFIN:ZDB-ANAT-020702-20 is_a: UBERON:0001638 ! vein relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of UBERON:0010204 ! tail vasculature relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001065 name: lateral mesoderm (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001065 xref: ZFIN:ZDB-ANAT-020702-4 is_a: UBERON:0000926 ! mesoderm relationship: end ZFS:0000027 ! Segmentation:20-25 somites relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0001069 name: ventral fin fold (zebrafish) namespace: zebrafish_anatomy synonym: "anal fin fold" EXACT [] synonym: "tail fin fold" EXACT [] synonym: "ventral fin" EXACT [] xref: TAO:0001069 xref: ZFIN:ZDB-ANAT-020702-8 is_a: UBERON:0000481 ! multi-tissue structure relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of ZFA:0000040 ! median fin fold (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001073 name: axial vasculature (zebrafish) namespace: zebrafish_anatomy def: "Vasculature that runs along the rostral-caudal axis of the fish." [ZFIN:curator] xref: TAO:0001073 xref: ZFIN:ZDB-ANAT-030922-11 is_a: UBERON:0002049 ! vasculature relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001076 name: intestinal bulb (zebrafish) namespace: zebrafish_anatomy def: "This anteriormost portion of the intestine has the most digestive enzymes and the greatest epithelial surface area." [ZFIN:ZDB-PUB-050120-6] synonym: "anterior intestine" EXACT [] xref: TAO:0001076 xref: ZFIN:ZDB-ANAT-030922-14 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0000160 ! intestine relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0001086 name: muscle pioneer (zebrafish) namespace: zebrafish_anatomy subset: cell_slim ! cell_slim synonym: "muscle pioneers" EXACT PLURAL [] synonym: "non migratory adaxial cells" EXACT [] xref: TAO:0001086 xref: ZFIN:ZDB-ANAT-031211-14 is_a: CL:0000000 ! cell relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of CL:0000189 ! slow muscle cell relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001089 name: myoseptum (zebrafish) namespace: zebrafish_anatomy synonym: "myosepta" EXACT PLURAL [] xref: TAO:0001089 xref: ZFIN:ZDB-ANAT-031211-5 is_a: UBERON:0000476 ! acellular anatomical structure relationship: part_of UBERON:0003082 ! myotome relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0001093 name: unspecified (zebrafish) namespace: zebrafish_anatomy def: "Annotation with this anatomy term indicates that a structure was not specified by the author." [ZFIN:curator] xref: TAO:0001093 xref: ZFIN:ZDB-ANAT-041102-1 is_a: UBERON:0001062 ! anatomical entity [Term] id: ZFA:0001095 name: immature macula (zebrafish) namespace: zebrafish_anatomy def: "Is an otic sensory epithelium that will develop into the mature macula." [ZFIN:curator] synonym: "immature maculae" EXACT PLURAL [] synonym: "immature sensory patch" EXACT [] synonym: "immature sensory patches" EXACT PLURAL [] xref: TAO:0001095 xref: ZFIN:ZDB-ANAT-050228-10 is_a: ZFA:0007070 ! otic sensory epithelium (zebrafish) relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of UBERON:0003051 ! ear vesicle relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001096 name: immature anterior macula (zebrafish) namespace: zebrafish_anatomy def: "Is an otic sensory epithelium that will develop into the mature anterior macula." [ZFIN:curator] synonym: "immature anterior maculae" EXACT PLURAL [] xref: TAO:0001096 xref: ZFIN:ZDB-ANAT-050228-11 is_a: ZFA:0007070 ! otic sensory epithelium (zebrafish) relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of ZFA:0001095 ! immature macula (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001097 name: immature posterior macula (zebrafish) namespace: zebrafish_anatomy def: "Is an otic sensory epithelium that will develop into the mature posterior macula." [ZFIN:curator] synonym: "immature posterior maculae" EXACT PLURAL [] xref: TAO:0001097 xref: ZFIN:ZDB-ANAT-050228-12 is_a: ZFA:0007070 ! otic sensory epithelium (zebrafish) relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of ZFA:0001095 ! immature macula (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001098 name: immature hair cell anterior macula (zebrafish) namespace: zebrafish_anatomy synonym: "immature sensory hair cells anterior macula" EXACT PLURAL [] xref: TAO:0001098 xref: ZFIN:ZDB-ANAT-050228-13 is_a: CL:0000855 ! sensory hair cell relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of ZFA:0001096 ! immature anterior macula (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001099 name: immature hair cell posterior macula (zebrafish) namespace: zebrafish_anatomy synonym: "immature sensory hair cells posterior macula" EXACT PLURAL [] xref: TAO:0001099 xref: ZFIN:ZDB-ANAT-050228-14 is_a: CL:0000855 ! sensory hair cell relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of ZFA:0001097 ! immature posterior macula (zebrafish) relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001118 name: urogenital papilla (zebrafish) namespace: zebrafish_anatomy def: "A protuberance in front of the gential pore and behind the vent. Mature females have a well developed urogenital papillae whilst in mature males it is poorly developed." [ZFIN:ZDB-PUB-040526-4] synonym: "UGP" EXACT [] synonym: "anal papilla" EXACT [] synonym: "anal papillae" EXACT [] synonym: "genital papilla" EXACT [] synonym: "urogenital papillae" EXACT PLURAL [] xref: TAO:0001118 xref: ZFIN:ZDB-ANAT-050228-31 is_a: UBERON:0003102 ! surface structure relationship: part_of UBERON:0000990 ! reproductive system relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001123 name: axial fin skeleton (zebrafish) namespace: zebrafish_anatomy def: "Postcranial axial skeleton that is unpaired and located on the sagittal plane of the organism." [TAO:curator] synonym: "median fin skeleton" EXACT [] synonym: "unpaired fin skeleton" EXACT [] xref: TAO:0001123 xref: ZFIN:ZDB-ANAT-050228-36 is_a: UBERON:0002090 ! postcranial axial skeleton relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001124 name: dorsal fin skeleton (zebrafish) namespace: zebrafish_anatomy def: "Median fin skeleton located on the dorsal surface of the organism." [TAO:curator] xref: TAO:0001124 xref: ZFIN:ZDB-ANAT-050228-37 is_a: ZFA:0001123 ! axial fin skeleton (zebrafish) relationship: part_of UBERON:0003097 ! dorsal fin relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001125 name: organizer inducing center (zebrafish) namespace: zebrafish_anatomy def: "The dorsal marginal region of the YSL where maternal dorsal determinants localize. Participates in positioning the shield." [ZFIN:ZDB-PUB-991102-7] synonym: "Nieuwkoop center" EXACT [] xref: TAO:0001125 xref: ZFIN:ZDB-ANAT-050228-38 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000019 ! Gastrula:Shield relationship: part_of ZFA:0000088 ! YSL (zebrafish) relationship: start ZFS:0000012 ! Blastula:High [Term] id: ZFA:0001126 name: noninvoluting endocytic marginal cell cluster (zebrafish) namespace: zebrafish_anatomy def: "The NEM cell cluster lies in a superficial position of the dorsal blastoderm margin encompassing EVL cells and one or two layers of underlying deep cells. Unlike other marginal blastomeres, cells in this cluster do not participate in involution." [ZFIN:ZDB-PUB-970107-2] synonym: "NEM" EXACT [] synonym: "noninvoluting endocytic marginal cells" EXACT PLURAL [] xref: TAO:0001126 xref: ZFIN:ZDB-ANAT-050228-39 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000017 ! Gastrula:50%-epiboly relationship: part_of UBERON:0004879 ! marginal zone of embryo [Term] id: ZFA:0001129 name: pharyngeal pouches 2-6 (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001129 xref: ZFIN:ZDB-ANAT-050228-41 is_a: UBERON:0004117 ! pharyngeal pouch relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001137 name: ventral tooth row (zebrafish) namespace: zebrafish_anatomy def: "Tooth row that is the ventralmost row of teeth on ceratobranchial 5 bone." [ZFIN:curator] synonym: "ventral tooth rows" EXACT PLURAL [] xref: TAO:0001137 xref: ZFIN:ZDB-ANAT-050228-49 is_a: UBERON:0009678 ! tooth row relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001139 name: mediodorsal tooth row (zebrafish) namespace: zebrafish_anatomy def: "Tooth row that is the mediodorsal row of teeth on ceratobranchial 5 bone, located between the dorsal tooth row and ventral tooth row." [ZFIN:curator] synonym: "mediodorsal tooth rows" EXACT PLURAL [] xref: TAO:0001139 xref: ZFIN:ZDB-ANAT-050228-50 is_a: UBERON:0009678 ! tooth row [Term] id: ZFA:0001140 name: dorsal tooth row (zebrafish) namespace: zebrafish_anatomy def: "Tooth row that is the dorsalmost row of teeth on ceratobranchial 5 bone." [ZFIN:curator] synonym: "dorsal tooth rows" EXACT PLURAL [] xref: TAO:0001140 xref: ZFIN:ZDB-ANAT-050228-51 is_a: UBERON:0009678 ! tooth row [Term] id: ZFA:0001141 name: tooth 1V (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the anteriormost tooth in the ventral tooth row." [ZFIN:curator] xref: TAO:0001141 xref: ZFIN:ZDB-ANAT-050228-52 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001137 ! ventral tooth row (zebrafish) [Term] id: ZFA:0001142 name: tooth 5V (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the posteriormost tooth in the ventral tooth row." [ZFIN:curator] xref: TAO:0001142 xref: ZFIN:ZDB-ANAT-050228-53 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001137 ! ventral tooth row (zebrafish) relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0001143 name: tooth 4V (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is posterior to tooth 3V and anterior to tooth 5V in the ventral tooth row." [ZFIN:curator] xref: TAO:0001143 xref: ZFIN:ZDB-ANAT-050228-54 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001137 ! ventral tooth row (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001144 name: tooth 2V (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is posterior to tooth 1V and anterior to tooth 3V in the ventral tooth row." [ZFIN:curator] xref: TAO:0001144 xref: ZFIN:ZDB-ANAT-050228-55 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001137 ! ventral tooth row (zebrafish) [Term] id: ZFA:0001145 name: tooth 3V (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is posterior to tooth 2V and anterior to tooth 4V in the ventral tooth row." [ZFIN:curator] xref: TAO:0001145 xref: ZFIN:ZDB-ANAT-050228-56 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001137 ! ventral tooth row (zebrafish) relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0001146 name: tooth 1MD (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the anteriormost tooth in the mediodorsal tooth row." [ZFIN:curator] xref: TAO:0001146 xref: ZFIN:ZDB-ANAT-050228-57 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001139 ! mediodorsal tooth row (zebrafish) [Term] id: ZFA:0001147 name: tooth 2MD (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is posterior to tooth 1MD and anterior to tooth 3MD in the mediodorsal tooth row." [ZFIN:curator] xref: TAO:0001147 xref: ZFIN:ZDB-ANAT-050228-58 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001139 ! mediodorsal tooth row (zebrafish) [Term] id: ZFA:0001148 name: tooth 1D (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the anteriormost tooth in the dorsal tooth row." [ZFIN:curator] xref: TAO:0001148 xref: ZFIN:ZDB-ANAT-050228-59 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001140 ! dorsal tooth row (zebrafish) [Term] id: ZFA:0001150 name: tooth 2D (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the posteriormost tooth in the dorsal tooth row." [ZFIN:curator] xref: TAO:0001150 xref: ZFIN:ZDB-ANAT-050228-60 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001140 ! dorsal tooth row (zebrafish) [Term] id: ZFA:0001151 name: tooth 4MD (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is the posteriormost tooth in the mediodorsal tooth row." [ZFIN:curator] xref: TAO:0001151 xref: ZFIN:ZDB-ANAT-050228-61 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001139 ! mediodorsal tooth row (zebrafish) [Term] id: ZFA:0001152 name: tooth 3MD (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial 5 tooth which is posterior to tooth 2MD and anterior to tooth 4MD in the mediodorsal tooth row." [ZFIN:curator] xref: TAO:0001152 xref: ZFIN:ZDB-ANAT-050228-62 is_a: UBERON:0001091 ! calcareous tooth relationship: part_of ZFA:0001139 ! mediodorsal tooth row (zebrafish) [Term] id: ZFA:0001154 name: anal fin musculature (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001154 xref: ZFIN:ZDB-ANAT-050228-64 is_a: UBERON:0007271 ! limb/fin musculature relationship: part_of ZFA:0001162 ! anal fin (zebrafish) [Term] id: ZFA:0001156 name: posterior lateral line placode (zebrafish) namespace: zebrafish_anatomy def: "Dorsolateral placode that gives rise to the posterior lateral line." [ZFIN:curator] synonym: "posterior lateral line placodes" EXACT PLURAL [] xref: TAO:0001156 xref: ZFIN:ZDB-ANAT-050228-66 is_a: UBERON:0003067 ! dorsolateral placode relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: part_of ZFA:0001471 ! posterior lateral line system (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001157 name: posterior lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "A migrating group of cells originating from the posterior lateral line placode. The primordium deposits seven to nine neuromasts and interneuromasts between them during its posterior migration to the tail." [ZFIN:ZDB-PUB-010705-16] synonym: "posterior lateral line primordia" EXACT PLURAL [] xref: TAO:0001157 xref: ZFIN:ZDB-ANAT-050228-67 is_a: ZFA:0000228 ! lateral line primordium (zebrafish) relationship: develops_from ZFA:0001156 ! posterior lateral line placode (zebrafish) relationship: end ZFS:0000036 ! Larval:Day 4 relationship: part_of ZFA:0001471 ! posterior lateral line system (zebrafish) relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001160 name: adult namespace: zebrafish_anatomy is_obsolete: true consider: ZFS:0000044 ! Adult xref: ZFIN:ZDB-ANAT-050228-9 [Term] id: ZFA:0001162 name: anal fin (zebrafish) namespace: zebrafish_anatomy def: "Median fin that is located posterior to the anus." [TAO:curator] xref: TAO:0001162 xref: ZFIN:ZDB-ANAT-050420-1 is_a: ZFA:0005597 ! median fin (zebrafish) relationship: develops_from ZFA:0001069 ! ventral fin fold (zebrafish) relationship: part_of UBERON:0007812 ! post-anal tail [Term] id: ZFA:0001163 name: supraneural 7 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located between vertebra 6 and 7." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001163 xref: ZFIN:ZDB-ANAT-050420-10 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001164 name: supraneural 6 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located between vertebra 5 and 6." [ZFIN:ZDB-PUB-031103-13] synonym: "sn6" EXACT [] xref: TAO:0001164 xref: ZFIN:ZDB-ANAT-050420-11 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001165 name: supraneural 5 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located between vertebra 4 and 5." [ZDB:ZDB-PUB-031103-13] synonym: "sn5" EXACT [] xref: TAO:0001165 xref: ZFIN:ZDB-ANAT-050420-12 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001166 name: supraneural 9 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located between vertebra 8 and 9." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001166 xref: ZFIN:ZDB-ANAT-050420-13 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001169 name: vertebra 3 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 2." [TAO:curator] xref: TAO:0001169 xref: ZFIN:ZDB-ANAT-050420-16 is_a: ZFA:0001190 ! Weberian vertebra (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001170 name: vertebra 4 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 3." [TAO:curator] xref: TAO:0001170 xref: ZFIN:ZDB-ANAT-050420-17 is_a: ZFA:0001190 ! Weberian vertebra (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001171 name: os suspensorium (zebrafish) namespace: zebrafish_anatomy def: "Thin, rod-shaped, anteroventrally directed membrane bone that develops as a separate outgrowth from the cartilage parapophysis of the fourth vertebra; develops ventrally to curve around the anterior head of the swim bladder. It articulates with the tripus at the tripus-swim bladder connection. Often termed a fifth Weberian ossicle." [ZFIN:ZDB-PUB-031103-13] comment: The os suspensorium is similar in shape to a rib, but the other ribs in Danio develop as separate ossifications that grow toward and articulate with the parapophyses. xref: TAO:0001171 xref: ZFIN:ZDB-ANAT-050420-18 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0007842 ! membrane bone relationship: part_of ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: part_of ZFA:0001170 ! vertebra 4 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001172 name: roofing cartilage (zebrafish) namespace: zebrafish_anatomy def: "Cartilaginous larval structure dorsal to the four anterior-most vertebrae, which forms the connection between neural arches and supraneurals in the Weberian apparatus." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001172 xref: ZFIN:ZDB-ANAT-050420-19 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) relationship: end ZFS:0000041 ! Larval:Days 21-29 relationship: part_of ZFA:0001191 ! supraneural 2 (zebrafish) relationship: part_of ZFA:0001192 ! supraneural 3 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001179 name: epidermal superficial stratum (zebrafish) namespace: zebrafish_anatomy def: "The outer layer of the epidermis. The living cells form single cell layer, the outer surface of which is ornamented with microridges. Theseouter epidermal cells are not renewed periodically, but are individually replaced when dead." [ZFIN:ZDB-PUB-040726-12] xref: TAO:0001179 xref: ZFIN:ZDB-ANAT-050420-25 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003055 ! periderm relationship: part_of UBERON:0001003 ! epidermis relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001181 name: epidermal intermediate stratum (zebrafish) namespace: zebrafish_anatomy def: "The tissue which lies between the basal stratum and the superficial stratum. This layer is composed of a variable number of cell layers which contain mucous goblet cells, club cells and sensory cells. Most of the cells of this region are undifferentiated. They serve as a reservoir to replace dead cells in any of the epidermis regions." [ZFIN:ZDB-PUB-040726-12] xref: TAO:0001181 xref: ZFIN:ZDB-ANAT-050420-27 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001003 ! epidermis relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001183 name: dermal superficial region (zebrafish) namespace: zebrafish_anatomy def: "Outer portion of the dermis composed of a loose collagenous matrix housing numerous fibroblasts, nerves, some pigment cells, and scales. Scale development takes place in this layer of the dermis." [ZFIN:ZDB-PUB-040726-12] synonym: "stratum laxum" EXACT [] xref: TAO:0001183 xref: ZFIN:ZDB-ANAT-050420-29 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002067 ! dermis relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001186 name: collagenous dermal stroma (zebrafish) namespace: zebrafish_anatomy def: "Acellular anatomical structure that is a layer of collagen fibrils in the immature integument in a subepidermal space. At first, the fibrils are all oriented in the same direction, later they form the complex plywood-like structure that is characteristic of the dermal deep region." [ZFIN:ZDB-PUB-040726-12] synonym: "primary dermal stroma" EXACT [] xref: TAO:0001186 xref: ZFIN:ZDB-ANAT-050420-31 is_a: UBERON:0000476 ! acellular anatomical structure relationship: end ZFS:0000041 ! Larval:Days 21-29 relationship: part_of UBERON:0002067 ! dermis relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001188 name: Weberian apparatus (zebrafish) namespace: zebrafish_anatomy def: "The Weberian apparatus consists of the modified anteriormost four vertebrae and associated structures of otophysans which transduce sound or pressure waves from the tunica externa of the swim bladder to the inner ear (Alexander, 1962)." [ZFIN:curator] xref: TAO:0001188 xref: ZFIN:ZDB-ANAT-050420-4 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001130 ! vertebral column relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001190 name: Weberian vertebra (zebrafish) namespace: zebrafish_anatomy def: "The first four vertebrae, which are part of the Weberian apparatus." [ZFIN:curator] synonym: "Weberian vertebrae" EXACT PLURAL [] xref: TAO:0001190 xref: ZFIN:ZDB-ANAT-050420-6 is_a: UBERON:0011677 ! trunk vertebra relationship: part_of ZFA:0001188 ! Weberian apparatus (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001191 name: supraneural 2 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural 2 is an ovoid cartilage or cartilage replacement bone located above centrum 2. It forms an immovable joint with supraneural 3 and contributes to the neural complex roofing the neural canal." [ZFIN:curator] synonym: "small supraneural" EXACT [] synonym: "sn2" EXACT [] xref: TAO:0001191 xref: ZFIN:ZDB-ANAT-050420-7 is_a: ZFA:0000442 ! supraneural (zebrafish) relationship: part_of ZFA:0001363 ! neural complex (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001192 name: supraneural 3 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural 3 is an elongated cartilage or cartilage replacement bone above vertebrae 3 and 4, developmentally fusing with NA 3 and 4. A crest or blade of membrane bone forms from its dorsal surface." [ZFIN:curator] synonym: "large supraneural" EXACT [] synonym: "sn3" EXACT [] xref: TAO:0001192 xref: ZFIN:ZDB-ANAT-050420-8 is_a: ZFA:0000442 ! supraneural (zebrafish) relationship: part_of ZFA:0001363 ! neural complex (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001193 name: supraneural 8 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located between vertebra 7 and 8." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001193 xref: ZFIN:ZDB-ANAT-050420-9 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001196 name: pars tuberalis namespace: zebrafish_anatomy is_obsolete: true comment: This structure does not exist in Zebrafish. Consider proximal pars anterior ZFA:0005581. xref: TAO:0001196 xref: ZFIN:ZDB-ANAT-050711-11 [Term] id: ZFA:0001200 name: corpuscles of Stannius (zebrafish) namespace: zebrafish_anatomy def: "Islands of eosinic cells found on the lateroventral surface of the kidney. Function is thought to be that of the parathyroid gland in other vertebrates, which are lacking in fishes. These cells secrete hypocalcin (teleocalcin) to regulate calcium metabolism." [ZFIN:curator] xref: TAO:0001200 xref: ZFIN:ZDB-ANAT-050711-15 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0000080 ! mesonephros relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001201 name: ventral lateral mesoderm (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001201 xref: ZFIN:ZDB-ANAT-050711-16 is_a: UBERON:0000926 ! mesoderm relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of ZFA:0000083 ! ventral mesoderm (zebrafish) relationship: start ZFS:0000021 ! Gastrula:90%-epiboly [Term] id: ZFA:0001203 name: ciliary zone (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that attach the zonules, that suspend the lens, to the eye. The ciliary zone secretes aqueous humor. Unlike mammals zebrafish the ciliary zone dose not contain processes or a circumferential band of muscle." [ZFIN:ZDB-PUB-050701-15] comment: May need to obsolete this term, ZDB-PUB-050701-15.nnThe ciliary \"body\" does not contain processes or a cumferential band of muscle. For this reason, we refer to the region adjacent and posterior to the iris as the ciliary zone, and not the ciliary body. The ciliary zone, however, is expanded and has a morphology consistent with contraction in a small area of the ventral-most region. synonym: "ciliary bodies" RELATED PLURAL [] synonym: "ciliary body" RELATED [] synonym: "ciliary epithelial zone" EXACT [] xref: TAO:0001203 xref: ZFIN:ZDB-ANAT-050711-18 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001801 ! anterior segment of eyeball relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001220 name: copula (zebrafish) namespace: zebrafish_anatomy def: "Pharyngeal arch cartilage that is ventral, median, and associated with more than one pharyngeal arch in the pharyngeal arch 3-7 skeleton. The copulae are the precursors of the basibranchials." [ZFIN:curator] synonym: "copulae" EXACT PLURAL [] xref: TAO:0001220 xref: ZFIN:ZDB-ANAT-050711-33 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001221 name: copula 1 (zebrafish) namespace: zebrafish_anatomy def: "Copula that is ventral, median, and associated with pharyngeal arches 3-5. A long slender cartilage extending along the midline from the posterior tip of the basihyal to between the third hypobranchials." [ZFIN:curator] synonym: "anterior copula" EXACT [] xref: TAO:0001221 xref: ZFIN:ZDB-ANAT-050711-34 is_a: ZFA:0001220 ! copula (zebrafish) relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001222 name: copula 2 (zebrafish) namespace: zebrafish_anatomy def: "Copula that is ventral, median, and associated with pharyngeal arches 6-7. A cartilage extending from the posterior tip of copula 1 to the anterior tips of the fifth ceratobranchials." [ZFIN:curator] synonym: "posterior copula" EXACT [] xref: TAO:0001222 xref: ZFIN:ZDB-ANAT-050711-35 is_a: ZFA:0001220 ! copula (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001223 name: basibranchial 1 (zebrafish) namespace: zebrafish_anatomy def: "Basibranchial 1 ossifies posterior to the basihyal and anterior to the first hypobranchials in copula 1 (7.6 mm)." [ZFIN:curator] xref: TAO:0001223 xref: ZFIN:ZDB-ANAT-050711-36 is_a: UBERON:0004740 ! basibranchial relationship: develops_from ZFA:0001221 ! copula 1 (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001224 name: basibranchial 2 (zebrafish) namespace: zebrafish_anatomy def: "Basibranchial 2 ossifies in copula 1 posterior to the first hypobranchials and anterior to the second hypobranchials (6.8 mm). It is the first of the three basibranchials to ossify." [ZFIN:curator] xref: TAO:0001224 xref: ZFIN:ZDB-ANAT-050711-37 is_a: UBERON:0004740 ! basibranchial relationship: develops_from ZFA:0001221 ! copula 1 (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001225 name: basibranchial 3 (zebrafish) namespace: zebrafish_anatomy def: "Basibranchial 3 ossifies in copula 1 posterior to the second hypobranchials, anterior to the third hypobranchials (7.6 mm) and associated with pharyngeal arch 5. Cartilage pads, remnants of copula 1, remain between adjacent basibranchials in the adult." [ZFIN:curator] xref: TAO:0001225 xref: ZFIN:ZDB-ANAT-050711-38 is_a: UBERON:0004740 ! basibranchial relationship: develops_from ZFA:0001221 ! copula 1 (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001226 name: basibranchial 4 (zebrafish) namespace: zebrafish_anatomy def: "Occasionally, a fourth basibranchial ossifies in the narrow copula 2 cartilage, which lies posterior to the third basibranchial and anterior to the anteromedial articulation of the fifth ceratobranchials." [ZFIN:curator] xref: TAO:0001226 xref: ZFIN:ZDB-ANAT-050711-39 is_a: UBERON:0004740 ! basibranchial relationship: develops_from ZFA:0001222 ! copula 2 (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001228 name: pharyngeal arch 3 skeleton (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster made up of skeletal and cartilaginous elements of the third pharyngeal arch, also called first gill or branchial arch." [ZFIN:curator] synonym: "branchial arch 1 skeleton" EXACT [] synonym: "gill arch 1 skeleton" EXACT [] synonym: "visceral arch 3 skeleton" EXACT [] xref: TAO:0001228 xref: ZFIN:ZDB-ANAT-050711-40 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0003114 ! pharyngeal arch 3 relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0001229 name: pharyngeal arch 7 skeleton (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster made up of skeletal and cartilaginous elements of the seventh pharyngeal arch, also called fifth gill or branchial arch." [ZFIN:curator] synonym: "branchial arch 5 skeleton" EXACT [] synonym: "gill arch 5 skeleton" EXACT [] synonym: "visceral arch 7 skeleton" EXACT [] xref: TAO:0001229 xref: ZFIN:ZDB-ANAT-050711-41 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: part_of UBERON:0011087 ! pharyngeal arch 7 [Term] id: ZFA:0001230 name: pharyngeal arch 6 skeleton (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster made up of skeletal and cartilaginous elements of the sixth pharyngeal arch, also called fourth gill or branchial arch." [ZFIN:curator] synonym: "branchial arch 4 skeleton" EXACT [] synonym: "gill arch 4 skeleton" EXACT [] synonym: "visceral arch 6 skeleton" EXACT [] xref: TAO:0001230 xref: ZFIN:ZDB-ANAT-050711-42 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0001231 name: pharyngeal arch 4 skeleton (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster made up of skeletal and cartilaginous elements of the fourth pharyngeal arch, also called second gill or branchial arch." [ZFIN:curator] synonym: "branchial arch 2 skeleton" EXACT [] synonym: "gill arch 2 skeleton" EXACT [] synonym: "visceral arch 4 skeleton" EXACT [] xref: TAO:0001231 xref: ZFIN:ZDB-ANAT-050711-43 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0001232 name: pharyngeal arch 5 skeleton (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster made up of skeletal and cartilaginous elements of the fifth pharyngeal arch, also called third gill or branchial arch." [ZFIN:curator] synonym: "branchial arch 3 skeleton" EXACT [] synonym: "gill arch 3 skeleton" EXACT [] synonym: "visceral arch 5 skeleton" EXACT [] xref: TAO:0001232 xref: ZFIN:ZDB-ANAT-050711-44 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0003116 ! pharyngeal arch 5 relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0001233 name: hypobranchial 1 bone (zebrafish) namespace: zebrafish_anatomy def: "Hypobranchial ossifications 1-3 develop in the small hypobranchial cartilages that lie between the medial tips of the ceratobranchials and copula 1. The first and second hypobranchials are small and irregular in shape; one or both ossifications are absent in some adults." [ZFIN:curator] synonym: "hypobranchial 1 bones" EXACT PLURAL [] xref: TAO:0001233 xref: ZFIN:ZDB-ANAT-050711-45 is_a: ZFA:0000363 ! hypobranchial bone (zebrafish) relationship: develops_from ZFA:0001524 ! hypobranchial 1 cartilage (zebrafish) relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) [Term] id: ZFA:0001234 name: hypobranchial 4 bone (zebrafish) namespace: zebrafish_anatomy def: "Tiny hypobranchial4 cartilages appear at anteromedial tips of ceratobranchial 4; these are not obviously present in mature specimens, due either to resorption or fusion to the cartilaginous anterior tip of ceratobranchial." [ZFIN:curator] synonym: "hypobranchial 4 bones" EXACT PLURAL [] xref: TAO:0001234 xref: ZFIN:ZDB-ANAT-050711-46 is_a: ZFA:0000363 ! hypobranchial bone (zebrafish) relationship: develops_from ZFA:0001523 ! hypobranchial 4 cartilage (zebrafish) relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) [Term] id: ZFA:0001235 name: hypobranchial 3 bone (zebrafish) namespace: zebrafish_anatomy def: "Hypobranchial ossifications 1-3 develop in the small hypobranchial cartilages that lie between the medial tips of the ceratobranchials and copula 1. The first and second hypobranchials are small and irregular in shape; one or both ossifications are absent in some adults." [ZFIN:curator] synonym: "hypobranchial 3 bones" EXACT PLURAL [] xref: TAO:0001235 xref: ZFIN:ZDB-ANAT-050711-47 is_a: ZFA:0000363 ! hypobranchial bone (zebrafish) relationship: develops_from ZFA:0001526 ! hypobranchial 3 cartilage (zebrafish) relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) [Term] id: ZFA:0001236 name: hypobranchial 2 bone (zebrafish) namespace: zebrafish_anatomy def: "Hypobranchial ossifications 1-3 develop in the small hypobranchial cartilages that lie between the medial tips of the ceratobranchials and copula 1. The first and second hypobranchials are small and irregular in shape; one or both ossifications are absent in some adults." [ZFIN:curator] synonym: "hypobranchial 2 bones" EXACT PLURAL [] xref: TAO:0001236 xref: ZFIN:ZDB-ANAT-050711-48 is_a: ZFA:0000363 ! hypobranchial bone (zebrafish) relationship: develops_from ZFA:0001525 ! hypobranchial 2 cartilage (zebrafish) relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) [Term] id: ZFA:0001237 name: ceratobranchial 1 bone (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial bone that is bilaterally paired and articulates laterally with epibranchial 1 cartilage or bone and medially with the cartilage between the basibranchials. Gill rakers are present on the anterior and posterior margins." [ZFIN:curator] xref: TAO:0001237 xref: ZFIN:ZDB-ANAT-050711-49 is_a: ZFA:0000488 ! ceratobranchial bone (zebrafish) relationship: develops_from ZFA:0001520 ! ceratobranchial 1 cartilage (zebrafish) relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001239 name: ceratobranchial 5 bone (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial bone that is the most posterior, bilaterally paired ventral pharyngeal arch bone. Ceratobranchial 5 ossifies before ceratobranchials 1-4. In the adult, ceratobranchial 5 is heavily ossified and crescent-shaped with two to three rows of posteromedially directed teeth. The anteroventral tips of ceratobranchials 5 meet medially and are ligamentously joined." [ZFIN:curator] xref: TAO:0001239 xref: ZFIN:ZDB-ANAT-050711-50 is_a: ZFA:0000488 ! ceratobranchial bone (zebrafish) relationship: develops_from ZFA:0001521 ! ceratobranchial 5 cartilage (zebrafish) relationship: part_of ZFA:0001229 ! pharyngeal arch 7 skeleton (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001240 name: ceratobranchial 4 bone (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial bone that is bilaterally paired and articulates laterally with epibranchial 4 cartilage or bone and medially with copula 2. Gill rakers are present on the anterior and posterior margins." [ZFIN:curator] xref: TAO:0001240 xref: ZFIN:ZDB-ANAT-050711-51 is_a: ZFA:0000488 ! ceratobranchial bone (zebrafish) relationship: develops_from ZFA:0001519 ! ceratobranchial 4 cartilage (zebrafish) relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001241 name: ceratobranchial 3 bone (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial bone that is bilaterally paired and articulates laterally with epibranchial 3 cartilage or bone and medially with the cartilage between the basibranchials. Gill rakers are present on the anterior and posterior margins." [ZFIN:curator] xref: TAO:0001241 xref: ZFIN:ZDB-ANAT-050711-52 is_a: ZFA:0000488 ! ceratobranchial bone (zebrafish) relationship: develops_from ZFA:0001518 ! ceratobranchial 3 cartilage (zebrafish) relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001242 name: ceratobranchial 2 bone (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial bone that is bilaterally paired and articulates laterally with epibranchial 2 cartilage or bone and medially with the cartilage between the basibranchials. Gill rakers are present on the anterior and posterior margins." [ZFIN:curator] xref: TAO:0001242 xref: ZFIN:ZDB-ANAT-050711-53 is_a: ZFA:0000488 ! ceratobranchial bone (zebrafish) relationship: develops_from ZFA:0001517 ! ceratobranchial 2 cartilage (zebrafish) relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001243 name: epibranchial 1 bone (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial bone that is bilaterally paired and articulates laterally with ceratobranchial 1 cartilage or bone. The narrowed medial end of epibranchial 1 articulates through cartilage with pharyngobranchial 1." [ZFIN:curator] xref: TAO:0001243 xref: ZFIN:ZDB-ANAT-050711-54 is_a: ZFA:0000658 ! epibranchial bone (zebrafish) relationship: develops_from ZFA:0001528 ! epibranchial 1 cartilage (zebrafish) relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001244 name: epibranchial 5 (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial cartilage that is bilaterally paired and appears as a separate center of chondrification (6.2 mm) posterior to the lateral tip of epibranchial 4 and immediately anterior to the upper end of ceratobranchial 5. In the adult, epibranchial 5 persists as a small, cartilaginous rod extending from the cartilaginous junction of the posterodorsal tip of the uncinate process of epibranchial 4 and tip of ceratobranchial 5, to the cartilaginous junction of ceratobranchial 4 and epibranchial 4." [ZFIN:curator] synonym: "interbranchial IV" EXACT [] xref: TAO:0001244 xref: ZFIN:ZDB-ANAT-050711-55 is_a: ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: part_of ZFA:0001229 ! pharyngeal arch 7 skeleton (zebrafish) [Term] id: ZFA:0001245 name: epibranchial 4 bone (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial bone that is bilaterally paired and articulates laterally with ceratobranchial 4 cartilage or bone. The narrow end of epibranchial 4 is slightly flared, and it articulates with cartilaginous pharyngobranchial 4." [ZFIN:curator] xref: TAO:0001245 xref: ZFIN:ZDB-ANAT-050711-56 is_a: ZFA:0000658 ! epibranchial bone (zebrafish) relationship: develops_from ZFA:0001531 ! epibranchial 4 cartilage (zebrafish) relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001246 name: epibranchial 2 bone (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial bone that is bilaterally paired and articulates laterally with ceratobranchial 2 cartilage or bone. The flared medial end of epibranchial 2 articulates with bifurcate lateral projections from pharyngobranchial 1." [ZFIN:curator] xref: TAO:0001246 xref: ZFIN:ZDB-ANAT-050711-57 is_a: ZFA:0000658 ! epibranchial bone (zebrafish) relationship: develops_from ZFA:0001530 ! epibranchial 2 cartilage (zebrafish) relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001247 name: epibranchial 3 bone (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial bone that is bilaterally paired and articulates laterally with ceratobranchial 3 cartilage or bone. The flared medial end of epibranchial3 articulates with the posterolateral edge of pharyngobranchial2 + 3." [ZFIN:curator] synonym: "infrapharyngobranchial 3" EXACT [] xref: TAO:0001247 xref: ZFIN:ZDB-ANAT-050711-58 is_a: ZFA:0000658 ! epibranchial bone (zebrafish) relationship: develops_from ZFA:0001529 ! epibranchial 3 cartilage (zebrafish) relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001248 name: pharyngobranchial 1 namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001223 ! basibranchial 1 (zebrafish) xref: ZFIN:ZDB-ANAT-050711-59 [Term] id: ZFA:0001250 name: pharyngobranchial 2 bone (zebrafish) namespace: zebrafish_anatomy def: "Pharyngobranchial 2 (misidentified as pharyngobranchial 1 in Cubbage & Mabee, 1993 and Mayden 1989) is present and separate from pharyngobranchial 3. It (8.0 mm) ossifies after pharyngobranchial 3. In the adult, the cartilaginous anterior end of the ossified pharyngobranchial 2 articulates with the cartilaginous medial tip of epibranchial 1. It articulates anterolaterally and posterolaterally with the anterior and posterior cartilaginous tips of epibranchial2. In Cyprinidae pb3 overlaps pb2 (Siebert, 1987; Cavender & Coburn, 1992) but does not fuse to it." [ZFIN:curator] synonym: "infrapharyngobranchial 2" EXACT [] xref: TAO:0001250 xref: ZFIN:ZDB-ANAT-050711-60 is_a: ZFA:0000527 ! pharyngobranchial bone (zebrafish) relationship: develops_from ZFA:0001536 ! pharyngobranchial 2 cartilage (zebrafish) relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001251 name: pharyngobranchial 4 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Pharyngobranchial cartilage which forms in close proximity to or fused with pharyngobranchial 3; may not be distinguishable as a separate element in the adult. Remains cartilaginous." [ZFIN:ZDB-PUB-961014-192, ZFIN:curator] synonym: "infrapharyngobranchial 4 cartilage" EXACT [] synonym: "infrapharyngobranchials" EXACT [] xref: TAO:0001251 xref: ZFIN:ZDB-ANAT-050711-61 is_a: ZFA:0001533 ! pharyngobranchial cartilage (zebrafish) relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001252 name: pharyngobranchial 3 bone (zebrafish) namespace: zebrafish_anatomy def: "Pharyngobranchial bone of the fifth pharyngeal arch that lies approximately posteromedial to epibranchial 2 and medial to epibranchial 3." [ZFIN:curator] synonym: "pharyngobranchial 3 bones" EXACT PLURAL [] xref: TAO:0001252 xref: ZFIN:ZDB-ANAT-050711-62 is_a: ZFA:0000527 ! pharyngobranchial bone (zebrafish) relationship: develops_from ZFA:0001534 ! pharyngobranchial 3 cartilage (zebrafish) relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001253 name: pharyngobranchial 2+3 namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001224 ! basibranchial 2 (zebrafish) consider: ZFA:0001225 ! basibranchial 3 (zebrafish) xref: ZFIN:ZDB-ANAT-050711-63 [Term] id: ZFA:0001254 name: cranial motoneurons namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-050711-64 [Term] id: ZFA:0001256 name: lateral floor plate (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is the lateral part of the floor plate." [ZFIN:curator] xref: TAO:0001256 xref: ZFIN:ZDB-ANAT-050711-66 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000043 ! Juvenile:Days 45-89 relationship: part_of UBERON:0003079 ! floor plate relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001257 name: medial floor plate (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is the medial part of the floor plate and is located adjacent to the notochord." [ZFIN:curator] xref: TAO:0001257 xref: ZFIN:ZDB-ANAT-050711-67 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000043 ! Juvenile:Days 45-89 relationship: part_of UBERON:0003079 ! floor plate relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0001263 name: ovarian follicle stage I (zebrafish) namespace: zebrafish_anatomy def: "Stage I follicles (less than 140 microns) are primary growth stage." [ZFIN:ZDB-PUB-961014-1020] synonym: "previtillogenic ovarian follicle" EXACT [] xref: TAO:0001263 xref: ZFIN:ZDB-ANAT-050711-72 is_a: UBERON:0001305 ! ovarian follicle relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001265 name: ovarian follicle stage II (zebrafish) namespace: zebrafish_anatomy def: "Stage II follicles (140-340 microns) are cortical alveolus stage." [ZFIN:ZDB-PUB-961014-1020] synonym: "ovarian follicles stage II" EXACT PLURAL [] xref: TAO:0001265 xref: ZFIN:ZDB-ANAT-050711-74 is_a: UBERON:0001305 ! ovarian follicle relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001266 name: ovarian follicle stage III (zebrafish) namespace: zebrafish_anatomy def: "Stage III (340-690 microns) are vitellogenesis." [ZFIN:ZDB-PUB-961014-1020] synonym: "ovarian follicles stage III" EXACT PLURAL [] xref: TAO:0001266 xref: ZFIN:ZDB-ANAT-050711-75 is_a: UBERON:0001305 ! ovarian follicle relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001274 name: coronomeckelian (zebrafish) namespace: zebrafish_anatomy def: "The coronomeckelian is a membrane bone that ossifies on Meckel's cartilage where the tendon from the adductor mandibulae A3 inserts (6.1mm). In the adult, the coronomeckelian is a small, irregularly shaped bone that is fused to the dorsomedial surface of the anguloarticular, just dorsal to Meckel's cartilage." [ZFIN:curator] synonym: "coronoid" RELATED [] synonym: "sesamoid articular" EXACT [] xref: TAO:0001274 xref: ZFIN:ZDB-ANAT-050711-82 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003113 ! dermatocranium relationship: part_of UBERON:0003278 ! skeleton of lower jaw [Term] id: ZFA:0001275 name: mentomeckelian namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001612 ! pharyngeal arch 1 xref: ZFIN:ZDB-ANAT-050711-83 [Term] id: ZFA:0001277 name: anterior chamber swim bladder (zebrafish) namespace: zebrafish_anatomy def: "The anterior compartment of the swim bladder is thought to have acoustic resonance properties that play a key role in audition. It is connected to the posterior chamber via the ductus communicans." [ZFIN:ZDB-PUB-060306-11] synonym: "camera arerea weberiana" EXACT [] xref: TAO:0001277 xref: ZFIN:ZDB-ANAT-060816-3 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from ZFA:0005337 ! anterior swim bladder bud (zebrafish) relationship: part_of UBERON:0006860 ! swim bladder relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001278 name: posterior chamber swim bladder (zebrafish) namespace: zebrafish_anatomy def: "The posterior compartment of the swim bladder plays a key role in buoyancy control. It is connected to the anterior chamber via the ductus communicans. This chamber corresponds to the swim bladder found in larval fish." [ZFIN:ZDB-PUB-060306-11] xref: TAO:0001278 xref: ZFIN:ZDB-ANAT-060816-4 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0006860 ! swim bladder [Term] id: ZFA:0001279 name: branchiostegal ray 1 (zebrafish) namespace: zebrafish_anatomy def: "Branchiostegal ray that is the most anterior ray which ossifies last (5.5 mm NL)." [ZFIN:curator] synonym: "branchiostegal rays 1" EXACT PLURAL [] xref: TAO:0001279 xref: ZFIN:ZDB-ANAT-050711-87 is_a: ZFA:0000476 ! branchiostegal ray (zebrafish) [Term] id: ZFA:0001280 name: branchiostegal ray 3 (zebrafish) namespace: zebrafish_anatomy def: "Branchiostegal ray that is the most posterior ray which ossifies first (3.4 mm NL)." [ZFIN:curator] synonym: "branchiostegal rays 3" EXACT PLURAL [] xref: TAO:0001280 xref: ZFIN:ZDB-ANAT-050711-88 is_a: ZFA:0000476 ! branchiostegal ray (zebrafish) [Term] id: ZFA:0001281 name: branchiostegal ray 2 (zebrafish) namespace: zebrafish_anatomy def: "Branchiostegal ray 2 is between rays 1 and 3 and ossifies second." [ZFIN:curator] synonym: "branchiostegal rays 2" EXACT PLURAL [] xref: TAO:0001281 xref: ZFIN:ZDB-ANAT-050711-89 is_a: ZFA:0000476 ! branchiostegal ray (zebrafish) [Term] id: ZFA:0001285 name: intersegmental vessel (zebrafish) namespace: zebrafish_anatomy def: "Blood vessels that connect the dorsal aorta or the posterior cardinal vein and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these vessels don't have venous or arterial markers." [ZFIN:ZDB-PUB-030908-4] synonym: "intersegmental vessels" EXACT PLURAL [] synonym: "intersomitic vessels" EXACT [] synonym: "segmental vessel" EXACT [] xref: TAO:0001285 xref: ZFIN:ZDB-ANAT-050915-90 is_a: UBERON:0001981 ! blood vessel relationship: develops_from UBERON:0005805 ! dorsal aorta relationship: part_of UBERON:0002201 ! vasculature of trunk relationship: part_of UBERON:0010204 ! tail vasculature relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001286 name: caudal vein plexus (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001286 xref: ZFIN:ZDB-ANAT-050915-91 is_a: UBERON:0010204 ! tail vasculature relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001293 name: posterior kidney (zebrafish) namespace: zebrafish_anatomy synonym: "posterior kidneys" EXACT PLURAL [] xref: TAO:0001293 xref: ZFIN:ZDB-ANAT-050915-98 is_a: UBERON:0003103 ! compound organ relationship: develops_from UBERON:0002120 ! pronephros relationship: part_of UBERON:0000080 ! mesonephros relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001297 name: vagal placode 1 (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial placode that gives rise to vagal ganglion 1." [ZFIN:ZDB-PUB-070122-31] xref: TAO:0001297 xref: ZFIN:ZDB-ANAT-050915-102 is_a: UBERON:0003078 ! epibranchial placode relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001298 name: vagal placode 2 (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial placode that gives rise to vagal ganglion 2." [ZFIN:ZDB-PUB-070122-31] xref: TAO:0001298 xref: ZFIN:ZDB-ANAT-050915-103 is_a: UBERON:0003078 ! epibranchial placode relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001299 name: vagal placode 3 (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial placode that gives rise to vagal ganglion 3." [ZFIN:ZDB-PUB-070122-3] xref: TAO:0001299 xref: ZFIN:ZDB-ANAT-050915-104 is_a: UBERON:0003078 ! epibranchial placode relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001300 name: vagal placode 4 (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial placode that gives rise to vagal ganglion 4." [ZFIN:ZDB-PUB-070122-31] xref: TAO:0001300 xref: ZFIN:ZDB-ANAT-050915-105 is_a: UBERON:0003078 ! epibranchial placode relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001302 name: vagal ganglion 1 (zebrafish) namespace: zebrafish_anatomy synonym: "gX1" EXACT [] synonym: "nodose ganglion 1" EXACT [] xref: TAO:0001302 xref: ZFIN:ZDB-ANAT-050915-107 is_a: UBERON:0005362 ! vagus X ganglion relationship: develops_from ZFA:0001297 ! vagal placode 1 (zebrafish) [Term] id: ZFA:0001303 name: vagal ganglion 2 (zebrafish) namespace: zebrafish_anatomy synonym: "gX2" EXACT [] synonym: "nodose ganglion 2" EXACT [] xref: TAO:0001303 xref: ZFIN:ZDB-ANAT-050915-108 is_a: UBERON:0005362 ! vagus X ganglion relationship: develops_from ZFA:0001298 ! vagal placode 2 (zebrafish) [Term] id: ZFA:0001304 name: vagal ganglion 3 (zebrafish) namespace: zebrafish_anatomy synonym: "gX3" EXACT [] synonym: "nodose ganglion 3" EXACT [] xref: TAO:0001304 xref: ZFIN:ZDB-ANAT-050915-109 is_a: UBERON:0005362 ! vagus X ganglion relationship: develops_from ZFA:0001299 ! vagal placode 3 (zebrafish) [Term] id: ZFA:0001305 name: vagal ganglion 4 (zebrafish) namespace: zebrafish_anatomy synonym: "gX4" EXACT [] synonym: "nodose ganglion 4" EXACT [] xref: TAO:0001305 xref: ZFIN:ZDB-ANAT-050915-110 is_a: UBERON:0005362 ! vagus X ganglion relationship: develops_from ZFA:0001300 ! vagal placode 4 (zebrafish) [Term] id: ZFA:0001312 name: dorsal anterior lateral line ganglion (zebrafish) namespace: zebrafish_anatomy synonym: "anterodorsal lateral line ganglion" EXACT [] xref: TAO:0001312 xref: ZFIN:ZDB-ANAT-050915-116 is_a: ZFA:0001391 ! anterior lateral line ganglion (zebrafish) relationship: develops_from ZFA:0001316 ! anterior lateral line placode (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001313 name: ventral anterior lateral line ganglion (zebrafish) namespace: zebrafish_anatomy synonym: "anteroventral lateral line ganglion" EXACT [] xref: TAO:0001313 xref: ZFIN:ZDB-ANAT-050915-117 is_a: ZFA:0001391 ! anterior lateral line ganglion (zebrafish) relationship: develops_from ZFA:0001316 ! anterior lateral line placode (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001314 name: posterior lateral line ganglion (zebrafish) namespace: zebrafish_anatomy def: "The posterior lateral line ganglion develops from a cranial ectodermal placode and contains sensory neurons that innervate the posterior lateral line system." [ZFIN:curator] synonym: "pLLg" EXACT [] synonym: "posterior lateral line ganglia" EXACT PLURAL [] xref: TAO:0001314 xref: ZFIN:ZDB-ANAT-050915-118 is_a: ZFA:0000120 ! lateral line ganglion (zebrafish) relationship: develops_from ZFA:0001156 ! posterior lateral line placode (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001316 name: anterior lateral line placode (zebrafish) namespace: zebrafish_anatomy def: "Dorsolateral placode that gives rise to the anterior lateral line." [ZFIN:curator] synonym: "anterior lateral line placodes" EXACT PLURAL [] xref: TAO:0001316 xref: ZFIN:ZDB-ANAT-050915-119 is_a: UBERON:0003067 ! dorsolateral placode relationship: end ZFS:0000031 ! Pharyngula:Prim-25 relationship: part_of ZFA:0001468 ! anterior lateral line system (zebrafish) relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001322 name: dorsoventral diencephalic tract (zebrafish) namespace: zebrafish_anatomy def: "A tract originating in the epiphysis and fasciculating with the tract of the postoptic commissure." [ZFIN:ZDB-PUB-961014-955] synonym: "DVDT" EXACT [] xref: TAO:0001322 xref: ZFIN:ZDB-ANAT-060131-6 is_a: UBERON:0003931 ! diencephalic white matter relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001324 name: enteric musculature (zebrafish) namespace: zebrafish_anatomy def: "Musculature of the gut." [ZFIN:curator] synonym: "gut musculature" EXACT [] synonym: "tunica muscularis" RELATED [http:/www.vivo.colostate.edu/hbooks/pathphys/digestion/basics/gi_microanatomy.html] xref: TAO:0001324 xref: ZFIN:ZDB-ANAT-060131-8 is_a: UBERON:0001015 ! musculature relationship: part_of UBERON:0001555 ! digestive tract [Term] id: ZFA:0001333 name: visceral organ namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-060131-13 [Term] id: ZFA:0001335 name: supradorsal (zebrafish) namespace: zebrafish_anatomy def: "Supradorsals are small paired nodules of cartilage positioned at the distal ends of neural arches and the proximal end of neural spines (Arratia et al., 2001)." [ZFIN:curator] synonym: "supradorsals" EXACT PLURAL [] xref: TAO:0001335 xref: ZFIN:ZDB-ANAT-060331-8 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) relationship: part_of UBERON:0003861 ! neural arch [Term] id: ZFA:0001339 name: nucleus of the tract of the anterior commissure (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus from which the axons of the anterior commissure originate." [ZFIN:curator] synonym: "ntAC" EXACT [] xref: TAO:0001339 xref: ZFIN:ZDB-ANAT-060131-17 is_a: UBERON:0009663 ! telencephalic nucleus [Term] id: ZFA:0001340 name: nucleus of the tract of the postoptic commissure (zebrafish) namespace: zebrafish_anatomy def: "The nucleus containing the cell bodies of neurons whose axons form the postoptic commissure." [ZFIN:curator] synonym: "ntPOC" EXACT [] xref: TAO:0001340 xref: ZFIN:ZDB-ANAT-060131-18 is_a: UBERON:0006569 ! diencephalic nucleus relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001341 name: intervening zone (zebrafish) namespace: zebrafish_anatomy def: "A zone of delayed differentiation at the midbrain hindbrain boundary. The IZ separates midbrain from anterior hindbrain neuronal clusters and has been described in all vertebrates." [ZFIN:ZDB-PUB-030307-1] synonym: "IZ" EXACT [] xref: TAO:0001341 xref: ZFIN:ZDB-ANAT-060131-19 is_a: UBERON:0000477 ! anatomical cluster relationship: develops_from ZFA:0001342 ! presumptive intervening zone (zebrafish) relationship: part_of UBERON:0003052 ! midbrain-hindbrain boundary relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0001342 name: presumptive intervening zone (zebrafish) namespace: zebrafish_anatomy def: "Embryonic structure that gives rise to the intervening zone." [ZFIN:curator] xref: TAO:0001342 xref: ZFIN:ZDB-ANAT-060131-20 is_a: UBERON:0002050 ! embryonic structure relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007023 ! posterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0001343 name: telencephalon diencephalon boundary (zebrafish) namespace: zebrafish_anatomy def: "Boundary between the telencephalon and diencephalon." [ZFIN:curator] xref: TAO:0001343 xref: ZFIN:ZDB-ANAT-060131-21 is_a: UBERON:0006800 ! anatomical line relationship: part_of UBERON:0001890 ! forebrain relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001347 name: stratum fibrosum et griseum superficiale (zebrafish) namespace: zebrafish_anatomy synonym: "strata fibrosum et griseum superficiales" EXACT PLURAL [] xref: TAO:0001347 xref: ZFIN:ZDB-ANAT-060131-25 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001945 ! superior colliculus relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001348 name: stratum marginale (zebrafish) namespace: zebrafish_anatomy synonym: "strata marginale" EXACT PLURAL [] xref: TAO:0001348 xref: ZFIN:ZDB-ANAT-060131-26 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001945 ! superior colliculus relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001349 name: stratum opticum (zebrafish) namespace: zebrafish_anatomy synonym: "strata opticum" EXACT PLURAL [] xref: TAO:0001349 xref: ZFIN:ZDB-ANAT-060131-27 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001945 ! superior colliculus relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001352 name: stratum periventriculare (zebrafish) namespace: zebrafish_anatomy synonym: "strata periventriculare" EXACT PLURAL [] xref: TAO:0001352 xref: ZFIN:ZDB-ANAT-060131-30 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001945 ! superior colliculus relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001357 name: alar plate midbrain region (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is ventrolateral to the roof plate and part of the midbrain." [ISBN:0444517383, ZFIN:ZDB-PUB-961014-576] xref: TAO:0001357 xref: ZFIN:ZDB-ANAT-060131-35 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0010286 ! midbrain neural tube relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001359 name: pineal complex (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001359 xref: ZFIN:ZDB-ANAT-060131-37 is_a: UBERON:0000480 ! anatomical group relationship: part_of UBERON:0001899 ! epithalamus relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001360 name: parapineal organ (zebrafish) namespace: zebrafish_anatomy def: "An unpaired left-sided accessory organ which plays a role in establishing lateral brain left right asymmetry." [ZFIN:ZDB-PUB-030206-1] xref: TAO:0001360 xref: ZFIN:ZDB-ANAT-060131-38 is_a: UBERON:0003103 ! compound organ relationship: part_of ZFA:0001359 ! pineal complex (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001361 name: basiventral (zebrafish) namespace: zebrafish_anatomy def: "Basiventrals are bilaterally paired cartilages lateral to the notochord which are replaced by ossified parapophyses or hemal arches." [ZFIN:curator] synonym: "arcualia" RELATED [] xref: TAO:0001361 xref: ZFIN:ZDB-ANAT-060331-10 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) [Term] id: ZFA:0001363 name: neural complex (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0001398 def: "The neural complex is the collective term for the ossified supraneurals (Sn 2 and Sn 3) and their membrane bone extensions above the first four vertebrae (Hoffmann and Britz, 2006)." [ZFIN:ZDB-PUB-031103-13] synonym: "Weberian supraneural" EXACT [] xref: TAO:0001363 xref: ZFIN:ZDB-ANAT-060331-12 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of ZFA:0001188 ! Weberian apparatus (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001364 name: hemal spine (zebrafish) namespace: zebrafish_anatomy def: "Hemal spines are extensions of hemal arches in the ventral skeletogenous septum of the caudal region." [ZFIN:curator] synonym: "haemal spine" EXACT [] xref: TAO:0001364 xref: ZFIN:ZDB-ANAT-060331-13 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0006065 ! hemal arch [Term] id: ZFA:0001366 name: tract of the postoptic commissure (zebrafish) namespace: zebrafish_anatomy synonym: "TPOC" EXACT [] xref: TAO:0001366 xref: ZFIN:ZDB-ANAT-060131-40 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0003936 ! postoptic commissure relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001371 name: pancreatic system (zebrafish) namespace: zebrafish_anatomy def: "System responsible for the production and movement of pancreatic hormones and enzymes." [ZFIN:curator] xref: TAO:0001371 xref: ZFIN:ZDB-ANAT-060131-45 is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0000949 ! endocrine system relationship: part_of UBERON:0001007 ! digestive system relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001373 name: migratory slow muscle precursor cell (zebrafish) namespace: zebrafish_anatomy def: "Cells that initially are located adjacent to the spinal cord and notochord that migrate from their initial medial position radially through the myotome to the lateral surface of the somites." [ZFIN:curator] subset: cell_slim ! cell_slim synonym: "migratory slow muscle precursor cells" EXACT PLURAL [] xref: TAO:0001373 xref: ZFIN:ZDB-ANAT-060131-47 is_a: CL:0000000 ! cell relationship: develops_from ZFA:0000003 ! adaxial cell (zebrafish) relationship: part_of UBERON:0002329 ! somite relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0001378 name: axial hypoblast (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001378 xref: ZFIN:ZDB-ANAT-060131-52 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003062 ! primitive knot relationship: end ZFS:0000022 ! Gastrula:Bud relationship: part_of UBERON:0000089 ! hypoblast (generic) relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0001379 name: pharyngeal ectoderm (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001379 xref: ZFIN:ZDB-ANAT-060131-53 is_a: UBERON:0000924 ! ectoderm relationship: end ZFS:0000027 ! Segmentation:20-25 somites relationship: part_of UBERON:0001042 ! chordate pharynx relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001382 name: epibranchial uncinate process (zebrafish) namespace: zebrafish_anatomy def: "Epibranchials 1-3 in adults are compound elements formed by the fusion of epibranchial cartilages and the so-called uncinate processes. Posteromedially directed uncinate processes develop on the posterior edge of epibranchials 1-3. These appear as separate centers of chondrification (6.2 mm) that later fuse laterally to the posterior edges of the epibranchial cartilages (6.8 mm)." [ZFIN:curator] synonym: "epibranchial uncinate processes" EXACT PLURAL [] xref: TAO:0001382 xref: ZFIN:ZDB-ANAT-060331-16 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0000658 ! epibranchial bone (zebrafish) [Term] id: ZFA:0001391 name: anterior lateral line ganglion (zebrafish) namespace: zebrafish_anatomy def: "The anterior lateral line ganglia develops from cranial ectodermal placodes and contain sensory neurons that innervate the anterior lateral line system." [ZFIN:curator] synonym: "anterior lateral line ganglia" EXACT PLURAL [] xref: TAO:0001391 xref: ZFIN:ZDB-ANAT-060131-62 is_a: ZFA:0000120 ! lateral line ganglion (zebrafish) relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0001392 name: parapophysis 1 (zebrafish) namespace: zebrafish_anatomy def: "Lateral projections from the first centrum in cyprinids, absent in catostomids, and absent in characiphysans (Fink and Fink, 1996)." [ZFIN:curator] synonym: "basipophysis 1" EXACT [] synonym: "lateral process 1" EXACT [] xref: TAO:0001392 xref: ZFIN:ZDB-ANAT-060331-17 is_a: UBERON:0003109 ! parapophysis relationship: part_of UBERON:0001092 ! cervical vertebra 1 [Term] id: ZFA:0001393 name: parapophysis 2 (zebrafish) namespace: zebrafish_anatomy def: "Lateral projection from the second centrum, absent in Siluriformes (Fink and Fink, 1996)." [ZFIN:curator] synonym: "basipophysis" EXACT [] synonym: "lateral process 2" EXACT [] xref: TAO:0001393 xref: ZFIN:ZDB-ANAT-060331-18 is_a: UBERON:0003109 ! parapophysis relationship: part_of UBERON:0001093 ! cervical vertebra 2 [Term] id: ZFA:0001394 name: neural arch 3 (zebrafish) namespace: zebrafish_anatomy def: "Neural arch 3 is expanded and fused to supraneural 3 as part of a neural complex roofing and protecting the neural canal." [ZFIN:curator] xref: TAO:0001394 xref: ZFIN:ZDB-ANAT-060331-19 is_a: UBERON:0003861 ! neural arch relationship: part_of ZFA:0001169 ! vertebra 3 (zebrafish) [Term] id: ZFA:0001395 name: neural arch 4 (zebrafish) namespace: zebrafish_anatomy def: "Neural arch 4 is expanded and fused to supraneural 3 as part of the neural complex. A reduced neural spine projects from the posterior margin of the neural complex." [ZFIN:curator] xref: TAO:0001395 xref: ZFIN:ZDB-ANAT-060331-20 is_a: UBERON:0003861 ! neural arch relationship: part_of ZFA:0001170 ! vertebra 4 (zebrafish) [Term] id: ZFA:0001396 name: parapophysis/rib (zebrafish) namespace: zebrafish_anatomy def: "The parapophysis + rib, fused to the centrum, extends laterally then angles anteroventrally. A thin plate, the os suspensorium fuses to its median surface." [ZFIN:curator] xref: TAO:0001396 xref: ZFIN:ZDB-ANAT-060331-21 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0001170 ! vertebra 4 (zebrafish) [Term] id: ZFA:0001397 name: post-Weberian supraneural (zebrafish) namespace: zebrafish_anatomy def: "Posterior to the Weberian apparatus, otophysan supraneurals form as median, unpaired, rod- or platelike elements, as in other actinopterygians. Supraneural 4 has been lost in zebrafish." [ZFIN:ZDB-PUB-031103-13, ZFIN:curator] synonym: "post-Weberian supraneurals" EXACT PLURAL [] xref: TAO:0001397 xref: ZFIN:ZDB-ANAT-060331-22 is_a: ZFA:0000442 ! supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001403 name: supraethmoid (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that first appears as paired ossifications in the membrane (dermis) dorsolateral to the ethmoid cartilage and anteriolateral to the lateral ethmoids, later having the appearance of one butterfly-shaped element. Fused to the anterodorsal margin of the mesethmoid. Bordered anteriorly by the kinethmoid and posteriorly by the frontal." [ZFIN:curator] synonym: "supra-ethmoid" RELATED [] xref: TAO:0001403 xref: ZFIN:ZDB-ANAT-060331-28 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0003112 ! olfactory region relationship: part_of UBERON:0003113 ! dermatocranium relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001404 name: preethmoid bone (zebrafish) namespace: zebrafish_anatomy def: "Small rounded to egg-shaped cartilage bone that sits in an anteriolateral depression on the prevomer. Articulates with the autopalatine in all cypriniforms." [ZFIN:curator] synonym: "pre-ethmoid" EXACT [] synonym: "preethmoid bones" EXACT PLURAL [] xref: TAO:0001404 xref: ZFIN:ZDB-ANAT-060331-29 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0011242 ! ethmoid cartilage relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003112 ! olfactory region relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001406 name: kinethmoid bone (zebrafish) namespace: zebrafish_anatomy def: "Small median unpaired dermal sesamoid bone in the premaxillary-ethmoid ligament between the mesethmoid and the premaxilla that enhances the protractability of the upper jaw. It forms in the premaxillary-ethmoid ligament. The kinethmoid arose de novo in the ancestor of Cypriniformes, the only group within Ostariophysi, in which it is found (Fink and Fink, 1981)." [ZFIN:curator] xref: TAO:0001406 xref: ZFIN:ZDB-ANAT-060331-31 is_a: UBERON:0008907 ! dermal bone relationship: develops_from ZFA:0000585 ! kinethmoid cartilage (zebrafish) relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003112 ! olfactory region relationship: part_of UBERON:0003113 ! dermatocranium relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001407 name: infraorbital 2 (zebrafish) namespace: zebrafish_anatomy def: "Plate like dermal bone, variable in size, though usually one of the smallest in the series. Bears 2-3 neuromast pores enclosed within the infraorbital canal (Nelson, 1969)." [ZFIN:curator] xref: TAO:0001407 xref: ZFIN:ZDB-ANAT-060331-32 is_a: ZFA:0000376 ! infraorbital (zebrafish) relationship: part_of ZFA:0001649 ! infraorbital series (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001408 name: infraorbital 3 (zebrafish) namespace: zebrafish_anatomy def: "Plate like dermal bone, variable in size, but usually largest in the series. Usually fused with IO4 (eg. Opsariichthys, Nelson (1969)). Usually bears 3 neuromast pores enclosed within the infraorbital canal (Nelson, 1969)." [ZFIN:curator] xref: TAO:0001408 xref: ZFIN:ZDB-ANAT-060331-33 is_a: ZFA:0000376 ! infraorbital (zebrafish) relationship: part_of ZFA:0001649 ! infraorbital series (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001409 name: infraorbital 4 (zebrafish) namespace: zebrafish_anatomy def: "Plate like dermal bone. Usually fused with infraorbital 3." [ZFIN:curator] xref: TAO:0001409 xref: ZFIN:ZDB-ANAT-060331-34 is_a: ZFA:0000376 ! infraorbital (zebrafish) relationship: part_of ZFA:0001649 ! infraorbital series (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001412 name: epiotic (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000659 def: "Cartilage bone that contacts the pterotic anteriorly, the supraoccipital and parietal dorsally, and the exoccipital ventrally. The epiotic enclose the posterior semicircular canal of the inner ear and contribute to the hind margin of the cranium." [ZFIN:curator] synonym: "epioccipital" EXACT [] xref: TAO:0001412 xref: ZFIN:ZDB-ANAT-060331-37 is_a: UBERON:0002513 ! endochondral bone relationship: develops_from UBERON:0005410 ! cartilaginous otic capsule relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0003110 ! otic region relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001415 name: pelvic radial 2 (zebrafish) namespace: zebrafish_anatomy def: "Second radial of the pelvic fin." [ZFIN:curator] synonym: "pelvic radials 2" EXACT PLURAL [] xref: TAO:0001415 xref: ZFIN:ZDB-ANAT-060331-40 is_a: ZFA:0000508 ! pelvic radial (zebrafish) relationship: develops_from ZFA:0001541 ! pelvic radial 2 cartilage (zebrafish) [Term] id: ZFA:0001416 name: pelvic radial 3 (zebrafish) namespace: zebrafish_anatomy def: "Third radial of the pelvic fin." [ZFIN:curator] synonym: "pelvic radials 3" EXACT PLURAL [] xref: TAO:0001416 xref: ZFIN:ZDB-ANAT-060331-41 is_a: ZFA:0000508 ! pelvic radial (zebrafish) relationship: develops_from ZFA:0001540 ! pelvic radial 3 cartilage (zebrafish) [Term] id: ZFA:0001417 name: pelvic radial 1 (zebrafish) namespace: zebrafish_anatomy def: "First radial of the pelvic fin." [ZFIN:curator] synonym: "pelvic radials 1" EXACT PLURAL [] xref: TAO:0001417 xref: ZFIN:ZDB-ANAT-060331-42 is_a: ZFA:0000508 ! pelvic radial (zebrafish) relationship: develops_from ZFA:0001542 ! pelvic radial 1 cartilage (zebrafish) [Term] id: ZFA:0001418 name: dorsal fin lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Lepidotrichium which is part of the dorsal fin." [ZFIN:curator] synonym: "dorsal fin lepidotrichia" EXACT PLURAL [] synonym: "dorsal fin ray" EXACT [] xref: TAO:0001418 xref: ZFIN:ZDB-ANAT-060331-43 is_a: ZFA:0001554 ! lepidotrichium (zebrafish) relationship: part_of ZFA:0001124 ! dorsal fin skeleton (zebrafish) [Term] id: ZFA:0001419 name: dorsal fin pterygiophore (zebrafish) namespace: zebrafish_anatomy def: "A range of seven to nine rod-like internal median skeletal support structures of the dorsal fin, comprised of both bone and cartilage and found between vertebrae 11 and 18." [ZFIN:ZDB-PUB-031103-13] synonym: "dorsal fin support" EXACT [] xref: TAO:0001419 xref: ZFIN:ZDB-ANAT-060331-44 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of ZFA:0001124 ! dorsal fin skeleton (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001420 name: anal fin pterygiophore (zebrafish) namespace: zebrafish_anatomy def: "A range of twelve to fourteen rod-like internal median skeletal support structures of the anal fin, comprised of both bone and cartilage and found between vertebrae 14 and 21." [ZFIN:curator] synonym: "anal fin radial" RELATED [] xref: TAO:0001420 xref: ZFIN:ZDB-ANAT-060331-45 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of ZFA:0000167 ! anal fin skeleton (zebrafish) [Term] id: ZFA:0001421 name: anal fin lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Lepidotrichium which is part of the anal fin." [ZFIN:curator] synonym: "anal fin lepidotrichia" EXACT PLURAL [] synonym: "anal fin ray" EXACT [] xref: TAO:0001421 xref: ZFIN:ZDB-ANAT-060331-46 is_a: ZFA:0001554 ! lepidotrichium (zebrafish) relationship: part_of ZFA:0000167 ! anal fin skeleton (zebrafish) [Term] id: ZFA:0001425 name: basal plate cartilage (zebrafish) namespace: zebrafish_anatomy synonym: "basal plate cartilages" EXACT PLURAL [] xref: TAO:0001425 xref: ZFIN:ZDB-ANAT-060331-50 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0009635 ! parachordal cartilage [Term] id: ZFA:0001426 name: posterior naris (zebrafish) namespace: zebrafish_anatomy def: "Nares that form at 40-44dpf that open to the posterior region of the olfactory pit allowing water to exit the pit." [ZFIN:ZDB-PUB-961014-399] synonym: "excurrent nostril" EXACT [ZFIN:ZDB-PUB-961014-399] synonym: "posterior nares" EXACT PLURAL [] xref: TAO:0001426 xref: ZFIN:ZDB-ANAT-060331-51 is_a: UBERON:0005928 ! external naris relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001427 name: anterior naris (zebrafish) namespace: zebrafish_anatomy def: "Nares that form at 40-44dpf that open to the anterior region of the olfactory pit allowing water to enter the pit." [ZFIN:ZDB-PUB-961014-399] synonym: "anterior nares" EXACT PLURAL [] synonym: "incurrent nostril" EXACT [ZFIN:ZDB-PUB-961014-399] xref: TAO:0001427 xref: ZFIN:ZDB-ANAT-060331-52 is_a: UBERON:0005928 ! external naris relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001428 name: olfactory rosette (zebrafish) namespace: zebrafish_anatomy def: "The highly folded olfactory epithelium." [ISBN:9789812388216] comment: Olfactory epithelium may be part of olfactory rosette. nThe epithelium exists before becoming folded into the rosette. synonym: "olfactory rosettes" EXACT PLURAL [] xref: TAO:0001428 xref: ZFIN:ZDB-ANAT-060331-53 is_a: UBERON:0000483 ! epithelium relationship: part_of UBERON:0000004 ! olfactory apparatus relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0001430 name: pneumatic duct (zebrafish) namespace: zebrafish_anatomy def: "A duct connecting the esophagus to the posterior chamber of the swim bladder." [ZFIN:ZDB-PUB-060306-11] xref: TAO:0001430 xref: ZFIN:ZDB-ANAT-060816-5 is_a: UBERON:0000058 ! duct relationship: part_of UBERON:0001043 ! esophagus relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0001431 name: primitive olfactory epithelium (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001431 xref: ZFIN:ZDB-ANAT-060331-55 is_a: UBERON:0000483 ! epithelium relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003050 ! olfactory placode relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001432 name: anterior sclerotic bone (zebrafish) namespace: zebrafish_anatomy def: "Sclerotic bone that is located anterior to the eye." [ZFIN:curator] synonym: "anterior sclerotic bones" EXACT PLURAL [] xref: TAO:0001432 xref: ZFIN:ZDB-ANAT-060331-56 is_a: UBERON:0010297 ! endochondral scleral ossicle [Term] id: ZFA:0001433 name: posterior sclerotic bone (zebrafish) namespace: zebrafish_anatomy def: "Sclerotic bone that is located posterior to the eye." [ZFIN:curator] synonym: "posterior sclerotic bones" EXACT PLURAL [] xref: TAO:0001433 xref: ZFIN:ZDB-ANAT-060331-57 is_a: UBERON:0010297 ! endochondral scleral ossicle [Term] id: ZFA:0001437 name: ductus communicans (zebrafish) namespace: zebrafish_anatomy def: "The constriction between the anterior and posterior chambers of the swim bladder. There does not appear to be an identifiable sphincter in the ductus, and therefore other musculature may regulate its opening." [ZFIN:ZDB-PUB-060306-11] xref: TAO:0001437 xref: ZFIN:ZDB-ANAT-060816-6 is_a: UBERON:0000058 ! duct relationship: part_of UBERON:0006860 ! swim bladder [Term] id: ZFA:0001450 name: apical ectodermal ridge pelvic fin (zebrafish) namespace: zebrafish_anatomy def: "Apical ectodermal ridge that is part of the pelvic fin." [ZFIN:curator] synonym: "apical ectodermal ridge pelvic fins" EXACT PLURAL [] xref: TAO:0001450 xref: ZFIN:ZDB-ANAT-060816-19 is_a: UBERON:0004356 ! apical ectodermal ridge relationship: develops_from UBERON:0005422 ! pelvic appendage apical ectodermal ridge relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0000152 ! pelvic fin relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0001456 name: pectoral fin endoskeletal disc (zebrafish) namespace: zebrafish_anatomy def: "A plate-like chondrogenic condensation within the pectoral fin, which subdivides into individual radials by decomposition of extracellular matrix in the inter-radial mesenchyme (Grandel and Schulte-Merker, 1998)." [ZFIN:curator] synonym: "fin plate cartilage" EXACT [] xref: TAO:0001456 xref: ZFIN:ZDB-ANAT-060816-25 is_a: UBERON:0007390 ! pectoral appendage cartilage tissue relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0001457 name: postcranial axial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Cartilage which is part of the axial skeleton." [ZFIN:curator] synonym: "postcranial axial cartilages" EXACT PLURAL [] xref: TAO:0001457 xref: ZFIN:ZDB-ANAT-060816-26 is_a: UBERON:0007844 ! cartilage element relationship: part_of UBERON:0002090 ! postcranial axial skeleton [Term] id: ZFA:0001462 name: somite border (zebrafish) namespace: zebrafish_anatomy def: "Anatomical surface separating somites." [ZFIN:curator] synonym: "somite border cell" EXACT PLURAL [] synonym: "somite boundary" RELATED [] xref: TAO:0001462 xref: ZFIN:ZDB-ANAT-060816-31 is_a: UBERON:0006984 ! anatomical surface relationship: part_of UBERON:0002329 ! somite relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0001463 name: melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "Surface structure composed of an array of melanophores arranged in a stripe. Stripes are oriented from rostral to caudal." [ZFIN:curator] synonym: "melanophore stripes" EXACT PLURAL [] xref: TAO:0001463 xref: ZFIN:ZDB-ANAT-060816-32 is_a: UBERON:0003102 ! surface structure relationship: part_of UBERON:0002199 ! integument [Term] id: ZFA:0001467 name: pharyngeal mesoderm (zebrafish) namespace: zebrafish_anatomy xref: TAO:0001467 xref: ZFIN:ZDB-ANAT-061101-11 is_a: UBERON:0000926 ! mesoderm relationship: end ZFS:0000030 ! Pharyngula:Prim-15 relationship: part_of UBERON:0001042 ! chordate pharynx relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001468 name: anterior lateral line system (zebrafish) namespace: zebrafish_anatomy def: "The anterior lateral line system develops from cranial ectodermal placodes, situated between the eye and the ear, that give rise to both the neuromasts and the anterior lateral line sensory nerves that innervate the neuromasts. The anterior lateral line system consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head of all fishes and most amphibians and are innervated by several lateral line nerves, which project to the hindbrain. The anterior lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance." [ZFIN:curator] xref: TAO:0001468 xref: ZFIN:ZDB-ANAT-061101-12 is_a: UBERON:0002540 ! lateral line system relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001470 name: anterior lateral line (zebrafish) namespace: zebrafish_anatomy def: "The anterior lateral line consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head of all fishes and most amphibians. The anterior lateral line develops from cranial ectodermal placodes situated between the eye and ear." [ZFIN:curator] synonym: "anterior lateral lines" EXACT PLURAL [] xref: TAO:0001470 xref: ZFIN:ZDB-ANAT-061101-14 is_a: UBERON:0010202 ! lateral line relationship: develops_from ZFA:0005117 ! anterior lateral line primordium (zebrafish) relationship: part_of ZFA:0001468 ! anterior lateral line system (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0001471 name: posterior lateral line system (zebrafish) namespace: zebrafish_anatomy def: "The posterior lateral line system develops from cranial ectodermal placodes, situated behind the ear, that give rise to both the neuromasts and the posterior lateral line sensory nerves that innervate the neuromasts. The posterior lateral line system consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the head of all fishes and most amphibians. The neuromasts are innervated by several lateral line nerves, which project primarily to the hindbrain. The posterior mechanosensory lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance." [ZFIN:curator] xref: TAO:0001471 xref: ZFIN:ZDB-ANAT-061101-15 is_a: UBERON:0002540 ! lateral line system relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001472 name: anterior lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the anterior lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.)" [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast anterior" EXACT [] xref: TAO:0001472 xref: ZFIN:ZDB-ANAT-061101-16 is_a: UBERON:0008904 ! neuromast relationship: part_of ZFA:0001470 ! anterior lateral line (zebrafish) relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001473 name: deep blastomere (zebrafish) namespace: zebrafish_anatomy def: "Cells (completely cleaved), located underneath the superficial blastomeres and internal to the marginal blastomeres." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim synonym: "deep blastomeres" EXACT PLURAL [] xref: TAO:0001473 xref: ZFIN:ZDB-ANAT-061101-17 is_a: ZFA:0000093 ! blastomere (zebrafish) relationship: end ZFS:0000015 ! Blastula:Dome relationship: start ZFS:0000007 ! Cleavage:64-cell [Term] id: ZFA:0001474 name: presumptive cardinal organ namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-061101-18 [Term] id: ZFA:0001475 name: presumptive organ namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-061101-19 [Term] id: ZFA:0001476 name: presumptive organ system namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-061101-20 [Term] id: ZFA:0001480 name: dorsal anterior lateral line nerve (zebrafish) namespace: zebrafish_anatomy def: "Lateral line nerve that originates within the dorsal anterior lateral line ganglion and innervates the otic, supraorbital, and infraorbital neuromasts." [ZFIN:ZDB-PUB-000523-3, ZFIN:curator] synonym: "anterodorsal lateral line nerve" EXACT [] synonym: "dorsal anterior lateral line nerves" EXACT PLURAL [] xref: TAO:0001480 xref: ZFIN:ZDB-ANAT-061101-24 is_a: UBERON:0008906 ! lateral line nerve relationship: part_of ZFA:0000425 ! anterior lateral line nerve (zebrafish) [Term] id: ZFA:0001481 name: ventral anterior lateral line nerve (zebrafish) namespace: zebrafish_anatomy def: "Lateral line nerve that originates within the ventral anterior lateral line ganglion and innervates the mandibular and opercular neuromasts." [ZFIN:curator] synonym: "anteroventral lateral line nerve" EXACT [] synonym: "ventral anterior lateral line nerves" EXACT PLURAL [] xref: TAO:0001481 xref: ZFIN:ZDB-ANAT-061101-25 is_a: UBERON:0008906 ! lateral line nerve relationship: part_of ZFA:0000425 ! anterior lateral line nerve (zebrafish) [Term] id: ZFA:0001482 name: middle lateral line nerve (zebrafish) namespace: zebrafish_anatomy def: "Nerve fibers originating from the middle lateral line ganglion. These fibers innervate the middle lateral line." [ZFIN:curator] synonym: "middle lateral line nerves" EXACT PLURAL [] xref: TAO:0001482 xref: ZFIN:ZDB-ANAT-061101-26 is_a: UBERON:0008906 ! lateral line nerve relationship: part_of ZFA:0000175 ! posterior lateral line nerve (zebrafish) relationship: part_of ZFA:0005114 ! middle lateral line system (zebrafish) [Term] id: ZFA:0001483 name: middle lateral line ganglion (zebrafish) namespace: zebrafish_anatomy def: "The middle lateral line ganglion develops from a cranial ectodermal placode and contains sensory neurons that innervate the middle lateral line." [ZFIN:curator] synonym: "middle lateral line ganglia" EXACT PLURAL [] xref: TAO:0001483 xref: ZFIN:ZDB-ANAT-061101-27 is_a: ZFA:0000120 ! lateral line ganglion (zebrafish) relationship: part_of ZFA:0005114 ! middle lateral line system (zebrafish) [Term] id: ZFA:0001484 name: superficial blastomere (zebrafish) namespace: zebrafish_anatomy def: "Cells (completely cleaved), located at the surface of the blastodisc, above the deep blastomeres." [ZFIN:ZDB-PUB-961014-576] subset: cell_slim ! cell_slim synonym: "superficial blastomeres" EXACT PLURAL [] xref: TAO:0001484 xref: ZFIN:ZDB-ANAT-061101-28 is_a: ZFA:0000093 ! blastomere (zebrafish) relationship: end ZFS:0000015 ! Blastula:Dome relationship: start ZFS:0000007 ! Cleavage:64-cell [Term] id: ZFA:0001502 name: epiphyseal bar (zebrafish) namespace: zebrafish_anatomy def: "Bilaterally paired medial bar of cartilage formed at midorbit through medial chondrification from triangles of cartilage that later form the junction of the taeniae marginales anterior, taeniae marginales posterior and the epiphyseal bar." [ZFIN:curator] xref: TAO:0001502 xref: ZFIN:ZDB-ANAT-070517-18 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: part_of UBERON:0001703 ! neurocranium [Term] id: ZFA:0001504 name: occipital arch cartilage (zebrafish) namespace: zebrafish_anatomy def: "Cranial cartilage which is a paired anterodorsal projection of the posterior end of the parachordal cartilage. It lies lateral to the notochord, just anterior to the posterior tip of the otic capsule. The bilaterally paired occipital arch cartilages fuse anterodorsally to the posterior edges of the auditory capsules and meet medially as the tectum synoticum (by 12 dpf)." [ZFIN:curator] synonym: "occipital arch cartilages" EXACT PLURAL [] xref: TAO:0001504 xref: ZFIN:ZDB-ANAT-070517-20 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: end ZFS:0000038 ! Larval:Day 6 relationship: part_of UBERON:0001703 ! neurocranium [Term] id: ZFA:0001505 name: taenia marginalis anterior (zebrafish) namespace: zebrafish_anatomy def: "Cartilage bar (bilaterally paired) that grows anteroventrally from the epiphyseal bar to join the anteriolateral edge of the ethmoid plate." [ZFIN:curator] synonym: "orbital cartilage" RELATED [] xref: TAO:0001505 xref: ZFIN:ZDB-ANAT-070517-21 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0003111 ! sphenoid region [Term] id: ZFA:0001508 name: trabecula communis (zebrafish) namespace: zebrafish_anatomy def: "Cartilage formed via medial fusion between bilaterally paired trabecula cranii." [ZFIN:curator] synonym: "trabecular bar" EXACT [] xref: TAO:0001508 xref: ZFIN:ZDB-ANAT-070517-24 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0005945 ! neurocranial trabecula [Term] id: ZFA:0001511 name: interhyal cartilage (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0000218 def: "The interhyal is a small rod-like element that connects the ventral and dorsal parts of the hyoid arch. It articulates laterally with the posterior end of the epihyal and medially at the cartilaginous junction between the hyomandibula and the symplectic. It remains cartilaginous in adult zebrafish and other cypriniforms." [ZFIN:curator] synonym: "interhyal bone" EXACT [] synonym: "stylohyal" EXACT [] xref: TAO:0001511 xref: ZFIN:ZDB-ANAT-070517-27 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0011153 ! ventral hyoid arch skeleton relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0001515 name: taenia marginalis posterior (zebrafish) namespace: zebrafish_anatomy def: "Cartilage bar (bilaterally paired) that is first visible as an anterior extension of the auditory capsule. It grows anteriorly toward the middle of the orbit where it is connected to its mate on the other side by the epiphyseal bar." [ZFIN:curator] synonym: "orbital cartilage" RELATED [] xref: TAO:0001515 xref: ZFIN:ZDB-ANAT-070928-117 is_a: UBERON:0003932 ! cartilage element of chondrocranium relationship: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0003111 ! sphenoid region [Term] id: ZFA:0001516 name: ceratobranchial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Pharyngeal arch cartilage that forms the largest skeletal element of the ventral branchial arches." [ZFIN:curator] synonym: "ceratobranchial cartilages" EXACT PLURAL [] xref: TAO:0001516 xref: ZFIN:ZDB-ANAT-070928-118 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001517 name: ceratobranchial 2 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial cartilage that is bilaterally paired and articulates laterally with epibranchial 2 cartilage or bone." [ZFIN:curator] xref: TAO:0001517 xref: ZFIN:ZDB-ANAT-070928-119 is_a: ZFA:0001516 ! ceratobranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0001518 name: ceratobranchial 3 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial cartilage that is bilaterally paired and articulates laterally with epibranchial 3 cartilage or bone." [ZFIN:curator] xref: TAO:0001518 xref: ZFIN:ZDB-ANAT-070928-120 is_a: ZFA:0001516 ! ceratobranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0001519 name: ceratobranchial 4 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial cartilage that is bilaterally paired and articulates laterally with epibranchial 4 cartilage or bone." [ZFIN:curator] xref: TAO:0001519 xref: ZFIN:ZDB-ANAT-070928-121 is_a: ZFA:0001516 ! ceratobranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0001520 name: ceratobranchial 1 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial cartilage that forms between hypobranchial 1 and epibranchial 1." [TAO:curator] xref: TAO:0001520 xref: ZFIN:ZDB-ANAT-070928-122 is_a: ZFA:0001516 ! ceratobranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001521 name: ceratobranchial 5 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Ceratobranchial cartilage that is the most posterior, bilaterally paired ventral pharyngeal arch cartilage." [ZFIN:curator] xref: TAO:0001521 xref: ZFIN:ZDB-ANAT-070928-123 is_a: ZFA:0001516 ! ceratobranchial cartilage (zebrafish) relationship: part_of ZFA:0001229 ! pharyngeal arch 7 skeleton (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001522 name: hypobranchial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small rod-like cartilage that forms between the median copulae and the ceratobranchial cartilages." [ZFIN:curator] synonym: "hypobranchial cartilages" EXACT PLURAL [] xref: TAO:0001522 xref: ZFIN:ZDB-ANAT-070928-124 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0001523 name: hypobranchial 4 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the anteromedial tip of ceratobranchial 4; these are not obviously present in mature specimens, due either to resorption or fusion to the cartilaginous anterior tip of ceratobranchial 4." [ZFIN:curator] synonym: "hypobranchial 4 cartilages" EXACT PLURAL [] xref: TAO:0001523 xref: ZFIN:ZDB-ANAT-070928-125 is_a: ZFA:0001522 ! hypobranchial cartilage (zebrafish) relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) [Term] id: ZFA:0001524 name: hypobranchial 1 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the anteromedial tip of ceratobranchial 1, lateral to copula 1." [ZFIN:curator] synonym: "hypobranchial 1 cartilages" EXACT PLURAL [] xref: TAO:0001524 xref: ZFIN:ZDB-ANAT-070928-126 is_a: ZFA:0001522 ! hypobranchial cartilage (zebrafish) relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) [Term] id: ZFA:0001525 name: hypobranchial 2 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the anteromedial tip of ceratobranchial 2, lateral to copula 1." [ZFIN:curator] synonym: "hypobranchial 2 cartilages" EXACT PLURAL [] xref: TAO:0001525 xref: ZFIN:ZDB-ANAT-070928-127 is_a: ZFA:0001522 ! hypobranchial cartilage (zebrafish) relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) [Term] id: ZFA:0001526 name: hypobranchial 3 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the anteromedial tip of ceratobranchial 3, lateral to copula 1." [ZFIN:curator] synonym: "hypobranchial 3 cartilages" EXACT PLURAL [] xref: TAO:0001526 xref: ZFIN:ZDB-ANAT-070928-128 is_a: ZFA:0001522 ! hypobranchial cartilage (zebrafish) relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) [Term] id: ZFA:0001527 name: epibranchial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Pharyngeal arch cartilage that is bilaterally paired small rod-like cartilage which articulates laterally with ceratobranchial cartilage or bone." [TAO:curator] synonym: "epibranchial cartilages" EXACT PLURAL [] xref: TAO:0001527 xref: ZFIN:ZDB-ANAT-070928-129 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0005886 ! post-hyoid pharyngeal arch skeleton [Term] id: ZFA:0001528 name: epibranchial 1 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial cartilage that is bilaterally paired and articulates laterally with ceratobranchial 1 cartilage or bone and the medial end of pharyngobranchial 1." [ZFIN:curator] xref: TAO:0001528 xref: ZFIN:ZDB-ANAT-070928-130 is_a: ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: part_of ZFA:0001228 ! pharyngeal arch 3 skeleton (zebrafish) [Term] id: ZFA:0001529 name: epibranchial 3 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial cartilage that is bilaterally paired and articulates laterally with ceratobranchial 3 cartilage or bone and the medial end of pharyngobranchial 3." [ZFIN:curator] xref: TAO:0001529 xref: ZFIN:ZDB-ANAT-070928-131 is_a: ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) [Term] id: ZFA:0001530 name: epibranchial 2 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial cartilage that is bilaterally paired and articulates laterally with ceratobranchial 2 cartilage or bone and the medial end of pharyngobranchial 2." [ZFIN:curator] xref: TAO:0001530 xref: ZFIN:ZDB-ANAT-070928-132 is_a: ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) [Term] id: ZFA:0001531 name: epibranchial 4 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Epibranchial cartilage that is bilaterally paired and articulates laterally with ceratobranchial 4 cartilage or bone and the medial end of pharyngobranchial 4." [ZFIN:curator] xref: TAO:0001531 xref: ZFIN:ZDB-ANAT-070928-133 is_a: ZFA:0001527 ! epibranchial cartilage (zebrafish) relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of ZFA:0001230 ! pharyngeal arch 6 skeleton (zebrafish) [Term] id: ZFA:0001532 name: axial bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000317 ! postcranial axial skeleton xref: ZFIN:ZDB-ANAT-070928-134 [Term] id: ZFA:0001533 name: pharyngobranchial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Paired cartilages that project medially from the medial tips of epibranchials." [ZFIN:curator] synonym: "pharyngobranchial cartilages" EXACT PLURAL [] xref: TAO:0001533 xref: ZFIN:ZDB-ANAT-070928-135 is_a: UBERON:0011004 ! pharyngeal arch cartilage [Term] id: ZFA:0001534 name: pharyngobranchial 3 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Paired elongate cartilages that lie posteromedial to epibranchial 2 and medial to epibranchial 3." [ZFIN:curator] synonym: "pharyngobranchial 3 cartilages" EXACT PLURAL [] xref: TAO:0001534 xref: ZFIN:ZDB-ANAT-070928-136 is_a: ZFA:0001533 ! pharyngobranchial cartilage (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: part_of ZFA:0001232 ! pharyngeal arch 5 skeleton (zebrafish) [Term] id: ZFA:0001535 name: median fin cartilage (zebrafish) namespace: zebrafish_anatomy synonym: "median fin cartilages" EXACT PLURAL [] xref: TAO:0001535 xref: ZFIN:ZDB-ANAT-070928-137 is_a: ZFA:0001457 ! postcranial axial cartilage (zebrafish) [Term] id: ZFA:0001536 name: pharyngobranchial 2 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Paired disc-like cartilage lying medial to and between the medial tips of epibranchials 1 and 2." [ZFIN:curator] synonym: "pharyngobranchial 2 cartilages" EXACT PLURAL [] xref: TAO:0001536 xref: ZFIN:ZDB-ANAT-070928-138 is_a: ZFA:0001533 ! pharyngobranchial cartilage (zebrafish) relationship: end ZFS:0000041 ! Larval:Days 21-29 relationship: part_of ZFA:0001231 ! pharyngeal arch 4 skeleton (zebrafish) [Term] id: ZFA:0001537 name: mesocoracoid cartilage (zebrafish) namespace: zebrafish_anatomy def: "Cartilage that develops initially on the medial side of the coraco-scapular cartilage." [ZFIN:curator] synonym: "mesocorocoid cartilages" EXACT PLURAL [] xref: TAO:0001537 xref: ZFIN:ZDB-ANAT-070928-139 is_a: UBERON:0007390 ! pectoral appendage cartilage tissue relationship: end ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001538 name: pelvic radial cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the posterior edge of the basipterygium." [ZFIN:curator] synonym: "pelvic radial cartilages" EXACT PLURAL [] xref: TAO:0001538 xref: ZFIN:ZDB-ANAT-070928-140 is_a: UBERON:0007391 ! pelvic appendage cartilage tissue [Term] id: ZFA:0001539 name: basipterygium cartilage (zebrafish) namespace: zebrafish_anatomy def: "Bilaterally paired small, rodlike cartilages on the ventral surface of the abdomen (present at 7.9 mm). Their posterior tips expand laterally, forming L-shaped cartilages. Medially, a posterior spur of cartilage develops, which will later ossify as the ischiac process (Weitzman 1962)." [ZFIN:curator] synonym: "basipterygium cartilages" EXACT PLURAL [] xref: TAO:0001539 xref: ZFIN:ZDB-ANAT-070928-141 is_a: UBERON:0007391 ! pelvic appendage cartilage tissue [Term] id: ZFA:0001540 name: pelvic radial 3 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the posterior and medial edge of the basipterygium." [ZFIN:curator] synonym: "pelvic radials 3 cartilages" EXACT PLURAL [] xref: TAO:0001540 xref: ZFIN:ZDB-ANAT-070928-142 is_a: ZFA:0001538 ! pelvic radial cartilage (zebrafish) [Term] id: ZFA:0001541 name: pelvic radial 2 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage with a long posterior process and a shorter lateral one that forms at the posterior edge of the basipterygium, between radial cartilages 1 and 2." [ZFIN:curator] synonym: "pelvic radials 2 cartilages" EXACT PLURAL [] xref: TAO:0001541 xref: ZFIN:ZDB-ANAT-070928-143 is_a: ZFA:0001538 ! pelvic radial cartilage (zebrafish) [Term] id: ZFA:0001542 name: pelvic radial 1 cartilage (zebrafish) namespace: zebrafish_anatomy def: "Small cartilage that forms at the posterior and lateral edge of the basipterygium." [ZFIN:curator] synonym: "pelvic radials 1 cartilages" EXACT PLURAL [] xref: TAO:0001542 xref: ZFIN:ZDB-ANAT-070928-144 is_a: ZFA:0001538 ! pelvic radial cartilage (zebrafish) [Term] id: ZFA:0001544 name: chondrocranium bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001424 ! chondrocranium xref: ZFIN:ZDB-ANAT-070928-146 [Term] id: ZFA:0001545 name: cranial bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000737 ! cranium xref: ZFIN:ZDB-ANAT-070928-147 [Term] id: ZFA:0001546 name: pharyngeal arch bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000095 ! pharyngeal arch 3-7 skeleton consider: ZFA:0001276 ! pharyngeal arch 2 skeleton xref: ZFIN:ZDB-ANAT-070928-148 [Term] id: ZFA:0001547 name: dermatocranium bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000863 ! dermatocranium xref: ZFIN:ZDB-ANAT-070928-149 [Term] id: ZFA:0001548 name: axial fin bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0001123 ! axial fin skeleton (zebrafish) xref: ZFIN:ZDB-ANAT-070928-150 [Term] id: ZFA:0001549 name: paired fin bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000027 ! paired fin skeleton comment: Zebrafish don't have a stomach. xref: ZFIN:ZDB-ANAT-070928-151 [Term] id: ZFA:0001550 name: caudal fin lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Lepidotrichium which is part of the caudal fin." [ZFIN:curator] synonym: "caudal fin lepidotrichia" EXACT PLURAL [] synonym: "caudal fin ray" EXACT [] xref: TAO:0001550 xref: ZFIN:ZDB-ANAT-070928-152 is_a: ZFA:0001554 ! lepidotrichium (zebrafish) relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0001551 name: pectoral fin lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Lepidotrichium which is part of the pectoral fin, forming the pectoral fin skeleton and articulating with the pectoral radials. A pectoral lepidotrichium is composed of two hemitrichia that surround bundles of actinotrichia distally." [ZFIN:curator] synonym: "pectoral fin lepidotrichia" EXACT PLURAL [] synonym: "pectoral fin ray" EXACT [] xref: TAO:0001551 xref: ZFIN:ZDB-ANAT-070928-153 is_a: ZFA:0001554 ! lepidotrichium (zebrafish) relationship: part_of UBERON:0010710 ! pectoral fin skeleton [Term] id: ZFA:0001552 name: pelvic fin lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Lepidotrichium which is part of the pelvic fin." [ZFIN:curator] synonym: "pelvic fin lepidotrichia" EXACT PLURAL [] synonym: "pelvic fin ray" EXACT [] xref: TAO:0001552 xref: ZFIN:ZDB-ANAT-070928-154 is_a: ZFA:0001554 ! lepidotrichium (zebrafish) relationship: part_of UBERON:0010711 ! pelvic fin skeleton [Term] id: ZFA:0001553 name: fin bone namespace: zebrafish_anatomy is_obsolete: true consider: ZFA:0000027 ! paired fin skeleton consider: ZFA:0001123 ! axial fin skeleton (zebrafish) xref: ZFIN:ZDB-ANAT-070928-155 [Term] id: ZFA:0001554 name: lepidotrichium (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is rod-like, formed and usually contained in a fin membrane, and jointed to or adjacent to distal radials. They are bilaterally paired. Lepidotrichia are formed from paired hemitrichia surrounding actinotrichia. There are usually two more lepidotrichia than distal radials." [ZFIN:ZDB-PUB-031103-13] synonym: "lepidotrichia" EXACT PLURAL [] xref: TAO:0001554 xref: ZFIN:ZDB-ANAT-070928-156 is_a: UBERON:0008907 ! dermal bone [Term] id: ZFA:0001560 name: hypural 1 (zebrafish) namespace: zebrafish_anatomy def: "Ventral most hypural of the caudal fin. Supports the lower lobe of the caudal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001560 xref: ZFIN:ZDB-ANAT-070928-162 is_a: ZFA:0000364 ! hypural (zebrafish) relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0001561 name: hypural 2 (zebrafish) namespace: zebrafish_anatomy def: "Hypural of the caudal fin dorsal to hypural 1. Supports the lower lobe of the caudal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001561 xref: ZFIN:ZDB-ANAT-070928-163 is_a: ZFA:0000364 ! hypural (zebrafish) relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0001562 name: hypural 3 (zebrafish) namespace: zebrafish_anatomy def: "Hypural dorsal to hypural 2 that supports the upper lobe of the caudal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001562 xref: ZFIN:ZDB-ANAT-070928-164 is_a: ZFA:0000364 ! hypural (zebrafish) relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0001563 name: hypural 4 (zebrafish) namespace: zebrafish_anatomy def: "Hypural dorsal to hypural 3 that supports the upper lobe of the caudal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001563 xref: ZFIN:ZDB-ANAT-070928-165 is_a: ZFA:0000364 ! hypural (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001564 name: hypural 5 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal-most hypural, that supports the upper lobe of the caudal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001564 xref: ZFIN:ZDB-ANAT-070928-166 is_a: ZFA:0000364 ! hypural (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001565 name: oocyte stage II (zebrafish) namespace: zebrafish_anatomy def: "Oocyte part of stage II ovarian follicle." [ZFIN:curator] comment: In stage II (cortical alveolus stage), oocytes are distinguished by the appearance of variably sized cortical alveoli and the vitelline envelope becomes prominent, ZDB-PUB-961014-1020. subset: cell_slim ! cell_slim synonym: "oocytes stage II" EXACT PLURAL [] xref: TAO:0001565 xref: ZFIN:ZDB-ANAT-070928-167 is_a: CL:0000023 ! oocyte relationship: part_of ZFA:0001265 ! ovarian follicle stage II (zebrafish) relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001566 name: oocyte stage III (zebrafish) namespace: zebrafish_anatomy def: "Oocyte part of stage III ovarian follicle." [ZFIN:curator] comment: In stage III (vitellogenesis), yolk proteins appear in oocytes and yolk bodies with crystalline yolk accrue during this major growth stage. Oocytes develop the capacity to respond in vitro to the steroid 17, 20-dihydroxy-4-pregnen-3-one (DHP) by undergoing oocyte maturation ZDB-PUB-961014-1020. subset: cell_slim ! cell_slim synonym: "oocytes stage III" EXACT PLURAL [] xref: TAO:0001566 xref: ZFIN:ZDB-ANAT-070928-168 is_a: CL:0000023 ! oocyte relationship: part_of ZFA:0001266 ! ovarian follicle stage III (zebrafish) relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001567 name: oocyte stage I (zebrafish) namespace: zebrafish_anatomy def: "Oocyte part of stage I ovarian follicle." [ZFIN:curator] comment: Oocytes reside in nests with other oocytes (Stage IA) and then within a definitive follicle (Stage IB), where they greatly increase in size ZDB-PUB-961014-1020. subset: cell_slim ! cell_slim synonym: "oocytes stage I" EXACT PLURAL [] xref: TAO:0001567 xref: ZFIN:ZDB-ANAT-070928-169 is_a: CL:0000023 ! oocyte relationship: part_of ZFA:0001263 ! ovarian follicle stage I (zebrafish) relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001568 name: oocyte stage IV (zebrafish) namespace: zebrafish_anatomy def: "Oocyte part of stage IV ovarian follicle." [ZFIN:curator] comment: In stage IV (oocyte maturation), oocytes increase slightly in size, become translucent, and their yolk becomes non-crystalline as they undergo final meiotic maturation in vivo (and in response to DHP in vitro). ZDB-PUB-961014-1020. subset: cell_slim ! cell_slim synonym: "oocytes stage IV" EXACT PLURAL [] xref: TAO:0001568 xref: ZFIN:ZDB-ANAT-070928-170 is_a: CL:0000023 ! oocyte relationship: part_of UBERON:0003982 ! mature ovarian follicle relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001569 name: oocyte stage V (zebrafish) namespace: zebrafish_anatomy def: "Oocyte part of stage V ovarian follicle." [ZFIN:curator] comment: In stage V (mature egg), eggs (approx. 0.75 mm) are ovulated into the ovarian lumen and are capable of fertilization ZDB-PUB-961014-1020. subset: cell_slim ! cell_slim synonym: "mature egg" EXACT [] synonym: "unactivated egg" EXACT [] xref: TAO:0001569 xref: ZFIN:ZDB-ANAT-070928-171 is_a: CL:0000023 ! oocyte relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0001570 name: unfertilized egg (zebrafish) namespace: zebrafish_anatomy comment: Outside the body. subset: cell_slim ! cell_slim synonym: "activated oocyte" EXACT [] xref: TAO:0001570 xref: ZFIN:ZDB-ANAT-070928-172 is_a: CL:0000000 ! cell relationship: develops_from ZFA:0001569 ! oocyte stage V (zebrafish) [Term] id: ZFA:0001571 name: postovulatory follicle (zebrafish) namespace: zebrafish_anatomy synonym: "postovulatory follicles" EXACT PLURAL [] xref: TAO:0001571 xref: ZFIN:ZDB-ANAT-070928-173 is_a: UBERON:0001305 ! ovarian follicle relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0001577 name: premaxilla ascending process (zebrafish) namespace: zebrafish_anatomy def: "Process of the premaxilla that extends posteriorly and overlays the mesethmoid." [ZFIN:curator] synonym: "premaxilla ascending processes" EXACT PLURAL [] xref: TAO:0001577 xref: ZFIN:ZDB-ANAT-070928-179 is_a: UBERON:0008907 ! dermal bone relationship: part_of UBERON:0002244 ! premaxilla [Term] id: ZFA:0001578 name: anterior dorsomedial process of autopalatine (zebrafish) namespace: zebrafish_anatomy def: "In cypriniforms the anterior portion of the palatine has a dorsomedial process which abuts against the mesethmoid. Such a process is not present in other ostariophysans or in other primitive teleosts." [ZFIN:curator] synonym: "anterior dorsomedial process of autopalatines" EXACT PLURAL [] xref: TAO:0001578 xref: ZFIN:ZDB-ANAT-070928-180 is_a: UBERON:0004530 ! bony projection relationship: part_of ZFA:0000620 ! autopalatine (zebrafish) [Term] id: ZFA:0001579 name: ural vertebra 2 (zebrafish) namespace: zebrafish_anatomy def: "Ural vertebra that is the second vertebra posterior to preural centrum 1." [ZFIN:curator] xref: TAO:0001579 xref: ZFIN:ZDB-ANAT-071024-1 is_a: UBERON:0002412 ! vertebra relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0001581 name: ural centrum 2 (zebrafish) namespace: zebrafish_anatomy def: "A vertebral centrum that is located immediately posterior to ural centrum 1. Ural centrum 2 is an unpaired median bone." [TAO:curator] xref: TAO:0001581 xref: ZFIN:ZDB-ANAT-071024-3 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0001579 ! ural vertebra 2 (zebrafish) [Term] id: ZFA:0001582 name: non-Weberian precaudal vertebra (zebrafish) namespace: zebrafish_anatomy def: "Precaudal vertebra that is not a Weberian vertebra. Vertebra 5 through 14." [ZFIN:curator] synonym: "non-Weberian precaudal vertebrae" EXACT PLURAL [] xref: TAO:0001582 xref: ZFIN:ZDB-ANAT-071024-4 is_a: UBERON:0011677 ! trunk vertebra [Term] id: ZFA:0001583 name: preural centrum 1+ ural centrum 1 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra which is the fused centra of preural 1 and ural 1. These elements do not develop independently in zebrafish." [ZFIN:ZDB-PUB-031103-13] synonym: "urostyle " RELATED [] xref: TAO:0001583 xref: ZFIN:ZDB-ANAT-071024-5 is_a: UBERON:0002412 ! vertebra relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0001584 name: caudal fin procurrent ray (zebrafish) namespace: zebrafish_anatomy def: "Caudal fin lepidotrichium that is located anterior to the principal caudal fin rays. Caudal procurrent rays are unbranched." [ZFIN:curator] synonym: "caudal procurrent lepidotrichium" EXACT [] synonym: "caudal procurrent ray " RELATED [] xref: TAO:0001584 xref: ZFIN:ZDB-ANAT-071024-6 is_a: ZFA:0001550 ! caudal fin lepidotrichium (zebrafish) [Term] id: ZFA:0001585 name: caudal fin principal ray (zebrafish) namespace: zebrafish_anatomy def: "Caudal fin lepidotrichium that is adjacent to a branched ray. Caudal principal rays may be segmented but unbranched and the main element forming the dorsal or ventral leading margin of the caudal fin or a ray that may be only segmented and branched and forms part of the middle-posterior region of the fin. A caudal principal ray is an unpaired median bone. There are 19 principal caudal rays, with 10 in the dorsal lobe and nine in the ventral lobe. The dorsal lobe rays articulate with hypurals 3-5." [ZFIN:ZDB-PUB-031103-13, ZFIN:curator] synonym: "caudal principal lepidotrichium" EXACT [] synonym: "caudal principal ray" EXACT [] xref: TAO:0001585 xref: ZFIN:ZDB-ANAT-071024-7 is_a: ZFA:0001550 ! caudal fin lepidotrichium (zebrafish) [Term] id: ZFA:0001586 name: pectoral fin radial (zebrafish) namespace: zebrafish_anatomy def: "Radial which develops from the pectoral fin endoskeletal disc, supports the pectoral lepidotrichia or fin rays and connects the lepidotrichia with the primary pectoral girdle." [TAO:curator] synonym: "pectoral fin radials" EXACT PLURAL [] xref: TAO:0001586 xref: ZFIN:ZDB-ANAT-071024-8 is_a: ZFA:0000271 ! radial (zebrafish) relationship: develops_from ZFA:0001456 ! pectoral fin endoskeletal disc (zebrafish) relationship: part_of UBERON:0010710 ! pectoral fin skeleton [Term] id: ZFA:0001587 name: pectoral fin proximal radial (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin radial which develops from the pectoral fin endoskeletal disc, supports a few pectoral lepidotrichia or fin rays and connects the lepidotrichia and distal radials with the primary pectoral girdle (scapula and coracoid)." [TAO:curator] xref: TAO:0001587 xref: ZFIN:ZDB-ANAT-071024-9 is_a: ZFA:0001586 ! pectoral fin radial (zebrafish) [Term] id: ZFA:0001588 name: pectoral fin distal radial (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin radial, develops from the pectoral fin endoskeletal disc, and is located at the proximal region of a lepidotrichium, between its hemitrichia. Pectoral fin distal radial is paired." [TAO:curator] synonym: "pectoral fin distal radials" EXACT PLURAL [] xref: TAO:0001588 xref: ZFIN:ZDB-ANAT-071024-10 is_a: ZFA:0001586 ! pectoral fin radial (zebrafish) [Term] id: ZFA:0001589 name: propterygium (zebrafish) namespace: zebrafish_anatomy def: "The propterygium is the lateralmost or anteriormost basal cartilage that originates from the pectoral fin endoskeletal disc. The bases of the pectoral lepidotrichium 1 plus the propterygium articulates with the scapula." [TAO:Curator] synonym: "propterygia" EXACT PLURAL [] xref: TAO:0001589 xref: ZFIN:ZDB-ANAT-071024-11 is_a: ZFA:0001588 ! pectoral fin distal radial (zebrafish) [Term] id: ZFA:0001592 name: claustrum bone (zebrafish) namespace: zebrafish_anatomy def: "Bone that is bilaterally paired endochondral bone with extensions of membrane bone forming part of a dorsolateral protective wall around the neural canal between the back of the skull and the beginning of the neural arch series. The first Weberian ossicle. Most recently, de Pinna and Grande (2003) have proposed the claustrum is homologous to the accessory neural arch of lower teleosts." [ZFIN:curator] xref: TAO:0001592 xref: ZFIN:ZDB-ANAT-071024-14 is_a: UBERON:0002513 ! endochondral bone is_a: UBERON:0007842 ! membrane bone is_a: ZFA:0000461 ! Weberian ossicle (zebrafish) relationship: develops_from ZFA:0000637 ! claustrum cartilage (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001593 name: quadrate ventral process (zebrafish) namespace: zebrafish_anatomy def: "An endochondral bone that is the ventral, posteriorly-oriented bony extension of the quadrate." [ZFIN:curator] synonym: "quadrate ventral processes" EXACT PLURAL [] xref: TAO:0000224 xref: ZFIN:ZDB-ANAT-080417-72 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0006597 ! quadrate bone relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001594 name: preopercle horizontal limb (zebrafish) namespace: zebrafish_anatomy def: "A dermal bone that is the lower, horizontal portion of the preopercle bone." [ZFIN:curator] synonym: "preopercle anterior arm" EXACT [ZFIN:ZDB-PUB-961014-192] synonym: "preopercle horizontal arm" EXACT [] synonym: "preopercle lower limb" EXACT [] synonym: "preopercle ventral arm" EXACT [ZFIN:ZDB-PUB-961014-192] xref: TAO:0000289 xref: ZFIN:ZDB-ANAT-080417-73 is_a: UBERON:0008907 ! dermal bone relationship: part_of ZFA:0000264 ! preopercle (zebrafish) [Term] id: ZFA:0001595 name: preopercle vertical limb (zebrafish) namespace: zebrafish_anatomy def: "A dermal bone that is the upper, vertical portion of the preopercle bone." [ZFIN:curator] synonym: "preopercle dorsal arm" EXACT [ZFIN:ZDB-PUB-961014-192.] synonym: "preopercle posterior arm" EXACT [ZFIN:ZDB-PUB-961014-192.] synonym: "preopercle upper limb" EXACT [] synonym: "preopercle vertical arm" EXACT [] xref: TAO:0000336 xref: ZFIN:ZDB-ANAT-080417-74 is_a: UBERON:0008907 ! dermal bone relationship: part_of ZFA:0000264 ! preopercle (zebrafish) [Term] id: ZFA:0001597 name: exoccipital posteroventral region (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone which is the posteroventral region of the exoccipital bone." [ZFIN:curator] synonym: "exoccipitals posteroventral regions" EXACT PLURAL [] xref: TAO:0000348 xref: ZFIN:ZDB-ANAT-080417-76 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0001693 ! exoccipital bone relationship: part_of ZFA:0001627 ! lagenar capsule (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001598 name: basioccipital posterodorsal region (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone which is the posterodorsal region of the basioccipital bone." [ZFIN:curator] xref: TAO:0000337 xref: ZFIN:ZDB-ANAT-080417-77 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0001692 ! basioccipital bone relationship: part_of ZFA:0001627 ! lagenar capsule (zebrafish) [Term] id: ZFA:0001599 name: os suspensorium medial flange (zebrafish) namespace: zebrafish_anatomy xref: TAO:0002214 xref: ZFIN:ZDB-ANAT-080417-78 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0001171 ! os suspensorium (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001600 name: neural spine 4 (zebrafish) namespace: zebrafish_anatomy def: "Neural spine that is located on the fourth vertebra." [ZFIN:curator] xref: TAO:0001546 xref: ZFIN:ZDB-ANAT-080417-79 is_a: UBERON:0001076 ! spinous process of vertebra [Term] id: ZFA:0001601 name: manubrium (zebrafish) namespace: zebrafish_anatomy def: "Anterior branch of the intercalarium. The manubrium develops as a simple antero-lateral membrane bone extension from basidorsal 2." [ZFIN:ZDB-PUB-031103-13] synonym: "anterior branch of the intercalarium" RELATED [] synonym: "anterior process of the intercalarium" EXACT [] synonym: "horizontal process" EXACT [] synonym: "manubrium incudus" EXACT [] xref: TAO:0001553 xref: ZFIN:ZDB-ANAT-080417-80 is_a: UBERON:0007842 ! membrane bone relationship: part_of ZFA:0000525 ! intercalarium (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001602 name: intercalarium ascending process (zebrafish) namespace: zebrafish_anatomy def: "Bony process that develops as a dorsally projecting cartilaginous extension from the basidorsal. The ascending process is longer relative to the manubrium in larvae (5.1-11.0 mm). By 13.0 mm, the ascending process appears highly reduced in size." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0001548 xref: ZFIN:ZDB-ANAT-080417-81 is_a: UBERON:0002513 ! endochondral bone relationship: part_of ZFA:0000525 ! intercalarium (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0001604 name: caudal fin upper lobe (zebrafish) namespace: zebrafish_anatomy def: "Surface structure that is the dorsal portion of the caudal fin." [ZFIN:curator] synonym: "caudal fin dorsal lobe" EXACT [] xref: TAO:0001593 xref: ZFIN:ZDB-ANAT-080417-83 is_a: UBERON:0003102 ! surface structure relationship: part_of ZFA:0001058 ! caudal fin (zebrafish) [Term] id: ZFA:0001605 name: caudal fin lower lobe (zebrafish) namespace: zebrafish_anatomy def: "Surface structure that is the ventral portion of the caudal fin." [ZFIN:curator] synonym: "caudal fin ventral lobe" EXACT [] xref: TAO:0001594 xref: ZFIN:ZDB-ANAT-080417-84 is_a: UBERON:0003102 ! surface structure relationship: part_of ZFA:0001058 ! caudal fin (zebrafish) [Term] id: ZFA:0001618 name: pons namespace: zebrafish_anatomy is_obsolete: true xref: ZFIN:ZDB-ANAT-080417-97 [Term] id: ZFA:0001623 name: posterior pronephric duct (zebrafish) namespace: zebrafish_anatomy def: "Most posterior portion of the pronephric duct (or tubule as described by Wingert et al, 2007) which ends at the cloacal chamber at the pronephric duct opening." [ZFIN:ZDB-PUB-071029-9] synonym: "posterior pronephric ducts" EXACT PLURAL [] xref: TAO:0002225 xref: ZFIN:ZDB-ANAT-080417-102 is_a: UBERON:0000058 ! duct relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0003060 ! pronephric duct [Term] id: ZFA:0001624 name: pronephric distal late tubule (zebrafish) namespace: zebrafish_anatomy def: "Portion of the pronephric duct (or tubule as described by Wingert et al, 2007) which is just posterior to the distal early tubule." [ZFIN:ZDB-PUB-071029-9] synonym: "distal late tubules" EXACT PLURAL [] xref: ZFIN:ZDB-ANAT-080417-103 is_a: UBERON:0000058 ! duct relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0003060 ! pronephric duct [Term] id: ZFA:0001625 name: optic nerve head (zebrafish) namespace: zebrafish_anatomy def: "Portion of cranial nerve II where large fascicles of axons from the optic fiber layer come together prior to leaving the eye." [ZFIN:curator] synonym: "optic nerve heads" EXACT PLURAL [] xref: TAO:0002213 xref: ZFIN:ZDB-ANAT-080417-104 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0000941 ! cranial nerve II [Term] id: ZFA:0001627 name: lagenar capsule (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster that consists of a bulla formed by the exoccipital and basioccipital bones, and surrounds the lagena." [ZFIN:curator] synonym: "lagenar capsules" EXACT PLURAL [] xref: TAO:0001620 xref: ZFIN:ZDB-ANAT-080417-106 is_a: UBERON:0000477 ! anatomical cluster [Term] id: ZFA:0001631 name: notochordal ossification (zebrafish) namespace: zebrafish_anatomy def: "Perichordal bone that surrounds the anterior tip of the notochord." [ZFIN:curator] xref: TAO:0001640 xref: ZFIN:ZDB-ANAT-080417-110 is_a: UBERON:0008909 ! perichordal bone relationship: develops_from UBERON:0007862 ! perichordal tissue [Term] id: ZFA:0001641 name: rudimentary neural arch (zebrafish) namespace: zebrafish_anatomy def: "Neural arch on the urostyle. It does not support a neural spine. Sanger and McCune 2002." [ZFIN:curator] xref: TAO:0001666 xref: ZFIN:ZDB-ANAT-080417-120 is_a: UBERON:0003861 ! neural arch relationship: part_of UBERON:0003106 ! urostyle [Term] id: ZFA:0001646 name: anal fin radial (zebrafish) namespace: zebrafish_anatomy def: "Internal skeletal supports of the anal fin." [TAO:curator] synonym: "anal fin pterygiophores" RELATED [] synonym: "anal fin radials" EXACT PLURAL [] xref: TAO:0001671 xref: ZFIN:ZDB-ANAT-080417-125 is_a: ZFA:0000271 ! radial (zebrafish) [Term] id: ZFA:0001647 name: dorsal fin radial (zebrafish) namespace: zebrafish_anatomy def: "Internal skeletal supports of the dorsal fin." [TAO:curator] synonym: "dorsal fin pterygiophore " RELATED [] synonym: "dorsal fin radials" EXACT PLURAL [] xref: TAO:0001672 xref: ZFIN:ZDB-ANAT-080417-126 is_a: ZFA:0000271 ! radial (zebrafish) [Term] id: ZFA:0001649 name: infraorbital series (zebrafish) namespace: zebrafish_anatomy def: "Anatomical cluster that is the series of dermal bones associated with the infraorbital sensory canal located under and posterior to the eye." [ZFIN:curator] synonym: "circumorbital series" EXACT [] xref: TAO:0001709 xref: ZFIN:ZDB-ANAT-081013-24 is_a: UBERON:0000477 ! anatomical cluster relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0001650 name: branchial mesenchyme (zebrafish) namespace: zebrafish_anatomy synonym: "gill mesenchyme" EXACT [] xref: TAO:0002172 xref: ZFIN:ZDB-ANAT-081013-25 is_a: UBERON:0005253 ! head mesenchyme [Term] id: ZFA:0001651 name: hypobranchial muscle (zebrafish) namespace: zebrafish_anatomy def: "Head muscle that originates on the anterior region of the cleithrum and inserts on the urohyal. The hypobranchial forms initially as left and right parts that later fuse together forming a cone shape." [ZFIN:ZDB-PUB-080306-33] synonym: "sternohyoideus" EXACT [] xref: TAO:0002200 xref: ZFIN:ZDB-ANAT-081013-26 is_a: UBERON:0002376 ! muscle of head relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001653 name: pericardial muscle (zebrafish) namespace: zebrafish_anatomy def: "Muscle which is paired and runs anterio-posteriorly along the heart and is covered with epicardium." [ZFIN:ZDB-PUB-001026-2] xref: TAO:0002221 xref: ZFIN:ZDB-ANAT-081013-28 is_a: UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001774 ! muscle of trunk [Term] id: ZFA:0001654 name: opercular cavity (zebrafish) namespace: zebrafish_anatomy def: "Anatomical space which is located beneath the operculum and external to the gills." [ZFIN:curator] xref: TAO:0002154 xref: ZFIN:ZDB-ANAT-081013-29 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0000033 ! head [Term] id: ZFA:0001656 name: pleuroperitoneal cavity (zebrafish) namespace: zebrafish_anatomy def: "Anatomical space which contains the abdominal visceral and swim bladder. Located posterior to the pericardial cavity, separated by the transverse septum. From Functional Anatomy of the Vertebrates, third edition." [ISBN:0030223695, ZFIN:curator] xref: TAO:0002224 xref: ZFIN:ZDB-ANAT-081013-31 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002323 ! coelemic cavity lumen [Term] id: ZFA:0001657 name: supraoptic tract (zebrafish) namespace: zebrafish_anatomy def: "CNS tract/commissure which extends between the telencephalon and diencephalon." [ZFIN:ZDB-PUB-961014-955] synonym: "SOT" EXACT [] xref: TAO:0002244 xref: ZFIN:ZDB-ANAT-081013-32 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0000955 ! brain relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001662 name: preglomerular nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located in the caudal tuberculum. The preglomerular nuclei make up most of the migrated nuclei within the caudal tuberculum. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0002226 xref: ZFIN:ZDB-ANAT-081013-37 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0001666 name: periventricular nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which is in contact with the median ependymal lining of the ventricle and consists of the dorsal, ventral, supracommissural and postcommissural nuclei of the ventral telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0002222 xref: ZFIN:ZDB-ANAT-081013-41 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000204 ! ventral part of telencephalon [Term] id: ZFA:0001667 name: peripheral nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Telencephalic nucleus which has migrated away from the ependyma and consists of the central, lateral nuclei and the dorsal and ventral entopeduncular nuclei. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] xref: TAO:0002179 xref: ZFIN:ZDB-ANAT-081013-42 is_a: UBERON:0009663 ! telencephalic nucleus relationship: part_of UBERON:0000204 ! ventral part of telencephalon [Term] id: ZFA:0001668 name: central nucleus of ventral telencephalon (zebrafish) namespace: zebrafish_anatomy def: "Peripheral nucleus of the ventral telencephalon which is located immediately lateral to the dorsal nucleus of the ventral telencephalon. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209, ZFIN:curator] synonym: "area ventralis telencephali, nucleus centralis" EXACT [] xref: TAO:0002180 xref: ZFIN:ZDB-ANAT-081013-43 is_a: ZFA:0001667 ! peripheral nucleus of ventral telencephalon (zebrafish) [Term] id: ZFA:0001669 name: intermediate nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus which is located between the dorsal hypothalamus and the caudal tuberal nucleus and does not contain tyrosine hydroxylase immunoreactive cells." [ZFIN:ZDB-PUB-001220-2] xref: TAO:0002202 xref: ZFIN:ZDB-ANAT-081013-44 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000633 ! caudal tuberculum (zebrafish) [Term] id: ZFA:0001670 name: notochord posterior region (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is the part of the notochord located in the caudal fin." [ZFIN:curator] xref: TAO:0001821 xref: ZFIN:ZDB-ANAT-090212-9 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002328 ! notochord relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0001671 name: macula communis (zebrafish) namespace: zebrafish_anatomy def: "Epithelium that is the primary epithelium of the developing inner ear and has anterior and posterior maculae as its parts. These maculae later move apart into distinct regions of epithelium." [ZFIN:ZDB-PUB-961014-383] xref: TAO:0002206 xref: ZFIN:ZDB-ANAT-090212-10 is_a: UBERON:0000483 ! epithelium relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: part_of UBERON:0001846 ! internal ear relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0001672 name: dorsolateral septum (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that grows in from the dorsolateral wall of the otic vesicle, forming a dorsolateral partition between the developing anterior and posterior semicircular canals." [ZFIN:ZDB-PUB-961014-383] synonym: "dorsal bar" RELATED [] xref: TAO:0002193 xref: ZFIN:ZDB-ANAT-090212-11 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001841 ! anterior semicircular canal relationship: part_of UBERON:0001842 ! posterior semicircular canal relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001673 name: pronephric podocyte (zebrafish) namespace: zebrafish_anatomy def: "Podocyte that is part of the pronephros." [ZFIN:curator] subset: cell_slim ! cell_slim xref: TAO:0002237 xref: ZFIN:ZDB-ANAT-090212-12 is_a: CL:0000653 ! glomerular visceral epithelial cell relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0004739 ! pronephric glomerulus relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0001674 name: mesonephric podocyte (zebrafish) namespace: zebrafish_anatomy def: "Podocyte that is part of the kidney (mesonephros)." [ZFIN:curator] subset: cell_slim ! cell_slim xref: TAO:0002208 xref: ZFIN:ZDB-ANAT-090212-13 is_a: CL:0000653 ! glomerular visceral epithelial cell relationship: part_of UBERON:0000074 ! renal glomerulus [Term] id: ZFA:0001676 name: annular ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that is in the eye and is located at the angle between the cornea and the iris." [ZFIN:ZDB-PUB-070629-16] xref: TAO:0002141 xref: ZFIN:ZDB-ANAT-090212-15 is_a: UBERON:0000211 ! ligament relationship: part_of UBERON:0001801 ! anterior segment of eyeball [Term] id: ZFA:0001680 name: parvocellular preoptic nucleus (zebrafish) namespace: zebrafish_anatomy def: "Diencephalic nucleus that is part of the preoptic area. From Neuroanatomy of the Zebrafish Brain." [ISBN:3764351209] xref: TAO:0002219 xref: ZFIN:ZDB-ANAT-090922-147 is_a: UBERON:0006569 ! diencephalic nucleus [Term] id: ZFA:0001692 name: hindbrain commissure (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter that crosses the midline within the hindbrain." [ZFIN:ZDB-PUB-090417-11] xref: TAO:0002199 xref: ZFIN:ZDB-ANAT-090922-159 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0002028 ! hindbrain relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0001695 name: dorsolateral motor nucleus of vagal nerve (zebrafish) namespace: zebrafish_anatomy def: "Motor nucleus of vagal nerve that is located within the dorsolateral portion of rhombomere 8." [ZFIN:ZDB-PUB-090417-11] synonym: "dlX" EXACT [] xref: TAO:0002192 xref: ZFIN:ZDB-ANAT-090922-162 is_a: UBERON:0011778 ! motor nucleus of vagal nerve relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0001696 name: medial motor nucleus of vagal nerve (zebrafish) namespace: zebrafish_anatomy def: "Motor nucleus of vagal nerve that is located within the medial portion of rhombomere 8." [ZFIN:ZDB-PUB-090417-11] synonym: "mmX" EXACT [] xref: TAO:0002207 xref: ZFIN:ZDB-ANAT-090922-163 is_a: UBERON:0011778 ! motor nucleus of vagal nerve relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0001697 name: octaval nerve motor nucleus (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain nucleus which consists of cell bodies whose axons exit the hindbrain via cranial nerve VIII and innervate hair cells of the lateral line and inner ear. The neurons of these nuclei are unusual in that they extend both contra- and ipsilateral dendrites." [ZFIN:ZDB-PUB-061229-17] synonym: "OLe" EXACT [] synonym: "cranial nerve VIII motor nucleus" EXACT [] synonym: "octaval nerve motor nuclei" EXACT PLURAL [] xref: TAO:0002174 xref: ZFIN:ZDB-ANAT-090922-164 is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: ZFA:0001698 name: rostral octaval nerve motor nucleus (zebrafish) namespace: zebrafish_anatomy def: "Octaval nerve motor nucleus that is initially located within rhombomere 6." [ZFIN:ZDB-PUB-061229-17] synonym: "REN" EXACT [ZFIN:ZDB-PUB-061229-17] synonym: "ROLE" EXACT [] synonym: "rostral cranial nerve VIII motor nucleus" EXACT [] synonym: "rostral efferent nuclei" RELATED PLURAL [ZFIN:ZDB-PUB-061229-17] xref: TAO:0002175 xref: ZFIN:ZDB-ANAT-090922-165 is_a: ZFA:0001697 ! octaval nerve motor nucleus (zebrafish) [Term] id: ZFA:0001699 name: caudal octaval nerve motor nucleus (zebrafish) namespace: zebrafish_anatomy def: "Octaval nerve motor nucleus that is initially located within rhombomere 7." [ZFIN:ZDB-PUB-061229-17] synonym: "CEN" EXACT [ZFIN:ZDB-PUB-061229-17] synonym: "RELL" EXACT [] synonym: "caudal efferent nuclei" RELATED PLURAL [ZFIN:ZDB-PUB-061229-17] synonym: "rostral cranial nerve VIII motor nucleus" EXACT [] xref: TAO:0002176 xref: ZFIN:ZDB-ANAT-090922-166 is_a: ZFA:0001697 ! octaval nerve motor nucleus (zebrafish) [Term] id: ZFA:0001703 name: epidermal placode (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is a thickening and reshaping of the epidermal basal stratum cells beneath which fibroblasts accumulate to form the scale primordium." [ZFIN:ZDB-PUB-081008-12] xref: TAO:0002195 xref: ZFIN:ZDB-ANAT-090922-170 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000043 ! Juvenile:Days 45-89 relationship: part_of UBERON:0002025 ! stratum basale of epidermis relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001704 name: scale primordium (zebrafish) namespace: zebrafish_anatomy def: "A portion of tissue that is an accumulation of fibroblasts beneath the epidermal placode and giving rise to the scale." [ZFIN:ZDB-PUB-081008-12] xref: TAO:0002242 xref: ZFIN:ZDB-ANAT-090922-171 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000043 ! Juvenile:Days 45-89 relationship: part_of UBERON:0002067 ! dermis relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0001706 name: Purkinje cell layer corpus cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is part of the corpus cerebelli and contains Purkinje cells." [ZFIN:ZDB-PUB-090422-9] xref: TAO:0002240 xref: ZFIN:ZDB-ANAT-090922-173 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000188 ! corpus cerebelli (zebrafish) [Term] id: ZFA:0001709 name: Purkinje cell layer valvula cerebelli (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that is part of the valvula cerebelli and contains Purkinje cells." [ZFIN:ZDB-PUB-090422-9] xref: TAO:0002241 xref: ZFIN:ZDB-ANAT-090922-176 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0001710 name: mossy fiber (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that consists of afferent axons from the spinal cord, sensory medullary nuclei, reticular nuclei and dorsal tegmental nuclei into the corpus cerebelli and valvula cerebelli, where they synapse within the granule cell layer." [ISBN:3764351209, ZFIN:ZDB-PUB-090422-9] synonym: "mossy fibers" EXACT PLURAL [] xref: TAO:0002210 xref: ZFIN:ZDB-ANAT-090922-177 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000188 ! corpus cerebelli (zebrafish) relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0001711 name: climbing fiber (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that consists of afferent axons from the inferior olive and synapsing with Purkinje cells within the molecular layer of the valvula cerebelli and corpus cerebelli." [ISBN:3764351209, ZFIN:ZDB-PUB-090422-9] synonym: "climbing fibers" EXACT PLURAL [] xref: TAO:0002185 xref: ZFIN:ZDB-ANAT-090922-178 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000188 ! corpus cerebelli (zebrafish) relationship: part_of ZFA:0000603 ! valvula cerebelli (zebrafish) [Term] id: ZFA:0001713 name: parallel fiber (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that consists of axons of cerebellar granule cells that synapse onto Purkinje cell dendrites." [ISBN:3764351209, ZFIN:ZDB-PUB-090422-9] synonym: "parallel fibers" EXACT PLURAL [] xref: TAO:0002218 xref: ZFIN:ZDB-ANAT-090922-180 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0000394 ! molecular layer corpus cerebelli (zebrafish) relationship: part_of ZFA:0000913 ! molecular layer valvula cerebelli (zebrafish) [Term] id: ZFA:0001714 name: presumptive ventral mesoderm (zebrafish) namespace: zebrafish_anatomy def: "Portion of presumptive mesoderm fated to become ventral mesoderm. Determined by fate mapping." [ZFIN:curator] xref: TAO:0002235 xref: ZFIN:ZDB-ANAT-090922-181 is_a: UBERON:0006603 ! presumptive mesoderm relationship: end ZFS:0000019 ! Gastrula:Shield relationship: start ZFS:0000014 ! Blastula:Sphere [Term] id: ZFA:0001715 name: otic vesicle protrusion (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue within the otic vesicle that consists of a thin layer of otic epithelium covering a finger-shaped core of acellular matrix." [ZFIN:ZDB-PUB-090330-11] xref: TAO:0002215 xref: ZFIN:ZDB-ANAT-090922-182 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0003051 ! ear vesicle relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0001716 name: otic vesicle ventral protrusion (zebrafish) namespace: zebrafish_anatomy def: "Otic vesicle protrusion that is initially ventrally located and then fuses with the lateral protrusion, giving rise to the pillar of the lateral semicircular canal." [ZFIN:ZDB-PUB-090330-11] xref: TAO:0002216 xref: ZFIN:ZDB-ANAT-090922-183 is_a: ZFA:0001715 ! otic vesicle protrusion (zebrafish) relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0001717 name: pillar of the semicircular canal (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue around which the semicircular canals flow." [ZFIN:ZDB-PUB-961014-383] xref: TAO:0002223 xref: ZFIN:ZDB-ANAT-090922-184 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001840 ! semicircular canal relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0001720 name: presumptive cardiac ventricle primitive heart tube (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is part of the primitive heart tube and will become the cardiac ventricle." [ZFIN:ZDB-PUB-080218-11] xref: TAO:0002232 xref: ZFIN:ZDB-ANAT-090922-187 is_a: UBERON:0000481 ! multi-tissue structure relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0005498 ! primitive heart tube relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0001721 name: presumptive atrium primitive heart tube (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is part of the primitive heart tube and will become the cardiac atrium." [ZFIN:ZDB-PUB-080218-11] xref: TAO:0002229 xref: ZFIN:ZDB-ANAT-090922-188 is_a: UBERON:0000481 ! multi-tissue structure relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0005498 ! primitive heart tube relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0005000 name: basal communicating artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that extends horizontally across the brain midline which is fed by the caudal division of the internal carotid artery. Three pairs of central arteries extend from the basal communicating artery (BCA), the anterior, middle and posterior mesencephalic central arteries. The BCA does not correspond to the anterior communicating artery of the mammalian circle of Willis. The BCA is unpaired." [ZFIN:ZDB-PUB-010205-5] synonym: "BCA" EXACT [] xref: TAO:0005000 xref: ZFIN:ZDB-ANAT-050915-120 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005010 name: mid cerebral vein (zebrafish) namespace: zebrafish_anatomy def: "The mesencephalic veins (MsV) enter the mid cerebral veins (MCeV) at the dorsal midline. THe MCeVs originate at the dorsal midline, proceed laterally in a ventral direction to drain into the paired primordial midbrain channels (PHBC)." [ZFIN:ZDB-PUB-010205-5, http://zfin.org/zf_info/zfbook/stages/hatch.html] synonym: "MCeV" EXACT [] synonym: "MeCV" EXACT [] synonym: "mid-cerebral vein" EXACT [] synonym: "middle cerebral vein" EXACT [] xref: TAO:0005010 xref: ZFIN:ZDB-ANAT-050915-82 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0005011 name: pseudobranchial artery (zebrafish) namespace: zebrafish_anatomy def: "A vascular loop attached to the efferent part of the mandibular arch that forms at 3.5 dpf." [ZFIN:ZDB-PUB-010205-5] synonym: "pseudobranchial arteries" EXACT PLURAL [] xref: TAO:0005011 xref: ZFIN:ZDB-ANAT-050915-130 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003118 ! aortic arch 1 relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005012 name: afferent filamental artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that enters the gill filament." [ZFIN:curator] synonym: "AFA" EXACT [] synonym: "afferent filamental arteries" EXACT PLURAL [] xref: TAO:0005012 xref: ZFIN:ZDB-ANAT-050915-131 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0000666 ! filamental artery (zebrafish) relationship: part_of ZFA:0000716 ! afferent branchial artery (zebrafish) [Term] id: ZFA:0005013 name: concurrent branch afferent branchial artery (zebrafish) namespace: zebrafish_anatomy def: "The branch of the afferent branchial artery that continues posterodorsally." [ZFIN:ZDB-PUB-010205-5] synonym: "CCB" EXACT [] xref: TAO:0005013 xref: ZFIN:ZDB-ANAT-050915-132 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0000716 ! afferent branchial artery (zebrafish) [Term] id: ZFA:0005014 name: recurrent branch afferent branchial artery (zebrafish) namespace: zebrafish_anatomy def: "The anterioventral proceeding branch of the afferent branchial artery." [ZFIN:ZDB-PUB-010205-5] synonym: "RCB" EXACT [] synonym: "recurrent branch afferent branchial arteries" EXACT PLURAL [] xref: TAO:0005014 xref: ZFIN:ZDB-ANAT-050915-133 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0000716 ! afferent branchial artery (zebrafish) [Term] id: ZFA:0005015 name: afferent lamellar arteriole (zebrafish) namespace: zebrafish_anatomy def: "Arterioles which take blood from the afferent filamental arteries to the gill lamella." [ZFIN:curator] synonym: "AFL" EXACT [] synonym: "afferent lamellar arterioles" EXACT PLURAL [] xref: TAO:0005015 xref: ZFIN:ZDB-ANAT-050915-134 is_a: UBERON:0001980 ! arteriole relationship: part_of ZFA:0000211 ! gill lamella (zebrafish) relationship: part_of ZFA:0005012 ! afferent filamental artery (zebrafish) [Term] id: ZFA:0005017 name: primordial midbrain channel (zebrafish) namespace: zebrafish_anatomy def: "The vessel between the anterior cerebral vein and the mid cerebral vein." [ZFIN:ZDB-PUB-010205-5] synonym: "PMBC" EXACT [] xref: TAO:0005017 xref: ZFIN:ZDB-ANAT-050915-83 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0005018 name: efferent filamental artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that exits the gill filament." [ZFIN:curator] synonym: "EFA" EXACT [] xref: TAO:0005018 xref: ZFIN:ZDB-ANAT-050915-136 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0000202 ! efferent branchial artery (zebrafish) relationship: part_of ZFA:0000666 ! filamental artery (zebrafish) [Term] id: ZFA:0005019 name: efferent lamellar arteriole (zebrafish) namespace: zebrafish_anatomy def: "Arterioles which take blood from the gill lamella to the efferent filamental arteries." [ZFIN:curator] synonym: "ELA" EXACT [] synonym: "efferent lamellar arterioles" EXACT PLURAL [] xref: TAO:0005019 xref: ZFIN:ZDB-ANAT-050915-137 is_a: UBERON:0001980 ! arteriole relationship: part_of ZFA:0000211 ! gill lamella (zebrafish) relationship: part_of ZFA:0005018 ! efferent filamental artery (zebrafish) [Term] id: ZFA:0005020 name: central artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that irrigates the forebrain and midbrain." [ZFIN:ZDB-PUB-010205-5] synonym: "CtA" EXACT [] xref: TAO:0005020 xref: ZFIN:ZDB-ANAT-050915-138 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0005284 ! brain vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005021 name: cerebellar central artery (zebrafish) namespace: zebrafish_anatomy def: "Extend upward from the PCS, branch to provide an arterial feed to the hindbrain, then drain back down into the PHBC." [ZFIN:ZDB-PUB-010205-5] synonym: "CCtA" EXACT [] xref: TAO:0005021 xref: ZFIN:ZDB-ANAT-050915-139 is_a: ZFA:0005020 ! central artery (zebrafish) relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005022 name: opercular artery (zebrafish) namespace: zebrafish_anatomy def: "The opercular artery arises from the hyoid stump on the first aortic arch, then follows the lateral margin of the operculum (gill covering) ventrally to reconnect into the proximal part of the first aortic arch." [ZFIN:ZDB-PUB-010205-5] synonym: "ORA" EXACT [] synonym: "external carotid artery" RELATED [] xref: TAO:0005022 xref: ZFIN:ZDB-ANAT-050915-140 is_a: UBERON:0001637 ! artery relationship: develops_from UBERON:0003118 ! aortic arch 1 relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005025 name: dorsal longitudinal anastomotic vessel (zebrafish) namespace: zebrafish_anatomy def: "Trunk vessel that runs medially along the dorsal-most portion of the trunk and post-vent region. The DLAVs are formed by the longitudinal anastomoses of the intersegmental vessels to form a right and left pair of dorsal longitudinal anastomotic vessels. These paired vessels remodel to form a single plexiform vessel beginning at 3dpf continuing until after 7dpf. The basilar artery connects to the DLAVs at the caudal end of the medulla oblongata. In the early embryo (2.5-3.5 dpf) the primitive hindbrain channels also connect to the DLAV." [ZFIN:ZDB-PUB-010205-5] comment: Eventually half of the ISVs will carry blood from the aorta to the DLAVs, and half from the DLAV to the posterior cardinal vein. synonym: "DLAV" EXACT [] xref: TAO:0005025 xref: ZFIN:ZDB-ANAT-050915-85 is_a: UBERON:0001981 ! blood vessel relationship: develops_from ZFA:0001285 ! intersegmental vessel (zebrafish) relationship: part_of UBERON:0002201 ! vasculature of trunk relationship: part_of UBERON:0010204 ! tail vasculature relationship: part_of ZFA:0001073 ! axial vasculature (zebrafish) relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005026 name: primary head sinus (zebrafish) namespace: zebrafish_anatomy def: "Main route for venous drainage of the anterior and mid cerebral veins as well as portions of the primordial hindbrain channel." [ZFIN:ZDB-PUB-010205-5] synonym: "PHS" EXACT [] synonym: "lateral head vein" EXACT [] xref: TAO:0005026 xref: ZFIN:ZDB-ANAT-050915-86 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005027 name: posterior cerebral vein (zebrafish) namespace: zebrafish_anatomy def: "Vein that drains the dorsal longitudinal vessel and the caudal portions of the venous capillary network of the medulla oblongata." [ZFIN:ZDB-PUB-010205-5] synonym: "PCeV" EXACT [] synonym: "caudal cerebral vein" EXACT [] xref: TAO:0005027 xref: ZFIN:ZDB-ANAT-050915-87 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0005284 ! brain vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005029 name: rostral blood island (zebrafish) namespace: zebrafish_anatomy def: "Hematopoietic tissue derived from the cephalic mesoderm. Predominantly produces myeloid cells." [ZFIN:curator] synonym: "RBI" EXACT [] synonym: "anterior myeloid compartment" RELATED [] xref: TAO:0005029 xref: ZFIN:ZDB-ANAT-051116-13 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0009881 ! anterior lateral plate mesoderm relationship: part_of UBERON:0002390 ! hematopoietic system relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0005030 name: dorsal ciliary vein (zebrafish) namespace: zebrafish_anatomy def: "Vein that branches off the nasal ciliary artery. Initially, at 2dpf, the dorsal ciliary vein (DCV) drains into the primordial midbrain channel (PMBC) or the PMBC/PHBC junction. Later, by 3.5dpf, the DCV drains into the optic choroid vascular plexus. The dorsal branch of the inner optic circle drains into the DCV." [ZFIN:ZDB-PUB-010205-5] synonym: "DCV" EXACT [] xref: TAO:0005030 xref: ZFIN:ZDB-ANAT-051116-14 is_a: UBERON:0001638 ! vein relationship: develops_from ZFA:0005082 ! dorsal branch nasal ciliary artery (zebrafish) relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005031 name: dorsal longitudinal vein (zebrafish) namespace: zebrafish_anatomy def: "Vessel that connects to the primitive hindbrain channel and the basilar artery at the caudal end of the medulla oblongata." [ZFIN:ZDB-PUB-010205-5] synonym: "DLV" EXACT [] xref: TAO:0005031 xref: ZFIN:ZDB-ANAT-051116-15 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0005284 ! brain vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005032 name: optic vein (zebrafish) namespace: zebrafish_anatomy def: "Vein that connects to the hyaloid vein that drains the eye. External to eye." [ZFIN:ZDB-PUB-010205-5] synonym: "OV" EXACT [] xref: TAO:0005032 xref: ZFIN:ZDB-ANAT-051116-16 is_a: UBERON:0001638 ! vein relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005034 name: parachordal vessel (zebrafish) namespace: zebrafish_anatomy def: "Vessels run longitudinally along the horizontal myoseptum. These vessels are not functional until after lumenization which occurs near 4 dpf." [ZFIN:ZDB-PUB-030908-4] synonym: "PAV" EXACT [] xref: TAO:0005034 xref: ZFIN:ZDB-ANAT-051116-18 is_a: UBERON:0001638 ! vein relationship: develops_from UBERON:0002065 ! posterior cardinal vein relationship: develops_from UBERON:0007679 ! intersegmental vein relationship: part_of UBERON:0002201 ! vasculature of trunk relationship: part_of UBERON:0010204 ! tail vasculature relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0005036 name: supraintestinal artery (zebrafish) namespace: zebrafish_anatomy def: "A continuation of the anterior mesenteric artery, which branches out from the dorsal aorta just caudal to the pronephric glomus." [ZFIN:ZDB-PUB-010205-5] synonym: "SIA" EXACT [] xref: TAO:0005036 xref: ZFIN:ZDB-ANAT-051116-20 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005038 name: supraintestinal vein (zebrafish) namespace: zebrafish_anatomy synonym: "supraintestinal veins" EXACT PLURAL [] xref: TAO:0005038 xref: ZFIN:ZDB-ANAT-051116-22 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0002201 ! vasculature of trunk relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005039 name: anterior lateral mesoderm (zebrafish) namespace: zebrafish_anatomy synonym: "ALM" EXACT [] xref: TAO:0005039 xref: ZFIN:ZDB-ANAT-051116-23 is_a: UBERON:0000479 ! tissue relationship: part_of ZFA:0001065 ! lateral mesoderm (zebrafish) relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0005040 name: posterior lateral mesoderm (zebrafish) namespace: zebrafish_anatomy synonym: "PLM" EXACT [] xref: TAO:0005040 xref: ZFIN:ZDB-ANAT-051116-24 is_a: UBERON:0000926 ! mesoderm relationship: part_of ZFA:0001065 ! lateral mesoderm (zebrafish) relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0005044 name: optic artery (zebrafish) namespace: zebrafish_anatomy def: "The artery that carries blood to the eye. It branches from the internal carotid artery and enters the eye ventrally through the optic fissure." [ZFIN:ZDB-PUB-010205-5] synonym: "optic arteries" EXACT PLURAL [] xref: TAO:0005044 xref: ZFIN:ZDB-ANAT-051116-28 is_a: UBERON:0001637 ! artery is_a: UBERON:0002203 ! vasculature of eye relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0005048 name: primitive prosencephalic artery (zebrafish) namespace: zebrafish_anatomy def: "Vessel that branches from cranial division of the internal carotid artery, extending laterally around the rostral end of the head." [ZFIN:ZDB-PUB-010205-5] synonym: "PPrA" EXACT [] xref: TAO:0005048 xref: ZFIN:ZDB-ANAT-051116-32 is_a: UBERON:0001637 ! artery relationship: end ZFS:0000033 ! Hatching:Long-pec relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005049 name: prosencephalic artery (zebrafish) namespace: zebrafish_anatomy def: "After the primitive prosencephalic artery forms it becomes disconnected from the cranial division of the internal carotid artery and instead it connects to the anterior mesencephalic central artery and the communicating vessels of the palatocerebral artery." [ZFIN:curator] synonym: "PrA" EXACT [] xref: TAO:0005049 xref: ZFIN:ZDB-ANAT-051116-33 is_a: UBERON:0001637 ! artery relationship: develops_from ZFA:0005048 ! primitive prosencephalic artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005050 name: palatocerebral artery (zebrafish) namespace: zebrafish_anatomy def: "The PLA branches ventrally from the CrDI. It extends rostrally along the base of mid- and forebrain, then loops medially and links to the corresponding vessel from the other side of the embryo." [ZFIN:ZDB-PUB-010205-5] synonym: "PLA" EXACT [] xref: TAO:0005050 xref: ZFIN:ZDB-ANAT-051116-34 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005051 name: communicating vessel palatocerebral artery (zebrafish) namespace: zebrafish_anatomy def: "Connect the palatocerebral artery with the prosencephalic artery." [ZFIN:ZDB-PUB-010205-5] synonym: "CMV" EXACT [] synonym: "communicating vessels" EXACT [] xref: TAO:0005051 xref: ZFIN:ZDB-ANAT-051116-35 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005052 name: anterior mesencephalic central artery (zebrafish) namespace: zebrafish_anatomy def: "Arteries that irrigate rostral regions of the midbrain. They extend between the basal communicating artery to the anterior cerebral vein." [ZFIN:ZDB-PUB-010205-5] synonym: "AMCtA" EXACT [] synonym: "rostral mesencephalic central artery" EXACT [] xref: TAO:0005052 xref: ZFIN:ZDB-ANAT-051116-36 is_a: ZFA:0005020 ! central artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005053 name: nasal ciliary artery (zebrafish) namespace: zebrafish_anatomy synonym: "NCA" EXACT [] xref: TAO:0005053 xref: ZFIN:ZDB-ANAT-051116-37 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005054 name: inner optic circle (zebrafish) namespace: zebrafish_anatomy def: "Vessel that circles the inner rim of the optic capsule. The inner optic circle drainsnventrally into the optic vein and dorsally into the dorsal ciliary vein." [ZFIN:ZDB-PUB-010205-5] synonym: "IOC" EXACT [] xref: TAO:0005054 xref: ZFIN:ZDB-ANAT-051116-38 is_a: UBERON:0001637 ! artery is_a: UBERON:0002203 ! vasculature of eye relationship: develops_from ZFA:0005082 ! dorsal branch nasal ciliary artery (zebrafish) relationship: develops_from ZFA:0005083 ! ventral branch nasal ciliary artery (zebrafish) [Term] id: ZFA:0005055 name: median palatocerebral vein (zebrafish) namespace: zebrafish_anatomy def: "Drains the PLA loop proceeds straight caudally along the cranial midline just above the pharynx, just below the diencephalon. Forms a 'T' with the palatocerebral veins." [ZFIN:ZDB-PUB-010205-5] synonym: "MPLV" EXACT [] xref: TAO:0005055 xref: ZFIN:ZDB-ANAT-051116-39 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005056 name: palatocerebral vein (zebrafish) namespace: zebrafish_anatomy def: "Vein that drains the median palatocerebral vein into the optic vein." [ZFIN:ZDB-PUB-010205-5] synonym: "PLV" EXACT [] xref: TAO:0005056 xref: ZFIN:ZDB-ANAT-051116-40 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005066 name: bulbus arteriosus outer layer (zebrafish) namespace: zebrafish_anatomy def: "The portion of tissue that is the outer layer of the bulbus arteriosus. It is composed of scattered layers of interrupted elastic lamina." [ZFIN:ZDB-PUB-010912-30] synonym: "bulbus arteriosus externa" EXACT [] xref: TAO:0005066 xref: ZFIN:ZDB-ANAT-060131-71 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0004152 ! bulbus arteriosus [Term] id: ZFA:0005067 name: bulbus arteriosus middle layer (zebrafish) namespace: zebrafish_anatomy def: "Composed of 7-10 layers of helically arranged smooth muscle cells surrounded by a fine network of collagen, reticular, and elastic fibrils." [ZFIN:ZDB-PUB-010912-30] synonym: "bulbus arteriosus media" EXACT [] xref: TAO:0005067 xref: ZFIN:ZDB-ANAT-060131-72 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0004152 ! bulbus arteriosus [Term] id: ZFA:0005068 name: bulbus arteriosus inner layer (zebrafish) namespace: zebrafish_anatomy def: "Composed of subendothelium with longitudinally oriented collagen, reticular fibrils, elastic fibers, and smooth muscle cells bound by a thin endothelial layer." [ZFIN:ZDB-PUB-010912-30] synonym: "bulbus arteriosus intima" EXACT [] xref: TAO:0005068 xref: ZFIN:ZDB-ANAT-060131-73 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0004152 ! bulbus arteriosus [Term] id: ZFA:0005072 name: endocardial ring (zebrafish) namespace: zebrafish_anatomy def: "A portion of endocardial tissue that is part of the atrioventricular ring." [ZFIN:curator] xref: TAO:0005072 xref: ZFIN:ZDB-ANAT-060331-65 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0002165 ! endocardium relationship: part_of ZFA:0005073 ! atrioventricular ring (zebrafish) relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005073 name: atrioventricular ring (zebrafish) namespace: zebrafish_anatomy def: "A ring of conduction tissue that forms in the atrioventricular canal." [ZFIN:ZDB-PUB-060227-6] synonym: "AV ring" EXACT [] xref: TAO:0005073 xref: ZFIN:ZDB-ANAT-060331-66 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0002087 ! atrioventricular canal relationship: part_of UBERON:0002350 ! conducting system of heart relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005074 name: central cardiac conduction system (zebrafish) namespace: zebrafish_anatomy def: "Cardiac conduction system, characterized by slow impulse propagation and prolonged refractory periods." [ZFIN:curator] xref: TAO:0005074 xref: ZFIN:ZDB-ANAT-060331-67 is_a: UBERON:0002350 ! conducting system of heart [Term] id: ZFA:0005075 name: peripheral cardiac conduction system (zebrafish) namespace: zebrafish_anatomy def: "Portion of the cardiac conduction system, with rapid impulse propagation." [ZFIN:curator] xref: TAO:0005075 xref: ZFIN:ZDB-ANAT-060331-68 is_a: UBERON:0002350 ! conducting system of heart [Term] id: ZFA:0005076 name: primordial vasculature (zebrafish) namespace: zebrafish_anatomy def: "Is a portion of tissue that will develop into vasculature." [ZFIN:curator] xref: TAO:0005076 xref: ZFIN:ZDB-ANAT-060816-33 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: part_of UBERON:0004535 ! cardiovascular system relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005078 name: middle mesencephalic central artery (zebrafish) namespace: zebrafish_anatomy def: "Projects rostrally and dorsally from the AMCtA to irrigate the midportion of the midbrain." [ZFIN:ZDB-PUB-010205-5] synonym: "MMCtA" EXACT [] xref: TAO:0005078 xref: ZFIN:ZDB-ANAT-060816-35 is_a: ZFA:0005020 ! central artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005079 name: posterior mesencephalic central artery (zebrafish) namespace: zebrafish_anatomy def: "Project dorsally from BCA to irrigate the caudal part of midbrain." [ZFIN:ZDB-PUB-010205-5] synonym: "PMCtA" EXACT [] synonym: "caudal mesencephalic central artery" EXACT [] xref: TAO:0005079 xref: ZFIN:ZDB-ANAT-060816-36 is_a: ZFA:0005020 ! central artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005080 name: anterior mesenteric artery (zebrafish) namespace: zebrafish_anatomy def: "An artery deep in the trunk that connects the dorsal aorta to the supraintestinal artery." [ZFIN:ZDB-PUB-010205-5] synonym: "AMA" EXACT [] synonym: "rostral mesenteric artery" EXACT [] xref: TAO:0005080 xref: ZFIN:ZDB-ANAT-060816-37 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005082 name: dorsal branch nasal ciliary artery (zebrafish) namespace: zebrafish_anatomy def: "Branch of the nasal ciliary artery (NCA) that splits off of the NCA near the lens and forms the dorsal ciliary vein." [ZFIN:ZDB-PUB-010205-5] synonym: "dorsal branch nasal ciliary arteries" EXACT PLURAL [] xref: TAO:0005082 xref: ZFIN:ZDB-ANAT-060816-39 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0005053 ! nasal ciliary artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005083 name: ventral branch nasal ciliary artery (zebrafish) namespace: zebrafish_anatomy xref: TAO:0005083 xref: ZFIN:ZDB-ANAT-060816-40 is_a: UBERON:0001637 ! artery relationship: part_of ZFA:0005053 ! nasal ciliary artery (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005084 name: metencephalic artery (zebrafish) namespace: zebrafish_anatomy def: "These arteries branch dorsally from both sides of the posterior communicating artery looping up to join with the opposite MtA as well as with both middle cerebral veins at the dorsal midline of the head." [ZFIN:ZDB-PUB-010205-5] synonym: "metencephalic arteries" EXACT PLURAL [] xref: TAO:0005084 xref: ZFIN:ZDB-ANAT-060816-41 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005085 name: nasal artery (zebrafish) namespace: zebrafish_anatomy def: "The nasal arteries start at the internal carotid artery and travel rostrally, passing along the right and left walls of the nasal sac at the most rostral end of the head. From the nasal sac, the NA flows into the nasal veins." [ZFIN:ZDB-PUB-010205-5] synonym: "NA" EXACT [] xref: TAO:0005085 xref: ZFIN:ZDB-ANAT-060816-42 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0005087 name: pectoral vein (zebrafish) namespace: zebrafish_anatomy def: "Vein from the pectoral fin that drains into the ACV just cranial to the ACV-CCV junction." [ZFIN:ZDB-PUB-010205-5] synonym: "PV" EXACT [] xref: TAO:0005087 xref: ZFIN:ZDB-ANAT-060816-44 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0007300 ! pectoral appendage blood vessel relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005088 name: posterior mesenteric artery (zebrafish) namespace: zebrafish_anatomy def: "Branch ventrally from the dorsal aorta and anastomose longitudinally along the dorsal wall of the hindgut, forming the caudal part of the supraintestinal artery." [ZFIN:ZDB-PUB-010205-5] synonym: "PMA" EXACT [] synonym: "caudal mesenteric artery" EXACT [] xref: TAO:0005088 xref: ZFIN:ZDB-ANAT-060816-45 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005089 name: swim bladder artery (zebrafish) namespace: zebrafish_anatomy def: "An elaborate set of vessels that branch off caudally from the anterior mesenteric artery just after the dorsal aorta. The SBA vascular loops are located on the ventral side of the swim bladder." [ZFIN:ZDB-PUB-010205-5] synonym: "SBA" EXACT [] xref: TAO:0005089 xref: ZFIN:ZDB-ANAT-060816-46 is_a: UBERON:0001637 ! artery relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005093 name: nasal vein (zebrafish) namespace: zebrafish_anatomy synonym: "NV" EXACT [] xref: TAO:0005093 xref: ZFIN:ZDB-ANAT-060816-50 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0011362 ! cranial blood vasculature relationship: start ZFS:0000036 ! Larval:Day 4 [Term] id: ZFA:0005097 name: caudal fin vasculature (zebrafish) namespace: zebrafish_anatomy def: "Is an interconnected tubular multi-tissue structure contains fluid that is actively transported around the caudal fin." [ZFIN:curator] xref: TAO:0005097 xref: ZFIN:ZDB-ANAT-060816-54 is_a: UBERON:0007304 ! limb/fin vasculature relationship: part_of ZFA:0001058 ! caudal fin (zebrafish) [Term] id: ZFA:0005098 name: central ray artery (zebrafish) namespace: zebrafish_anatomy def: "Artery that is positioned in the intraray mesenchyme between the hemirays of the lepidotrichia." [ZFIN:ZDB-PUB-031119-3] synonym: "central ray arteries" EXACT PLURAL [] xref: TAO:0005098 xref: ZFIN:ZDB-ANAT-060816-55 is_a: UBERON:0001637 ! artery relationship: part_of UBERON:0007301 ! limb/fin blood vessel [Term] id: ZFA:0005099 name: ray vein (zebrafish) namespace: zebrafish_anatomy def: "Vein that flanks and is just lateral to the fin ray, in the interray mesenchyme." [ZFIN:ZDB-PUB-031119-3] synonym: "ray veins" EXACT PLURAL [] xref: TAO:0005099 xref: ZFIN:ZDB-ANAT-060816-56 is_a: UBERON:0001638 ! vein relationship: part_of UBERON:0007301 ! limb/fin blood vessel [Term] id: ZFA:0005100 name: intervessel commissure (zebrafish) namespace: zebrafish_anatomy def: "Vessels that travel between artery and veins or vein and vein in a single ray." [ZFIN:curator] synonym: "intervessel comisures" EXACT PLURAL [] xref: TAO:0005100 xref: ZFIN:ZDB-ANAT-060816-57 is_a: UBERON:0007301 ! limb/fin blood vessel [Term] id: ZFA:0005101 name: interray vessel (zebrafish) namespace: zebrafish_anatomy def: "Vessels that travel between veins in adjacent rays." [ZFIN:curator] synonym: "interray vessels" EXACT PLURAL [] xref: TAO:0005101 xref: ZFIN:ZDB-ANAT-060816-58 is_a: UBERON:0007301 ! limb/fin blood vessel [Term] id: ZFA:0005102 name: presumptive median fin fold (zebrafish) namespace: zebrafish_anatomy def: "Stripe of tissue fated to become the median fin fold." [ZFIN:curator] xref: TAO:0005102 xref: ZFIN:ZDB-ANAT-060816-59 is_a: UBERON:0006598 ! presumptive structure relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0005103 name: presumptive ventral fin fold (zebrafish) namespace: zebrafish_anatomy def: "Stripe of tissue on the ventral side of the fish, fated to become the ventral region of the median fin fold." [ZFIN:curator] xref: TAO:0005103 xref: ZFIN:ZDB-ANAT-060816-60 is_a: ZFA:0005102 ! presumptive median fin fold (zebrafish) relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0005104 name: presumptive dorsal fin fold (zebrafish) namespace: zebrafish_anatomy def: "Stripe of tissue on the dorsal side of the fish, fated to become the dorsal region of the median fin fold." [ZFIN:curator] xref: TAO:0005104 xref: ZFIN:ZDB-ANAT-060816-61 is_a: ZFA:0005102 ! presumptive median fin fold (zebrafish) relationship: end ZFS:0000028 ! Segmentation:26+ somites relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0005106 name: longitudinal lateral lymphatic vessel (zebrafish) namespace: zebrafish_anatomy synonym: "LLL" EXACT [] xref: TAO:0005106 xref: ZFIN:ZDB-ANAT-060816-63 is_a: UBERON:0004536 ! lymph vasculature [Term] id: ZFA:0005113 name: dorsal lateral line neuromast (zebrafish) namespace: zebrafish_anatomy def: "Neuromast that is part of the dorsal lateral line. (Also see Anatomical Atlas entry for lateral line by T. Whitfield.) " [ZFIN:ZDB-PUB-961014-576] synonym: "neuromast dorsal" EXACT [] xref: TAO:0005113 xref: ZFIN:ZDB-ANAT-061211-17 is_a: UBERON:0008904 ! neuromast relationship: part_of UBERON:0003095 ! dorsal lateral line relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005114 name: middle lateral line system (zebrafish) namespace: zebrafish_anatomy def: "The middle lateral line system develops from cranial ectodermal placodes, that give rise to both the neuromasts and the middle lateral line sensory nerves that innervate the neuromasts. The middle lateral line system consists of small sensory patches (neuromasts) located superficially on the skin or just under the skin in fluid-filled canals on the body that are innervated by several lateral line nerves, which project to the hindbrain. The middle lateral line system is stimulated by local water displacements and vibrations, and detects propulsion of the fish through the water, as well as facilitating shoaling, prey capture, and predator and obstacle avoidance." [ZFIN:curator] xref: TAO:0005114 xref: ZFIN:ZDB-ANAT-061211-18 is_a: UBERON:0002540 ! lateral line system [Term] id: ZFA:0005115 name: primary posterior lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "Primordium that forms the first neuromasts of the posterior lateral line. This primordium travels at 1.5-1.7 somites/hour and deposits neuromast that are polarized along the antero-posterior axis." [ZFIN:curator] synonym: "primI" EXACT [] synonym: "primary posterior lateral line primordia" EXACT PLURAL [] xref: TAO:0005115 xref: ZFIN:ZDB-ANAT-061211-19 is_a: ZFA:0001157 ! posterior lateral line primordium (zebrafish) relationship: develops_from ZFA:0001156 ! posterior lateral line placode (zebrafish) relationship: end ZFS:0000033 ! Hatching:Long-pec relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0005116 name: secondary posterior lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "Second lateral line primordium. These primordia move at 0.2 somites/hour and deposit neuromasts that are polarized in a dorso-ventral direction." [ZFIN:curator] synonym: "secondary posterior lateral line primordia" EXACT PLURAL [] xref: TAO:0005116 xref: ZFIN:ZDB-ANAT-061211-20 is_a: ZFA:0001157 ! posterior lateral line primordium (zebrafish) relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005117 name: anterior lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "A migrating group of cells originating from an anterior lateral line placode. The primordium deposits neuromasts and interneuromasts between them during its migration." [ZFIN:curator] synonym: "anterior lateral line primordia" EXACT PLURAL [] xref: TAO:0005117 xref: ZFIN:ZDB-ANAT-061211-21 is_a: ZFA:0000228 ! lateral line primordium (zebrafish) relationship: part_of ZFA:0001468 ! anterior lateral line system (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005118 name: middle lateral line primordium (zebrafish) namespace: zebrafish_anatomy def: "A migrating group of cells originating from the middle lateral line placode. The primordium deposits neuromasts with interneuromasts between them." [ZFIN:curator] synonym: "middle lateral line primordia" EXACT PLURAL [] xref: TAO:0005118 xref: ZFIN:ZDB-ANAT-061211-22 is_a: ZFA:0000228 ! lateral line primordium (zebrafish) relationship: part_of ZFA:0005114 ! middle lateral line system (zebrafish) relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005119 name: barbel primordium (zebrafish) namespace: zebrafish_anatomy def: "A surface structure that will eventually grow to form a barbel. The primordium is rich in taste buds. The final location for taste buds present in the primordium is the distal tip of the mature barbel." [ZFIN:curator] synonym: "barbel primordia" EXACT PLURAL [] xref: TAO:0005119 xref: ZFIN:ZDB-ANAT-070517-30 is_a: UBERON:0003102 ! surface structure relationship: end ZFS:0000043 ! Juvenile:Days 45-89 relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0005121 name: middle lateral line placode (zebrafish) namespace: zebrafish_anatomy def: "Dorsolateral placode that gives rise to the middle lateral line." [ZFIN:curator] synonym: "middle lateral line placodes" EXACT PLURAL [] xref: TAO:0005121 xref: ZFIN:ZDB-ANAT-061211-23 is_a: UBERON:0003067 ! dorsolateral placode relationship: end ZFS:0000033 ! Hatching:Long-pec relationship: part_of ZFA:0005114 ! middle lateral line system (zebrafish) [Term] id: ZFA:0005122 name: dorsal axial hypoblast (zebrafish) namespace: zebrafish_anatomy def: "Dorsal region of the axial hypoblast." [ZFIN:Curator] xref: TAO:0005122 xref: ZFIN:ZDB-ANAT-061211-24 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000022 ! Gastrula:Bud relationship: part_of ZFA:0001378 ! axial hypoblast (zebrafish) relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0005126 name: intestinal bulb epithelium (zebrafish) namespace: zebrafish_anatomy def: "Intestinal epithelium which lines the lumen of the intestinal bulb." [ZFIN:curator] xref: TAO:0005126 xref: ZFIN:ZDB-ANAT-061211-28 is_a: UBERON:0001277 ! intestinal epithelium relationship: part_of ZFA:0001076 ! intestinal bulb (zebrafish) [Term] id: ZFA:0005135 name: primary dental epithelium (zebrafish) namespace: zebrafish_anatomy def: "Epithelium that surrounds a primary tooth. This epithelium is committed to formation of replacement teeth." [ZFIN:curator] synonym: "pharyngeal tooth epithelium" EXACT [] synonym: "tooth epithelium" EXACT [] xref: TAO:0005135 xref: ZFIN:ZDB-ANAT-070517-38 is_a: UBERON:0003843 ! dental epithelium [Term] id: ZFA:0005144 name: ampullary nerve (zebrafish) namespace: zebrafish_anatomy def: "Nerve that is a branch of cranial nerve VIII and innervates the cristae ampullaris." [ZFIN:curator] synonym: "ampullary nerves" EXACT PLURAL [] xref: TAO:0005144 xref: ZFIN:ZDB-ANAT-070517-47 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0001648 ! vestibulocochlear nerve [Term] id: ZFA:0005151 name: gold iridophore (zebrafish) namespace: zebrafish_anatomy def: "Iridescent iridophore containing gold reflecting platelets." [ZFIN:curator] subset: cell_slim ! cell_slim xref: TAO:0005151 xref: ZFIN:ZDB-ANAT-090922-193 is_a: CL:0000431 ! iridophore relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005152 name: silver iridophore (zebrafish) namespace: zebrafish_anatomy def: "Iridescent iridophore containing silver reflecting platelets." [ZFIN:curator] subset: cell_slim ! cell_slim xref: TAO:0005152 xref: ZFIN:ZDB-ANAT-090922-194 is_a: CL:0000431 ! iridophore relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005170 name: extrahepatic duct (zebrafish) namespace: zebrafish_anatomy def: "Bile duct that collects from the intrahepatic ducts and feeds into the common bile duct." [ZFIN:curator] xref: TAO:0005170 xref: ZFIN:ZDB-ANAT-090922-212 is_a: UBERON:0003928 ! digestive system duct relationship: part_of UBERON:0005171 ! hepatic duct relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005174 name: ventral liver lobe (zebrafish) namespace: zebrafish_anatomy def: "Portion of the liver which develops on the fish's ventral side." [ZFIN:curator] synonym: "3rd lobe" EXACT [] synonym: "third lobe" EXACT [] xref: TAO:0005174 xref: ZFIN:ZDB-ANAT-090922-216 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002107 ! liver relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005175 name: CoPA (zebrafish) namespace: zebrafish_anatomy def: "An interneuron in the spinal cord. CoPA are bipolar with \"T\" shaped dorsal dendrites, have contralateral longitudinal axons that crosses the cord dorsal to the Mauthner neuron and ascends in the dorsal cord." [ZFIN:ZDB-PUB-010807-17, ZFIN:ZDB-PUB-961014-274, ZFIN:ZDB-PUB-961014-649] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "primary commissural interneuron" EXACT [] xref: TAO:0005175 xref: ZFIN:ZDB-ANAT-090922-217 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005176 name: CoSA (zebrafish) namespace: zebrafish_anatomy def: "An interneuron of the spinal cord. CoSA, have contralateral longitudinal axons that crosses the cord dorsal to the Mauthner neuron and ascends in the dorsal cord." [ZFIN:ZDB-PUB-010807-17, ZFIN:ZDB-PUB-961014-649] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "secondary commissural interneuron" EXACT [] xref: TAO:0005176 xref: ZFIN:ZDB-ANAT-090922-218 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005177 name: VeLD (zebrafish) namespace: zebrafish_anatomy def: "An interneuron of the spinal cord. VeLD neurons have an ipsilateral longitudinal axon." [ZFIN:ZDB-PUB-961014-649] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "V2b interneuron" RELATED [] synonym: "ventral longitudinal interneuron" EXACT [] xref: TAO:0005177 xref: ZFIN:ZDB-ANAT-090922-219 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005178 name: DoLA (zebrafish) namespace: zebrafish_anatomy def: "An interneuron of the spinal cord." [ZFIN:ZDB-PUB-961014-649] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "dorsal longitudinal interneuron" EXACT [] xref: TAO:0005178 xref: ZFIN:ZDB-ANAT-090922-220 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005179 name: MiP motor neuron (zebrafish) namespace: zebrafish_anatomy def: "A primary motor neuron that is part of the spinal cord. The axon turns caudally and dorsally, coursing between the surface of the spinal cord and the medial surface of the axial muscles to the dorsal median septum. The MiP axon then extends dorsally to the surface of the muscle, where it turns to arborize ventrally over the lateral surface of the axial muscle." [ZFIN:ZDB-PUB-961014-1247, ZFIN:ZDB-PUB-961014-272, ZFIN:ZDB-PUB-961014-814] comment: This term is a leaf node in the zebrafish AO and is not in the CL. subset: cell_slim ! cell_slim synonym: "middle primary motoneuron" EXACT [] xref: TAO:0005179 xref: ZFIN:ZDB-ANAT-090922-221 is_a: CL:0000533 ! primary motor neuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005180 name: RoP motor neuron (zebrafish) namespace: zebrafish_anatomy def: "A primary motoneuron that is part of the spinal cord. The axon of the CaP motoneuron on emerging from the ventral root. At the horizontal septum, however, the RoP axon turns laterally to extend within the horizontal septum to the lateral surface of the muscle." [ZFIN:ZDB-PUB-961014-1247, ZFIN:ZDB-PUB-961014-272, ZFIN:ZDB-PUB-961014-814] comment: This term is a leaf node in the zebrafish AO and is not in the CL. subset: cell_slim ! cell_slim synonym: "rostral primary motoneuron" EXACT [] xref: TAO:0005180 xref: ZFIN:ZDB-ANAT-090922-222 is_a: CL:0000533 ! primary motor neuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005181 name: VaP motor neuron (zebrafish) namespace: zebrafish_anatomy def: "A primary motor neuron of the spinal cord. This cell is present in slightly less than half of the trunk hemisegments. Additionally, this cell has at least 2 different fates: it may become a primary motoneuron and arborize in an exclusive muscle territory, or it may die during embryonic development." [ZFIN:ZDB-PUB-961014-265, ZFIN:ZDB-PUB-961014-276] comment: This term is a leaf node in the zebrafish AO and is not in the CL. subset: cell_slim ! cell_slim synonym: "variable primary motoneuron" EXACT [] xref: TAO:0005181 xref: ZFIN:ZDB-ANAT-090922-223 is_a: CL:0000533 ! primary motor neuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005182 name: t-interneuron (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is located in the caudal hindbrain. The T interneurons are reticular neurons named after the branching pattern of their axons. The T axons project across the midline, and branches course both rostrally and caudally within the medial longitudinal fascicle (mlf). The cells receive synaptic input from the Mauthner neurons, from unidentified axons in the mlf, and perhaps from trigeminal sensory fibers. They project to cranial and pectoral motor nuclei." [ZFIN:ZDB-PUB-961014-588] comment: This term is a leaf node in the zebrafish AO and is not in the CL. xref: TAO:0005182 xref: ZFIN:ZDB-ANAT-090922-224 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) [Term] id: ZFA:0005183 name: MiD2i (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 5 with one dorsal neuron in each hemi-rhombomere. The axonal projection is ipsilateral." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 2 ipsilateral interneuron " EXACT [] xref: TAO:0005183 xref: ZFIN:ZDB-ANAT-090922-225 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005515 ! rhombomere 5 [Term] id: ZFA:0005184 name: MiD2cl (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron, part of rhombomere 5, with one dorsal, caudal-lateral neuron in each hemi-rhombomere. The fibers pass through the lateral longitudinal fasciculus." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 2 contralateral llf interneuron " EXACT [] xref: TAO:0005184 xref: ZFIN:ZDB-ANAT-090922-226 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005515 ! rhombomere 5 [Term] id: ZFA:0005185 name: MiD2cm (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron, part of rhombomere 5, with one dorsal, caudal-medial neuron in each hemi-rhombomere. The fibers pass through the medial longitudinal fasciculus." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 2 contralateral mlf interneuron " EXACT [] xref: TAO:0005185 xref: ZFIN:ZDB-ANAT-090922-227 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005515 ! rhombomere 5 [Term] id: ZFA:0005186 name: CoB (zebrafish) namespace: zebrafish_anatomy def: "A bifurcate interneuron. It is a commissural neuron with both ascending and descending axons in the ventrolateral cord contralateral to its cell body." [ZFIN:ZDB-PUB-961014-649] comment: This term is a leaf node in the zebrafish AO and is not in the CL.nnThis may be the same as CoBL. synonym: "bifurcate commissural interneuron" EXACT [] xref: TAO:0005186 xref: ZFIN:ZDB-ANAT-090922-228 is_a: ZFA:0005231 ! bifurcate interneuron (zebrafish) [Term] id: ZFA:0005187 name: MiM1 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 4, with one medial neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "middle medial interneuron " EXACT [] xref: TAO:0005187 xref: ZFIN:ZDB-ANAT-090922-229 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005511 ! rhombomere 4 [Term] id: ZFA:0005188 name: MiR1 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 4 with one rostral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "middle rostral 1 interneuron " EXACT [] xref: TAO:0005188 xref: ZFIN:ZDB-ANAT-090922-230 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005511 ! rhombomere 4 [Term] id: ZFA:0005189 name: MiR2 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 5 with one rostral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "middle rostral 2 interneuron " EXACT [] xref: TAO:0005189 xref: ZFIN:ZDB-ANAT-090922-231 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005515 ! rhombomere 5 [Term] id: ZFA:0005190 name: MiV1 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 4 with six ventral neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "middle ventral 1 neuron " EXACT [] xref: TAO:0005190 xref: ZFIN:ZDB-ANAT-090922-232 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005511 ! rhombomere 4 [Term] id: ZFA:0005191 name: MiV2 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 5 with five ventral neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "middle ventral 2 neuron " EXACT [] xref: TAO:0005191 xref: ZFIN:ZDB-ANAT-090922-233 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005515 ! rhombomere 5 [Term] id: ZFA:0005192 name: RoI2C (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 2 with two intermediate-caudal neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral intermediate 2 caudal interneuron " EXACT [] xref: TAO:0005192 xref: ZFIN:ZDB-ANAT-090922-234 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005193 name: RoI2R (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 2 with one intermediate-rostral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral intermediate 2 rostral interneuron " EXACT [] xref: TAO:0005193 xref: ZFIN:ZDB-ANAT-090922-235 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005194 name: RoL1 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 1 with twelve neurons in each hemi-rhombomere. Axon runs in the dorsal spinal cord. The RoL1 stem axon projects ipsilaterally along the brain stem and spinal cord. From the more lateral location of its spinal axon, RoL1's collaterals projected both ventrally and medially. The branching of RoL1 collaterals within the medulla, occur at multiple levels." [ZFIN:ZDB-PUB-030319-6, ZFIN:ZDB-PUB-961014-770] comment: May have 12 neurons in each hemi rhombomere ZDB-PUB-060217-9.n7 neurons in each hemi rhombomere 080227-17 and 931014-770. synonym: "rostral lateral 1 interneuron " EXACT [] xref: TAO:0005194 xref: ZFIN:ZDB-ANAT-090922-236 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005499 ! rhombomere 1 [Term] id: ZFA:0005195 name: MiD3cl (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron, part of rhombomere 6, with one caudal-lateral neuron in each hemi-rhombomere. The fibers pass through the lateral longitudinal fasciculus." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 3 contralateral llf interneuron " EXACT [] xref: TAO:0005195 xref: ZFIN:ZDB-ANAT-090922-237 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005519 ! rhombomere 6 [Term] id: ZFA:0005196 name: MiD3cm (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron, part of rhombomere 6, with one caudal-medial neuron in each hemi-rhombomere. The fibers pass through the medial longitudinal fasciculus." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 3 contralateral mlf interneuron " EXACT [] xref: TAO:0005196 xref: ZFIN:ZDB-ANAT-090922-238 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005519 ! rhombomere 6 [Term] id: ZFA:0005197 name: MiD3i (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 6 with one dorsal neuron in each hemi-rhombomere. The axonal projection is ipsilateral." [ZFIN:ZDB-PUB-961014-770] comment: This term is a leaf node in the zebrafish AO and is not in the CL. synonym: "middle dorsal 3 ipsilateral interneuron " EXACT [] xref: TAO:0005197 xref: ZFIN:ZDB-ANAT-090922-239 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005519 ! rhombomere 6 [Term] id: ZFA:0005198 name: RoL2 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 2 with 4 lateral neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral lateral 2 interneuron " EXACT [] xref: TAO:0005198 xref: ZFIN:ZDB-ANAT-090922-240 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005199 name: RoL2r (zebrafish) namespace: zebrafish_anatomy def: "A RoL2 interneuron that is part of rhombomere 2." [ZFIN:ZDB-PUB-090217-9] synonym: "rostral lateral 2 rostral interneuron " EXACT [] xref: TAO:0005199 xref: ZFIN:ZDB-ANAT-090922-241 is_a: ZFA:0005198 ! RoL2 (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005200 name: RoL2c (zebrafish) namespace: zebrafish_anatomy def: "A RoL2 interneuron that is part of rhombomere 2." [ZFIN:ZDB-PUB-090217-9] synonym: "rostral lateral 2 caudal interneuron " EXACT [] xref: TAO:0005200 xref: ZFIN:ZDB-ANAT-090922-242 is_a: ZFA:0005198 ! RoL2 (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005201 name: RoL3 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 3 with 1 lateral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral lateral 3 interneuron " EXACT [] xref: TAO:0005201 xref: ZFIN:ZDB-ANAT-090922-243 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005507 ! rhombomere 3 [Term] id: ZFA:0005202 name: RoM1c (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 1 with one medial-caudal neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 1 caudal interneuron " EXACT [] xref: TAO:0005202 xref: ZFIN:ZDB-ANAT-090922-244 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005499 ! rhombomere 1 [Term] id: ZFA:0005203 name: RoM1r (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 1 with one medial-rostral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 1 rostral interneuron " EXACT [] xref: TAO:0005203 xref: ZFIN:ZDB-ANAT-090922-245 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005499 ! rhombomere 1 [Term] id: ZFA:0005204 name: RoV3 (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 3 with three ventral neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral ventral 3 interneuron " EXACT [] xref: ZFIN:ZDB-ANAT-090922-246 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005507 ! rhombomere 3 [Term] id: ZFA:0005205 name: RoM2l (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 2 with one medial-lateral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 2 lateral interneuron " EXACT [] xref: TAO:0005205 xref: ZFIN:ZDB-ANAT-090922-247 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005206 name: RoM2m (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 2 with one medial neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 2 medial interneuron " EXACT [] xref: TAO:0005206 xref: ZFIN:ZDB-ANAT-090922-248 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005569 ! rhombomere 2 [Term] id: ZFA:0005207 name: RoM3l (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 3 with one lateral neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 3 lateral interneuron " EXACT [] xref: TAO:0005207 xref: ZFIN:ZDB-ANAT-090922-249 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005507 ! rhombomere 3 [Term] id: ZFA:0005208 name: RoM3m (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 32 with two medial neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "rostral medial 3 medial interneuron " RELATED [] xref: TAO:0005208 xref: ZFIN:ZDB-ANAT-090922-250 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005507 ! rhombomere 3 [Term] id: ZFA:0005209 name: hindbrain interneuron (zebrafish) namespace: zebrafish_anatomy def: "Is a CNS interneuron that is part of the hindbrain." [ZFIN:Curator] xref: TAO:0005209 xref: ZFIN:ZDB-ANAT-090922-251 is_a: CL:0000402 ! CNS interneuron relationship: part_of UBERON:0002028 ! hindbrain [Term] id: ZFA:0005210 name: midbrain interneuron (zebrafish) namespace: zebrafish_anatomy def: "CNS interneurons located in the midbrain." [ZFIN:Curator] xref: TAO:0005210 xref: ZFIN:ZDB-ANAT-090922-252 is_a: CL:0000402 ! CNS interneuron [Term] id: ZFA:0005211 name: MeL (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron in the lateral midbrain." [ZFIN:ZDB-PUB-961014-758] synonym: "mesencephalon lateral interneuron" EXACT [] xref: TAO:0005211 xref: ZFIN:ZDB-ANAT-090922-253 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005212 name: MeM (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron located in the medial midbrain." [ZFIN:ZDB-PUB-961014-758] synonym: "mesencephalon medial interneuron" EXACT [] xref: TAO:0005212 xref: ZFIN:ZDB-ANAT-090922-254 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005213 name: MeLr (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron at the rostral position in the lateral midbrain." [ZFIN:ZDB-PUB-090217-9] synonym: "mesencephalon lateral rostral interneuron" EXACT [] xref: TAO:0005213 xref: ZFIN:ZDB-ANAT-090922-255 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005214 name: MeLc (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron at the caudal position in the lateral midbrain." [ZFIN:ZDB-PUB-090217-9] synonym: "mesencephalon lateral caudal interneuron" EXACT [] xref: TAO:0005214 xref: ZFIN:ZDB-ANAT-090922-256 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005215 name: MeLm (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron at the medial position in the lateral midbrain." [ZFIN:ZDB-PUB-090217-9] synonym: "mesencephalon lateral medial interneuron" EXACT [] xref: TAO:0005215 xref: ZFIN:ZDB-ANAT-090922-257 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005216 name: MeM1 (zebrafish) namespace: zebrafish_anatomy def: "Midbrain interneuron located in the medial midbrain." [ZFIN:ZDB-PUB-090217-9] synonym: "mesencephalon medial 1 interneuron" EXACT [] xref: TAO:0005216 xref: ZFIN:ZDB-ANAT-090922-258 is_a: ZFA:0005210 ! midbrain interneuron (zebrafish) relationship: part_of UBERON:0001891 ! midbrain [Term] id: ZFA:0005217 name: CaV (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 7, with 2 ventral neurons in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "caudal ventral interneuron" EXACT [] xref: TAO:0005217 xref: ZFIN:ZDB-ANAT-090922-259 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005523 ! rhombomere 7 [Term] id: ZFA:0005218 name: CaD (zebrafish) namespace: zebrafish_anatomy def: "Hindbrain interneuron that is part of rhombomere 7, with 1 dorsal neuron in each hemi-rhombomere." [ZFIN:ZDB-PUB-961014-770] synonym: "caudal dorsal interneuron" EXACT [] xref: TAO:0005218 xref: ZFIN:ZDB-ANAT-090922-260 is_a: ZFA:0005209 ! hindbrain interneuron (zebrafish) relationship: part_of UBERON:0005523 ! rhombomere 7 [Term] id: ZFA:0005219 name: choroid plexus vascular circuit (zebrafish) namespace: zebrafish_anatomy def: "Cranial vasculature where the posterior cerebral veins and the trans-choroid plexus branch form a circuit around the 4th ventricle choroid plexus." [ZFIN:ZDB-PUB-080908-11] synonym: "CVC" EXACT [] synonym: "choroid vascular circuit" RELATED [] xref: TAO:0005219 xref: ZFIN:ZDB-ANAT-090922-261 is_a: UBERON:0005284 ! brain vasculature relationship: part_of UBERON:0001886 ! choroid plexus relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0005220 name: larval melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "A melanophore stripe that forms the immature pigment pattern." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0005220 xref: ZFIN:ZDB-ANAT-090922-262 is_a: ZFA:0001463 ! melanophore stripe (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005221 name: dorsal larval melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "A larval melanophore stripe that forms a band extending from the head to the tail along the dorsal apex of the myotomes." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0005221 xref: ZFIN:ZDB-ANAT-090922-263 is_a: ZFA:0005220 ! larval melanophore stripe (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005222 name: ventral larval melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "A larval melanophore stripe that forms a band, of pigmentation extending from the bases of the eyes on each side of the midline to the top of the tail, that underlies the myotomes bilaterally, still is dorsal to the yolk." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0005222 xref: ZFIN:ZDB-ANAT-090922-264 is_a: ZFA:0005220 ! larval melanophore stripe (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005223 name: lateral larval melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "The larval melanophore stripe that is at the level of the horizontal myoseptum." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0005223 xref: ZFIN:ZDB-ANAT-090922-265 is_a: ZFA:0005220 ! larval melanophore stripe (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005224 name: yolk larval melanophore stripe (zebrafish) namespace: zebrafish_anatomy def: "The larval melanophore stripe that forms a band over the ventral surface of the yolk sac." [ZFIN:ZDB-PUB-961014-576] xref: TAO:0005224 xref: ZFIN:ZDB-ANAT-090922-266 is_a: ZFA:0005220 ! larval melanophore stripe (zebrafish) relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005227 name: protoneuromast (zebrafish) namespace: zebrafish_anatomy def: "A group of about 20 cells deposited by the migrating lateral line primordium. A few hours after deposition these cells mature to form the neuromast." [ZFIN:ZDB-PUB-070907-34, ZFIN:ZDB-PUB-080630-20] synonym: "immature neuromast" RELATED [] synonym: "proto neuromast" RELATED [] synonym: "proto-neuromast" RELATED [] xref: TAO:0005227 xref: ZFIN:ZDB-ANAT-090922-269 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0002540 ! lateral line system relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0005230 name: CoBL (zebrafish) namespace: zebrafish_anatomy def: "A bifurcate interneuron where the axon projects ventrally, crossing the spinal cord ventral to the Mauthner axons before bifurcating and extending dorsally." [ZFIN:ZDB-PUB-010807-17] synonym: "commissural bifurcating longitudinal" EXACT [] xref: TAO:0005230 xref: ZFIN:ZDB-ANAT-090922-271 is_a: ZFA:0005231 ! bifurcate interneuron (zebrafish) [Term] id: ZFA:0005231 name: bifurcate interneuron (zebrafish) namespace: zebrafish_anatomy def: "Is a spinal interneuron that has an axon that splits into roughly equal size branches." [ZFIN:Curator] xref: TAO:0005231 xref: ZFIN:ZDB-ANAT-090922-272 is_a: CL:0005000 ! spinal cord interneuron [Term] id: ZFA:0005232 name: MCoD (zebrafish) namespace: zebrafish_anatomy def: "A multipolar interneuron with branching dendrites. The axon extend ventrally, lateral to the Mauthner axons before crossing the cord and descending ventrally." [ZFIN:ZDB-PUB-010807-17] synonym: "larval VeLD" RELATED [] synonym: "multipolar commissural descending interneuron" EXACT [] xref: TAO:0005232 xref: ZFIN:ZDB-ANAT-090922-273 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005233 name: CiD (zebrafish) namespace: zebrafish_anatomy def: "A interneuron of the spinal cord with an ipsilateral axon that extends ventral to the Mauthner axon then turns dorsally and caudally and sometimes has a minor ascending branch." [ZFIN:ZDB-PUB-010807-17] synonym: "V2a interneuron" RELATED [] synonym: "circumferential descending interneuron" EXACT [] synonym: "commissural decending interneurons" EXACT [ZFIN:ZDB-PUB-081114-2] xref: TAO:0005233 xref: ZFIN:ZDB-ANAT-090922-274 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005234 name: CoLA (zebrafish) namespace: zebrafish_anatomy def: "A spinal interneuron with a dorsal dendrite that extends caudally. CoLA also has midlateral process that extend rostrally and caudally, the axon crosses the cord dorsal to the Mauthner cell and ascends, extending dorsally. Axon has minor descending branch." [ZFIN:ZDB-PUB-010807-17] synonym: "commissural longitudinal ascending interneuron" EXACT [] xref: TAO:0005234 xref: ZFIN:ZDB-ANAT-090922-275 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005235 name: UCoD (zebrafish) namespace: zebrafish_anatomy def: "A unipolar spinal interneuron that forms dendritic trunk laterally with extensive dendritic branching. The axon extends ventrally, lateral to the Mauthner axons before crssoing the cord and descending ventrally." [ZFIN:ZDB-PUB-010807-17] synonym: "unipolar commissural descending interneuron" RELATED [] xref: TAO:0005235 xref: ZFIN:ZDB-ANAT-090922-276 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005239 name: micropylar cell (zebrafish) namespace: zebrafish_anatomy def: "Is a specialized pore forming cell of the follicle, located adjacent to the animal pole of the oocyte. The micropylar cell makes the single micropyle (pore) through the chorion through which the sperm fertilizes the egg." [ZFIN:ZDB-PUB-080630-14] subset: cell_slim ! cell_slim synonym: "plug cell" EXACT [] xref: TAO:0005239 xref: ZFIN:ZDB-ANAT-090922-280 is_a: CL:0000000 ! cell relationship: part_of UBERON:0001305 ! ovarian follicle relationship: start ZFS:0000043 ! Juvenile:Days 45-89 [Term] id: ZFA:0005246 name: regeneration fibroblast (zebrafish) namespace: zebrafish_anatomy def: "Is a fibroblast that differentiates from the de-differentiated cells of the blastema." [ZFIN:curator] subset: cell_slim ! cell_slim synonym: "blastemal fibroblast" EXACT [] synonym: "blastemal fibroblasts" EXACT PLURAL [] xref: TAO:0005246 xref: ZFIN:ZDB-ANAT-090922-287 is_a: CL:0000057 ! fibroblast relationship: part_of UBERON:0007567 ! regenerating anatomical structure [Term] id: ZFA:0005247 name: CiA (zebrafish) namespace: zebrafish_anatomy def: "Interneurons of the spinal cord that arise from the V1 proliferation domain. The CiA neurons inhibit motoneurons, other ventral interneurons and also inhibit dorsal sensory neurons involved in sensory gating,. CiA have ipsilateral axonal projections in both motor and sensory regions of spinal cord." [ZFIN:ZDB-PUB-040625-12, ZFIN:ZDB-PUB-060418-1] synonym: "V1 interneuron" RELATED [] synonym: "circumferential ascending interneuron" EXACT [] xref: TAO:0005247 xref: ZFIN:ZDB-ANAT-090922-288 is_a: CL:0005000 ! spinal cord interneuron relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0005248 name: trans-choroid plexus branch (zebrafish) namespace: zebrafish_anatomy def: "Vein segment that connects the PCeVs in the choroid plexus." [ZFIN:ZDB-PUB-080908-10] synonym: "TCB" EXACT [ZFIN:ZDB-PUB-080908-10] xref: TAO:0005248 xref: ZFIN:ZDB-ANAT-091221-26 is_a: UBERON:0001638 ! vein relationship: develops_from ZFA:0005027 ! posterior cerebral vein (zebrafish) relationship: part_of ZFA:0005219 ! choroid plexus vascular circuit (zebrafish) relationship: start ZFS:0000038 ! Larval:Day 6 [Term] id: ZFA:0005256 name: intervillus pockets (zebrafish) namespace: zebrafish_anatomy def: "A portion of tissue formed between the base of the intestinal villi that is part of the intestinal epithelium where intestinal stem cells are located. In the intestine no crypts are present, but, the regions between the villi, the intervillus pockets, have a crypt-like function. Cells are produced in the intervillus pockets and shed from the villus tips." [ZFIN:ZDB-PUB-050209-3] synonym: "intestinal crypt" RELATED [ZFIN:ZDB-PUB-090217-11] xref: TAO:0005256 xref: ZFIN:ZDB-ANAT-100205-323 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001277 ! intestinal epithelium relationship: start ZFS:0000037 ! Larval:Day 5 [Term] id: ZFA:0005262 name: caudal fin dorsal procurrent ray (zebrafish) namespace: zebrafish_anatomy def: "Caudal procurrent ray that is dorsally located on the caudal fin skeleton. There are 6 dorsal procurrent rays in the caudal fin." [TAO:curator, ZFIN:ZDB-PUB-031103-13] synonym: "dorsal procurrent caudal-fin ray" EXACT [] xref: TAO:0001829 xref: ZFIN:ZDB-ANAT-091221-39 is_a: ZFA:0001584 ! caudal fin procurrent ray (zebrafish) [Term] id: ZFA:0005263 name: caudal fin ventral procurrent ray (zebrafish) namespace: zebrafish_anatomy def: "Caudal procurrent ray that is ventrally located on the caudal fin skeleton. There are 5 ventral procurrent rays in the caudal fin." [TAO:curator, ZFIN:ZDB-PUB-031103-13] synonym: "ventral procurrent ray" EXACT [] xref: TAO:0001830 xref: ZFIN:ZDB-ANAT-091221-40 is_a: ZFA:0001584 ! caudal fin procurrent ray (zebrafish) [Term] id: ZFA:0005264 name: primordial ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the maxilla with the lower jaw." [TAO:curator] synonym: "articular-maxillary ligament " EXACT [doi:10.1111/j.1096-3642.1964.tb00493.x] synonym: "ligamentum primordiale " EXACT [] synonym: "maxillo-mandibular ligament" EXACT [] xref: TAO:0001828 xref: ZFIN:ZDB-ANAT-091221-41 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005265 name: premaxillary-maxillary ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the premaxilla to the maxilla." [TAO:curator] xref: TAO:0001827 xref: ZFIN:ZDB-ANAT-091221-42 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005267 name: erector muscle (zebrafish) namespace: zebrafish_anatomy def: "Muscle that moves parts of the body in a superior direction to an erect position. Antagonistic to depressor muscle." [ZFIN:curator] xref: TAO:0005267 xref: ZFIN:ZDB-ANAT-091221-44 is_a: UBERON:0001134 ! skeletal muscle tissue [Term] id: ZFA:0005270 name: depressor muscle (zebrafish) namespace: zebrafish_anatomy def: "A muscle that moves body parts into an inferior direction or lowered position. Antagonistic to erector muscle." [ZFIN:curator] xref: TAO:0005270 xref: ZFIN:ZDB-ANAT-091221-47 is_a: UBERON:0001134 ! skeletal muscle tissue [Term] id: ZFA:0005272 name: immature gonad (zebrafish) namespace: zebrafish_anatomy def: "Immature reproductive tissue that has not undergone final maturation into either testis or ovary. During gonadal development, the gonad may be transiently intersexual where there is a parallel presence of both oocytes and spermatocytes." [ZFIN:ZDB-PUB-070305-2] synonym: "juvenile gonad" EXACT [] synonym: "juvenile ovary" EXACT [ZFIN:ZDB-PUB-070305-2] xref: TAO:0005272 xref: ZFIN:ZDB-ANAT-091221-49 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0005564 ! gonad primordium relationship: end ZFS:0000041 ! Larval:Days 21-29 relationship: part_of UBERON:0000990 ! reproductive system relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005273 name: intestinal mucosal muscle (zebrafish) namespace: zebrafish_anatomy def: "A thin layer of smooth muscle immediately beneath the base of the villi which permits the intestinal mucosa to dynamically move and fold." [ZFIN:ZDB-PUB-090217-11] synonym: "intestinal lamina muscularis mucosae" RELATED [http:www.vivo.colostate.edu/hbooks/pathphys/digestion/basics/gi_microanatomy.html] xref: TAO:0005273 xref: ZFIN:ZDB-ANAT-100205-324 is_a: UBERON:0001135 ! smooth muscle tissue relationship: part_of UBERON:0000160 ! intestine [Term] id: ZFA:0005275 name: arrector muscle (zebrafish) namespace: zebrafish_anatomy xref: TAO:0002147 xref: ZFIN:ZDB-ANAT-100205-326 is_a: UBERON:0001134 ! skeletal muscle tissue [Term] id: ZFA:0005276 name: inclinator muscle (zebrafish) namespace: zebrafish_anatomy xref: TAO:0005276 xref: ZFIN:ZDB-ANAT-100205-327 is_a: UBERON:0001134 ! skeletal muscle tissue [Term] id: ZFA:0005278 name: enteric longitudinal muscle (zebrafish) namespace: zebrafish_anatomy def: "Smooth muscle of the enteric muscle system in which the cells are aligned parallel to the lumen of the gut." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100205-329 is_a: UBERON:0001135 ! smooth muscle tissue relationship: part_of ZFA:0001324 ! enteric musculature (zebrafish) [Term] id: ZFA:0005279 name: enteric circular muscle (zebrafish) namespace: zebrafish_anatomy def: "Smooth muscle of the enteric muscle system in which the cells are aligned perpendicular to the lumen of the gut." [ZFIN:curator] xref: TAO:0005279 xref: ZFIN:ZDB-ANAT-100205-330 is_a: UBERON:0001135 ! smooth muscle tissue relationship: part_of ZFA:0001324 ! enteric musculature (zebrafish) [Term] id: ZFA:0005292 name: distal late tubule (zebrafish) namespace: zebrafish_anatomy def: "Portion of the renal tubule which is just posterior to the distal early tubule." [ZFIN:curator] xref: TAO:0005292 xref: ZFIN:ZDB-ANAT-100205-343 is_a: UBERON:0006553 ! renal duct relationship: part_of UBERON:0001231 ! nephron tubule [Term] id: ZFA:0005295 name: axial blood vessel (zebrafish) namespace: zebrafish_anatomy def: "Blood vessel that runs along the rostral-caudal axis of the fish." [ZFIN:curator] xref: TAO:0005295 xref: ZFIN:ZDB-ANAT-100205-346 is_a: ZFA:0001073 ! axial vasculature (zebrafish) [Term] id: ZFA:0005296 name: axial lymph vessel (zebrafish) namespace: zebrafish_anatomy def: "Lymph vessel that runs along the rostral-caudal axis of the fish." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100205-347 is_a: ZFA:0001073 ! axial vasculature (zebrafish) relationship: part_of UBERON:0004536 ! lymph vasculature [Term] id: ZFA:0005303 name: caudal fin lymph vessel (zebrafish) namespace: zebrafish_anatomy def: "Lymph vessel that is located in the caudal fin." [ZFIN:curator] xref: TAO:0005303 xref: ZFIN:ZDB-ANAT-100205-354 is_a: UBERON:0007384 ! limb/fin lymph vessel relationship: part_of UBERON:0004536 ! lymph vasculature relationship: part_of ZFA:0005097 ! caudal fin vasculature (zebrafish) [Term] id: ZFA:0005304 name: caudal fin blood vessel (zebrafish) namespace: zebrafish_anatomy def: "Blood vessel located within the caudal fin." [ZFIN:curator] xref: TAO:0005304 xref: ZFIN:ZDB-ANAT-100205-355 is_a: UBERON:0007301 ! limb/fin blood vessel relationship: part_of ZFA:0005097 ! caudal fin vasculature (zebrafish) [Term] id: ZFA:0005311 name: pronephric glomerular capsule epithelium (zebrafish) namespace: zebrafish_anatomy def: "Simple squamous epithelium that lines the capsule of the pronephric glomerulus." [ZFIN:curator] synonym: "pronephric parietal epithelial layer" EXACT [] xref: TAO:0005311 xref: ZFIN:ZDB-ANAT-100205-362 is_a: UBERON:0000487 ! simple squamous epithelium relationship: end ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0001230 ! glomerular capsule [Term] id: ZFA:0005316 name: fin fold pectoral fin bud (zebrafish) namespace: zebrafish_anatomy def: "Fin fold of the pectoral fin bud, resulting from mesenchyme migration into the apical fold." [ZFIN:ZDB-PUB-001101-7, ZFIN:ZDB-PUB-990210-18] synonym: "fin membrane pectoral fin bud" RELATED [] xref: TAO:0005316 xref: ZFIN:ZDB-ANAT-100408-31 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from UBERON:0005421 ! pectoral appendage apical ectodermal ridge relationship: end ZFS:0000033 ! Hatching:Long-pec relationship: part_of UBERON:0005419 ! pectoral appendage bud relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005317 name: pectoral fin fold (zebrafish) namespace: zebrafish_anatomy def: "The functional webs of the paired fins. They arise as a consequence of apical fold (AER) expansion and of migration of the distal mesenchyme. The fin folds are delimited by a dorsal and a ventral striated epidermis. The cells of the epidermal basal stratum are positioned on a basement membrane. Directly beneath the basement membrane of each side there is an array of actinotrichs, fibers of the extracellular matrix which act as supportive elements of the larval fin folds." [ZFIN:ZDB-PUB-990210-18] xref: TAO:0005317 xref: ZFIN:ZDB-ANAT-100408-32 is_a: UBERON:0000481 ! multi-tissue structure relationship: develops_from ZFA:0005316 ! fin fold pectoral fin bud (zebrafish) relationship: part_of UBERON:0000151 ! pectoral fin relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005319 name: intersegmental lymph vessel (zebrafish) namespace: zebrafish_anatomy def: "Lymph vessel that is located between the somites." [ZFIN:curator] synonym: "islv" EXACT [] xref: TAO:0005319 xref: ZFIN:ZDB-ANAT-100408-34 is_a: UBERON:0004536 ! lymph vasculature relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005320 name: dorsal longitudinal lymphatic vessel (zebrafish) namespace: zebrafish_anatomy synonym: "dllv" EXACT [] xref: TAO:0005320 xref: ZFIN:ZDB-ANAT-100408-35 is_a: UBERON:0004536 ! lymph vasculature relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005324 name: gill ionocyte (zebrafish) namespace: zebrafish_anatomy def: "Ionocyte located in the gills." [ZFIN:curator] subset: cell_slim ! cell_slim xref: TAO:0005324 xref: ZFIN:ZDB-ANAT-100408-39 is_a: CL:0005006 ! ionocyte relationship: part_of UBERON:0011150 ! pharyngeal arch derived gill [Term] id: ZFA:0005325 name: integument ionocyte (zebrafish) namespace: zebrafish_anatomy def: "Ionocyte located in the integument during embryonic and larval stages." [ZFIN:curator] subset: cell_slim ! cell_slim synonym: "extrabranchial ionocyte" RELATED [] synonym: "skin ionocyte" EXACT [] xref: TAO:0005325 xref: ZFIN:ZDB-ANAT-100408-40 is_a: CL:0005006 ! ionocyte relationship: part_of UBERON:0002199 ! integument [Term] id: ZFA:0005326 name: NaK ionocyte (zebrafish) namespace: zebrafish_anatomy def: "Integument ionocyte rich in Na,K-ATPase." [ZFIN:curator] subset: cell_slim ! cell_slim synonym: "NaK-MRC" RELATED [] synonym: "NaR cell" RELATED [] xref: TAO:0005326 xref: ZFIN:ZDB-ANAT-100408-41 is_a: ZFA:0005325 ! integument ionocyte (zebrafish) relationship: part_of UBERON:0002199 ! integument [Term] id: ZFA:0005327 name: vH ionocyte (zebrafish) namespace: zebrafish_anatomy def: "Integument ionocyte rich in vacuolar-type H+ ATPase and carbonic anhydrase." [ZFIN:curator] subset: cell_slim ! cell_slim synonym: "HR cell" RELATED [] synonym: "VH-MRC" RELATED [] xref: TAO:0005327 xref: ZFIN:ZDB-ANAT-100408-42 is_a: ZFA:0005325 ! integument ionocyte (zebrafish) relationship: part_of UBERON:0002199 ! integument [Term] id: ZFA:0005336 name: presumptive swim bladder (zebrafish) namespace: zebrafish_anatomy def: "Portion of the gut endoderm that will eventually develop into the swim bladder." [ZFIN:ZDB-PUB-090511-18] synonym: "swim bladder anlage" RELATED [ZFIN:ZDB-PUB-100202-11] xref: TAO:0005336 xref: ZFIN:ZDB-ANAT-100408-50 is_a: UBERON:0006598 ! presumptive structure relationship: end ZFS:0000030 ! Pharyngula:Prim-15 relationship: part_of UBERON:0001555 ! digestive tract relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0005337 name: anterior swim bladder bud (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that forms from the swim bladder epithelium at the anterior end of the swim bladder." [ZFIN:ZDB-PUB-090511-18] xref: TAO:0002145 xref: ZFIN:ZDB-ANAT-100408-51 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0006860 ! swim bladder relationship: end ZFS:0000040 ! Larval:Days 14-20 relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005338 name: posterior recess (zebrafish) namespace: zebrafish_anatomy def: "Posterior protrusion of the third ventricle." [ZFIN:curator] synonym: "posterior recess of diencephalic ventricle" EXACT [ZFIN:ZDB-PUB-091221-27] xref: TAO:0005338 xref: ZFIN:ZDB-ANAT-100408-52 is_a: UBERON:0000464 ! anatomical space relationship: part_of UBERON:0002286 ! third ventricle [Term] id: ZFA:0005339 name: nucleus of the lateral recess (zebrafish) namespace: zebrafish_anatomy def: "Is a diencephalic nucleus located in the caudal periventricular hypothalamus surrounding the lateral recess of the third ventricle." [ZFIN:ZDB-PUB-091221-27] xref: TAO:0005339 xref: ZFIN:ZDB-ANAT-100408-53 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000324 ! caudal periventricular hypothalamus (zebrafish) [Term] id: ZFA:0005340 name: nucleus of the posterior recess (zebrafish) namespace: zebrafish_anatomy def: "A diencephalic nucleus that is part of caudal periventricular hypothalmus surrounding the posterior recess of the third ventricle." [ZFIN:ZDB-PUB-091221-27] xref: TAO:0005340 xref: ZFIN:ZDB-ANAT-100408-54 is_a: UBERON:0006569 ! diencephalic nucleus relationship: part_of ZFA:0000324 ! caudal periventricular hypothalamus (zebrafish) [Term] id: ZFA:0005341 name: medial longitudinal catecholaminergic tract (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter tract, major catecholaminergic tract that originates in the diencephalon, passes the locus coeruleus and projects through the hindbrain into the spinal cord. Dopaminergic neurons of the posterior tuberculum and lateral hypothalamus provide the predominant contribution to descending mlct projections." [ZFIN:ZDB-PUB-091221-28] synonym: "medial longitudinal CA tract" EXACT [ZFIN:ZDB-PUB-091221-28] synonym: "mlct" EXACT [] xref: TAO:0005341 xref: ZFIN:ZDB-ANAT-100408-55 is_a: UBERON:0002316 ! white matter [Term] id: ZFA:0005342 name: anterior catecholaminergic tract (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter, an axonal tract between ventral diencephalon and ventral telencephalon. At 3 d, the anterior catecholaminergic tract includes noradrenergic projections from the hindbrain and dopaminergic projections from ventral dopaminergic neurons. During later development, other catecholaminergic projections may also contribute to the anterior catecholaminergic tract." [ZFIN:ZDB-PUB-091221-28] xref: TAO:0002144 xref: ZFIN:ZDB-ANAT-100408-56 is_a: UBERON:0002316 ! white matter [Term] id: ZFA:0005343 name: endohypothalamic tract (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter, axonal tract interconnecting catecholaminergic cell groups in the posterior tuberculum and hypothalamus." [ZFIN:ZDB-PUB-091221-28] xref: TAO:0005343 xref: ZFIN:ZDB-ANAT-100408-57 is_a: UBERON:0002316 ! white matter [Term] id: ZFA:0005344 name: preopticohypothalamic tract (zebrafish) namespace: zebrafish_anatomy def: "CNS white matter, axonal tract between the preoptic region and ventral diencephalon." [ZFIN:ZDB-PUB-091221-28] xref: TAO:0005344 xref: ZFIN:ZDB-ANAT-100408-58 is_a: UBERON:0002316 ! white matter [Term] id: ZFA:0005346 name: extrapancreatic duct (zebrafish) namespace: zebrafish_anatomy def: "Portion of the pancreatic duct, external to the pancreas body that connects the pancreas with the hepatopancreatic ampulla." [ZFIN:ZDB-PUB-050623-3] xref: TAO:0005346 xref: ZFIN:ZDB-ANAT-100408-60 is_a: UBERON:0003928 ! digestive system duct relationship: part_of UBERON:0007329 ! pancreatic duct [Term] id: ZFA:0005347 name: vertebra 5 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 4." [ZFIN:curator] xref: TAO:0001732 xref: ZFIN:ZDB-ANAT-100614-1 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005348 name: vertebra 6 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 5." [ZFIN:curator] xref: TAO:0001980 xref: ZFIN:ZDB-ANAT-100614-2 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005349 name: vertebra 7 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 6." [ZFIN:curator] xref: TAO:0001981 xref: ZFIN:ZDB-ANAT-100614-3 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005350 name: vertebra 8 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 7." [ZFIN:curator] xref: TAO:0001982 xref: ZFIN:ZDB-ANAT-100614-4 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005351 name: vertebra 9 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 8." [ZFIN:curator] xref: TAO:0002149 xref: ZFIN:ZDB-ANAT-100614-5 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005352 name: vertebra 12 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 11. May have hemal arch and rib." [ZFIN:ZDB-PUB-020807-1] xref: TAO:0002152 xref: ZFIN:ZDB-ANAT-100614-6 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005353 name: vertebra 10 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 9." [ZFIN:curator] xref: TAO:0002150 xref: ZFIN:ZDB-ANAT-100614-7 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005354 name: vertebra 11 (zebrafish) namespace: zebrafish_anatomy def: "Vertebra that is posteriorly adjacent to vertebra 10." [ZFIN:curator] xref: TAO:0002151 xref: ZFIN:ZDB-ANAT-100614-8 is_a: ZFA:0001582 ! non-Weberian precaudal vertebra (zebrafish) [Term] id: ZFA:0005355 name: dorsal fin lepidotrichium 1 (zebrafish) namespace: zebrafish_anatomy def: "First lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001754 xref: ZFIN:ZDB-ANAT-100614-9 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005356 name: dorsal fin lepidotrichium 2 (zebrafish) namespace: zebrafish_anatomy def: "Second lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001755 xref: ZFIN:ZDB-ANAT-100614-10 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005357 name: dorsal fin lepidotrichium 3 (zebrafish) namespace: zebrafish_anatomy def: "Third lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001756 xref: ZFIN:ZDB-ANAT-100614-11 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005358 name: dorsal fin lepidotrichium 4 (zebrafish) namespace: zebrafish_anatomy def: "Fourth lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001757 xref: ZFIN:ZDB-ANAT-100614-12 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005359 name: dorsal fin lepidotrichium 5 (zebrafish) namespace: zebrafish_anatomy def: "Fifth lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001758 xref: ZFIN:ZDB-ANAT-100614-13 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005360 name: dorsal fin lepidotrichium 6 (zebrafish) namespace: zebrafish_anatomy def: "Sixth lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001759 xref: ZFIN:ZDB-ANAT-100614-14 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005361 name: dorsal fin lepidotrichium 7 (zebrafish) namespace: zebrafish_anatomy def: "Seventh lepidotrichium of dorsal fin." [ZFIN:curator] xref: TAO:0001760 xref: ZFIN:ZDB-ANAT-100614-15 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005362 name: dorsal fin proximal radial 1 (zebrafish) namespace: zebrafish_anatomy def: "First proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0001818 xref: ZFIN:ZDB-ANAT-100614-16 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005364 ! dorsal fin pterygiophore 1 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005363 name: dorsal fin proximal radial 2 (zebrafish) namespace: zebrafish_anatomy def: "Second proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0001819 xref: ZFIN:ZDB-ANAT-100614-17 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005365 ! dorsal fin pterygiophore 2 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005364 name: dorsal fin pterygiophore 1 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is the rostralmost pterygiophore of the dorsal fin." [TAO:curator] xref: TAO:0002094 xref: ZFIN:ZDB-ANAT-100614-18 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005365 name: dorsal fin pterygiophore 2 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 1 of the dorsal fin." [ZFIN:curator] xref: TAO:0005365 xref: ZFIN:ZDB-ANAT-100614-19 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005366 name: dorsal fin pterygiophore 3 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 2 of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005366 xref: ZFIN:ZDB-ANAT-100614-20 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005367 name: dorsal fin pterygiophore 4 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 3 of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005367 xref: ZFIN:ZDB-ANAT-100614-21 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005368 name: dorsal fin pterygiophore 5 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 4 of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005368 xref: ZFIN:ZDB-ANAT-100614-22 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005369 name: dorsal fin pterygiophore 6 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 5 of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005369 xref: ZFIN:ZDB-ANAT-100614-23 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005370 name: dorsal fin pterygiophore 7 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 6 of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005370 xref: ZFIN:ZDB-ANAT-100614-24 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005371 name: dorsal fin pterygiophore 8 (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin pterygiophore that is caudal to pterygiophore 7 of the dorsal fin. The most caudal pterygiophore of the dorsal fin." [ZFIN:ZDB-PUB-031103-13] xref: TAO:0005371 xref: ZFIN:ZDB-ANAT-100614-25 is_a: ZFA:0001419 ! dorsal fin pterygiophore (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005372 name: dorsal fin distal radial 1 (zebrafish) namespace: zebrafish_anatomy def: "First distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005372 xref: ZFIN:ZDB-ANAT-100614-26 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005364 ! dorsal fin pterygiophore 1 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005373 name: dorsal fin distal radial 2 (zebrafish) namespace: zebrafish_anatomy def: "Second distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005373 xref: ZFIN:ZDB-ANAT-100614-27 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005365 ! dorsal fin pterygiophore 2 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005374 name: dorsal fin distal radial 3 (zebrafish) namespace: zebrafish_anatomy def: "Third distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005374 xref: ZFIN:ZDB-ANAT-100614-28 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005366 ! dorsal fin pterygiophore 3 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005375 name: dorsal fin distal radial 4 (zebrafish) namespace: zebrafish_anatomy def: "Fourth distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005375 xref: ZFIN:ZDB-ANAT-100614-29 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005367 ! dorsal fin pterygiophore 4 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005376 name: dorsal fin distal radial 5 (zebrafish) namespace: zebrafish_anatomy def: "Fifth distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005376 xref: ZFIN:ZDB-ANAT-100614-30 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005368 ! dorsal fin pterygiophore 5 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005377 name: dorsal fin distal radial 6 (zebrafish) namespace: zebrafish_anatomy def: "Sixth distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005377 xref: ZFIN:ZDB-ANAT-100614-31 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005369 ! dorsal fin pterygiophore 6 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005378 name: dorsal fin distal radial 7 (zebrafish) namespace: zebrafish_anatomy def: "Seventh distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005378 xref: ZFIN:ZDB-ANAT-100614-32 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005370 ! dorsal fin pterygiophore 7 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005379 name: dorsal fin distal radial 8 (zebrafish) namespace: zebrafish_anatomy def: "Eighth distal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005379 xref: ZFIN:ZDB-ANAT-100614-33 is_a: ZFA:0000936 ! dorsal fin distal radial (zebrafish) relationship: part_of ZFA:0005371 ! dorsal fin pterygiophore 8 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005380 name: dorsal fin proximal radial 3 (zebrafish) namespace: zebrafish_anatomy def: "Third proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005380 xref: ZFIN:ZDB-ANAT-100614-34 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005366 ! dorsal fin pterygiophore 3 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005381 name: dorsal fin proximal radial 4 (zebrafish) namespace: zebrafish_anatomy def: "Fourth proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005381 xref: ZFIN:ZDB-ANAT-100614-35 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005367 ! dorsal fin pterygiophore 4 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005382 name: dorsal fin proximal radial 5 (zebrafish) namespace: zebrafish_anatomy def: "Fifth proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005382 xref: ZFIN:ZDB-ANAT-100614-36 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005368 ! dorsal fin pterygiophore 5 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005383 name: dorsal fin proximal radial 6 (zebrafish) namespace: zebrafish_anatomy def: "Sixth proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005383 xref: ZFIN:ZDB-ANAT-100614-37 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005369 ! dorsal fin pterygiophore 6 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005384 name: dorsal fin proximal radial 7 (zebrafish) namespace: zebrafish_anatomy def: "Seventh proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005384 xref: ZFIN:ZDB-ANAT-100614-38 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005370 ! dorsal fin pterygiophore 7 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005385 name: dorsal fin proximal radial 8 (zebrafish) namespace: zebrafish_anatomy def: "Eighth proximal radial of the dorsal fin." [ZFIN:curator] xref: TAO:0005385 xref: ZFIN:ZDB-ANAT-100614-39 is_a: ZFA:0000947 ! dorsal fin proximal radial (zebrafish) relationship: part_of ZFA:0005371 ! dorsal fin pterygiophore 8 (zebrafish) relationship: start ZFS:0000039 ! Larval:Days 7-13 [Term] id: ZFA:0005389 name: gill opening (zebrafish) namespace: zebrafish_anatomy def: "Anatomical space that is the external opening of a gill slit connecting the pharyngeal cavity to the exterior. Gill opening is usually paired and located on the lateral or ventral surfaces of the head." [TAO:curator] xref: TAO:0002057 xref: ZFIN:ZDB-ANAT-100614-43 is_a: UBERON:0000464 ! anatomical space [Term] id: ZFA:0005390 name: gill ray (zebrafish) namespace: zebrafish_anatomy def: "Gill ray is a slender, usually rod-like cartilage within a gill filament and ligamentously tied to its associated pharyngeal arch bone or cartilage." [TAO:curator] xref: TAO:0001856 xref: ZFIN:ZDB-ANAT-100614-44 is_a: UBERON:0011004 ! pharyngeal arch cartilage relationship: part_of UBERON:0008896 ! post-hyoid pharyngeal arch [Term] id: ZFA:0005391 name: head sensory canal system (zebrafish) namespace: zebrafish_anatomy def: "Lateral line system on head and pectoral girdle." [TAO:curator] xref: TAO:0001873 xref: ZFIN:ZDB-ANAT-100614-45 is_a: ZFA:0001468 ! anterior lateral line system (zebrafish) [Term] id: ZFA:0005392 name: infraorbital sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal associated with the infraorbital bones. Located in close proximity to the otic and supraorbital sensory canals at their union. The infraorbital sensory canal is bilaterally paired. The canal has 3 pores. The first opens dorsally below the nasal sac, the second opens laterally posterior to the anterior maxilary barbel, the third pore is present where infraorbital 1 meets infraorbital 2." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0001811 xref: ZFIN:ZDB-ANAT-100614-46 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005391 ! head sensory canal system (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005393 name: otic sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal between and in close proximity posteriorly with the post-otic and preoperculo-mandibular sensory canals, and anteriorly with the supraorbital and infraorbital sensory canals. The otic sensory canal is bilaterally paired." [TAO:curator] xref: TAO:0001629 xref: ZFIN:ZDB-ANAT-100614-47 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005391 ! head sensory canal system (zebrafish) [Term] id: ZFA:0005394 name: post-otic sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal that forms dorsal to the horizontal semicircular canal of the ear. The anterior end of the canal may span or remain posterior to the pterotic-sphenotic junction. The posterior end of the postotic canal meets the temporal and supratemporal canals. The canal lies between and in close proximity to the trunk sensory canal and anteriorly with the otic and preoperculo-mandibular sensory canals. The post-otic sensory canal is bilaterally paired and when mature is fully enclosed in bone." [TAO:curator, ZFIN:ZDB-PUB-961014-192] synonym: "postotic sensory canal" EXACT [ZFIN:ZDB-PUB-961014-192] xref: TAO:0001619 xref: ZFIN:ZDB-ANAT-100614-48 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005391 ! head sensory canal system (zebrafish) [Term] id: ZFA:0005395 name: preoperculo-mandibular sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal lateral or ventral to and in close proximity to the otic and post-otic sensory canals at their union. The preoperculo-mandibular sensory canal is bilaterally paired and associated with the preopercle, angular and dentary bones." [TAO:curator] xref: TAO:0001812 xref: ZFIN:ZDB-ANAT-100614-49 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005391 ! head sensory canal system (zebrafish) [Term] id: ZFA:0005396 name: supraorbital sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal contained in the nasal and frontal bones. It contains 4 or 5 neuromast. The first neuromast is positioned in the tubular nasal bone and the other neuromasts are located in the frontal bone. The canal is anterior to and in close proximity to the otic and infraorbital sensory canals. The supraorbital sensory canal is bilaterally paired." [TAO:curator, ZFIN:ZDB-PUB-031103-11] xref: TAO:0001810 xref: ZFIN:ZDB-ANAT-100614-50 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005391 ! head sensory canal system (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0005397 name: hyoideomandibular nerve (zebrafish) namespace: zebrafish_anatomy def: "Nerve that is a branch of cranial nerve VII that passes through or around the suspensorium to innervate muscles and sensory organs on or near pharyngeal arch 2." [TAO:curator] xref: TAO:0002010 xref: ZFIN:ZDB-ANAT-100614-51 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0001647 ! facial nerve [Term] id: ZFA:0005398 name: anal fin actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium that is part of the anal fin skeleton." [TAO:curator] synonym: "anal fin actinotricia" EXACT PLURAL [] xref: TAO:0000375 xref: ZFIN:ZDB-ANAT-100614-52 is_a: ZFA:0005435 ! actinotrichium (zebrafish) relationship: part_of ZFA:0000167 ! anal fin skeleton (zebrafish) [Term] id: ZFA:0005399 name: anal fin lepidotrichium 1 (zebrafish) namespace: zebrafish_anatomy def: "First lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001769 xref: ZFIN:ZDB-ANAT-100614-53 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005400 name: anal fin lepidotrichium 2 (zebrafish) namespace: zebrafish_anatomy def: "Second lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001770 xref: ZFIN:ZDB-ANAT-100614-54 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005401 name: anal fin lepidotrichium 3 (zebrafish) namespace: zebrafish_anatomy def: "Third epidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001771 xref: ZFIN:ZDB-ANAT-100614-55 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005402 name: anal fin lepidotrichium 4 (zebrafish) namespace: zebrafish_anatomy def: "Fourth lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001772 xref: ZFIN:ZDB-ANAT-100614-56 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005403 name: anal fin lepidotrichium 5 (zebrafish) namespace: zebrafish_anatomy def: "Fifth lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001773 xref: ZFIN:ZDB-ANAT-100614-57 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005404 name: anal fin lepidotrichium 6 (zebrafish) namespace: zebrafish_anatomy def: "Sixth lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001774 xref: ZFIN:ZDB-ANAT-100614-58 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005405 name: anal fin lepidotrichium 7 (zebrafish) namespace: zebrafish_anatomy def: "Seventh lepidotrichium of anal fin." [ZFIN:curator] xref: TAO:0001775 xref: ZFIN:ZDB-ANAT-100614-59 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005406 name: anterior myodome (zebrafish) namespace: zebrafish_anatomy def: "Fossa or chamber on anterior portion of orbital region of neurocranium that serves as attachment site for anterior extrinsic eye musculature." [TAO:curator] comment: Dbxref for ZFIN changed to match actual database accession number. Old Dbxref ZDB-ANAT-100614-560 correct Dbxref ZDB-ANAT-100614-60. xref: TAO:0001927 xref: ZFIN:ZDB-ANAT-100614-60 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005407 name: anterior nasal barbel (zebrafish) namespace: zebrafish_anatomy def: "Barbel that is associated with the anterior nostril. Anterior nasal barbel is paired." [TAO:curator] xref: TAO:0001937 xref: ZFIN:ZDB-ANAT-100614-61 is_a: ZFA:0000622 ! barbel (zebrafish) [Term] id: ZFA:0005408 name: maxillary barbel (zebrafish) namespace: zebrafish_anatomy def: "Barbel that is attached to the distal end of the maxilla and that originates on the side of the mouth. Maxillary barbel is paired." [TAO:curator] xref: TAO:0001938 xref: ZFIN:ZDB-ANAT-100614-62 is_a: ZFA:0000622 ! barbel (zebrafish) [Term] id: ZFA:0005409 name: pars superior ear (zebrafish) namespace: zebrafish_anatomy def: "The dorsal part of the ear. Comprises the three semicircular canals, which connect to the utricle." [ZFIN:curator] xref: TAO:0005409 xref: ZFIN:ZDB-ANAT-100614-63 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001846 ! internal ear [Term] id: ZFA:0005410 name: pars inferior ear (zebrafish) namespace: zebrafish_anatomy def: "The ventral portion of the ear. It contains the saccule and the lagena which are the primary auditory organs." [ZFIN:curator] xref: TAO:0005410 xref: ZFIN:ZDB-ANAT-100614-64 is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0001846 ! internal ear [Term] id: ZFA:0005411 name: common crus (zebrafish) namespace: zebrafish_anatomy def: "Duct that forms when the nonampullary ends of the posterior and anterior semicircular canals merge. The common curs descends connecting the semicircular canals to the horizontal canal." [ZFIN:ZDB-PUB-010912-7, ZFIN:ZDB-PUB-020403-4] xref: TAO:0005411 xref: ZFIN:ZDB-ANAT-100614-65 is_a: UBERON:0000058 ! duct relationship: part_of ZFA:0005409 ! pars superior ear (zebrafish) [Term] id: ZFA:0005412 name: transverse canal (zebrafish) namespace: zebrafish_anatomy def: "Duct that crosses the midline connecting the sacculi." [ZFIN:curator] xref: TAO:0005412 xref: ZFIN:ZDB-ANAT-100614-66 is_a: UBERON:0000058 ! duct relationship: part_of UBERON:0002105 ! vestibulo-auditory system relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005415 name: inner ear foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen in the inner ear." [ZFIN:curator] xref: TAO:0005415 xref: ZFIN:ZDB-ANAT-100614-69 is_a: UBERON:0005744 ! cranial conduit relationship: part_of UBERON:0001846 ! internal ear [Term] id: ZFA:0005416 name: sacculoagenar foramen (zebrafish) namespace: zebrafish_anatomy def: "Inner ear foramen that connects the lagena to the caudal half of the saccule." [ZFIN:ZDB-PUB-020403-4] xref: TAO:0005416 xref: ZFIN:ZDB-ANAT-100614-70 is_a: ZFA:0005415 ! inner ear foramen (zebrafish) [Term] id: ZFA:0005417 name: utriculosaccular foramen (zebrafish) namespace: zebrafish_anatomy def: "Inner ear foramen that connects the rostral saccula to the utricle." [ZFIN:ZDB-PUB-020403-4] xref: ZFIN:ZDB-ANAT-100614-71 is_a: ZFA:0005415 ! inner ear foramen (zebrafish) [Term] id: ZFA:0005418 name: auditory fenestra (zebrafish) namespace: zebrafish_anatomy def: "Opening in the neurocranium to allow communication between the swim bladder and the inner ear." [TAO:curator] xref: TAO:0002066 xref: ZFIN:ZDB-ANAT-100614-72 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005419 name: auditory foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen through which cranial nerve VIII (auditory) exits." [TAO:curator] xref: TAO:0001742 xref: ZFIN:ZDB-ANAT-100614-73 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005420 name: autopalatine-lateral ethmoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the autopalatine and lateral ethmoid and bones. Autopalatine-lateral ethmoid joint is paired." [TAO:curator] xref: TAO:0001608 xref: ZFIN:ZDB-ANAT-100614-74 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005421 name: autopalatine-maxillary joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the autopalatine cartilage or bone and maxilla." [TAO:curator] xref: TAO:0001942 xref: ZFIN:ZDB-ANAT-100614-75 is_a: UBERON:0000982 ! skeletal joint relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005422 name: autopalatine-vomer joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates autopalatine and vomer bones. Autopalatine vomer joint is paired." [TAO:curator] xref: TAO:0001784 xref: ZFIN:ZDB-ANAT-100614-76 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005423 name: basioccipital-exoccipital joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the basioccipital and exoccipital. Basioccipital exoccipital joint is paired." [TAO:curator] xref: TAO:0002038 xref: ZFIN:ZDB-ANAT-100614-77 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005424 name: caudal fin actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium that is part of the caudal fin skeleton." [TAO:curator] synonym: "caudal fin actinotrichia" EXACT PLURAL [] xref: TAO:0000437 xref: ZFIN:ZDB-ANAT-100614-78 is_a: ZFA:0005435 ! actinotrichium (zebrafish) relationship: part_of ZFA:0000862 ! caudal fin skeleton (zebrafish) [Term] id: ZFA:0005426 name: coracoid foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen that is located in the coracoid." [TAO:curator] xref: TAO:0001737 xref: ZFIN:ZDB-ANAT-100614-80 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005427 name: dentary foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen located on the dentary for passage of the mandibular nerve." [TAO:curator] xref: TAO:0002012 xref: ZFIN:ZDB-ANAT-100614-81 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005429 name: olfactory nerve foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen for the passage of the olfactory nerve or cranial nerve 1." [TAO:curator] xref: TAO:0001804 xref: ZFIN:ZDB-ANAT-100614-83 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005430 name: orbital foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen in the bone or cartilage comprising the anterior wall of the orbit, and through which passes at least the deep ophthalmic branch of cranial nerve V (trigeminal)." [TAO:curator] xref: TAO:0002031 xref: ZFIN:ZDB-ANAT-100614-84 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005431 name: scapular foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen that is located in the scapula. The scapular foramen is paired and formed by a ring of bone." [TAO:curator] xref: TAO:0001735 xref: ZFIN:ZDB-ANAT-100614-85 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005432 name: superficial ophthalmic nerve foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen through which the superficial ophthalmic nerve passes." [TAO:curator] xref: TAO:0001748 xref: ZFIN:ZDB-ANAT-100614-86 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005433 name: mental barbel (zebrafish) namespace: zebrafish_anatomy def: "Barbel that originates on the chin." [TAO:curator] xref: TAO:0002024 xref: ZFIN:ZDB-ANAT-100614-87 is_a: ZFA:0000622 ! barbel (zebrafish) [Term] id: ZFA:0005435 name: actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Skeletal element which is a slender, horny, flexible, unsegmented fibril which provide structural support to fin folds or fins. Actinotrichia are translucent, exhibit birefringence (double refraction) and are composed of the scleroprotein elastoidine." [ZFIN:curator] synonym: "actinotrichia" EXACT PLURAL [] xref: TAO:0000089 xref: ZFIN:ZDB-ANAT-100614-89 is_a: UBERON:0004765 ! skeletal element relationship: start ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0005436 name: pectoral fin nerve (zebrafish) namespace: zebrafish_anatomy def: "Nerve that is part of the pectoral fin." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100805-1 is_a: UBERON:0001021 ! nerve relationship: part_of UBERON:0000151 ! pectoral fin [Term] id: ZFA:0005437 name: pectoral fin motor nerve (zebrafish) namespace: zebrafish_anatomy def: "Motor nerve that is located in the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-2 is_a: ZFA:0005436 ! pectoral fin nerve (zebrafish) [Term] id: ZFA:0005438 name: pectoral fin sensory nerve (zebrafish) namespace: zebrafish_anatomy def: "Sensory nerve that innervates the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-3 is_a: ZFA:0005436 ! pectoral fin nerve (zebrafish) [Term] id: ZFA:0005439 name: pectoral fin motor nerve 1 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin motor nerve that enters the fin from the dorsal side of the fin rostral of all other motor nerves and innervates the dorsal side of the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-4 is_a: ZFA:0005437 ! pectoral fin motor nerve (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005440 name: pectoral fin motor nerve 2 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin motor nerve that enters the fin from the dorsal side of the fin caudal of nerve 1 and rostral of all other motor nerves and innervates the dorsal side of the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-5 is_a: ZFA:0005437 ! pectoral fin motor nerve (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005441 name: pectoral fin motor nerve 3 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin motor nerve that enters the fin from the dorsal side of the fin caudal of nerve 1 and 2 and rostral of nerve 4 and innervates the dorsal side of the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-6 is_a: ZFA:0005437 ! pectoral fin motor nerve (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005442 name: articular fossa of opercle (zebrafish) namespace: zebrafish_anatomy def: "Fossa of opercle that articulates with hyomandibular condyle for opercle." [TAO:curator] xref: TAO:0001928 xref: ZFIN:ZDB-ANAT-100805-7 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005443 name: sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Multi-tissue structure that is a fluid-filled canal in the integument and usually dermal bones, and contains one or more neuromasts." [TAO:curator] xref: TAO:0001612 xref: ZFIN:ZDB-ANAT-100805-8 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0002540 ! lateral line system [Term] id: ZFA:0005444 name: trunk sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal on trunk which is posterior to the pectoral girdle and often reaching to the caudal fin. The trunk sensory canal is bilaterally paired." [TAO:curator] xref: TAO:0001617 xref: ZFIN:ZDB-ANAT-100805-9 is_a: ZFA:0005443 ! sensory canal (zebrafish) [Term] id: ZFA:0005445 name: supratemporal sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal that crosses over the dorsal midline and in close proximity to the contralateral post-otic sensory canals. The supratemporal sensory canal is unpaired." [TAO:curator] xref: TAO:0001630 xref: ZFIN:ZDB-ANAT-100805-10 is_a: ZFA:0005443 ! sensory canal (zebrafish) [Term] id: ZFA:0005446 name: neuromast foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen in a bone that is part of a sensory canal." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-100805-11 is_a: UBERON:0005744 ! cranial conduit relationship: part_of ZFA:0005443 ! sensory canal (zebrafish) [Term] id: ZFA:0005447 name: sensory canal tubule (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal that is a side branch between a sensory canal proximally and a pore at its distal end. Sensory canal tubule is bilaterally paired although often imperfectly so." [TAO:curator] xref: TAO:0001933 xref: ZFIN:ZDB-ANAT-100805-12 is_a: ZFA:0005443 ! sensory canal (zebrafish) [Term] id: ZFA:0005448 name: preopercular sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal associated with the preopercle bone. It lies in close proximity with the otic and post-otic sensory canals at their union, and anteroventrally with the mandibular sensory canal. The preopercular sensory canal is bilaterally paired." [ZFIN:curator] xref: TAO:0001813 xref: ZFIN:ZDB-ANAT-100805-13 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005395 ! preoperculo-mandibular sensory canal (zebrafish) relationship: start ZFS:0000041 ! Larval:Days 21-29 [Term] id: ZFA:0005450 name: pectoral fin motor nerve 4 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin motor nerve that enters the fin from the ventral side of the fin and innervates the ventral side of the pectoral fin." [ZFIN:ZDB-PUB-070726-9] xref: ZFIN:ZDB-ANAT-100805-15 is_a: ZFA:0005437 ! pectoral fin motor nerve (zebrafish) relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0005451 name: mandibular sensory canal (zebrafish) namespace: zebrafish_anatomy def: "Sensory canal associated with the angular and dentary bones. Located anterior and ventral to and in close proximity with the preoperculo-mandibular sensory canal. The mandible sensory canal is bilaterally paired and does not meet at the mandibular symphysis. The mandibular lateral line canal has 3 neuromast located between the canal pores. Two neuromast are located in the portion of the can in the dentary bone. The third neuromast is located in the anguloarticular bone. The rostral end of the canal has a terminal pore adjacent to the mandibular symphysis. There are three more pores, two, at the posterior of the dentary and the anterior of the anguloarticular share a common epithelial pore." [TAO:curator, ZFIN:ZDB-PUB-031103-11] xref: TAO:0001814 xref: ZFIN:ZDB-ANAT-100805-16 is_a: ZFA:0005443 ! sensory canal (zebrafish) relationship: part_of ZFA:0005395 ! preoperculo-mandibular sensory canal (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0005452 name: tract of the caudal commissure (zebrafish) namespace: zebrafish_anatomy synonym: "tract of the posterior commissure" EXACT [ZFIN:ZDB-PUB-961014-421] xref: ZFIN:ZDB-ANAT-100805-17 is_a: UBERON:0002316 ! white matter relationship: part_of UBERON:0000936 ! posterior commissure [Term] id: ZFA:0005453 name: basicapsular fenestra (zebrafish) namespace: zebrafish_anatomy def: "Opening in the prootic. The basicapsular fenestra is paired." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100805-18 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005454 name: subtemporal fossa (zebrafish) namespace: zebrafish_anatomy def: "Fossa where the anteromedial rim is formed by the prootic, the remainder of the fossa is formed by the exoccipital and pterotic." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0001974 xref: ZFIN:ZDB-ANAT-100805-19 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005455 name: prootic foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen formed between the anterolateral extension of the prootic that contacts the pterosphenoid the prootic and the pterosphenoid." [ZFIN:ZDB-PUB-961014-192] synonym: "anterior trigemino-facialis foramen of Howes" EXACT [] synonym: "trigeminal notch of Harrington" EXACT [] xref: ZFIN:ZDB-ANAT-100805-20 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005456 name: sinus impar (zebrafish) namespace: zebrafish_anatomy def: "Perilymphatic compartment of the zebrafish ear. Chamber positioned ventral of the medulla, the anterior end surrounds the posterior portion of the transverse canal." [ZFIN:ZDB-PUB-010912-7] xref: ZFIN:ZDB-ANAT-100805-21 is_a: UBERON:0002278 ! perilymphatic space [Term] id: ZFA:0005457 name: dorsal hypohyal-urohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the dorsal hypohyal and urohyal bones. Dorsal hypohyal-urohyal joint is paired." [TAO:curator] xref: TAO:0001847 xref: ZFIN:ZDB-ANAT-100805-22 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005458 name: dorsal hypohyal-ventral hypohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the dorsal hypohyal and ventral hypohyal bones. Dorsal hypohyal-ventral hypohyal joint is paired." [TAO:curator] xref: TAO:0001845 xref: ZFIN:ZDB-ANAT-100805-23 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005460 name: atrium of sinus impar (zebrafish) namespace: zebrafish_anatomy def: "Bilaterally paired perilymphatic chambers posterior to the sinus impar. These connect to the anterior end of the otic duct." [ZFIN:ZDB-PUB-010912-7] xref: ZFIN:ZDB-ANAT-100805-25 is_a: UBERON:0002278 ! perilymphatic space [Term] id: ZFA:0005462 name: otic duct (zebrafish) namespace: zebrafish_anatomy def: "Pair of perilymphatic ducts that extend from the dorsal ends of the atria of the sinus impar, pass on either side of the medulla and merge and extend dorsally toward the surface of the head." [ZFIN:ZDB-PUB-010912-7] xref: ZFIN:ZDB-ANAT-100805-27 is_a: UBERON:0011060 ! perilymphatic channel [Term] id: ZFA:0005463 name: oral ectoderm (zebrafish) namespace: zebrafish_anatomy def: "Ectoderm of the oral region." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100805-28 is_a: UBERON:0000924 ! ectoderm relationship: part_of UBERON:0000165 ! mouth relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005464 name: dentary-anguloarticular joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the dentary and anguloarticular. Dentary-anguloarticular joint is paired." [TAO:curator] xref: TAO:0001749 xref: ZFIN:ZDB-ANAT-100805-29 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005465 name: ceratohyal-branchiostegal ray joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the ceratohyal and branchiostegal ray bones. Ceratohyal-branchiostegal ray joint is paired." [TAO:curator] xref: TAO:0001850 xref: ZFIN:ZDB-ANAT-100805-30 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005466 name: ceratohyal-ventral hypohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the ceratohyal and ventral hypohyal bones. Ceratohyal-ventral hypohyal joint is paired." [TAO:curator] xref: TAO:0001844 xref: ZFIN:ZDB-ANAT-100805-31 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005467 name: ceratohyal-dorsal hypohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the ceratohyal and dorsal hypohyal bones. Ceratohyal-dorsal hypohyal joint is paired." [TAO:curator] xref: TAO:0001843 xref: ZFIN:ZDB-ANAT-100805-32 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005468 name: frontal-pterotic joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the frontal and pterotic. Frontal-pterotic joint is paired." [TAO:curator] xref: TAO:0001711 xref: ZFIN:ZDB-ANAT-100805-33 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005469 name: hyomandibula-metapterygoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the hyomandibula bone and metapterygoid bone." [TAO:curator] xref: TAO:0001979 xref: ZFIN:ZDB-ANAT-100805-34 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005470 name: inter-coracoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint between the right and left coracoid bones of the pectoral girdle." [TAO:curator] xref: TAO:0002040 xref: ZFIN:ZDB-ANAT-100805-35 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005471 name: inter-basipterygium joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the left and right basipterygium cartilage or bone. Inter-basipterygium joint is unpaired." [TAO:curator] xref: TAO:0001939 xref: ZFIN:ZDB-ANAT-100805-36 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005472 name: inter-frontal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint between the left and right frontal bone." [TAO:curator] synonym: "interfrontal suture" EXACT [ZFIN:ZDB-PUB-060323-12] synonym: "metopic suture" RELATED [ZFIN:ZDB-PUB-060323-12] xref: TAO:0001922 xref: ZFIN:ZDB-ANAT-100805-37 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005473 name: interhyal-epihyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the interhyal and epihyal bones, or interhyal and ceratohyal cartilages. Interhyal-epihyal joint is paired." [TAO:curator] xref: TAO:0001841 xref: ZFIN:ZDB-ANAT-100805-38 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005474 name: inter-hypobranchial 3 joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the left and right hypobranchial 3 cartilages or bones. Inter-hypobranchial 3 joint is unpaired." [TAO:curator] xref: TAO:0001863 xref: ZFIN:ZDB-ANAT-100805-39 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005475 name: inter-premaxillary joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the left and right premaxillary bones. Inter-premaxillary joint is unpaired." [TAO:curator] xref: TAO:0001950 xref: ZFIN:ZDB-ANAT-100805-40 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005476 name: inter-ventral hypohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the contralateral ventral hypohyal bones or the contralateral ceratobranchial cartilages. Inter-ventral hypohyal joint is paired." [TAO:curator] xref: TAO:0001846 xref: ZFIN:ZDB-ANAT-100805-41 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005477 name: lateral ethmoid-frontal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the lateral ethmoid and frontal. Lateral ethmoid-frontal joint is paired." [TAO:curator] xref: TAO:0002032 xref: ZFIN:ZDB-ANAT-100805-42 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005478 name: opercle-interopercle joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the opercle and interopercle. Opercle-interopercle joint is paired." [TAO:curator] xref: TAO:0001710 xref: ZFIN:ZDB-ANAT-100805-43 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005479 name: orbitosphenoid-lateral ethmoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the orbitosphenoid cartilage or bone and lateral ethmoid cartilage or bone. Orbitosphenoid-lateral ethmoid joint is paired." [TAO:curator] xref: TAO:0001941 xref: ZFIN:ZDB-ANAT-100805-44 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005480 name: orbitosphenoid-prootic joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates orbitosphenoid and prootic bones. Orbitosphenoid-prootic joint is paired." [TAO:curator] xref: TAO:0001794 xref: ZFIN:ZDB-ANAT-100805-45 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005481 name: prootic-exoccipital joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the prootic and exoccipital. Prootic-exoccipital joint is paired." [TAO:curator] xref: TAO:0002034 xref: ZFIN:ZDB-ANAT-100805-46 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005482 name: prootic-pterosphenoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the prootic and pterosphenoid. Prootic-pterosphenoid joint is paired. The parasphenoid borders the prootic medially in a syndesmosis." [TAO:curator, ZFIN:ZDB-PUB-961014-192] xref: TAO:0002033 xref: ZFIN:ZDB-ANAT-100805-47 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005483 name: pterosphenoid-orbitosphenoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the pterosphenoid and orbitosphenoid. Pterosphenoid-orbitosphenoid joint is paired." [TAO:curator] xref: TAO:0001831 xref: ZFIN:ZDB-ANAT-100805-48 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005485 name: quadrate-hyomandibula joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates quadrate and hyomandibula bones. Quadrate-hyomandibula joint is paired." [TAO:curator] xref: TAO:0001801 xref: ZFIN:ZDB-ANAT-100805-50 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005486 name: quadrate-metapterygoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates quadrate and metapterygoid bones. Quadrate-metapterygoid joint is paired." [TAO:curator] xref: TAO:0001803 xref: ZFIN:ZDB-ANAT-100805-51 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005487 name: ventral hypohyal-urohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the ventral hypohyal and urohyal bones. Ventral hypohyal-urohyal joint is paired." [TAO:curator] xref: TAO:0001848 xref: ZFIN:ZDB-ANAT-100805-52 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005489 name: endocardial precursor (zebrafish) namespace: zebrafish_anatomy def: "Is a portion of tissue part of the heart primordium which will give rise to the endocardium." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100805-54 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000027 ! Segmentation:20-25 somites relationship: part_of UBERON:0003084 ! heart primordium relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0005490 name: myocardial precursor (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue that will develop into the myocardium." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-100805-55 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000027 ! Segmentation:20-25 somites relationship: part_of UBERON:0003084 ! heart primordium relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0005491 name: optic furrow (zebrafish) namespace: zebrafish_anatomy def: "Groove that is in the ventral optic cup remnant of the optic fissure." [ZFIN:ZDB-PUB-090819-12] synonym: "optic fissure" RELATED [] xref: ZFIN:ZDB-ANAT-100805-56 is_a: UBERON:0006846 ! groove relationship: develops_from UBERON:0005412 ! optic fissure relationship: part_of UBERON:0000019 ! camera-type eye relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005492 name: sphenotic-prootic fossa (zebrafish) namespace: zebrafish_anatomy def: "Fossa where the hyomandibula articulates with the sphenotic and prootic to form the hyomandibular-otic region joint." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0002090 xref: ZFIN:ZDB-ANAT-100805-57 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005493 name: recessus lateralis (zebrafish) namespace: zebrafish_anatomy def: "Intracranial space formed by confluence of supraorbital, infraorbital, preopercular and temporal sensory canals. See also Di Dario (2004)." [TAO:curator] xref: TAO:0001799 xref: ZFIN:ZDB-ANAT-100805-58 is_a: UBERON:0000464 ! anatomical space [Term] id: ZFA:0005495 name: skin flap (zebrafish) namespace: zebrafish_anatomy def: "Surface structure that is a portion of skin that projects or hangs from the body." [TAO:curator] xref: TAO:0001951 xref: ZFIN:ZDB-ANAT-100805-60 is_a: UBERON:0002199 ! integument [Term] id: ZFA:0005497 name: epihyal-ceratohyal joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the epihyal and ceratohyal bones. Epihyal-ceratohyal joint is paired." [TAO:curator] xref: TAO:0001842 xref: ZFIN:ZDB-ANAT-100805-62 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005498 name: epihyal-branchiostegal ray joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the epihyal and branchiostegal ray bones. Epihyal-branchiostegal ray joint is paired." [TAO:curator] xref: TAO:0001849 xref: ZFIN:ZDB-ANAT-100805-63 is_a: UBERON:0000982 ! skeletal joint [Term] id: ZFA:0005499 name: circulus (zebrafish) namespace: zebrafish_anatomy def: "Fine ridges on surface of scale, often parallel to the circumference of scale." [TAO:curator, http:www.briancoad.com/Dictionary/Complete_Dictionary_Nov_2011.htm] synonym: "circuli" EXACT PLURAL [] xref: TAO:0002051 xref: ZFIN:ZDB-ANAT-100805-64 is_a: UBERON:0006800 ! anatomical line relationship: part_of UBERON:0007380 ! dermal scale [Term] id: ZFA:0005500 name: prootic bulla (zebrafish) namespace: zebrafish_anatomy def: "Is a bony partially gas filled sphere located ventral and anterior to the inner ear. The prootic bulla is paired." [ZFIN:Curator] xref: TAO:0002111 xref: ZFIN:ZDB-ANAT-100805-65 is_a: UBERON:0000481 ! multi-tissue structure [Term] id: ZFA:0005501 name: interopercular-mandibular ligament (zebrafish) namespace: zebrafish_anatomy def: "Interopercular-mandibular ligament is a ligament that connects the interopercle to the retroarticular element of the lower jaw." [TAO:curator, ZFIN:ZDB-PUB-961014-192] comment: The interopercle ossifies in the interoperculomandibular ligament, which attaches to the retroarticular. The interopercle approximates and is ligamentously attached to the retroarticular anteroventrally. ZDB-PUB-961014-192. Need develops_in relationship for interopercle. synonym: "interoperculomandibular ligament" EXACT [ZFIN:ZDB-PUB-961014-192] xref: TAO:0001687 xref: ZFIN:ZDB-ANAT-100805-66 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005502 name: lateral ethmoid-autopalatine ligament (zebrafish) namespace: zebrafish_anatomy def: "Lateral ethmoid-autopalatine ligament is a ligament that connects the lateral ethmoid to the autopalatine." [TAO:curator] xref: TAO:0001944 xref: ZFIN:ZDB-ANAT-100805-67 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005503 name: lateral ethmoid-ectopterygoid ligament (zebrafish) namespace: zebrafish_anatomy def: "Lateral ethmoid-ectopterygoid ligament is a ligament that connects the lateral ethmoid to the ectopterygoid." [TAO:curator] xref: TAO:0001685 xref: ZFIN:ZDB-ANAT-100805-68 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005504 name: vertebra 4-vertebra 5 joint (zebrafish) namespace: zebrafish_anatomy def: "Joint between the centra, and sometimes the neural arches or parapophyses of vertebra 4 and vertebra 5." [TAO:curator] xref: TAO:0001940 xref: ZFIN:ZDB-ANAT-100805-69 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005505 name: vertebra 5-vertebra 6 joint (zebrafish) namespace: zebrafish_anatomy def: "Joint between the centra, and sometimes the neural arches or parapophyses." [TAO:curator] xref: TAO:0002054 xref: ZFIN:ZDB-ANAT-100805-70 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005506 name: vertebra 6 - vertebra 7 joint (zebrafish) namespace: zebrafish_anatomy def: "Joint between the centra, and sometimes the neural arches or parapophyses of vertebra 6 and vertebra 7." [TAO:curator] xref: TAO:0002055 xref: ZFIN:ZDB-ANAT-100805-71 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005508 name: inner mental barbel (zebrafish) namespace: zebrafish_anatomy def: "Mental barbel that originates on the chin, in an anteromedial position relative to the outer mental barbel. The inner mental barbel is nearer to the mandibular symphysis than is the outer mental barbel." [TAO:curator] xref: TAO:0001969 xref: ZFIN:ZDB-ANAT-100805-73 is_a: ZFA:0000622 ! barbel (zebrafish) [Term] id: ZFA:0005510 name: prootic depression (zebrafish) namespace: zebrafish_anatomy def: "Shallow area that exists on the prootic." [TAO:curator] xref: TAO:0002052 xref: ZFIN:ZDB-ANAT-100805-75 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005511 name: sensory canal tubular ossicle (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is ring-shaped or cylindrical and surrounds a sensory canal." [TAO:curator] xref: TAO:0001932 xref: ZFIN:ZDB-ANAT-100805-76 is_a: UBERON:0008907 ! dermal bone [Term] id: ZFA:0005512 name: caudal fin principal ray 1 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is the dorsalmost caudal principal ray of the caudal fin." [TAO:curator] synonym: "caudal principal lepidotrichium 1 " EXACT [] synonym: "caudal principal ray 1 " EXACT [] xref: TAO:0001713 xref: ZFIN:ZDB-ANAT-100805-77 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005513 name: caudal fin principal ray 3 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 2." [TAO:curator] synonym: "caudal principal lepidotrichium 3 " EXACT [] synonym: "caudal principal ray 3" EXACT [] xref: TAO:0001715 xref: ZFIN:ZDB-ANAT-100805-78 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005514 name: caudal fin principal ray 2 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 1." [TAO:curator] synonym: "caudal principal lepidotrichium 2 " EXACT [] synonym: "caudal principal ray 2" EXACT [] xref: TAO:0001714 xref: ZFIN:ZDB-ANAT-100805-79 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005515 name: caudal fin principal ray 4 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 3." [TAO:curator] synonym: "caudal principal lepidotrichium 4 " EXACT [] synonym: "caudal principal ray 4" EXACT [] xref: TAO:0001716 xref: ZFIN:ZDB-ANAT-100805-80 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005516 name: caudal fin principal ray 5 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 4." [TAO:curator] synonym: "caudal principal lepidotrichium 5" EXACT [] synonym: "caudal principal ray 5" EXACT [] xref: TAO:0001717 xref: ZFIN:ZDB-ANAT-100805-81 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005517 name: caudal fin principal ray 6 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 5." [TAO:curator] synonym: "caudal principal lepidotrichium 6" EXACT [] synonym: "caudal principal ray 6" EXACT [] xref: TAO:0001718 xref: ZFIN:ZDB-ANAT-100805-82 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005518 name: caudal fin principal ray 7 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 6." [TAO:curator] synonym: "caudal principal lepidotrichium 7" EXACT [] synonym: "caudal principal ray 7" EXACT [] xref: TAO:0001719 xref: ZFIN:ZDB-ANAT-100805-83 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005519 name: caudal fin principal ray 8 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 7." [TAO:curator] synonym: "caudal principal lepidotrichium 8" EXACT [] synonym: "caudal principal ray 8" EXACT [] xref: TAO:0001720 xref: ZFIN:ZDB-ANAT-100805-84 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005520 name: caudal fin principal ray 9 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 8." [TAO:curator] synonym: "caudal principal lepidotrichium 9" EXACT [] synonym: "caudal principal ray 9" EXACT [] xref: TAO:0001721 xref: ZFIN:ZDB-ANAT-100805-85 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005521 name: caudal fin principal ray 10 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 9." [TAO:curator] synonym: "caudal principal lepidotrichium 10" EXACT [] synonym: "caudal principal ray 10" EXACT [] xref: TAO:0001722 xref: ZFIN:ZDB-ANAT-100805-86 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005522 name: caudal fin principal ray 11 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 10." [TAO:curator] synonym: "caudal principal lepidotrichium 11" EXACT [] synonym: "caudal principal ray 11" EXACT [] xref: TAO:0001723 xref: ZFIN:ZDB-ANAT-100805-87 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005523 name: caudal fin principal ray 12 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 11." [TAO:curator] synonym: "caudal principal lepidotrichium 12" EXACT [] synonym: "caudal principal ray 12" EXACT [] xref: TAO:0001724 xref: ZFIN:ZDB-ANAT-100805-88 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005524 name: caudal fin principal ray 14 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 13." [TAO:curator] synonym: "caudal principal lepidotrichium 14" EXACT [] synonym: "caudal principal ray 14" EXACT [] xref: TAO:0001726 xref: ZFIN:ZDB-ANAT-100805-89 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005525 name: caudal fin principal ray 15 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 14." [TAO:curator] synonym: "caudal principal lepidotrichium 15" EXACT [] synonym: "caudal principal ray 15" EXACT [] xref: TAO:0001727 xref: ZFIN:ZDB-ANAT-100805-90 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005526 name: caudal fin principal ray 16 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 15." [TAO:curator] synonym: "caudal principal lepidotrichium 16" EXACT [] synonym: "caudal principal ray 16" EXACT [] xref: TAO:0001728 xref: ZFIN:ZDB-ANAT-100805-91 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005527 name: caudal fin principal ray 17 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 16." [TAO:curator] synonym: "caudal principal lepidotrichium 17" EXACT [] synonym: "caudal principal ray 17" EXACT [] xref: TAO:0001729 xref: ZFIN:ZDB-ANAT-100805-92 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005528 name: caudal fin principal ray 18 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 17." [TAO:curator] synonym: "caudal principal lepidotrichium 18" EXACT [] synonym: "caudal principal ray 18" EXACT [] xref: TAO:0001730 xref: ZFIN:ZDB-ANAT-100805-93 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005529 name: caudal fin principal ray 19 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 18." [TAO:curator] synonym: "caudal principal lepidotrichium 19" EXACT [] synonym: "caudal principal ray 19" EXACT [] xref: TAO:0001731 xref: ZFIN:ZDB-ANAT-100805-94 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005530 name: lateral line scale (zebrafish) namespace: zebrafish_anatomy def: "Scale that is associated with the lateral line sensory canal." [TAO:curator] xref: TAO:0001824 xref: ZFIN:ZDB-ANAT-100805-95 is_a: UBERON:0007380 ! dermal scale [Term] id: ZFA:0005531 name: bony shelf above orbit (zebrafish) namespace: zebrafish_anatomy def: "The bony shelf above orbit is an anatomical cluster formed by the dorsolateral portions of the lateral ethmoid, frontal and sphenotic bones that forms the dorsal margin of the orbit." [TAO:curator] xref: TAO:0001686 xref: ZFIN:ZDB-ANAT-100805-96 is_a: UBERON:0000477 ! anatomical cluster [Term] id: ZFA:0005532 name: bony plate (zebrafish) namespace: zebrafish_anatomy def: "Dermal bone that is located on or subjacent to the surface anywhere on the body and that is not part of the general complement of scales, dermal bone of the dermatocranium, postcranial axial skeleton or paired fin skeleton. Bony plate may exist singly, or as unpaired or paired clusters or series." [TAO:curator] xref: TAO:0002053 xref: ZFIN:ZDB-ANAT-100805-97 is_a: UBERON:0008907 ! dermal bone [Term] id: ZFA:0005533 name: branched caudal fin ray (zebrafish) namespace: zebrafish_anatomy def: "Caudal fin lepidotrichium that is distally branched." [TAO:curator] xref: TAO:0002062 xref: ZFIN:ZDB-ANAT-100805-98 is_a: ZFA:0001550 ! caudal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005534 name: branched dorsal fin ray (zebrafish) namespace: zebrafish_anatomy def: "Dorsal fin ray that is distally branched." [ZFIN:curator] xref: TAO:0001785 xref: ZFIN:ZDB-ANAT-100805-99 is_a: ZFA:0001418 ! dorsal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005535 name: branched anal fin ray (zebrafish) namespace: zebrafish_anatomy def: "Anal fin lepidotrichium that is distally branched." [TAO:curator] synonym: "anal fin branched ray" EXACT [] xref: TAO:0001992 xref: ZFIN:ZDB-ANAT-100805-100 is_a: ZFA:0001421 ! anal fin lepidotrichium (zebrafish) [Term] id: ZFA:0005537 name: lateral fontanel of frontal (zebrafish) namespace: zebrafish_anatomy def: "Fontanel within the frontal bone near the frontal-sphenotic joint. Lateral fontanel of frontal is paired." [TAO:curator] xref: TAO:0002011 xref: ZFIN:ZDB-ANAT-100805-102 is_a: UBERON:0002221 ! fontanelle [Term] id: ZFA:0005538 name: rib of vertebra 1 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the first centrum." [TAO:curator] xref: TAO:0001879 xref: ZFIN:ZDB-ANAT-100805-103 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005539 name: rib of vertebra 2 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the second centrum." [TAO:curator] xref: TAO:0001878 xref: ZFIN:ZDB-ANAT-100805-104 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005540 name: rib of vertebra 3 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the third centrum." [TAO:curator] xref: TAO:0001880 xref: ZFIN:ZDB-ANAT-100805-105 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005541 name: rib of vertebra 4 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the fourth centrum." [TAO:curator] xref: TAO:0001881 xref: ZFIN:ZDB-ANAT-100805-106 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005542 name: rib of vertebra 5 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the fifth centrum." [TAO:curator] xref: TAO:0001751 xref: ZFIN:ZDB-ANAT-100805-107 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005543 name: rib of vertebra 6 (zebrafish) namespace: zebrafish_anatomy def: "Rib that articulates with the parapophysis of the sixth centrum." [TAO:curator] xref: TAO:0001750 xref: ZFIN:ZDB-ANAT-100805-108 is_a: UBERON:0002228 ! rib [Term] id: ZFA:0005544 name: hyomandibular-otic region joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the hyomandibular cartilage or bone and otic region cartilage or sphenotic bone, and often pterotic bone and prootic bone. Hyomandibular-otic region joint is paired." [TAO:curator] synonym: "hyomandibula-sphenotic-prootic joint" EXACT [] xref: TAO:0001947 xref: ZFIN:ZDB-ANAT-100805-109 is_a: UBERON:0002217 ! synovial joint [Term] id: ZFA:0005545 name: pectoral fin actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium that is part of the pectoral fin." [TAO:curator] xref: TAO:0000544 xref: ZFIN:ZDB-ANAT-100805-110 is_a: ZFA:0005435 ! actinotrichium (zebrafish) relationship: part_of UBERON:0010710 ! pectoral fin skeleton [Term] id: ZFA:0005546 name: pelvic fin actinotrichium (zebrafish) namespace: zebrafish_anatomy def: "Actinotrichium that is part of the pelvic fin." [TAO:curator] xref: TAO:0000596 xref: ZFIN:ZDB-ANAT-100805-111 is_a: ZFA:0005435 ! actinotrichium (zebrafish) relationship: part_of UBERON:0010711 ! pelvic fin skeleton [Term] id: ZFA:0005547 name: pectoral fin lepidotrichium 1 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium 1 is the leading or marginal ray of the fin and articulates with the scapula. Lepidotrichium 1 is commonly segmented but unbranched." [TAO:curator] xref: TAO:0001761 xref: ZFIN:ZDB-ANAT-100805-112 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005548 name: pectoral fin lepidotrichium 2 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the second most anterior pectoral ray, usually branched and segmented." [TAO:curator] xref: TAO:0001762 xref: ZFIN:ZDB-ANAT-100805-113 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005549 name: pectoral fin lepidotrichium 3 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the third most anterior pectoral ray, usually branched and segmented." [TAO:curator] xref: TAO:0001763 xref: ZFIN:ZDB-ANAT-100805-114 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005550 name: pectoral fin lepidotrichium 6 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the sixth most anterior pectoral ray, usually branched and segmented." [TAO:curator] xref: TAO:0001766 xref: ZFIN:ZDB-ANAT-100805-115 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005551 name: pectoral fin lepidotrichium 7 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the seventh most anterior pectoral ray, usually branched and segmented." [TAO:curator] xref: TAO:0001767 xref: ZFIN:ZDB-ANAT-100805-116 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005552 name: pectoral fin lepidotrichium 5 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the fifth most anterior pectoral ray , usually branched and segmented." [TAO:curator] xref: TAO:0001765 xref: ZFIN:ZDB-ANAT-100805-117 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005553 name: pectoral fin lepidotrichium 4 (zebrafish) namespace: zebrafish_anatomy def: "Pectoral fin lepidotrichium that, in a linear sequence, is the fourth most anterior pectoral ray, usually branched and segmented." [TAO:curator] xref: TAO:0001764 xref: ZFIN:ZDB-ANAT-100805-118 is_a: ZFA:0001551 ! pectoral fin lepidotrichium (zebrafish) [Term] id: ZFA:0005554 name: pelvic fin lepidotrichium 1 (zebrafish) namespace: zebrafish_anatomy def: "First lepidotrichium of pelvic fin." [ZFIN:curator] xref: TAO:0001776 xref: ZFIN:ZDB-ANAT-100805-119 is_a: ZFA:0001552 ! pelvic fin lepidotrichium (zebrafish) [Term] id: ZFA:0005555 name: pelvic fin lepidotrichium 2 (zebrafish) namespace: zebrafish_anatomy def: "Second lepidotrichium of pelvic fin." [ZFIN:curator] xref: TAO:0001777 xref: ZFIN:ZDB-ANAT-100805-120 is_a: ZFA:0001552 ! pelvic fin lepidotrichium (zebrafish) [Term] id: ZFA:0005556 name: pelvic fin lepidotrichium 4 (zebrafish) namespace: zebrafish_anatomy def: "Fourth lepidotrichium of pelvic fin." [ZFIN:curator] xref: TAO:0001779 xref: ZFIN:ZDB-ANAT-100805-121 is_a: ZFA:0001552 ! pelvic fin lepidotrichium (zebrafish) [Term] id: ZFA:0005557 name: pelvic fin lepidotrichium 3 (zebrafish) namespace: zebrafish_anatomy def: "Third lepidotrichium of pelvic fin." [ZFIN:curator] xref: TAO:0001778 xref: ZFIN:ZDB-ANAT-100805-122 is_a: ZFA:0001552 ! pelvic fin lepidotrichium (zebrafish) [Term] id: ZFA:0005558 name: orbit (zebrafish) namespace: zebrafish_anatomy def: "Anatomical space that is the concavity containing the eye." [TAO:curator] xref: TAO:0001967 xref: ZFIN:ZDB-ANAT-100805-123 is_a: UBERON:0000464 ! anatomical space [Term] id: ZFA:0005559 name: vascular sprouts (zebrafish) namespace: zebrafish_anatomy def: "Portion of vessel wall that extends to form a new vessel." [ZFIN:curator] synonym: "angiogenic sprout" RELATED [] xref: ZFIN:ZDB-ANAT-101006-1 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0002049 ! vasculature relationship: start ZFS:0000028 ! Segmentation:26+ somites [Term] id: ZFA:0005560 name: parasphenoid-basioccipital joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the parasphenoid and basioccipital. Parasphenoid-basioccipital joint is paired." [TAO:curator] xref: TAO:0001832 xref: ZFIN:ZDB-ANAT-101006-2 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005571 name: ventral canal eye (zebrafish) namespace: zebrafish_anatomy def: "Duct present in the angle where the cornea meets the ciliary zone that absorbs the aqueous humor." [ZFIN:ZDB-PUB-050701-15] xref: ZFIN:ZDB-ANAT-110121-11 is_a: UBERON:0000058 ! duct relationship: part_of UBERON:0000019 ! camera-type eye relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0005579 name: NCC ionocyte (zebrafish) namespace: zebrafish_anatomy def: "Integument ionocyte rich in Na-Cl co-transporter (NCC) activity." [ZFIN:ZDB-PUB-090318-15] subset: cell_slim ! cell_slim synonym: "NCC cell" EXACT [] xref: ZFIN:ZDB-ANAT-110313-5 is_a: ZFA:0005325 ! integument ionocyte (zebrafish) relationship: part_of UBERON:0002199 ! integument [Term] id: ZFA:0005580 name: rostral pars anterior (zebrafish) namespace: zebrafish_anatomy def: "Rostral portion of pars anterior of the adenohypophysis where corticotropes and lactotropes localize." [ZFIN:ZDB-PUB-080616-4] synonym: "rostral pars distalis" EXACT [] xref: ZFIN:ZDB-ANAT-110523-2 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0006964 ! pars distalis of adenohypophysis relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005581 name: proximal pars anterior (zebrafish) namespace: zebrafish_anatomy def: "Caudal portion of pars anterior of the adenohypophysis where somatotropes, thyrotropes and gonadotropes are localized. The proximal pars anterior has functional homology to the mammalian pars tuberalis, secreting the same hormones." [ZFIN:ZDB-PUB-080616-4] synonym: " proximal pars distalis" EXACT [] xref: ZFIN:ZDB-ANAT-110523-3 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0006964 ! pars distalis of adenohypophysis relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0005582 name: dorsal proneural cluster (zebrafish) namespace: zebrafish_anatomy def: "Cluster of cells along the edge of the neural plate that have the potential to become neuroblast." [ZFIN:ZDB-PUB-990921-1] xref: ZFIN:ZDB-ANAT-110523-4 is_a: ZFA:0000068 ! proneural cluster (zebrafish) relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0005583 name: ventral proneural cluster (zebrafish) namespace: zebrafish_anatomy def: "Cluster of cells along the center of the neural plate that have the potential to become neuroblast." [ZFIN:ZDB-PUB-990921-1] xref: ZFIN:ZDB-ANAT-110523-5 is_a: ZFA:0000068 ! proneural cluster (zebrafish) relationship: end ZFS:0000024 ! Segmentation:5-9 somites relationship: start ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFA:0005585 name: developing mesonephric proximal tubule (zebrafish) namespace: zebrafish_anatomy xref: ZFIN:ZDB-ANAT-110523-7 is_a: UBERON:0006553 ! renal duct relationship: part_of UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0007653 ! capillary loop nephron relationship: part_of UBERON:0010534 ! primitive mesonephric nephron [Term] id: ZFA:0005591 name: developing mesonephric distal tubule (zebrafish) namespace: zebrafish_anatomy xref: ZFIN:ZDB-ANAT-110523-13 is_a: UBERON:0006553 ! renal duct relationship: part_of UBERON:0001231 ! nephron tubule relationship: part_of UBERON:0007653 ! capillary loop nephron relationship: part_of UBERON:0010534 ! primitive mesonephric nephron [Term] id: ZFA:0005595 name: caudal fin principal ray 13 (zebrafish) namespace: zebrafish_anatomy def: "Caudal principal ray that is ventrally adjacent to caudal principal ray 12." [TAO:curator] synonym: "caudal principal lepidotrichium 13" EXACT [] synonym: "caudal principal ray 13" EXACT [] xref: TAO:0001725 xref: ZFIN:ZDB-ANAT-111214-3 is_a: ZFA:0001585 ! caudal fin principal ray (zebrafish) [Term] id: ZFA:0005597 name: median fin (zebrafish) namespace: zebrafish_anatomy def: "Fin that is an unpaired fin located in the sagittal plane of the organism." [TAO:curator] xref: TAO:0002276 xref: ZFIN:ZDB-ANAT-111214-5 is_a: UBERON:0008897 ! fin relationship: develops_from ZFA:0000040 ! median fin fold (zebrafish) [Term] id: ZFA:0005600 name: sinoatrial region (zebrafish) namespace: zebrafish_anatomy def: "Region at venious pole of heart tube that initiates heart beat." [ZFIN:ZDB-PUB-101115-23] xref: ZFIN:ZDB-ANAT-111214-8 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000031 ! Pharyngula:Prim-25 relationship: part_of UBERON:0002350 ! conducting system of heart relationship: part_of UBERON:0004141 ! heart tube [Term] id: ZFA:0005601 name: sinoatrial ring (zebrafish) namespace: zebrafish_anatomy def: "Ring of cardiac conduction tissue around the sinoatrial region of the heart tube that performs pacemaker function." [ZFIN:ZDB-PUB-101115-23] xref: ZFIN:ZDB-ANAT-111214-9 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0005600 ! sinoatrial region (zebrafish) relationship: end ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0002350 ! conducting system of heart relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005602 name: supraneural 10 (zebrafish) namespace: zebrafish_anatomy def: "Supraneural located posterior to supraneural 9. This supraneural does not appear in most specimens." [ZFIN:ZDB-PUB-031103-13] xref: ZFIN:ZDB-ANAT-111214-10 is_a: ZFA:0001397 ! post-Weberian supraneural (zebrafish) relationship: start ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005603 name: lymphangiogenic sprout (zebrafish) namespace: zebrafish_anatomy def: "Portion of vessel wall that extends to form a new lymph vessel." [ZFIN:ZDB-PUB-100719-62] xref: ZFIN:ZDB-ANAT-120217-1 is_a: ZFA:0005559 ! vascular sprouts (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005604 name: angiogenic sprout (zebrafish) namespace: zebrafish_anatomy def: "Portion of vessel wall that extends to form a new blood vessel." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-120217-2 is_a: ZFA:0005559 ! vascular sprouts (zebrafish) relationship: start ZFS:0000030 ! Pharyngula:Prim-15 [Term] id: ZFA:0005605 name: lymphangioblast cord (zebrafish) namespace: zebrafish_anatomy def: "The primordial vasculature that will develop into lymph vessels. The lymphangioblast cord is composed of lymphangioblast or lymph endothelial cells in a solid linear mass called a cord. The cord then undergoes morphogenesis to form the lumen of the vessel." [ZFIN:ZDB-PUB-100719-62] synonym: "parachordal lymphangioblast string" EXACT [ZFIN:ZDB-PUB-110613-5] xref: ZFIN:ZDB-ANAT-120217-3 is_a: ZFA:0005076 ! primordial vasculature (zebrafish) relationship: develops_from UBERON:0002065 ! posterior cardinal vein relationship: end ZFS:0000034 ! Hatching:Pec-fin relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005607 name: inter-parietal joint (zebrafish) namespace: zebrafish_anatomy def: "Fibrous joint connecting the parietal bones." [ZFIN:ZDB-PUB-060323-12] synonym: "sagittal suture" RELATED [] xref: TAO:0005245 xref: ZFIN:ZDB-ANAT-120217-5 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005608 name: frontal-parietal joint (zebrafish) namespace: zebrafish_anatomy def: "Fibrous joint connecting the frontal bone to the parietal bone." [ZFIN:ZDB-PUB-060323-12] synonym: "coronal suture" RELATED [] xref: TAO:0005255 xref: ZFIN:ZDB-ANAT-120217-6 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005609 name: supraoccipital-parietal joint (zebrafish) namespace: zebrafish_anatomy def: "Fibrous joint connecting the supraoccipital to the parietal bone." [ZFIN:ZDB-PUB-060323-12] synonym: "lamdoid suture" RELATED [] xref: TAO:0005264 xref: ZFIN:ZDB-ANAT-120217-7 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005611 name: ectopterygoid-quadrate joint (zebrafish) namespace: zebrafish_anatomy def: "Synostosis where the entopterygoid meets the quadrate." [ZFIN:ZDB-PUB-961014-192] synonym: "ectopterygoid-quadrate synostosis" EXACT [] xref: ZFIN:ZDB-ANAT-120217-9 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005612 name: ectopterygoid-entopterygoid joint (zebrafish) namespace: zebrafish_anatomy def: "Synostosis where the ectopterygoid meets the entopterygoid." [ZFIN:ZDB-PUB-961014-192] synonym: "ectopterygoid-entopterygoid synostosis" EXACT [] xref: ZFIN:ZDB-ANAT-120217-10 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005613 name: basioccipital-prootic joint (zebrafish) namespace: zebrafish_anatomy def: "Synchondrosis where the basioccipital meets the prootic anteriorly." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120217-11 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005614 name: entopterygoid-metapterygoid joint (zebrafish) namespace: zebrafish_anatomy def: "Synostosis where the entopterygoid meets the metapterygoid. The metapterygoid has an anterodorsally projecting spine that meets the entopterygoid medially in a synostosis at its posteromedial edge." [ZFIN:ZDB-PUB-961014-192] synonym: "entopterygoid-metapterygoid synostosis" EXACT [] xref: ZFIN:ZDB-ANAT-120217-12 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005615 name: metapterygoid-symplectic fenestra (zebrafish) namespace: zebrafish_anatomy def: "Opening formed between the ventral border of the metapterygoid and the dorsal border of the symplectic." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120217-13 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005616 name: quadrate-entopterygoid joint (zebrafish) namespace: zebrafish_anatomy def: "Synchondrosis where the quadrate meets the entopterygoid dorsally." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120217-14 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005617 name: lateral ethmoid-supraethmoid (zebrafish) namespace: zebrafish_anatomy def: "Synostosis where anteromedial extensions of the lateral ethmoid project to meet the supraethmoid dorsally." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120217-15 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005618 name: anguloarticular-retroarticular joint (zebrafish) namespace: zebrafish_anatomy def: "Cartilaginous joint that articulates the anguloarticular posteroventrally with the retroarticular." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120217-16 is_a: UBERON:0002213 ! cartilaginous joint [Term] id: ZFA:0005625 name: hypophyseal fenestra (zebrafish) namespace: zebrafish_anatomy def: "Space enclosed by the trabeculae cranii. The anterior tip of the notochord extends into the posterior region of the hypophyseal fenestra." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005269 xref: ZFIN:ZDB-ANAT-120406-2 is_a: UBERON:0005744 ! cranial conduit relationship: start ZFS:0000032 ! Pharyngula:High-pec [Term] id: ZFA:0005626 name: hyomandibula-opercle joint (zebrafish) namespace: zebrafish_anatomy def: "Synovial joint that articulates the hyomandibula and the opercle." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005265 xref: ZFIN:ZDB-ANAT-120406-3 is_a: UBERON:0002217 ! synovial joint [Term] id: ZFA:0005627 name: hyomandibula-pterotic joint (zebrafish) namespace: zebrafish_anatomy def: "Synovial joint that articulates the hyomandibula with the pterotic." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120406-4 is_a: UBERON:0002217 ! synovial joint [Term] id: ZFA:0005628 name: posttemporal fossa (zebrafish) namespace: zebrafish_anatomy def: "Fossa where the exoccipital forms the medial portion and the epioccipital forms the lateral margin." [ZFIN:ZDB-PUB-961014-192] synonym: "temporal fossa" EXACT [] xref: TAO:0001753 xref: ZFIN:ZDB-ANAT-120406-5 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005629 name: hyomandibular foramen (zebrafish) namespace: zebrafish_anatomy def: "Foramen in the hyomandibula that allows passage of the anterior lateral line nerve and the facial nerve (cranial nerve VII). The foramen develop in the hyosymplectic. The hyomandibular foramen are paired." [ZFIN:ZDB-PUB-961014-192] synonym: "facial foramen" EXACT [] synonym: "facial nerve foramen" EXACT [ZFIN:ZDB-PUB-961014-192] synonym: "hyosymplectic foramen" EXACT [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005275 xref: ZFIN:ZDB-ANAT-120406-6 is_a: UBERON:0005744 ! cranial conduit [Term] id: ZFA:0005630 name: pterotic fossa (zebrafish) namespace: zebrafish_anatomy def: "Fossa on the pterotic where the hyomandibula articulates." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005266 xref: ZFIN:ZDB-ANAT-120406-7 is_a: UBERON:0004704 ! bone fossa [Term] id: ZFA:0005631 name: preopercle horizontal limb-symplectic joint (zebrafish) namespace: zebrafish_anatomy def: "Fibrous joint that articulates the posterior edge of the preopercle horizontal limb with the symplectic." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005268 xref: ZFIN:ZDB-ANAT-120406-8 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005632 name: preopercle vertical limb-hyomandibula joint (zebrafish) namespace: zebrafish_anatomy def: "Fibrous joint that articulates the anterior edge of the preopercle vertical limb and the hyomandibula." [ZFIN:ZDB-PUB-961014-192] xref: TAO:0005278 xref: ZFIN:ZDB-ANAT-120406-9 is_a: UBERON:0002209 ! fibrous joint [Term] id: ZFA:0005633 name: lepidotrichium segment (zebrafish) namespace: zebrafish_anatomy def: "Skeletal element which is part of lepidotrichium articulating with other lepidotrichium segments by lepidotrichium joints." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-120608-1 is_a: UBERON:0004765 ! skeletal element relationship: RO:0002131 ZFA:0005634 ! lepidotrichium joint (zebrafish) relationship: part_of ZFA:0001554 ! lepidotrichium (zebrafish) [Term] id: ZFA:0005634 name: lepidotrichium joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates segments of the fin ray." [ZFIN:ZDB-PUB-000803-4] synonym: "intra-ray joint" EXACT [] xref: ZFIN:ZDB-ANAT-120608-2 is_a: UBERON:0000982 ! skeletal joint relationship: part_of ZFA:0001554 ! lepidotrichium (zebrafish) [Term] id: ZFA:0005635 name: predentine (zebrafish) namespace: zebrafish_anatomy def: "Odontoid tissue formed of a loose matrix of collagen. The fibrils of the predentine are homogeneously distributed and preferentially oriented along the long axis of the tooth. They are of variable thickness, measuring from 50 to 100 nm in diameter." [ZFIN:ZDB-PUB-001208-4] synonym: "pre-dentine" EXACT [] synonym: "predentin" EXACT [] xref: ZFIN:ZDB-ANAT-120608-3 is_a: UBERON:0010365 ! odontoid tissue [Term] id: ZFA:0005636 name: interossicular ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the intercalarium to the anterior process of the tripus and the scaphium." [ZFIN:ZDB-PUB-031103-13, ZFIN:ZDB-PUB-120214-1] xref: ZFIN:ZDB-ANAT-120608-4 is_a: UBERON:0000211 ! ligament relationship: part_of ZFA:0001188 ! Weberian apparatus (zebrafish) [Term] id: ZFA:0005637 name: intercostal ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects one rib to another." [TAO:curator] xref: TAO:0001972 xref: ZFIN:ZDB-ANAT-120608-5 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005638 name: scapulo-vertebral ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligaments that runs from the parapophyses of the anteriormost centrum to the exoccipital. There are two scapulo-vertebral ligaments in zebrafish." [ZFIN:ZDB-PUB-961014-192] synonym: "Baudelot's ligaments" EXACT [] synonym: "scapulo-vertebral ligaments" EXACT PLURAL [] xref: ZFIN:ZDB-ANAT-120608-6 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005639 name: supracleithrum-vertebral ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that runs from the ventral third of the supracleithrum to the exoccipital." [ZFIN:ZDB-PUB-961014-192] synonym: "Baudelot's ligament" EXACT [] xref: ZFIN:ZDB-ANAT-120608-7 is_a: ZFA:0005638 ! scapulo-vertebral ligament (zebrafish) [Term] id: ZFA:0005640 name: cleithrum-vertebral ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that run from the dorsal tip of the cleithrum to the exoccipital." [ZFIN:ZDB-PUB-961014-192] synonym: "Baudelot's ligament" EXACT [] xref: ZFIN:ZDB-ANAT-120608-8 is_a: ZFA:0005638 ! scapulo-vertebral ligament (zebrafish) [Term] id: ZFA:0005641 name: maxillo-mandibular ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the dentary to the maxilla." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-9 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005642 name: maxillo-rostroid ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the rostral process of the maxilla to the kinethmoid." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-10 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005643 name: premaxillo-rostroid ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that, in the adult, attaches the premaxilla to its counterpart at the midline and the kinethmoid posterodorsally." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-11 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005644 name: ceratobranchial 5 ligament (zebrafish) namespace: zebrafish_anatomy def: "The ligament that connects the anteroventral tips of ceratobranchials 5 medially." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-12 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005645 name: supracleithrum-intercalar ligament (zebrafish) namespace: zebrafish_anatomy def: "Short ligament that runs from the hooked anterior end of the supracleithrum to the intercalar." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-13 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005646 name: preopercle-retroarticular ligament (zebrafish) namespace: zebrafish_anatomy def: "Ligament that connects the preopercle to the retroarticular anteroventrally." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-120608-14 is_a: UBERON:0000211 ! ligament [Term] id: ZFA:0005648 name: mesethmoid-lateral ethmoid joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the mesethmoid and lateral ethmoid. Mesethmoid-lateral ethmoid joint is paired." [TAO:curator, ZFIN:ZDB-PUB-961014-192] xref: TAO:0001679 xref: ZFIN:ZDB-ANAT-120608-16 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005649 name: mesethmoid-vomer joint (zebrafish) namespace: zebrafish_anatomy def: "Joint that articulates the mesethmoid and vomer. Mesethmoid-vomer joint is unpaired." [TAO:curator] xref: TAO:0001680 xref: ZFIN:ZDB-ANAT-120608-17 is_a: UBERON:0010361 ! synostosis [Term] id: ZFA:0005650 name: primitive pectoral fin adductor (zebrafish) namespace: zebrafish_anatomy def: "Adductor that originates at the cleithrum the muscle fibers run in sheets along the endoskeletal disk extending dorsally and caudally from its base. Distally, the muscles insert onto the fin membrane." [ZFIN:ZDB-PUB-050920-7] xref: ZFIN:ZDB-ANAT-120608-18 is_a: UBERON:0011145 ! adductor muscle relationship: end ZFS:0000039 ! Larval:Days 7-13 relationship: part_of UBERON:0007269 ! pectoral appendage musculature relationship: start ZFS:0000031 ! Pharyngula:Prim-25 [Term] id: ZFA:0005651 name: primitive pectoral fin abductor (zebrafish) namespace: zebrafish_anatomy def: "Abductor that originates at the cleithrum the muscle fibers run in sheets along the endoskeletal disk extending dorsally and caudally from its base. Distally, the muscles insert onto the fin membrane." [ZFIN:ZDB-PUB-050920-7] xref: ZFIN:ZDB-ANAT-120608-19 is_a: UBERON:0006845 ! abductor muscle relationship: end ZFS:0000040 ! Larval:Days 14-20 [Term] id: ZFA:0005653 name: vagal sensory zone (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue in the vagal lobe that contains GABAergic sensory interneurons." [ZFIN:ZDB-PUB-120409-2] xref: ZFIN:ZDB-ANAT-120820-3 is_a: UBERON:0000479 ! tissue is_a: ZFA:0000297 ! vagal lobe (zebrafish) relationship: part_of UBERON:0001033 ! gustatory system [Term] id: ZFA:0005654 name: blood plasma (zebrafish) namespace: zebrafish_anatomy def: "Portion of organism substance that is the liquid matrix of blood." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-121003-1 is_a: UBERON:0000463 ! portion of organism substance relationship: part_of UBERON:0000178 ! blood [Term] id: ZFA:0005655 name: anterior ventromedial process of autopalatine (zebrafish) namespace: zebrafish_anatomy def: "Endochondral process of the autopalatine that forms the socket of the autopalatine-preethmoid joint." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-121003-2 is_a: UBERON:0004530 ! bony projection relationship: part_of ZFA:0000620 ! autopalatine (zebrafish) relationship: start ZFS:0000042 ! Juvenile:Days 30-44 [Term] id: ZFA:0005656 name: autopalatine-preethmoid joint (zebrafish) namespace: zebrafish_anatomy def: "Synovial, ball and socket joint that articulates the autopalatine and the preethmoid." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-121003-3 is_a: UBERON:0002217 ! synovial joint [Term] id: ZFA:0005657 name: anterior lateral process of autopalatine (zebrafish) namespace: zebrafish_anatomy def: "Endochondral bone part of autopalatine that extends towards the first infraorbital." [ZFIN:ZDB-PUB-961014-192] xref: ZFIN:ZDB-ANAT-121003-4 is_a: UBERON:0004530 ! bony projection relationship: part_of ZFA:0000620 ! autopalatine (zebrafish) [Term] id: ZFA:0006000 name: intermediate hypothalamus (zebrafish) namespace: zebrafish_anatomy def: "Brain structure that lies perpendicular to the longitudinal axis of the embryonic neural tube, is continuous with the rostral hypothalamic proliferation and whose most lateral extent is deflected dorsally within the inferior lobe." [ZFIN:ZDB-PUB-001018-1, ZFIN:ZDB-PUB-020730-6, ZFIN:ZDB-PUB-081114-19] synonym: "Hi" EXACT [] xref: TAO:0006000 xref: ZFIN:ZDB-ANAT-090922-289 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001898 ! hypothalamus relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0007001 name: dorso-rostral cluster (zebrafish) namespace: zebrafish_anatomy def: "Early-forming telencephalic neural cluster. Neurons of the dorso-rostral cluster (drc) extend axons to form the supra-optic tract (SOT) and the anterior commissure (AC)." [ZFIN:ZDB-PUB-961014-955] synonym: "dorsal rostral cluster" EXACT [] synonym: "dorsorostral cluster" EXACT [] synonym: "drc" EXACT [] xref: TAO:0007001 xref: ZFIN:ZDB-ANAT-060331-69 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001893 ! telencephalon relationship: start ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFA:0007002 name: ventro-rostral cluster (zebrafish) namespace: zebrafish_anatomy def: "Early-forming neural cluster located in the rostral diencephalon. At 19 h, axons arising from the vrc grow caudally to pioneer the tract of the postoptic commissure (TPOC)." [ZFIN:ZDB-PUB-961014-955] synonym: "ventral rostral cluster" EXACT [] synonym: "ventrorostral cluster" EXACT [] synonym: "vrc" EXACT [] xref: TAO:0007002 xref: ZFIN:ZDB-ANAT-060331-70 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of UBERON:0001894 ! diencephalon relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007003 name: ventro-caudal cluster (zebrafish) namespace: zebrafish_anatomy def: "Early-forming neural cluster of the ventral midbrain. At 16 h, axons of the vcc grow caudally to pioneer the medial longitudinal fasciculus (MLF), which is part of the larger ventral longitudinal tract (VLT). Later, neurons from this cluster project axons rostrally into the tract of the post-optic commissure (TPOC)." [ZFIN:ZDB-PUB-961014-955] synonym: "vcc" EXACT [] synonym: "ventral caudal cluster" EXACT [] synonym: "ventrocaudal cluster" EXACT [] xref: TAO:0007003 xref: ZFIN:ZDB-ANAT-060331-71 is_a: UBERON:0002308 ! nucleus of brain relationship: part_of UBERON:0001891 ! midbrain relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007004 name: epiphysial cluster (zebrafish) namespace: zebrafish_anatomy def: "Early-developing neuronal cluster of the epiphysis. By 24 hpf the pioneer axon of the dorsoventral diencephalic tract (DVDT) has arisen from the ec and grown ventrally. As this axon encounters axons of the TPOC, it makes a near-90 rostral turn and grows rostrally among axons of the TPOC growing in the opposite direction." [ZFIN:ZDB-PUB-961014-955] synonym: "ec" EXACT [] xref: TAO:0007004 xref: ZFIN:ZDB-ANAT-060331-72 is_a: UBERON:0000479 ! tissue relationship: part_of UBERON:0001905 ! pineal body relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007005 name: hemal prezygapophysis (zebrafish) namespace: zebrafish_anatomy alt_id: ZFA:0001380 def: "Hemal prezygapophyses are paired, anteromedially directed processes arising from the bases of hemal arches, ligamentously joined to the hemal postzygapophyses of the preceding vertebra. Posterior caudal vertebrae close to the caudal fin lack hemal prezygapophyses." [ZFIN:curator] synonym: "haemal prezygapophysis" EXACT [] synonym: "hemal prezygopophysis" EXACT [] xref: TAO:0007005 xref: ZFIN:ZDB-ANAT-070928-187 is_a: UBERON:0002513 ! endochondral bone relationship: part_of UBERON:0006065 ! hemal arch [Term] id: ZFA:0007008 name: ventral intermandibularis anterior (zebrafish) namespace: zebrafish_anatomy def: "Is a mandibular muscle that attaches to Meckel's cartilage and functions during jaw closing." [ZFIN:ZDB-PUB-020703-2, ZFIN:ZDB-PUB-061010-9] synonym: "ventral intermandibulari anterior" EXACT PLURAL [] xref: TAO:0007008 xref: ZFIN:ZDB-ANAT-080417-127 is_a: UBERON:0001630 ! muscle organ relationship: develops_from UBERON:0010931 ! intermandibularis relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0007010 name: eminentia thalami (zebrafish) namespace: zebrafish_anatomy def: "Part of the forebrain that is ventral to the ventral thalamus and dorsal to the preoptic area. See page 44 of the Atlas of Early Zebrafish Brain Development." [ZFIN:Curator, ZFIN:ZDB-PUB-070711-1] xref: TAO:0007010 xref: ZFIN:ZDB-ANAT-070928-191 is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0001890 ! forebrain [Term] id: ZFA:0007012 name: lateral forebrain bundle (zebrafish) namespace: zebrafish_anatomy synonym: "lateral forebrain bundles" EXACT PLURAL [] xref: TAO:0007012 xref: ZFIN:ZDB-ANAT-070928-193 is_a: UBERON:0002316 ! white matter relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0007013 name: preplacodal ectoderm (zebrafish) namespace: zebrafish_anatomy def: "Non neural ectoderm that surrounds the presumptive neural plate and gives rise to neurogenic placodes." [ZFIN:curator] synonym: "panplacodal ectoderm" EXACT [ZFIN:ZDB-PUB-070122-31] xref: TAO:0007013 xref: ZFIN:ZDB-ANAT-070928-194 is_a: UBERON:0005497 ! non-neural ectoderm relationship: end ZFS:0000022 ! Gastrula:Bud relationship: start ZFS:0000020 ! Gastrula:75%-epiboly [Term] id: ZFA:0007014 name: anterior presumptive neural plate (zebrafish) namespace: zebrafish_anatomy def: "Rostral portion of embryonic tissue that gives rise to the anterior neural plate." [ZFIN:curator] xref: TAO:0007014 xref: ZFIN:ZDB-ANAT-070928-195 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000020 ! Gastrula:75%-epiboly relationship: part_of UBERON:0007284 ! presumptive neural plate relationship: start ZFS:0000019 ! Gastrula:Shield [Term] id: ZFA:0007015 name: posterior presumptive neural plate (zebrafish) namespace: zebrafish_anatomy def: "Caudal portion of embryonic tissue that gives rise to the posterior neural plate." [ZFIN:curator] xref: TAO:0007015 xref: ZFIN:ZDB-ANAT-070928-196 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000020 ! Gastrula:75%-epiboly relationship: part_of UBERON:0007284 ! presumptive neural plate relationship: start ZFS:0000019 ! Gastrula:Shield [Term] id: ZFA:0007023 name: posterior neural keel (zebrafish) namespace: zebrafish_anatomy xref: TAO:0007023 xref: ZFIN:ZDB-ANAT-070928-204 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003057 ! chordal neural plate relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of UBERON:0007135 ! neural keel relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007024 name: anterior neural keel (zebrafish) namespace: zebrafish_anatomy def: "Rostral portion of the neural keel. Develops into the anterior neural rod." [ZFIN:curator] xref: TAO:0007024 xref: ZFIN:ZDB-ANAT-070928-205 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: end ZFS:0000023 ! Segmentation:1-4 somites relationship: part_of UBERON:0007135 ! neural keel relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007025 name: midbrain neural keel (zebrafish) namespace: zebrafish_anatomy def: "Portion of neural keel that gives rise to the midbrain neural rod." [ZFIN:curator] xref: TAO:0007025 xref: ZFIN:ZDB-ANAT-070928-206 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0009611 ! midbrain neural plate relationship: end ZFS:0000023 ! Segmentation:1-4 somites relationship: part_of ZFA:0007024 ! anterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007026 name: forebrain neural keel (zebrafish) namespace: zebrafish_anatomy def: "Anterior portion of anterior neural keel that gives rise to the forebrain neural rod." [ZFIN:curator] xref: TAO:0007026 xref: ZFIN:ZDB-ANAT-070928-207 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0009610 ! forebrain neural plate relationship: end ZFS:0000023 ! Segmentation:1-4 somites relationship: part_of ZFA:0007024 ! anterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007027 name: forebrain midbrain boundary neural keel (zebrafish) namespace: zebrafish_anatomy def: "Portion of anterior neural keel that gives rise to the forebrain midbrain boundary neural rod." [ZFIN:curator] synonym: "diencephalic-mesencephalic boundary neural keel" EXACT [] xref: TAO:0007027 xref: ZFIN:ZDB-ANAT-070928-208 is_a: UBERON:0006800 ! anatomical line relationship: develops_from UBERON:0009612 ! forebrain midbrain boundary neural plate relationship: end ZFS:0000023 ! Segmentation:1-4 somites relationship: part_of ZFA:0007024 ! anterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007028 name: spinal cord neural keel (zebrafish) namespace: zebrafish_anatomy xref: TAO:0007028 xref: ZFIN:ZDB-ANAT-070928-209 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007023 ! posterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007029 name: hindbrain neural keel (zebrafish) namespace: zebrafish_anatomy def: "Portion of posterior neural keel that gives rise to the hindbrain neural rod." [ZFIN:curator] xref: TAO:0007029 xref: ZFIN:ZDB-ANAT-070928-210 is_a: UBERON:0000479 ! tissue relationship: develops_from UBERON:0009614 ! hindbrain neural plate relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007023 ! posterior neural keel (zebrafish) relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007030 name: posterior neural rod (zebrafish) namespace: zebrafish_anatomy xref: TAO:0007030 xref: ZFIN:ZDB-ANAT-070928-211 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007023 ! posterior neural keel (zebrafish) relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of UBERON:0005068 ! neural rod relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007031 name: anterior neural rod (zebrafish) namespace: zebrafish_anatomy def: "Rostral portion of the neural rod. Develops into the anterior neural tube." [ZFIN:curator] xref: TAO:0007031 xref: ZFIN:ZDB-ANAT-070928-212 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007024 ! anterior neural keel (zebrafish) relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of UBERON:0005068 ! neural rod relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007032 name: midbrain neural rod (zebrafish) namespace: zebrafish_anatomy def: "Portion of neural rod that gives rise to the midbrain neural tube." [ZFIN:curator] xref: TAO:0007032 xref: ZFIN:ZDB-ANAT-070928-213 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007025 ! midbrain neural keel (zebrafish) relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007031 ! anterior neural rod (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007033 name: forebrain midbrain boundary neural rod (zebrafish) namespace: zebrafish_anatomy def: "Portion of anterior neural rod that gives rise to the forebrain midbrain boundary neural tube." [ZFIN:curator] synonym: "diencephalic-mesencephalic boundary neural rod" EXACT [] xref: TAO:0007033 xref: ZFIN:ZDB-ANAT-070928-214 is_a: UBERON:0006800 ! anatomical line relationship: develops_from ZFA:0007027 ! forebrain midbrain boundary neural keel (zebrafish) relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007031 ! anterior neural rod (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007034 name: forebrain neural rod (zebrafish) namespace: zebrafish_anatomy def: "Anterior portion of anterior neural rod that gives rise to the forebrain neural tube." [ZFIN:curator] xref: TAO:0007034 xref: ZFIN:ZDB-ANAT-070928-215 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007026 ! forebrain neural keel (zebrafish) relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of ZFA:0007031 ! anterior neural rod (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007035 name: spinal cord neural rod (zebrafish) namespace: zebrafish_anatomy xref: TAO:0007035 xref: ZFIN:ZDB-ANAT-070928-216 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of ZFA:0007030 ! posterior neural rod (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007036 name: hindbrain neural rod (zebrafish) namespace: zebrafish_anatomy def: "Portion of posterior neural rod that gives rise to the hindbrain neural tube." [ZFIN:curator] xref: TAO:0007036 xref: ZFIN:ZDB-ANAT-070928-217 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007029 ! hindbrain neural keel (zebrafish) relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of ZFA:0007030 ! posterior neural rod (zebrafish) relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007040 name: forebrain midbrain boundary neural tube (zebrafish) namespace: zebrafish_anatomy def: "Portion of anterior neural tube that gives rise to the forebrain midbrain boundary." [ZFIN:curator] synonym: "diencephalic-mesencephalic boundary neural tube" EXACT [] xref: TAO:0007040 xref: ZFIN:ZDB-ANAT-070928-221 is_a: UBERON:0006800 ! anatomical line relationship: develops_from ZFA:0007033 ! forebrain midbrain boundary neural rod (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003080 ! anterior neural tube relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007041 name: forebrain neural tube (zebrafish) namespace: zebrafish_anatomy def: "Anterior portion of anterior neural rod that gives rise to the forebrain." [ZFIN:curator] xref: TAO:0007041 xref: ZFIN:ZDB-ANAT-070928-222 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007034 ! forebrain neural rod (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003080 ! anterior neural tube relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0007042 name: spinal cord neural tube (zebrafish) namespace: zebrafish_anatomy xref: TAO:0007042 xref: ZFIN:ZDB-ANAT-070928-223 is_a: UBERON:0000479 ! tissue relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003076 ! posterior neural tube relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007043 name: hindbrain neural tube (zebrafish) namespace: zebrafish_anatomy def: "Portion of posterior neural tube that gives rise to the hindbrain." [ZFIN:curator] xref: TAO:0007043 xref: ZFIN:ZDB-ANAT-070928-224 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007036 ! hindbrain neural rod (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0003076 ! posterior neural tube relationship: start ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0007045 name: midbrain hindbrain boundary neural keel (zebrafish) namespace: zebrafish_anatomy def: "Portion of neural keel that gives rise to the midbrain hindbrain boundary neural rod." [ZFIN:curator] synonym: "midbrain-hindbrain boundary neural keel" EXACT [] xref: TAO:0007045 xref: ZFIN:ZDB-ANAT-070928-226 is_a: UBERON:0006800 ! anatomical line relationship: develops_from UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: end ZFS:0000025 ! Segmentation:10-13 somites relationship: part_of UBERON:0007135 ! neural keel relationship: start ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007046 name: midbrain hindbrain boundary neural rod (zebrafish) namespace: zebrafish_anatomy def: "Portion of neural rod that gives rise to the midbrain hindbrain boundary neural tube." [ZFIN:curator] synonym: "midbrain-hindbrain boundary neural rod" EXACT [] xref: TAO:0007046 xref: ZFIN:ZDB-ANAT-070928-227 is_a: UBERON:0006800 ! anatomical line relationship: develops_from ZFA:0007045 ! midbrain hindbrain boundary neural keel (zebrafish) relationship: end ZFS:0000026 ! Segmentation:14-19 somites relationship: part_of UBERON:0005068 ! neural rod relationship: start ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFA:0007047 name: midbrain hindbrain boundary neural tube (zebrafish) namespace: zebrafish_anatomy def: "Portion of neural tube that gives rise to the midbrain hindbrain boundary." [ZFIN:curator] synonym: "midbrain-hindbrain boundary neural tube" EXACT [] xref: TAO:0007047 xref: ZFIN:ZDB-ANAT-070928-228 is_a: UBERON:0006800 ! anatomical line relationship: develops_from ZFA:0007046 ! midbrain hindbrain boundary neural rod (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0001049 ! neural tube relationship: start ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFA:0007048 name: ventral intermandibularis posterior (zebrafish) namespace: zebrafish_anatomy def: "Is a mandibular muscle that attaches Meckel's cartilage to the basihyal cartilage and functions in jaw opening." [ZFIN:ZDB-PUB-020703-2, ZFIN:ZDB-PUB-061010-9] synonym: "ventral intermandibulari posterior" EXACT PLURAL [] xref: TAO:0007048 xref: ZFIN:ZDB-ANAT-080417-128 is_a: UBERON:0001630 ! muscle organ relationship: develops_from UBERON:0010931 ! intermandibularis relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0007050 name: constrictor dorsalis (zebrafish) namespace: zebrafish_anatomy def: "Dorsal subdivision of the putative mandibular muscle plate. Splits into the dilator operculi and the levator arcus palatini." [ZFIN:ZDB-PUB-970819-13] synonym: "constrictors dorsalis" EXACT PLURAL [] xref: TAO:0007050 xref: ZFIN:ZDB-ANAT-080417-130 is_a: UBERON:0011648 ! jaw muscle relationship: end ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0007051 name: ventral interhyoideus (zebrafish) namespace: zebrafish_anatomy def: "Is a hyoid muscle that has attachment sites on the basihyal and the posterior end of the ceratohyals and functions in jaw opening." [ZFIN:ZDB-PUB-020703-2] synonym: "ventral interhyoidei" EXACT PLURAL [] xref: TAO:0007051 xref: ZFIN:ZDB-ANAT-080417-131 is_a: UBERON:0005493 ! hyoid muscle relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0007052 name: hyohyoideus (zebrafish) namespace: zebrafish_anatomy def: "Is a hyoid muscle that inserts at the most anterior basibranchial and also at the posterior ends of the ceratohyals and functions in jaw closure." [ZFIN:ZDB-PUB-020703-2] xref: TAO:0007052 xref: ZFIN:ZDB-ANAT-080417-132 is_a: UBERON:0005493 ! hyoid muscle relationship: start ZFS:0000033 ! Hatching:Long-pec [Term] id: ZFA:0007053 name: dorsal adductor hyomandibulae (zebrafish) namespace: zebrafish_anatomy def: "Is a hyoid muscle that attaches to the dorsomedial faces of the hyosymplectics." [ZFIN:ZDB-PUB-020703-2] synonym: "dorsal adductors hyomandibulae" EXACT PLURAL [] xref: TAO:0007053 xref: ZFIN:ZDB-ANAT-080417-133 is_a: UBERON:0005493 ! hyoid muscle relationship: start ZFS:0000034 ! Hatching:Pec-fin [Term] id: ZFA:0007054 name: pillar of the anterior semicircular canal (zebrafish) namespace: zebrafish_anatomy def: "Pillar of the semicircular canal around whose perimeter runs the anterior semicircular canal." [ZFIN:ZDB-PUB-961014-383] synonym: "anterior hub of the semicircular canal" EXACT [] synonym: "anterior pillar" EXACT [] synonym: "anterior pillar of the semicircular canal" EXACT [] synonym: "horizontal hub" RELATED [] xref: TAO:0007054 xref: ZFIN:ZDB-ANAT-080417-134 is_a: ZFA:0001717 ! pillar of the semicircular canal (zebrafish) relationship: develops_from ZFA:0000232 ! otic vesicle lateral protrusion (zebrafish) relationship: develops_from ZFA:0000469 ! otic vesicle anterior protrusion (zebrafish) relationship: part_of UBERON:0001841 ! anterior semicircular canal relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0007055 name: pillar of the lateral semicircular canal (zebrafish) namespace: zebrafish_anatomy def: "Pillar of the semicircular canal around whose perimeter runs the lateral semicircular canal." [ZFIN:ZDB-PUB-961014-383] synonym: "lateral hub of the semicircular canal" EXACT [] synonym: "ventral bar" EXACT [] synonym: "ventral pillar" EXACT [] synonym: "ventral piller of the semicircular canal" EXACT [] xref: TAO:0007055 xref: ZFIN:ZDB-ANAT-080417-135 is_a: ZFA:0001717 ! pillar of the semicircular canal (zebrafish) relationship: develops_from ZFA:0001716 ! otic vesicle ventral protrusion (zebrafish) relationship: part_of UBERON:0001843 ! lateral semicircular canal relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0007056 name: pillar of the posterior semicircular canal (zebrafish) namespace: zebrafish_anatomy def: "Pillar of the semicircular canal around whose perimeter runs the posterior semicircular canal." [ZFIN:ZDB-PUB-961014-383] synonym: "horizontal hub" RELATED [] synonym: "posterior hub of the semicircular canal" EXACT [] synonym: "posterior pillar" EXACT [] synonym: "posterior pillar of the semicircular" EXACT [] xref: ZFIN:ZDB-ANAT-080417-136 is_a: ZFA:0001717 ! pillar of the semicircular canal (zebrafish) relationship: develops_from ZFA:0000232 ! otic vesicle lateral protrusion (zebrafish) relationship: develops_from ZFA:0000412 ! otic vesicle posterior protrusion (zebrafish) relationship: part_of UBERON:0001842 ! posterior semicircular canal relationship: start ZFS:0000035 ! Larval:Protruding-mouth [Term] id: ZFA:0007059 name: neurogenic field (zebrafish) namespace: zebrafish_anatomy def: "Portion of tissue fated to develop into neurogenic placode." [ZFIN:curator] synonym: "neurogenic fields" EXACT PLURAL [] xref: TAO:0007059 xref: ZFIN:ZDB-ANAT-080417-139 is_a: UBERON:0000479 ! tissue relationship: develops_from ZFA:0007013 ! preplacodal ectoderm (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 relationship: start ZFS:0000021 ! Gastrula:90%-epiboly [Term] id: ZFA:0007060 name: dorsolateral field (zebrafish) namespace: zebrafish_anatomy def: "Neurogenic field fated to develop into a dorsolateral placode." [ZFIN:curator] synonym: "dorsolateral fields" EXACT PLURAL [] xref: TAO:0007060 xref: ZFIN:ZDB-ANAT-080417-140 is_a: ZFA:0007059 ! neurogenic field (zebrafish) relationship: end ZFS:0000022 ! Gastrula:Bud [Term] id: ZFA:0007061 name: epibranchial field (zebrafish) namespace: zebrafish_anatomy def: "Neurogenic field fated to develop into an epibranchial placode." [ZFIN:curator] synonym: "epibranchial fields" EXACT PLURAL [] xref: TAO:0007061 xref: ZFIN:ZDB-ANAT-080417-141 is_a: ZFA:0007059 ! neurogenic field (zebrafish) relationship: end ZFS:0000029 ! Pharyngula:Prim-5 [Term] id: ZFA:0007062 name: olfactory field (zebrafish) namespace: zebrafish_anatomy def: "Neurogenic field fated to develop into the olfactory placode." [ZFIN:curator] synonym: "olfactory fields" EXACT PLURAL [] xref: TAO:0007062 xref: ZFIN:ZDB-ANAT-080417-142 is_a: ZFA:0007059 ! neurogenic field (zebrafish) relationship: end ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFA:0007069 name: otic squamous epithelium (zebrafish) namespace: zebrafish_anatomy def: "Is an otic epithelium composed of cells with a squamous morphology." [ISBN:019514502X] xref: ZFIN:ZDB-ANAT-110523-17 is_a: UBERON:0003249 ! epithelium of otic placode [Term] id: ZFA:0007070 name: otic sensory epithelium (zebrafish) namespace: zebrafish_anatomy def: "Is an otic epithelium that is a neuroepithelium which is pseudostratified and senses sound." [ZFIN:curator] xref: ZFIN:ZDB-ANAT-110523-18 is_a: UBERON:0003249 ! epithelium of otic placode [Term] id: ZFA:0009122 name: obsolete_auditory hair cell namespace: zebrafish_anatomy is_obsolete: true replaced_by: ZFA:0009121 ! auditory receptor cell xref: ZFIN:ZDB-ANAT-011113-512 [Term] id: ZFA:0009161 name: metanephric mesenchyme stem cell namespace: zebrafish_anatomy is_obsolete: true comment: No metanephrose in zebrafish. Consider nephrogenic mesenchyme stem cell ZFA:0009187. subset: cell_slim ! cell_slim synonym: "metanephric mesenchyme stem cells" EXACT PLURAL [] xref: CL:0000324 xref: TAO:0009161 xref: ZFIN:ZDB-ANAT-070308-124 [Term] id: ZFA:0009172 name: non-visual cell (sensu Vertebrata) namespace: zebrafish_anatomy is_obsolete: true comment: Obsoleted because CL obsoleted. Consider pigment cell ZFA:0009090 subset: cell_slim ! cell_slim synonym: "non-visual cells (sensu Vertebrata)" EXACT PLURAL [] xref: CL:0000344 xref: TAO:0009172 xref: ZFIN:ZDB-ANAT-070308-134 [Term] id: ZFS:0000005 name: Cleavage:16-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-20 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by UBERON:0007236 ! 8 cell stage relationship: part_of UBERON:0000107 ! cleavage stage [Term] id: ZFS:0000006 name: Cleavage:32-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-25 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000005 ! Cleavage:16-cell relationship: part_of UBERON:0000107 ! cleavage stage [Term] id: ZFS:0000007 name: Cleavage:64-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-28 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000006 ! Cleavage:32-cell relationship: part_of UBERON:0000107 ! cleavage stage [Term] id: ZFS:0000008 name: Blastula:128-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-7 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000007 ! Cleavage:64-cell relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000009 name: Blastula:256-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-1 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000008 ! Blastula:128-cell relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000010 name: Blastula:512-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-14 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000009 ! Blastula:256-cell relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000011 name: Blastula:1k-cell namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-22 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000010 ! Blastula:512-cell relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000012 name: Blastula:High namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-27 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000011 ! Blastula:1k-cell relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000013 name: Blastula:Oblong namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-24 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000012 ! Blastula:High relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000014 name: Blastula:Sphere namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-21 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000013 ! Blastula:Oblong relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000015 name: Blastula:Dome namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-19 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000014 ! Blastula:Sphere relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000016 name: Blastula:30%-epiboly namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-17 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000015 ! Blastula:Dome relationship: part_of UBERON:0000108 ! blastula stage [Term] id: ZFS:0000017 name: Gastrula:50%-epiboly namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-6 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000016 ! Blastula:30%-epiboly relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000018 name: Gastrula:Germ-ring namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-3 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000017 ! Gastrula:50%-epiboly relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000019 name: Gastrula:Shield namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-2 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000018 ! Gastrula:Germ-ring relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000020 name: Gastrula:75%-epiboly namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-18 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000019 ! Gastrula:Shield relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000021 name: Gastrula:90%-epiboly namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-29 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000020 ! Gastrula:75%-epiboly relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000022 name: Gastrula:Bud namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-12 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000021 ! Gastrula:90%-epiboly relationship: part_of UBERON:0000109 ! gastrula stage [Term] id: ZFS:0000023 name: Segmentation:1-4 somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-23 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000022 ! Gastrula:Bud [Term] id: ZFS:0000024 name: Segmentation:5-9 somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-5 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000023 ! Segmentation:1-4 somites [Term] id: ZFS:0000025 name: Segmentation:10-13 somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-020626-1 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000024 ! Segmentation:5-9 somites [Term] id: ZFS:0000026 name: Segmentation:14-19 somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-30 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000025 ! Segmentation:10-13 somites [Term] id: ZFS:0000027 name: Segmentation:20-25 somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-16 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000026 ! Segmentation:14-19 somites [Term] id: ZFS:0000028 name: Segmentation:26+ somites namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-34 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000027 ! Segmentation:20-25 somites [Term] id: ZFS:0000029 name: Pharyngula:Prim-5 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-10 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000028 ! Segmentation:26+ somites relationship: part_of UBERON:0004707 ! pharyngula stage [Term] id: ZFS:0000030 name: Pharyngula:Prim-15 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-32 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000029 ! Pharyngula:Prim-5 relationship: part_of UBERON:0004707 ! pharyngula stage [Term] id: ZFS:0000031 name: Pharyngula:Prim-25 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-13 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000030 ! Pharyngula:Prim-15 relationship: part_of UBERON:0004707 ! pharyngula stage [Term] id: ZFS:0000032 name: Pharyngula:High-pec namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-31 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000031 ! Pharyngula:Prim-25 relationship: part_of UBERON:0004707 ! pharyngula stage [Term] id: ZFS:0000033 name: Hatching:Long-pec namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-9 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000032 ! Pharyngula:High-pec relationship: part_of UBERON:0004707 ! pharyngula stage [Term] id: ZFS:0000034 name: Hatching:Pec-fin namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-26 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000033 ! Hatching:Long-pec relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000035 name: Larval:Protruding-mouth namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-8 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000034 ! Hatching:Pec-fin relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000036 name: Larval:Day 4 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-35 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000035 ! Larval:Protruding-mouth relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000037 name: Larval:Day 5 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-36 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000036 ! Larval:Day 4 relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000038 name: Larval:Day 6 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-37 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000037 ! Larval:Day 5 relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000039 name: Larval:Days 7-13 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-47 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000038 ! Larval:Day 6 relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000040 name: Larval:Days 14-20 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-48 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000039 ! Larval:Days 7-13 relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000041 name: Larval:Days 21-29 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-49 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000040 ! Larval:Days 14-20 relationship: part_of UBERON:0000069 ! larval stage [Term] id: ZFS:0000042 name: Juvenile:Days 30-44 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-51 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000041 ! Larval:Days 21-29 relationship: part_of UBERON:0000112 ! juvenile stage [Term] id: ZFS:0000043 name: Juvenile:Days 45-89 namespace: zebrafish_stages xref: ZFIN:ZDB-STAGE-010723-52 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by ZFS:0000042 ! Juvenile:Days 30-44 relationship: part_of UBERON:0000112 ! juvenile stage [Term] id: AEO:0000013 name: single-cell tissue def: "Anatomical structure composed of a single cell." [CARO:MAH] is_a: UBERON:0000479 ! tissue [Term] id: AEO:0000093 name: non-connected functional system alt_id: FBbt:00007278 def: "An anatomical group whose component structures share a common function." [AEO:JB] is_a: UBERON:0000477 ! anatomical cluster [Term] id: AEO:0000119f name: epithelial vesicle def: "A closed epithelium with a lumen." [AEO:JB] is_obsolete: true [Term] id: AEO:0000127 name: apoptosing developing anatomical entity def: "An embryonic anatomical structure undergoing apoptosis." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure relationship: has_part CL:0000445 ! apoptosis fated cell [Term] id: AEO:0000129 name: functioning and developing structure def: "An embryonic entity that displays a physiological function but whose strucuture is not yet fully formed." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0000131 name: developing structure with stem cells def: "Embronic structure that contains stem cellsr that may contribute to its future development or maintenance or to its future development or maintenance of another tissue." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure relationship: has_part CL:0000034 ! stem cell [Term] id: AEO:0000132 name: transitional anatomical structure def: "An embryonic anatomical entity that will turn into one or more other anatomical entities, perhaps with other anatomical entities, later in development." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0000153 name: mesenchymal tissue with stem cells def: "Multi-tissue mesenchymal structure one of whose parts contains stem cells that can replace other parts." [AEO:JB] is_a: AEO:0000187 ! multi-tissue structure with stem cells [Term] id: AEO:0000162 name: ridge def: "A raised strip of tissue." [AEO:JB] is_a: UBERON:0000015 ! anatomical boundary is_a: UBERON:0006984 ! anatomical surface [Term] id: AEO:0000173 name: surface sense organ def: "Multicellular anatomical structure with largely bona fide boundary that extends outwards from or is part of the organism surface and transduces some sensory stimulus to the nervous system." [AEO:JB] is_a: UBERON:0000020 ! sense organ relationship: part_of UBERON:0007029 ! surface [Term] id: AEO:0000174 name: gender-specific anatomical structure def: "A part of the body present only in a specific gender." [AEO:JB] is_a: UBERON:0000061 ! anatomical structure [Term] id: AEO:0000175 name: male anatomical structure def: "A part of the body present only in males." [AEO:JB] is_a: AEO:0000174 ! gender-specific anatomical structure [Term] id: AEO:0000176 name: female anatomical structure def: "A part of the body present only in females." [AEO:JB] is_a: AEO:0000174 ! gender-specific anatomical structure [Term] id: AEO:0000180 name: non-joint-associated cartilage def: "Cartilage that may provide the template for an endochondral bone or that may be a disinct entity in the skeleton." [AEO:JB] is_a: UBERON:0002418 ! cartilage tissue relationship: has_part CL:0000058 ! chondroblast relationship: has_part CL:0000138 ! chondrocyte relationship: part_of UBERON:0004288 ! skeleton [Term] id: AEO:0000185 name: exoskeletal tissue def: "A component of the exoskeleton." [AEO:JB] is_a: UBERON:0007475 ! matrix-based tissue relationship: has_part CL:0000658 ! cuticle secreting cell relationship: part_of UBERON:0004288 ! skeleton [Term] id: AEO:0000187 name: multi-tissue structure with stem cells def: "Multi-tissue structure one of whose parts contains stem cells that can replace other parts." [AEO:JB] is_a: UBERON:0000481 ! multi-tissue structure [Term] id: AEO:0000188 name: acellular fluid anatomical entity def: "An acellular fluid portion of organism substance that is produced by the organism for some non-waste purpose." [AEO:JB] is_a: UBERON:0000463 ! portion of organism substance is_a: UBERON:0000476 ! acellular anatomical structure [Term] id: AEO:0000189 name: epithelial tissue with stem cells def: "Multi-tissue epithelial structure one of whose parts contains stem cells that can replace other parts." [AEO:JB] is_a: AEO:0000187 ! multi-tissue structure with stem cells [Term] id: AEO:0000195 name: extraembryonic component def: "The part of the conceptus that may be lost before birth or will be discarded at birth, or when the embryo becomes an independent organism." [AEO:JB] is_a: UBERON:0000481 ! multi-tissue structure relationship: part_of UBERON:0004716 ! conceptus [Term] id: AEO:0000196 name: larval anatomical structure alt_id: HDAA2:0003126 def: "An anatomical structure present in the larval form of an animal." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0002548 ! larva [Term] id: AEO:0000204 name: pit def: "An roughly circular indentation in a surface." [AEO:JB] is_a: UBERON:0000015 ! anatomical boundary is_a: UBERON:0006984 ! anatomical surface [Term] id: AEO:0000210 name: row alt_id: FBbt:00100152 alt_id: HDAA2:0003255 def: "Anatomical group whose component structures are arranged in a row." [DBft:DOS] is_a: UBERON:0000480 ! anatomical group [Term] id: AEO:0000211 name: non-connected developing functional system alt_id: FBbt:0004003 alt_id: HDAA2:0003256 def: "The sum of all the anlagen and primordia that will develop into a single functional system." [FBbt:DOS] is_a: UBERON:0000477 ! anatomical cluster is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0000213 name: bone condensation def: "A delimited region of osteoblasts representing the early stages of bone formation." [AEO:JB] is_a: UBERON:0005856 ! developing mesenchymal condensation relationship: has_part CL:0000062 ! osteoblast relationship: part_of UBERON:0004288 ! skeleton [Term] id: AEO:0000215 name: open cavity def: "A volume that is mainly bounded but has an opening to another cavity or to the outside." [JB:AEO] is_a: UBERON:0010064 ! open anatomical space [Term] id: AEO:0000217 name: migrating developing tissue def: "A simple coherent tissue or a localized population of similar cells that are actively migrating." [JB:AEO] is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0001003 name: acellular extracellular matrix def: "An acellular structure typically composed of collagen, glycoproteins and glycosaminoglycans." [JB:AEO] is_a: UBERON:0000476 ! acellular anatomical structure [Term] id: AEO:0001006 name: excreta alt_id: UBERON:0000174 def: "Excreta are bodily fluids consisting of waste matter, such as sweat or feces, discharged from the body." [JB:AEO] is_a: UBERON:0000463 ! portion of organism substance [Term] id: AEO:0001007 name: developing epithelium def: "An epithelium within an embryo or larva that is undergoing a major developmental change." [AEO:JB] is_a: UBERON:0000483 ! epithelium is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0001009 name: proliferating neuroepithelium def: "An epithelium that is undergoing proliferation to provide large numbers of neuronal cells." [AEO:JB] is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: has_part CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: AEO:0001010 name: differentiating neuroepithelium def: "A neuroepithelium some of whose cells are undergoing terminal differentiation to become neuronal cells." [AEO:JB] is_a: UBERON:0004022 ! embryonic neuroepithelium relationship: has_part CL:0000031 ! neuroblast relationship: has_part CL:0000468 ! neuroglioblast [Term] id: AEO:0001013 name: neuronal column def: "An extended columnar domain of predominantly neuronal tissue in the central nervous system." [AEO:JB] is_a: UBERON:0002020 ! gray matter of neuraxis relationship: has_part CL:0000127 ! astrocyte relationship: has_part CL:0000128 ! oligodendrocyte relationship: has_part CL:0000129 ! microglial cell [Term] id: AEO:0001014 name: differentiating neuronal condensation def: "A compact group of cells differentiating to become a ganglion or a neuronal nucleus." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure relationship: has_part CL:0000031 ! neuroblast relationship: has_part CL:0000468 ! neuroglioblast [Term] id: AEO:0001016 name: developing mesenchymal structure def: "A mesenchyme-derived anatomical entity undergoing a transtion to become another structure." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0001019 name: developing germ cell population def: "A germ cell population that has not undergone meiosis." [AEO:JB] is_a: UBERON:0002050 ! embryonic structure [Term] id: AEO:0001020 name: reproductive cell population def: "A population of cells that are predominantly immature or mature germ cells." [AEO:JB] is_a: UBERON:0000479 ! tissue relationship: has_part CL:0000586 ! germ cell [Term] id: AEO:0001021 name: stem cell population def: "A group of cells capable of regenerating themselves and also of producing one or more populations of differentiated cells." [AEO:JB] is_a: UBERON:0000479 ! tissue [Term] id: CARO:0000048 name: gonochoristic organism def: "Multi-cellular organism that has male and female sexes." [CARO:MAH] synonym: "monoecious organism" RELATED [] is_a: UBERON:0000468 ! multi-cellular organism [Term] id: CARO:0000049 name: protandrous hermaphroditic organism def: "Sequential hermaphroditic organism that produces gametes first of the male sex, and then later of the female sex." [CARO:MAH] is_a: UBERON:0010895 ! sequential hermaphroditic organism [Term] id: CARO:0000050 name: protogynous hermaphroditic organism def: "Sequential hermaphroditic organism that produces gametes first of the female sex, and then later of the male sex." [CARO:MAH] is_a: UBERON:0010895 ! sequential hermaphroditic organism [Term] id: CARO:0000062 name: cell space def: "Anatomical space that is part of a cell." [CARO:mah] is_a: UBERON:0000464 ! anatomical space [Term] id: CARO:0000063 name: asexual organism def: "Multi-cellular organism that does not produce gametes." [CARO:MAH] is_a: UBERON:0000468 ! multi-cellular organism [Term] id: CARO:0000064 name: single cell organism def: "Cell that is an individual member of a species." [CARO:MAH] is_a: CL:0000003 ! cell in vivo [Term] id: EHDAA2:0004727 name: trunk and cervical sclerotome (embryonic human) is_a: UBERON:0003089 ! sclerotome